NeurologyCNS infections

Encephalitis

Encephalitis is inflammation of the brain parenchyma, typically caused by viral infection, presenting with altered mental status, fever, and focal neurological deficits.

Exam domainOne-glance essentials
Definition / diagnosis
  • Inflammation of brain parenchyma; altered cerebral function distinguishes it from isolated meningitis [1][2]
  • Fever plus neurological symptoms = CNS infection until proven otherwise [1]
Epidemiology / risks
  • HSV-1 is the major sporadic viral cause; immunocompromise broadens the pathogen spectrum [2][3]
  • Autoimmune encephalitis, especially anti-NMDA receptor, is an important treatable mimic [1]
Core mechanism
  • Direct viral invasion causes neuronal injury, oedema and haemorrhagic necrosis [2]
  • Post-infectious or autoimmune antibodies cause immune-mediated synaptic/parenchymal dysfunction [1][2]
Clinical picture
  • Altered mental status ≥24 h, fever, seizures, focal deficits or behavioural change [1][3]
  • HSV often gives temporal-lobe personality, memory, language or seizure features [1][3]
Investigations
  • LP: lymphocytic pleocytosis, normal glucose, mildly raised protein; send HSV/VZV PCR [1][3]
  • MRI temporal hyperintensity and temporal PLEDs on EEG support HSV [1][3]
  • Early HSV PCR can be false-negative; repeat if suspicion remains high [3]
Management
  • Start IV aciclovir immediately when viral encephalitis is suspected; do not await PCR [1]
  • Add empirical antibacterial therapy while bacterial CNS infection remains possible [2]
  • Control seizures/ICP and monitor sodium, airway and autonomic function [1][2]
Complications
  • Status epilepticus, cerebral oedema, SIADH/hyponatraemia, infarction and hydrocephalus [1][2]
  • Long-term memory, personality, motor and epilepsy sequelae are common [2]
Prevention / follow-up
  • Vaccination and vector control prevent selected causes, including Japanese encephalitis and VZV [2]
  • Early aciclovir and seizure recognition reduce preventable HSV morbidity [1]
Exam traps
  • Encephalitis is inflammation; encephalopathy is dysfunction from metabolic, toxic or systemic causes [1][2]
  • CT mainly excludes a mass before LP; a normal CT does not exclude encephalitis [1][3]
  • Psychiatric onset does not exclude anti-NMDA receptor encephalitis [1]

References

[1] Lecture slides: GC 051. Fever and confusion_meningitis and encephalitis; suppurative brain infection.pdf (pp. 20, 23, 38–46) [2] Senior notes: Ryan Ho Neurology.pdf (pp. 147–149, Encephalitis) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai).pdf (pp. 1199–1201, Encephalitis)

Encephalitis literally breaks down as follows: "encephalo-" (Greek enkephalos = brain) + "-itis" (inflammation). So encephalitis is inflammation of the brain parenchyma itself — as distinct from meningitis, which is inflammation of the meninges surrounding the brain. In practice, the two often co-exist, hence the term meningoencephalitis.

Encephalitis: brain parenchymal infection (mostly viral), usually accompanied with meningitis (meningoencephalitis) [1]. The hallmark that separates encephalitis from meningitis clinically is the presence of altered mental status, focal neurological deficits, or seizures — features that indicate the brain tissue itself is inflamed, not just the coverings.

Key Distinction: Meningitis vs Encephalitis vs Meningoencephalitis

  • Meningitis → inflammation of meninges → fever + headache + neck stiffness (meningeal irritation), but consciousness preserved
  • Encephalitis → inflammation of brain parenchyma → altered mental status, seizures, focal neurological deficits ± meningeal signs
  • Meningoencephalitis → both features overlap (the most common clinical picture in practice)

Signs of encephalitis: altered mental state, seizure [2]. If a patient with suspected meningitis develops confusion, behavioural change, or seizures, you should immediately suspect brain parenchymal involvement.

Fever + neurological symptoms = CNS infection until proven otherwise [2] — this is the single most important clinical axiom. Never dismiss fever with confusion or seizures as "just delirium" without excluding CNS infection.


Epidemiology

  • Incidence: approximately 5–8 per 100,000 population per year for all-cause encephalitis; infectious encephalitis accounts for ~50%, with the remainder being autoimmune or unknown
  • Despite extensive investigation, no cause is identified in 30–60% of cases (the so-called "encephalitis of unknown aetiology")
  • Herpes simplex encephalitis (HSE) is the most common cause of sporadic fatal encephalitis worldwide — incidence ~1 per 250,000–500,000 per year
  • Epidemic causes include Japanese B encephalitis, dengue fever, influenza, West Nile virus, Nipah virus [1]

  • Japanese encephalitis (JE): historically endemic in southern China/Southeast Asia; rare in urban HK due to vaccination and mosquito control, but remains important in differential for travellers and residents near rural areas with pig farming (pigs = amplifying host)
  • Enterovirus encephalitis: enterovirus 71 (EV-A71) outbreaks periodically occur in the Asia-Pacific region, including HK, particularly affecting young children
  • Enteroviruses (MC viral cause of meningitis/encephalitis) [2] — worth noting that while enteroviruses are the most common cause of viral meningitis, HSV-1 remains the most important cause of sporadic encephalitis due to its severity
  • Herpes simplex virus type 1 remains the most common identifiable sporadic cause, same as worldwide
  • Autoimmune encephalitis (particularly anti-NMDA receptor encephalitis) has been increasingly recognised, especially in young women with ovarian teratoma
  • Autoimmune encephalitis is a key DDx [2]

  • Neonates: HSV-2 (acquired perinatally), enterovirus
  • Children: enterovirus, HSV-1, ADEM (post-infectious), mumps (pre-vaccination era), measles
  • Adults: HSV-1, VZV, enterovirus, autoimmune encephalitis
  • Elderly/immunocompromised: CMV, VZV, Listeria, toxoplasmosis, PML (JC virus), HIV encephalopathy

CategoryRisk FactorsRationale
Age extremesNeonates, elderlyImmature/declining immune surveillance
Immunocompromised statesHIV, transplant recipients, chemotherapy, long-term steroids, biologicsImpaired T-cell immunity → reactivation of latent viruses (CMV, VZV, JC virus), opportunistic infections (toxoplasmosis)
Geographic/travelTravel to JE-endemic areas (rural Asia with rice paddies + pig farming), tropical regions (dengue, Nipah, rabies)Exposure to arthropod vectors or zoonotic reservoirs
SeasonSummer-autumn for enteroviruses and arboviruses; no seasonal pattern for HSVMosquito activity peaks; enteroviral spread via faecal-oral route in warm months
Occupation/exposureAnimal handlers (rabies), bat caves (Nipah), agricultural workers near pig farms (JE)Direct exposure to zoonotic pathogens
Vaccination statusUnvaccinated against measles, mumps, rubella, JE, varicella, rabiesLoss of herd immunity; direct susceptibility
Recent infection/vaccinationPost-infectious/post-vaccination contextADEM (acute disseminated encephalomyelitis): post-infectious immune-mediated demyelination [1]

Relevant Anatomy and Function

Understanding why encephalitis produces specific clinical features requires knowing the functional anatomy of the brain regions preferentially targeted by different pathogens.

  • The brain parenchyma consists of neurons, glial cells (astrocytes, oligodendrocytes, microglia), and their supporting vasculature
  • Unlike the meninges (which are primarily connective tissue barriers + CSF-containing spaces), the parenchyma is the computational tissue — damage here produces neurological deficits, not just irritation signs

  • Formed by tight junctions between endothelial cells of cerebral capillaries, reinforced by astrocyte foot processes and pericytes
  • Normally excludes most pathogens and immune cells from the CNS
  • In encephalitis: pathogens breach the BBB via:
    • Haematogenous spread (viraemia → crossing BBB): most viruses
    • Retrograde axonal transport along peripheral nerves: HSV-1 (via olfactory/trigeminal nerve), rabies (via peripheral motor nerves)
    • Direct extension from adjacent infected structures (e.g., sinusitis, otitis media → rare in viral encephalitis, more relevant for brain abscess)
  • BBB breakdown → vasogenic cerebral oedema → raised ICP

  • HSV-1 encephalitis characteristically involves the temporal lobes (inferomedial temporal cortex, insular cortex, orbitofrontal cortex)
  • Why temporal lobes? HSV-1 establishes latency in the trigeminal ganglion → reactivation spreads retrogradely along the trigeminal nerve (meningeal branches) to the temporal lobe and frontal lobe base, which are supplied by these branches. Alternatively, via olfactory mucosa → olfactory tract → orbitofrontal/medial temporal cortex
  • This explains the classic HSE features: temporal lobe seizures, aphasia (dominant hemisphere), personality/behavioural change, olfactory hallucinations, memory impairment (hippocampus is in the medial temporal lobe)

  • Structures: hippocampus, amygdala, cingulate gyrus, hypothalamus, mammillary bodies
  • Function: memory formation, emotion, autonomic regulation
  • Limbic encephalitis (whether infectious [HSV] or autoimmune [anti-NMDA-R, anti-LGI1]) preferentially involves these structures → psychiatric symptoms (personality change, agitation, psychosis), memory impairment, seizures, autonomic instability

  • Contains cranial nerve nuclei, reticular activating system (RAS), respiratory/cardiovascular centres
  • Brainstem encephalitis (rhombencephalitis): Listeria monocytogenes classically; also enterovirus 71
  • Produces: cranial nerve palsies, ataxia, reduced consciousness (RAS involvement), respiratory failure

  • Cerebellitis/cerebellar encephalitis: VZV is a classic cause of post-infectious cerebellar ataxia in children
  • Cerebellar ataxia (esp in VZV) [1]

  • Three layers: dura mater, arachnoid mater, pia mater
  • Subarachnoid space contains CSF — this is the space sampled by lumbar puncture
  • Meningeal inflammation → headache, neck stiffness, photophobia (these are the "meningitic" symptoms that overlay encephalitic features)

Aetiology (with Focus on Hong Kong)

Pathophysiology: direct invasion of host cells, post-infectious immune-mediated changes (ADEM) [1] — these are the two fundamental mechanisms.

A. Acute Viral Encephalitis (Most Common Category)

PathogenKey PointsHong Kong Relevance
HSV-1Most common cause of sporadic fatal encephalitis; predilection for temporal lobes; treatable with acyclovir; untreated mortality ~70%Common in HK, same as worldwide
VZVReactivation encephalitis in immunocompromised; post-infectious cerebellar ataxia in childrenCommon, especially with ageing population on immunosuppression
CMVAlmost exclusively in immunocompromised (HIV, transplant); ventriculoencephalitis patternImportant in HK transplant population and HIV patients
EBVRare but can cause encephalitis, usually in context of infectious mononucleosisOccasional
Enteroviruses (coxsackie, echovirus, poliovirus)Most common cause of viral meningitis (but also can cause encephalitis, especially EV-A71); poliovirus essentially eliminated by vaccinationEV-A71 periodic outbreaks in Asia-Pacific; hand-foot-and-mouth disease outbreaks in HK
HIVHIV encephalopathy (subacute/chronic); opportunistic CNS infections~10,000 reported HIV cases in HK; important
AdenovirusUncommon encephalitis, mostly in immunocompromisedOccasional
RabiesAlmost universally fatal once symptomatic; transmitted by animal bites (dogs, bats)Urban HK = very rare, but relevant for travellers to endemic areas; pre-/post-exposure prophylaxis available

PathogenVector/TransmissionHong Kong Relevance
Japanese B encephalitisCulex mosquito; pigs = amplifying host, wading birds = reservoirEndemic in rural southern China; rare in urban HK but important for travel medicine; JE vaccine available
Dengue feverAedes aegypti/albopictus mosquitoIncreasing imported cases in HK; locally acquired cases occasionally reported
InfluenzaRespiratory dropletsInfluenza-associated encephalopathy reported especially in children; seasonal
West Nile virusCulex mosquito; birds = reservoirNot endemic in HK but important for travellers to Americas, Africa, Middle East
Nipah virusFruit bats → pigs → humans; human-to-human possibleNot reported in HK; outbreaks in Malaysia, Bangladesh

[1]

PathogenKey Points
LegionellaAtypical pneumonia + encephalopathy; Legionnaires' disease
Listeria monocytogenesRhombencephalitis (brainstem predilection); risk groups: neonates, elderly, immunocompromised, pregnant; unpasteurised dairy products
Mycoplasma pneumoniaeCan cause encephalitis (direct invasion or post-infectious); typically younger patients
RickettsiaScrub typhus (Orientia tsutsugamushi) → meningoencephalitis; relevant in HK (endemic)
Plasmodium falciparumCerebral malaria — not true encephalitis but important DDx of fever + altered consciousness in returned traveller
Toxoplasma gondiiRing-enhancing lesions in immunocompromised (esp. HIV with CD4 < 100)
Treponema pallidumNeurosyphilis — can cause meningoencephalitis; resurgent in HK
TuberculosisTB meningoencephalitis — important in HK (intermediate TB burden area)
Strongyloides stercoralisHyperinfection in immunocompromised → meningoencephalitis with gram-negative bacteraemia

[1][2]

These are chronic/subacute infections with very different clinical courses:

EntityPathogenKey Features
Creutzfeldt-Jakob disease (CJD)PrionsRapidly progressive dementia + myoclonus; median survival 5 months
Progressive multifocal leukoencephalopathy (PML)JC virusDemyelinating disease in severely immunocompromised (HIV CD4 < 200); multifocal white matter lesions
Subacute sclerosing panencephalitis (SSPE)Measles (persistent)Occurs years after measles infection; progressive neurological decline; now very rare due to vaccination

[1]

D. Post-Infectious/Autoimmune Encephalitis

Post-infectious encephalitis (ADEM): [1]

  • Common viral infections: childhood exanthemata, chicken pox, mumps
  • Vaccinations: rabies, smallpox, influenza and pertussis
  • Hypersensitivity to myelin
  • Mechanism: molecular mimicry → immune system attacks myelin in the CNS following a preceding infection or vaccination
  • Typically affects children (peak 5–8 years); monophasic course
  • Presents with encephalopathy + multifocal neurological deficits 1–4 weeks after infection/vaccination
  • MRI: multifocal, large, poorly demarcated white matter lesions (contrast with MS which has smaller, well-defined, periventricular lesions)

A critically important and increasingly recognised category:

Antibody TargetSyndromeKey Features
Anti-NMDA receptorAnti-NMDA receptor encephalitisYoung women (often with ovarian teratoma); psychiatric symptoms → seizures → movement disorders → autonomic instability → decreased consciousness; CSF: lymphocytic pleocytosis
Anti-LGI1Limbic encephalitisOlder adults; faciobrachial dystonic seizures; hyponatraemia (SIADH); memory impairment
Anti-CASPR2Limbic encephalitis / Morvan syndromeNeuromyotonia, insomnia, autonomic dysfunction
Anti-GABA-B receptorLimbic encephalitisSeizures prominent; associated with SCLC
Anti-AMPA receptorLimbic encephalitisPsychiatric symptoms; associated with various tumours

Autoimmune encephalitis is an important DDx of encephalitis [2]. In any patient with subacute onset of psychiatric symptoms, seizures, and/or memory impairment — especially a young woman — think anti-NMDA receptor encephalitis and look for an ovarian teratoma.


Pathophysiology

Understanding the pathophysiology is essential because it explains every clinical feature you will see.

  • Virus enters the CNS via:
    • Haematogenous spread: viraemia → crossing the BBB (most arboviruses, enteroviruses)
    • Neuronal retrograde transport: virus travels along axons from peripheral nerve to CNS (HSV-1 via trigeminal/olfactory nerve; rabies via motor nerves from bite site)
    • Olfactory route: directly from nasal mucosa → olfactory bulb → frontal/temporal lobes
  • Once in the CNS, the virus:
    • Replicates within neurons and glial cells → direct cytopathic effect → neuronal death
    • Triggers innate immune response: microglial activation, astrocyte reactivity, complement activation
    • Triggers adaptive immune response: T-cell infiltration (predominantly CD8+ cytotoxic T cells), antibody production
    • The immune response itself causes significant collateral damage — this is a double-edged sword

  • Post-infectious/parainfectious: ADEM

    • Molecular mimicry: viral antigens share epitopes with myelin components (e.g., myelin basic protein, myelin oligodendrocyte glycoprotein)
    • Cross-reactive T cells and antibodies attack CNS myelin → perivenular demyelination
    • This explains why ADEM occurs days to weeks AFTER the infection (time needed for adaptive immune response to develop)
  • Autoimmune encephalitis (e.g., anti-NMDA-R):

    • Antibodies target surface/synaptic proteins on neurons
    • Anti-NMDA-R antibodies cause internalization of NMDA receptors → reduced glutamatergic transmission → the clinical syndrome (psychiatric features, seizures, movement disorders, autonomic instability)

  • BBB breakdown → vasogenic oedema
  • Neuronal injury → cytotoxic oedema
  • Both contribute to raised intracranial pressure → headache, vomiting, papilloedema, reduced consciousness, risk of herniation
  • Raised ICP in encephalitis/meningitis: vasogenic cerebral oedema (increased BBB permeability) + cytotoxic cerebral oedema (cytotoxic factors from pathogen and neutrophils) [3][4]

  • Inflamed, oedematous cortex → disruption of normal inhibitory-excitatory balance
  • Causes of seizure: acute symptomatic seizure may be caused by virtually any acute brain insult, e.g., encephalitis [5]
  • CNS infections (classically encephalitis) are a classic cause of status epilepticus [5]
  • Temporal lobe involvement (HSV) → focal seizures with secondary generalisation
  • Metabolic derangements secondary to encephalitis (hyponatraemia from SIADH, hypoglycaemia) → further lower seizure threshold

  • Brain inflammation → hypothalamic/posterior pituitary dysfunction → inappropriate ADH secretion → dilutional hyponatraemia
  • CNS causes of SIADH: meningitis, encephalitis, brain abscess, head trauma, SAH, CVA, raised ICP [6]
  • This creates a vicious cycle: hyponatraemia → cerebral oedema → seizures → worsening neurological status

Classification

CourseExamples
Acute (days to 1–2 weeks)HSV encephalitis, arboviral encephalitis, bacterial meningoencephalitis
Subacute (weeks to months)Autoimmune encephalitis, TB meningoencephalitis, neurosyphilis
Chronic/slow (months to years)CJD, PML, SSPE, HIV encephalopathy

PatternTypical CausesClinical Features
Temporal lobe (limbic)HSV-1, autoimmune (anti-LGI1, anti-NMDA-R)Memory loss, behavioural change, temporal lobe seizures, aphasia
Brainstem (rhombencephalitis)Listeria, enterovirus 71, Behçet'sCN palsies, ataxia, respiratory failure, reduced consciousness
CerebellarVZV (post-infectious), EBVCerebellar ataxia, nystagmus, dysarthria
Diffuse/multifocalADEM, CMV (immunocompromised)Multifocal deficits, encephalopathy
Basal gangliaJE, flaviviruses, anti-basal ganglia antibodiesMovement disorders (parkinsonism, dystonia, choreoathetosis)

PatternDefinitionExamples
SporadicNon-seasonal, non-epidemicHSV-1, CMV, VZV, EBV [1]
EpidemicSeasonal/geographic clustering, often arthropod-borneJE, dengue, West Nile, Nipah, influenza [1]

Clinical Features

A. Symptoms (with Pathophysiological Basis)

  • Non-specific prodrome: fever, viral syndrome, nausea, malaise [1]
  • Fever: due to pyrogenic cytokines (IL-1, IL-6, TNF-α) released during systemic and CNS immune response → act on hypothalamic thermoregulatory centre → upward resetting of temperature set point
  • Headache: due to meningeal inflammation (meninges have nociceptors; brain parenchyma does not) + raised ICP → traction on pain-sensitive structures (meninges, blood vessels)
  • Myalgia, malaise, nausea: systemic cytokine response (same as any viral illness)
  • Virus-specific prodromal features, e.g., zoster vesicles [1] — always look for clues: a dermatomal vesicular rash preceding neurological symptoms points to VZV

2. Features of Brain Parenchymal Involvement (The Defining Features of Encephalitis)

These are what distinguish encephalitis from meningitis:

  • Global: ↓conscious level, confusion, agitation, mental obtundation [1]
  • Ranges from subtle confusion/personality change → agitation → drowsiness → stupor → coma
  • Why? Inflammation of brain parenchyma → disruption of cortical networks and reticular activating system (RAS in brainstem) → impaired consciousness
  • Altered mental status indicates involvement of brain parenchyma (meningoencephalitis) [3][4]:
    • Lethargy = drowsiness but easy to arouse
    • Stupor = difficult to arouse
    • Coma = unarousable

High Yield: The Single Most Important Feature

Altered mental status is the key feature that distinguishes encephalitis from meningitis. A patient with fever + headache + neck stiffness but normal mentation → likely meningitis. The same patient who is confused, agitated, or drowsy → meningoencephalitis until proven otherwise [2][3][4].

  • Focal: seizures (focal or generalized) [1]
  • Seizures occur in 30–40% of encephalitis cases
  • Why? Inflamed cortex → disrupted inhibitory (GABAergic) circuits → synchronous neuronal discharges. Additionally, metabolic derangements (hyponatraemia from SIADH, hypoglycaemia) lower the seizure threshold
  • Focal seizures are due to focal arterial ischaemia or infarction, cortical venous thrombosis with haemorrhage, or focal cerebral oedema [3][4]
  • Generalised seizures are due to cerebral anoxia or hyponatraemia [3][4]
  • In HSV encephalitis: temporal lobe seizures are characteristic — may present as olfactory or gustatory auras, automatisms, déjà vu
  • -ve: hemiplegia, aphasia, VF defects, UMN signs, cerebellar ataxia (esp in VZV) [1]
  • Hemiplegia/hemiparesis: motor cortex or corticospinal tract involvement → contralateral UMN weakness
  • Aphasia: dominant (usually left) temporal/frontal lobe involvement — classic in HSV encephalitis (Wernicke's area = posterior superior temporal gyrus; Broca's area = inferior frontal gyrus)
  • Visual field defects: temporal lobe involvement → contralateral superior quadrantanopia (Meyer's loop of optic radiation passes through temporal lobe); occipital lobe → homonymous hemianopia
  • Cerebellar ataxia: cerebellar involvement — esp in VZV [1] — produces ipsilateral limb ataxia, dysmetria, dysdiadochokinesia, intention tremor
  • Cranial nerve palsies: brainstem involvement (rhombencephalitis) → CN III, VI, VII palsies most common
  • Personality change, disinhibition, bizarre behaviour, psychosis (hallucinations, delusions)
  • Why? Limbic system (amygdala, hippocampus) and frontal lobe involvement → emotional dysregulation, disinhibition
  • Particularly prominent in:
    • HSV encephalitis (temporal-frontal predilection)
    • Anti-NMDA receptor encephalitis (often initially misdiagnosed as psychiatric illness)
  • Encephalitis lethargica: atypical encephalitis of unknown origin, frequently associated with OC symptoms [7]
  • Anterograde amnesia (inability to form new memories)
  • Why? Hippocampal damage — the hippocampus is in the medial temporal lobe, directly in the "line of fire" for HSV and autoimmune limbic encephalitis
  • Can be a devastating long-term sequela even after successful treatment
  • Tremor, chorea, dystonia, orofacial dyskinesias
  • Why? Basal ganglia involvement (characteristic of Japanese encephalitis, autoimmune encephalitis)
  • In anti-NMDA-R encephalitis: orofacial dyskinesias and choreoathetoid movements are characteristic
  • Hyperthermia/hypothermia, tachycardia/bradycardia, blood pressure instability, hypoventilation/hyperventilation, excessive salivation, urinary retention
  • Why? Hypothalamic and brainstem autonomic centre involvement
  • Prominent in anti-NMDA-R encephalitis and rabies
  • Progressive headache (worse on lying down, coughing, straining), projectile vomiting, visual obscurations
  • Why? Cerebral oedema (vasogenic + cytotoxic) → raised ICP → traction on pain-sensitive structures, compression of optic nerve sheaths

  • Neck stiffness, photophobia, phonophobia, Kernig's sign, Brudzinski's sign
  • Present when the meninges are also involved (which is the majority of cases)
  • Classical triad = Fever + Headache + Neck stiffness [3][4]

PathogenDistinctive FeatureWhy
HSV-1Temporal lobe syndrome: olfactory hallucinations, aphasia, personality change, temporal seizuresTrigeminal/olfactory route → temporal lobe tropism
VZVPreceding dermatomal vesicular rash; cerebellar ataxia in childrenLatency in dorsal root ganglia → reactivation; post-infectious cerebellar inflammation
EV-71Hand-foot-and-mouth disease → brainstem encephalitis (rhombencephalitis), acute flaccid paralysisNeurotropism for brainstem and anterior horn cells
JEParkinsonism, dystonia, acute flaccid paralysis; epidemic in monsoon seasonBasal ganglia and thalamic tropism
RabiesHydrophobia, aerophobia, furious or paralytic forms; history of animal biteBrainstem and limbic involvement
CMVVentriculoencephalitis; in HIV with CD4 < 50Predilection for periventricular ependyma
ListeriaBrainstem signs (rhombencephalitis), biphasic illnessBrainstem tropism
Anti-NMDA-RYoung woman; psychiatric onset → seizures → movement disorders → autonomic instability → comaAntibodies internalize NMDA receptors; associated with ovarian teratoma

B. Signs (with Pathophysiological Basis)

  • Fever: almost universal (but may be absent in immunocompromised or autoimmune causes)
  • Skin: vesicular rash (VZV — dermatomal; HSV — orolabial); petechial/purpuric rash (meningococcal meningoencephalitis); maculopapular rash (measles, enterovirus); eschar (scrub typhus — important in HK)
  • Parotid swelling: mumps
  • Lymphadenopathy: EBV, HIV, toxoplasmosis

SignPathophysiological Basis
Reduced GCS / altered consciousnessCortical and/or RAS dysfunction from parenchymal inflammation
Neck stiffness (meningeal sign)Inflammation of meninges → stretching of inflamed meninges causes pain → reflex muscle spasm (nuchal rigidity)
Kernig's sign (pain/resistance on extending knee with hip flexed)Stretching of inflamed lumbosacral meninges
Brudzinski's sign (passive neck flexion → involuntary hip/knee flexion)Flexion of inflamed cervical meninges → reflex flexion to minimise meningeal stretching
PapilloedemaRaised ICP → transmitted along subarachnoid space of optic nerve sheath → axonal swelling
Focal motor deficit (hemiparesis, monoparesis) — UMN patternCorticospinal tract or motor cortex damage by inflammation/oedema/ischaemia
Cranial nerve palsiesBrainstem inflammation or raised ICP (CN VI = false localising sign of raised ICP)
Cerebellar signs (ataxia, nystagmus, dysmetria, dysdiadochokinesia)Cerebellar parenchymal inflammation, especially VZV
Involuntary movements (chorea, dystonia, orofacial dyskinesias)Basal ganglia inflammation (JE) or anti-NMDA-R antibody-mediated receptor internalisation
Seizures (focal or generalised, observed or elicited on EEG)Cortical irritation from inflammation/oedema; metabolic derangement
Primitive reflexes (if frontal lobe involvement)Frontal lobe damage → release of brainstem reflexes from cortical inhibition
Signs of raised ICP: Cushing reflex (hypertension + bradycardia + irregular breathing)Brainstem compression → Cushing response as a last-ditch attempt to maintain cerebral perfusion
Autonomic instabilityHypothalamic/brainstem autonomic centre involvement
Anterior horn cell signs (flaccid paralysis) — in EV-71, JE, West NileViral tropism for anterior horn cells (like poliomyelitis)

  • Orolabial vesicles → HSV (but absence does NOT exclude HSV encephalitis — most cases have no active herpetic lesions)
  • Dermatomal vesicles → VZV
  • Purpuric rash + shock → meningococcal disease (meningoencephalitis ± septicaemia)
  • Parotitis → mumps
  • Hand-foot-and-mouth vesicles → EV-71
  • Eschar → scrub typhus (Orientia tsutsugamushi) — important in HK
  • Animal bite wound → rabies

High Yield: HSV Encephalitis — Don't Wait for Vesicles

A common mistake is waiting for cold sores to appear before suspecting HSV encephalitis. Most patients with HSV encephalitis do NOT have concurrent orolabial herpes lesions. HSE is a medical emergency — start IV aciclovir empirically whenever encephalitis is suspected, do not wait for PCR confirmation.


FeatureHSV-1VZVJEEV-71ListeriaAnti-NMDA-R
AgeAny (peak bimodal: < 20, > 50)Children (post-infectious) or elderly/immunocompromised (reactivation)Children in endemic areasChildren < 5yNeonates, elderly, immunocompromisedYoung women
OnsetAcute (days)Acute-subacuteAcute (epidemic)Acute (epidemic)SubacuteSubacute (weeks)
ProdromeViralDermatomal vesiclesFebrile illnessHFMDFever, GI symptomsViral-like
Characteristic featureTemporal lobe syndromeCerebellar ataxiaParkinsonism, dystoniaRhombencephalitis, AFPRhombencephalitisPsychiatric → seizures → movement disorders
Key investigationMRI: temporal lobe; CSF HSV PCRCSF VZV PCRCSF JE IgMCSF EV PCRCSF culture, blood cultureCSF/serum NMDA-R Ab
TreatmentIV aciclovirIV aciclovirSupportiveSupportiveAmpicillin + gentamicinImmunotherapy + tumour removal
Mortality (untreated)~70%Variable20–30%Low (but AFP risk)20–30%Treatable if recognised

High Yield Summary

  1. Definition: Encephalitis = inflammation of brain parenchyma. The hallmark is altered mental status distinguishing it from meningitis.
  2. Fever + neurological symptoms = CNS infection until proven otherwise [2].
  3. Most common sporadic cause: HSV-1 (temporal lobe predilection; treat empirically with IV aciclovir). Most common viral meningitis cause: enteroviruses.
  4. Two pathophysiological mechanisms: direct viral invasion vs post-infectious/autoimmune immune-mediated damage (ADEM, autoimmune encephalitis).
  5. Clinical features of encephalitis (vs meningitis): altered consciousness, seizures, focal neurological deficits (hemiparesis, aphasia, cerebellar ataxia), personality/behavioural change.
  6. SIADH is a common complication → hyponatraemia → worsens cerebral oedema and seizures.
  7. Status epilepticus is a feared complication — CNS infections (classically encephalitis) are a classic cause [5].
  8. Always consider autoimmune encephalitis (especially anti-NMDA-R in young women) as a treatable mimic.
  9. Pathogen-specific clues: temporal lobe features (HSV-1), dermatomal vesicles (VZV), cerebellar ataxia in child (VZV), parkinsonism (JE), rhombencephalitis (Listeria, EV-71), psychiatric onset (anti-NMDA-R), eschar (scrub typhus in HK).
  10. Hong Kong specifics: enteroviruses (EV-71 outbreaks), scrub typhus (endemic), JE (travel-related), TB meningoencephalitis (intermediate burden).

Active Recall - Encephalitis (Definition, Epidemiology, Aetiology, Pathophysiology, Clinical Features)


[1] Senior notes: Ryan Ho Neurology, Section 7.2 Encephalitis (p.147) [2] Senior notes: Maksim Medicine Notes, Section 9.6 CNS infections (p.196) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), CNS Diseases — Meningitis section (p.1183–1185) [4] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), CNS Diseases — Meningitis section (p.504) [5] Senior notes: Adrian Lui Pediatrics Notes, Seizures and Status Epilepticus (p.114, p.126) [6] Senior notes: Block A - Electrolyte and Acid-Base Disorders, SIADH causes (p.21) [7] Senior notes: Ryan Ho Psychiatry, OCD section — Encephalitis lethargica (p.189)

Differential Diagnosis of Encephalitis

The clinical approach to a patient with suspected encephalitis essentially boils down to answering two questions:

  1. Is this really encephalitis (brain parenchymal inflammation), or is something else mimicking it?
  2. If it is encephalitis, what is the aetiology?

The first question is about the syndromic differential — other conditions that can present with fever + altered mental status ± seizures ± focal neurological deficits. The second question is about narrowing down the cause once you've established that the brain parenchyma is genuinely inflamed.


A. Syndromic Differential: "Fever and Confusion" — What Else Could It Be?

This is directly from the GC lecture and is extremely high yield for in-house exams.

Differential Diagnosis of Patient with Fever and Confusion [8]:

  • CNS infections
  • Other non-CNS infections (+/- systemic involvement) with encephalopathy (septic, metabolic, toxic)
  • Sepsis in patients with primary psychiatric disorder
  • Autoimmune encephalitis (e.g. anti-NMDA receptor encephalitis)
  • Inflammatory disorders affecting the brain (e.g. vasculitis, cerebral lupus)
  • Sepsis with nonconvulsive status epilepticus
  • Thyroid storm

Encephalopathy – disorder of the brain resulting in an altered mental state (impaired cognition, orientation and consciousness) [8]

High Yield GC Exam Point: Encephalitis vs Encephalopathy

A critical distinction: encephalitis implies inflammation of the brain parenchyma (with CSF pleocytosis, MRI changes, etc.), while encephalopathy is a broader term meaning any disorder causing altered mental state — it does NOT require inflammation. Septic encephalopathy, metabolic encephalopathy, hepatic encephalopathy, and toxic encephalopathy are NOT encephalitis. The GC lecture explicitly defines encephalopathy as "disorder of the brain resulting in an altered mental state (impaired cognition, orientation and consciousness)" [8]. You must distinguish the two because the management is completely different.

Let us work through each differential systematically, explaining why each mimics encephalitis and how to differentiate them.


These are conditions where the brain/meninges are directly infected, but the pathology is different from viral encephalitis.

ConditionHow It Mimics EncephalitisHow to Differentiate
Bacterial meningitis (complicated)Fever + altered consciousness + seizures; can have cerebral oedema or cortical venous thrombosis causing parenchymal involvementMeningitis: cerebral function remains normal vs encephalitis: abnormal cerebral function is the most distinguishing feature [3][4][9][10]. However, bacterial meningitis complicated by cerebral oedema/venous thrombosis CAN cause altered mentation — hence "meningoencephalitis". CSF: purulent (high WBC with neutrophil predominance, low glucose, high protein). Gram stain/culture positive
TB meningoencephalitisSubacute fever + altered consciousness + CN palsies + personality change. Encephalitis-like presentation: stupor, coma, convulsions without overt signs of meningitis [11]Subacute onset (weeks, not days); triphasic illness [11]; CSF: lymphocytic pleocytosis, very low glucose, very high protein; AFB smear/culture/PCR; basal meningeal enhancement on MRI; hydrocephalus
Brain abscessFever, seizures, FND [2]; focal mass effect; can cause altered consciousnessFocal lesion on CT/MRI (ring-enhancing with surrounding oedema); CSF may be normal or show mild pleocytosis; LP may be contraindicated if mass effect; bacterial MC cause, haematogenous spread (MC, e.g. chest, IE) [2]
Subdural empyemaFever + focal deficits + altered consciousness; rapid deteriorationCollection of pus between dura and arachnoid; spread from sinusitis/AOM/mastoiditis, or trauma/operative wounds [2]. CT/MRI: crescent-shaped extra-axial collection. Often post-sinusitis/otitis
Fungal meningoencephalitis (Cryptococcus)Fever + headache + confusion in immunocompromised (HIV CD4 < 100)CSF: India ink (budding yeast), cryptococcal antigen (CrAg) positive; opening pressure often very high

This is the most common mimic in clinical practice. A patient with pneumonia, UTI, or any systemic infection can develop confusion from the systemic inflammatory response — this is septic encephalopathy, NOT encephalitis.

  • Why it mimics: Fever ✓, altered mental status ✓, sometimes seizures ✓
  • Why it's NOT encephalitis: The brain parenchyma is not inflamed; the confusion is from systemic cytokine effects, metabolic derangements (uraemia, electrolyte disturbances, hypoxia, hypoglycaemia), or organ failure
  • How to differentiate:
    • CSF is normal (no pleocytosis, normal glucose/protein) — this is the key distinguishing investigation
    • MRI brain is normal (no parenchymal signal changes)
    • Source of infection is identifiable elsewhere (CXR for pneumonia, MSU for UTI, blood cultures)
    • Clinical picture improves with treatment of the underlying infection

Clinical Pearl: Confusion in Cirrhosis

Confusion in cirrhosis does NOT mean hepatic encephalopathy (HE). HE is a less common cause of confusion in cirrhosis. Confusion in cirrhosis is still most commonly caused by head injury and drug-related causes [12]. Other differentials include withdrawal state, infection, metabolic disturbance [12]. Always order CT brain and electrolyte panel. HE is essentially a diagnosis by exclusion [12].

These are non-infectious causes of altered mental status that can co-exist with fever (e.g., from a concurrent infection) and thus mimic encephalitis.

Metabolic CauseWhy It MimicsKey Differentiating Feature
HypoglycaemiaConfusion, seizures, focal deficits (hemiplegia from neuroglycopaenia)Bedside glucose < 3.9 mmol/L; rapid improvement with glucose administration
HyponatraemiaConfusion, convulsion, coma [6]; especially if acute onset. Can be caused by encephalitis itself (SIADH)Check serum Na+; symptoms vary based on level, more severe if acute hyponatraemia [6]
HypercalcaemiaConfusion, lethargy, comaCheck serum Ca2+ (corrected); look for underlying cause
Uraemic encephalopathyConfusion, asterixis, seizures, myoclonusMarkedly elevated urea/creatinine; asterixis (cf flapping tremor of hepatic encephalopathy)
Hepatic encephalopathyConfusion, personality change, asterixis (flapping tremor)Fetor hepaticus, flapping tremor [12]; stigmata of chronic liver disease; elevated ammonia (though not diagnostic); EEG: triphasic waves
Wernicke encephalopathyConfusion + ophthalmoplegia + ataxia (classic triad); often in alcoholicsThiamine deficiency; may have history of alcohol use, malnutrition; responds to IV thiamine
Thyroid storm [8]Fever + agitation/confusion + tachycardia + tremorHistory of thyrotoxicosis; markedly suppressed TSH, elevated fT4/fT3; signs of hyperthyroidism

Autoimmune encephalitis is a differential diagnosis of patients presenting with fever and confusion [8] Rare [8] May be associated with underlying malignancies and infections that have triggered an immune response against the brain parenchyma [8]

This is important because it is treatable but often missed if not considered.

Increasing number of antibodies being recognised — most common being anti-NMDA (N-methyl-D-aspartate) receptor encephalitis [8] Most commonly affects young women and children [8] Associated with ovarian teratomas [8] Clinical presentation: [8]

  • Viral-like prodrome
  • Neuropsychiatric symptoms (altered cognition, behavioural changes – psychosis, aggression, catatonia...)
  • Abnormal movements (orofacial, limb or trunk dyskinesias)
  • Seizures
  • Altered consciousness
  • Autonomic dysfunction

Why it mimics viral encephalitis: The presentation can be near-identical — subacute onset of confusion, seizures, psychiatric symptoms, fever (low-grade). CSF may show lymphocytic pleocytosis. MRI may show signal changes.

How to differentiate:

  • Clinical trajectory: autoimmune encephalitis tends to have a more subacute progression (days to weeks) compared to acute viral encephalitis (hours to days for HSV)
  • Psychiatric features prominent early: in anti-NMDA-R encephalitis, psychiatric symptoms (psychosis, catatonia, agitation) are often the presenting features — many patients are initially admitted to psychiatry before the diagnosis is made
  • Movement disorders: orofacial dyskinesias are characteristic of anti-NMDA-R encephalitis and unusual in viral encephalitis
  • CSF: may show lymphocytic pleocytosis (like viral), but HSV PCR is negative; specific antibody testing (anti-NMDA-R Ab in CSF and serum) is diagnostic
  • MRI: may be normal or show non-specific changes (unlike HSV which has characteristic temporal lobe changes)
  • Look for teratoma: pelvic ultrasound / CT / MRI in young women

ConditionKey FeaturesDifferentiation
Cerebral vasculitis [8]Multifocal strokes, headache, confusion, seizures; may have systemic vasculitis featuresMRI: multifocal infarcts; angiography: beading of cerebral vessels; CSF: mild pleocytosis; systemic markers (ANCA, etc.)
Cerebral lupus [8]Neuropsychiatric SLE — seizures, psychosis, confusion, strokeHistory of SLE; anti-dsDNA, complement levels; multisystem involvement
NeurosarcoidosisCranial neuropathies (esp CN VII), hypothalamic dysfunction, meningitisElevated ACE; CXR: bilateral hilar lymphadenopathy; tissue biopsy: non-caseating granulomas
Behçet's diseaseMeningoencephalitis, brainstem syndromeOral/genital ulcers, uveitis; pathergy test
ADEMPost-infectious multifocal neurological deficits + encephalopathyPreceded by viral illness/vaccination by 1–4 weeks; MRI: large, multifocal white matter lesions; monophasic course; more common in children

From the senior notes, the differential diagnosis of encephalitis includes [3][4][9][10]:

  • Brain tumours (primary/metastatic) — can present with confusion, seizures, focal deficits; fever may co-exist from concurrent infection or tumour fever
  • Subdural haematoma — especially in elderly/alcoholics; fluctuating consciousness; CT: crescent-shaped collection
  • Cerebral venous sinus thrombosis — headache, seizures, focal deficits, altered consciousness; risk factors: OCP, pregnancy, prothrombotic states; MRI/MRV diagnostic
  • Nonconvulsive status epilepticus (NCSE): Sepsis with nonconvulsive status epilepticus [8] — a patient with systemic infection may have NCSE causing prolonged altered consciousness without obvious convulsions. EEG is required for diagnosis
  • Post-ictal state (Todd's paralysis): After a seizure, the patient may be confused with focal neurological deficits. This resolves within hours. Important to distinguish from evolving encephalitis
  • Toxic encephalopathy [3][4][9][10]
  • Drug toxicity (e.g., lithium, phenytoin, carbamazepine overdose), illicit drugs (methamphetamine, MDMA), alcohol intoxication/withdrawal
  • Neuroleptic malignant syndrome (NMS): fever + rigidity + altered consciousness + autonomic instability; caused by dopamine antagonists (antipsychotics); elevated CK
  • Serotonin syndrome: fever + clonus + agitation + altered consciousness; caused by serotonergic drugs; onset within hours of drug change
  • History and urine toxicology screen are key

Syphilis [3][4][9][10] — neurosyphilis can present as meningoencephalitis (acute or chronic). Important to check RPR/VDRL and FTA-ABS, especially with risk factors (MSM, HIV co-infection). Increasingly relevant in HK where syphilis incidence has been rising.


B. Differential WITHIN Encephalitis: Narrowing the Aetiology

Once you've established that this is encephalitis (brain parenchymal inflammation with CSF pleocytosis ± MRI changes ± EEG changes), you need to determine the cause. The differential narrows based on several clinical parameters:

ClueSuggestsRationale
Acute onset (hours), temporal lobe featuresHSV-1Trigeminal/olfactory route → temporal lobe tropism
Dermatomal vesicles preceding neuro sxVZVReactivation from dorsal root ganglia
HFMD lesions + brainstem signsEnterovirus 71Neurotropism for brainstem
Monsoon season, rural Asia, rice paddiesJapanese encephalitisCulex mosquito, pig amplifying host
Animal bite weeks-months priorRabiesRetrograde axonal transport from bite site
HIV + CD4 < 100CMV, toxoplasma, PML, cryptococcusSeverely impaired cellular immunity
Young woman + psychiatric onset → seizures → movement disorder → autonomic instabilityAnti-NMDA-R encephalitisOvarian teratoma-associated; antibodies internalise NMDA receptors
Older adult + faciobrachial dystonic seizures + hyponatraemiaAnti-LGI1 encephalitisLGI1 antibodies; SIADH mechanism
Post-viral illness in child + multifocal white matter lesionsADEMPost-infectious demyelination
Subacute (weeks) + CN palsies + basal meningeal enhancementTB meningoencephalitisBasal meningitis with thick exudates
Rapidly progressive dementia + myoclonusCJDPrion disease; 14-3-3 protein in CSF; DWI restriction on MRI
Immunocompromised + multifocal white matter without mass effectPMLJC virus reactivation; no enhancement (unlike lymphoma)

The senior notes provide the following concise DDx list for encephalitis [3][4][9][10]:

CategoryDifferential
Infectious — meningealMeningitis (bacterial/viral/TB/fungal) complicated with cerebral oedema or cerebral venous thrombosis
Infectious — parenchymalBrain abscess
Infectious — otherSyphilis
NeoplasticBrain tumours (primary/metastatic)
ToxicToxic encephalopathy
MetabolicMetabolic encephalopathy: hypoglycaemia, electrolyte disturbance
AutoimmuneAutoimmune encephalitis (anti-NMDA-R, anti-LGI1, etc.)
InflammatoryCerebral vasculitis, cerebral lupus, neurosarcoidosis
StructuralSubdural haematoma, cerebral venous thrombosis
Seizure-relatedNonconvulsive status epilepticus, post-ictal state
EndocrineThyroid storm, Wernicke encephalopathy

From the neurology perspective (DDx of focal neurological deficit), the pathological differentials also include [13]:

Infection (encephalitis, myelitis, old polio) and Autoimmune (encephalitis, neuromyelitis optica, myasthenia gravis) [13]


When taking a history from a patient with suspected encephalitis, these are the key discriminating questions (adapted from the senior notes [3][4]):

History DomainSpecific QuestionsWhat It Helps Exclude/Include
HPI: onset and tempoHours (acute) vs days-weeks (subacute) vs months (chronic)?Acute: HSV, bacterial. Subacute: autoimmune, TB. Chronic: CJD, PML
HPI: prodromeViral illness? Rash? Vesicles? HFMD? Respiratory symptoms?Suggests specific viral aetiology; post-infectious ADEM
HPI: psychiatric featuresPersonality change? Psychosis? Agitation? Catatonia?Anti-NMDA-R encephalitis; HSV (temporal lobe); frontal lobe lesion
HPI: seizure semiologyOlfactory aura → temporal seizure (HSV); faciobrachial dystonic seizure (anti-LGI1)Localise the lesion and suggest aetiology
PMHHIV infection; previous HSV infection [3][4]Immunocompromised → opportunistic infections; HSV reactivation
Drug historyImmunosuppressant use [3][4]; antipsychotics (NMS); serotonergic drugs (serotonin syndrome)Drug-induced encephalopathy mimics
Surgical historyNeurosurgical procedures [3][4]Post-operative infection; brain abscess
Social historyTrauma history; sexual history and risk factors [3][4]; alcohol useSDH; HIV risk; Wernicke encephalopathy
TOCC history [3][4]Contacts with ill individuals; contacts with ticks, mosquitoes or other animals; intake of seafood or uncooked meatJE (mosquito); rabies (animal bite); scrub typhus (tick); Listeria (unpasteurised dairy); parasitic
Vaccination historyImmunization history [3][4] — JE, measles, mumps, varicellaSusceptibility to vaccine-preventable causes
NeonatalPrenatal or perinatal congenital infection [3][4]Neonatal HSV-2, CMV, toxoplasmosis

E. Key Differentials in Specific Clinical Scenarios

The differential of febrile seizure includes [14]:

CNS infection, encephalopathy, genetic epilepsy, and nonepileptic events (e.g., shaking chills). Meningitis and encephalitis are the main concerns in a child presenting with fever and seizures [14]

A thorough history and examination will usually detect signs of meningitis such as altered consciousness, bulging fontanelle (infants), petechial rash, and/or meningeal signs [14].

The DDx of acute hemiplegia [15][16] includes:

  • Stroke (ischaemic or haemorrhagic) — most common cause overall
  • Encephalitis (viral, hypertensive, Wernicke) [15][16]
  • Brain abscess [15][16]
  • Brain tumour [15][16]
  • Todd's paralysis (postictal) [15][16]
  • Hemiplegic migraine [15][16]

If there is fever, encephalitis and brain abscess rise to the top of the differential.

Must consider opportunistic CNS infections:

  • Toxoplasmosis: ring-enhancing lesions, basal ganglia predilection; anti-toxoplasma IgG usually positive
  • Cryptococcal meningoencephalitis: elevated opening pressure, India ink, CrAg
  • CMV ventriculoencephalitis: periventricular enhancement
  • PML: multifocal non-enhancing white matter lesions (JC virus)
  • Primary CNS lymphoma: solitary or few ring-enhancing lesions (cf toxoplasma which tends to be multiple)
  • TB meningoencephalitis: basal meningeal enhancement, hydrocephalus

High Yield: Always Start IV Aciclovir Empirically

In any patient with suspected encephalitis, start empirical IV aciclovir (10 mg/kg Q8H) immediately. HSV encephalitis has ~70% mortality if untreated, but is dramatically improved with early aciclovir. Do NOT wait for PCR results — treat first, investigate second. The risk of a short course of aciclovir (mainly nephrotoxicity with adequate hydration) is trivial compared to the risk of missing HSV encephalitis.


High Yield Summary

  1. The GC lecture DDx for "fever and confusion" [8] is the highest-yield list: CNS infections, non-CNS infections with encephalopathy, sepsis with primary psychiatric disorder, autoimmune encephalitis, inflammatory brain disorders (vasculitis, cerebral lupus), NCSE, thyroid storm.
  2. Encephalitis vs encephalopathy: encephalitis = brain inflammation (CSF pleocytosis, MRI changes); encephalopathy = altered mental state from any cause (including septic, metabolic, toxic, hepatic) — CSF and MRI are normal.
  3. Meningitis vs encephalitis: the distinguishing feature is abnormal cerebral function (altered mental status, personality change, sensory/motor deficits, speech/movement disorders) [3][4][9][10].
  4. Autoimmune encephalitis (anti-NMDA-R) is a critical DDx — treatable, associated with ovarian teratoma, presents with psychiatric symptoms → seizures → movement disorders → autonomic instability [8].
  5. The DDx list from senior notes [3][4][9][10]: meningitis (complicated), brain tumours, brain abscess, syphilis, toxic encephalopathy, metabolic encephalopathy (hypoglycaemia, electrolyte disturbance).
  6. In children with fever + seizure: always consider meningitis and encephalitis as the main concerns [14].
  7. In immunocompromised: expand DDx to include toxoplasmosis, cryptococcus, CMV, PML, primary CNS lymphoma.
  8. Always start empirical IV aciclovir when encephalitis is suspected — do not wait for confirmatory tests.

Active Recall - Differential Diagnosis of Encephalitis


References

[2] Senior notes: Maksim Medicine Notes, Section 9.6 CNS infections (p.196) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Encephalitis section (p.1199–1201) [4] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), Encephalitis section (p.518–520) [6] Senior notes: Block A - Electrolyte and Acid-Base Disorders, SIADH and Hyponatraemia (p.21) [8] Lecture slides: GC 051. Fever and confusion_meningitis and encephalitis; suppurative brain infection.pdf (p.3, p.45) [9] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Meningitis section (p.1179–1181) [10] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), Meningitis section (p.500) [11] Senior notes: Ryan Ho Respiratory, TB meningitis section (p.79) [12] Senior notes: Block A - A jaundiced and incoherent patient_ liver failure (p.17); Ryan Ho GI, Hepatic encephalopathy (p.332) [13] Lecture slides: CFB_Neuro clinical skills demonstration_01.08.22_file to students.pdf (p.8) [14] Senior notes: Febrile seizures_ Clinical features and evaluation - UpToDate.pdf (p.19) [15] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Stroke DDx (p.1221) [16] Senior notes: MBBS Final MB (Surgery) (Felix PY Lai), Stroke DDx (p.1148)

There is no single pathognomonic test for encephalitis. The diagnosis rests on a combination of clinical features, CSF findings, neuroimaging, and electrophysiology. The International Encephalitis Consortium (Venkatesan et al., 2013) published the most widely used diagnostic criteria, which remain current in 2026.

International Encephalitis Consortium Criteria

Major criterion (required):

  • Altered mental status (defined as altered level of consciousness, lethargy, or personality change) lasting ≥ 24 hours with no alternative cause identified

Minor criteria (at least 2 of the following required for "possible encephalitis"; ≥ 3 for "probable encephalitis"):

Minor CriterionRationale
1. Documented fever ≥ 38°C within 72 hours before or after presentationSuggests infectious or inflammatory aetiology
2. Generalised or partial seizures not fully attributable to a pre-existing seizure disorderCortical irritation from parenchymal inflammation
3. New onset of focal neurological findingsLocalised brain parenchymal damage
4. CSF WBC count ≥ 5/mm³Confirms CNS inflammation
5. Abnormality of brain parenchyma on neuroimaging suggestive of encephalitis (new onset)MRI signal change in parenchyma (not meningeal enhancement alone)
6. Abnormality on EEG consistent with encephalitis and not attributable to another causeDiffuse or focal slowing, periodic discharges

Classification:

  • Possible encephalitis: major criterion + ≥ 2 minor criteria
  • Probable/confirmed encephalitis: possible encephalitis + confirmed aetiology (e.g., positive HSV PCR, identified autoantibody) OR ≥ 3 minor criteria

High Yield: The Practical Take-Home

In clinical practice, you do NOT wait for all criteria to be met before acting. If a patient has fever + altered mental status + any neurological abnormality, you should strongly suspect encephalitis, perform LP and MRI urgently, and start empirical IV aciclovir immediately [1][3][4][8]. The diagnostic criteria are primarily for research standardisation and epidemiological classification — at the bedside, clinical suspicion should drive management.


The sequence matters enormously in suspected encephalitis. Here is the systematic approach, integrating the GC lecture teaching and senior notes:

Sequence in acute medicine: Blood C/ST → Dexamethasone → Antibiotics → CT scan → LP [2] — this is the classic sequence taught for bacterial meningitis. For suspected encephalitis, the principles are similar but with important modifications (empirical aciclovir added, MRI preferred over CT for parenchymal detail).

Critical Sequencing Point

A common exam mistake: students forget that CT brain should be performed BEFORE LP if there are signs of raised ICP or focal neurological signs to avoid the risk of tonsillar herniation from sudden CSF drainage below a pressure gradient. However, LP should NOT be excessively delayed — if CT is normal, LP should follow immediately. And critically, empirical IV aciclovir should be started as soon as encephalitis is suspected, regardless of whether LP has been done yet [1][3][4][8].


Investigation Modalities: Detailed Interpretation

1. Lumbar Puncture and CSF Analysis

This is the single most important investigation in suspected encephalitis.

CSF analysis by lumbar puncture: not diagnostic but can confirm presence of inflammatory disease of CNS [3][4] Opening pressure should be noted [3][4]

  • Normal: 6–20 cm H₂O
  • Encephalitis: mildly to moderately elevated (due to cerebral oedema → raised ICP → transmitted to CSF space)
  • Markedly elevated ( > > 20 cm H₂O): think cryptococcal meningoencephalitis, TB meningoencephalitis, or bacterial meningitis [2]

  • Viral encephalitis: clear (low cell count, no pus)
  • Bacterial meningitis: cloudy/turbid (high neutrophil count, pus)
  • TB/cryptococcal: opalescent (intermediate)

Leucocytosis with lymphocyte predominance (usually less than 250/mm³) [3][4]

ParameterNormalViral EncephalitisBacterial MeningitisTB/FungalAutoimmune
WBC< 5/mm³10–100 (lymphocytes) [2]< 50 (polymorphs) [2]100–300 (lymphocytes) [2]Normal or mildly increased [2]
Predominant cell—LymphocytesNeutrophils (polymorphs)LymphocytesLymphocytes (if elevated)

Why lymphocytes in viral encephalitis? Viral infections trigger a predominantly cell-mediated (T-cell) immune response in the CNS. Neutrophils are the first responders in bacterial infection (attracted by bacterial products and complement), whereas lymphocytes are the primary effectors against intracellular pathogens like viruses.

Important Caveat

Lymphocytic predominant pleocytosis (neutrophils may predominate in early stages) [8]. In the first 24–48 hours of viral encephalitis, the CSF may show neutrophilic predominance before transitioning to lymphocytic. This can be mistaken for bacterial meningitis. If in doubt, repeat LP at 24–48h — in viral encephalitis, the profile will shift to lymphocytic; in bacterial, it will remain neutrophilic or progress.

Normal glucose concentration ( > 50% of blood glucose) [3][4]

CSF GlucoseInterpretation
Normal ( > 50% of blood glucose)Viral encephalitis [2][3][4]; autoimmune encephalitis
Low ( < 50% of blood glucose)Bacterial meningitis, TB, fungal, malignant meningitis, partially treated bacterial

Why is glucose normal in viral encephalitis but low in bacterial? In bacterial meningitis, glucose is consumed by the bacteria themselves (bacterial metabolism) AND by the large number of activated neutrophils (which are metabolically very active, using glycolysis). In viral encephalitis, there is no such massive glucose consumption.

Elevated protein concentration (usually less than 150 mg/dL) [3][4]

CSF ProteinNormalViral EncephalitisBacterialTB/Fungal
Level0.15–0.45 g/L0.4–0.8 g/L [2]0.5–2.0 g/L [2]0.5–3.0 g/L [2]

Why is protein elevated? BBB breakdown allows plasma proteins to leak into the CSF. More severe BBB disruption (bacterial > viral) = higher protein.

Specific diagnostic tests: Culture for bacteria, fungi and mycobacteria; PCR for virus (e.g. HSV DNA PCR) [3][4]

TestTargetSensitivityNotes
HSV PCRHSV-1/2 DNA~96% (after 72h)PCR of CSF for detection of HSV DNA is the standard diagnostic test [17]. Can be false negative in first 24–72h → if high clinical suspicion and initial PCR negative, repeat at 3–7 days and continue aciclovir
VZV PCRVZV DNAGoodAlso check anti-VZV IgM in CSF (intrathecal antibody synthesis)
Enterovirus PCREnteroviral RNAGoodAlso send stool and throat swab for viral culture [3][4]
CMV PCRCMV DNAGoodMainly in immunocompromised
JE IgMAnti-JEV IgM in CSFGold standard for JESingle sera for IgM: JEV [1]; PCR less reliable than antibody
Gram stain/C/STBacteriaVariableTo exclude concurrent bacterial meningitis
AFB smear/C/ST/PCRM. tuberculosisLow (AFB smear ~10-20%)Also check adenosine deaminase (ADA) [2]
India ink / CrAgCryptococcusCrAg > 95% sensitivityIndia ink (75%) [2], CrAg more sensitive
CytologyMalignant cellsVariableIf considering carcinomatous/lymphomatous meningitis
Oligoclonal bandsIntrathecal IgG synthesisSupports inflammatory/autoimmunePresent in MS, autoimmune encephalitis, chronic infections
Autoimmune antibody panelAnti-NMDA-R, anti-LGI1, anti-CASPR2, anti-GABA-B, anti-AMPASpecificSend both CSF and serum; CSF is more specific for anti-NMDA-R

Viral culture: usually low yield (6%) [1] — PCR has largely replaced culture for most viral diagnoses.

Serology: Important for patients who are not improving and who do not have a diagnosis based upon CSF analysis, culture and PCR. Paired sera are required in acute and convalescence phase for diagnosis [3][4]. This means you take one blood sample at presentation (acute) and another 2–4 weeks later (convalescent). A ≥ 4-fold rise in antibody titre confirms the diagnosis.

High Yield: HSV PCR Timing

HSV PCR can be false negative in the first 24–72 hours. If clinical suspicion is high (temporal lobe features, acute onset fever + confusion + seizures), a negative initial PCR should NOT lead to stopping aciclovir. Repeat LP at 3–7 days. Conversely, brain biopsy is the gold standard [17] but is almost never required in modern practice due to the excellent sensitivity and specificity of PCR.

This comprehensive table integrates all sources [1][2][3][4][8]:

FeatureNormalViral EncephalitisBacterial MeningitisTB MeningoencephalitisCryptococcalAutoimmune
AppearanceClearClearCloudy/turbidOpalescentOpalescentClear
Opening pressure6–20 cm H₂O10–20> 20> 20> > 20Normal
WBC (/mm³)< 510–100< 50 (but can be high)100–300VariableNormal or mildly ↑
Predominant cell—LymphocytesPolymorphsLymphocytesLymphocytesLymphocytes
Protein (g/L)0.15–0.450.4–0.80.5–2.00.5–3.0Variable> 0.5
Glucose> 50% BGNormal ( > 50%)< 50% BG< 50% BG< 50% BGNormal
Key test—Viral PCRGram stain, C/STAFB, PCR, ADAIndia ink, CrAgAb panel

2. Neuroimaging

CT brain: useful to rule out space-occupying lesion. Temporal lobe involvement is strongly suggestive of HSV encephalitis [3][4]

  • Primary role: exclude SOL, mass effect, or obstructive hydrocephalus before LP — it is a safety gate, not the diagnostic tool of choice for encephalitis
  • Findings in encephalitis: often normal in early stages; may show hypodensity in affected areas (e.g., temporal lobes in HSV)
  • Limitation: CT: usually normal → used to r/o SOL only [1]. CT has poor sensitivity for early encephalitic changes and for posterior fossa lesions

MRI is far superior to CT for detecting encephalitic changes because it has better soft tissue contrast resolution and can detect subtle oedema and signal changes days before CT.

MRI brain: sensitive to detect demyelination which may be seen in other conditions with mental status change such as progressive multifocal leukoencephalopathy [3][4]

GC lecture key neuroimaging findings [8]:

Neuroimaging (CT/MRI): [8]

  • Hypodensity (CT) / hyperintensity (MRI) in frontotemporal lobes (HSV)
  • Hyperintensity (MRI) of bilateral thalamus in Japanese encephalitis

MRI sequences and what they show:

SequenceWhat It DetectsEncephalitis Findings
T2-weighted / FLAIROedema, gliosis, inflammation (water appears bright)T2W hyperintensity in affected areas [1][2][8]
DWI (Diffusion-weighted imaging)Cytotoxic oedema (restricted diffusion)Early changes in acute encephalitis; also useful in CJD (cortical ribboning) and acute ischaemic stroke
T1 with gadolinium contrastBBB breakdown (enhancing areas indicate active inflammation)Meningeal enhancement (meningitis component), parenchymal enhancement (encephalitis), ring enhancement (abscess)
SWI / GREHaemorrhage (haemosiderin/blood products)Haemorrhagic encephalitis (HSV can be haemorrhagic → petechial haemorrhages in temporal lobes)

Localisation patterns on MRI — aetiological clues:

MRI PatternSuggestsWhy
Temporal lobe hyperintensity (unilateral or bilateral) [1][2][8]HSV-1 encephalitis (most important)Trigeminal/olfactory route → temporal and inferior frontal lobe tropism. Temporal lobe: classically HSV but may also occur in other Herpesviridae, e.g., VZV, EBV, HHV6 [1]
Bilateral thalamic hyperintensity [1][8]Japanese encephalitisFlavivirus tropism for deep grey matter structures. Thalamus, BG: usually arbovirus, respiratory virus, TB and CJD [1]
Multifocal supratentorial white matter lesionsADEMPost-infectious demyelination → suggestive of ADEM [1]
Periventricular enhancementCMV ventriculoencephalitisCMV tropism for ependymal cells lining ventricles
Multifocal non-enhancing white matter lesionsPMLJC virus destroys oligodendrocytes → demyelination without significant inflammation (hence no enhancement)
Ring-enhancing lesion with surrounding oedemaBrain abscessCentral necrosis + peripheral inflammatory capsule
Basal ganglia signal changesArboviruses, toxic/metabolicDeep grey matter involvement
Cortical ribboning on DWICJDPrion-mediated spongiform change
HydrocephalusMore suggestive of non-viral aetiology [1]TB basal meningitis → adhesive arachnoiditis → obstruction of CSF flow

Contrast CT brain: leptomeningeal enhancement, rim-enhancing lesion (abscess). MRI brain T2/FLAIR: hyperintensity in mesial temporal lobe / inferior frontal lobe (HSV encephalitis), tuberculoma (TB meningitis) [2]


EEG: often abnormal in acute encephalitis. Diffuse slow waves and spike activities. Focality in temporal lobe is strongly suggestive of HSV encephalitis [3][4]

EEG – periodic slow-wave activity / lateralisation epileptiform discharges involving the frontotemporal lobes in HSV encephalitis [8]

EEG: generalised slow waves (encephalopathic changes), periodic lateralising epileptiform discharges (e.g. in HSV encephalitis), other epileptiform activities [8]

EEG FindingInterpretationCondition
Diffuse slow waves (theta/delta)Non-specific encephalopathic change — indicates diffuse cerebral dysfunctionAny encephalitis, metabolic encephalopathy, drug effects
Periodic lateralising epileptiform discharges (PLEDs) over temporal region [1][8]Highly suggestive of HSV encephalitisHSV-1 (temporal lobe involvement → periodic sharp-and-slow-wave complexes, typically every 2–3 seconds)
Generalised periodic dischargesCJD (1–2 Hz triphasic sharp waves), hepatic encephalopathy (triphasic waves)Different morphology distinguishes them
Extreme delta brushAnti-NMDA receptor encephalitisRhythmic delta activity with superimposed fast beta activity — fairly specific pattern
Focal seizure activityOngoing subclinical/electrographic seizuresAny cause of encephalitis; important to detect NCSE

Why is EEG useful?

  1. Supports diagnosis when CSF/MRI are equivocal
  2. Detects subclinical seizures / NCSE — a patient who remains unconscious despite treatment may be in non-convulsive status epilepticus
  3. Localises the abnormality (temporal lobe → HSV)
  4. Monitors response to treatment

EEG: Evaluation in encephalitis, sporadic CJD [18]


These serve to (a) identify systemic clues, (b) exclude metabolic mimics, and (c) look for specific aetiologies.

Bloods: CBC d/c, LRFT (for SIADH), clotting profile, glucose, blood C/ST [2]

InvestigationPurposeExpected Findings in Encephalitis
CBC with differentials [3][4]Leukocytosis (infection); lymphocytosis (viral); atypical lymphocytes (EBV); eosinophilia (parasitic)Variable; may be normal in viral
LRFT (liver and renal function tests)Exclude metabolic encephalopathy (uraemic, hepatic); baseline before aciclovir (nephrotoxic); detect SIADH (hyponatraemia)Check Na⁺ specifically — SIADH causing hyponatraemia is common in CNS infections [6]
Blood glucoseExclude hypoglycaemia as cause of altered consciousnessShould be normal unless concurrent DKA/HHS
CRP / ProcalcitoninInfection markers; procalcitonin more specific for bacterial infectionMildly elevated in viral, markedly elevated in bacterial
Coagulation profileBaseline; DIC screen if severe sepsis (meningococcal)Usually normal in viral encephalitis
Blood culture [3][4]Exclude bacteraemia / identify bacterial pathogenShould be taken before antibiotics
Paired serologyAcute + convalescent sera (2–4 weeks apart) for rising titresUseful for JE (IgM), mumps, measles, influenza, Mycoplasma
HIV testIdentify immunocompromised state; HIV itself causes encephalopathyShould be offered to all patients with unexplained encephalitis
Autoimmune panelAnti-NMDA-R, anti-LGI1, anti-CASPR2 antibodies in serumSend when autoimmune encephalitis suspected
Thyroid functionExclude thyroid storm (mimic)TSH, fT4, fT3
AmmoniaExclude hepatic encephalopathyElevated in HE (though not always diagnostic)

Urine/Stool/Throat swab: for viral culture [3][4]

SpecimenTestPurpose
Throat swabViral culture/PCREnterovirus, adenovirus isolation
StoolViral culture/PCREnterovirus (replicates in GI tract → shed in stool)
UrineViral cultureCMV, mumps
Vesicle fluidPCR for HSV/VZV DNAIf vesicular lesions present — direct evidence of herpes virus
Nasopharyngeal aspiratePCR for respiratory virusesInfluenza, adenovirus

Brain biopsy: as last resort → seldom necessary [1]

  • Brain biopsy is the gold standard [17] for HSV encephalitis — but in practice, almost never needed due to the excellent sensitivity of CSF HSV PCR
  • Reserved for cases where:
    • The patient is deteriorating despite empirical treatment
    • All other investigations are non-diagnostic
    • A treatable cause (e.g., lymphoma, unusual infection) is suspected
  • Tissue sent for: histopathology, viral culture, PCR, electron microscopy, immunohistochemistry

Suspected AetiologyKey InvestigationsDiagnostic Finding
HSV-1CSF HSV PCR; MRI (T2/FLAIR); EEGPCR positive; temporal lobe hyperintensity; PLEDs [1][3][4][8][17]
VZVCSF VZV PCR; CSF anti-VZV IgMPCR positive; subcortical white matter lesions on MRI
EnterovirusCSF enteroviral PCR; stool/throat culturePCR positive; MRI may show brainstem changes (EV-71)
JECSF anti-JEV IgMIgM positive in CSF; bilateral thalamic hyperintensity on MRI [1][8]
CMVCSF CMV PCRPCR positive; periventricular enhancement on MRI
TBCSF AFB smear/culture/PCR; ADAAFB positive; basal meningeal enhancement + hydrocephalus on MRI
CryptococcusCSF India ink, CrAg; CSF/blood cultureIndia ink positive (75%), CrAg positive ( > 95%) [2]; very high opening pressure
Autoimmune (anti-NMDA-R)CSF + serum anti-NMDA-R Ab; pelvic imagingAb positive; ovarian teratoma on imaging
CJDCSF 14-3-3 protein, RT-QuIC; MRI DWI; EEG14-3-3 elevated; cortical ribboning on DWI; periodic sharp-wave complexes on EEG
ADEMMRI brain + spine; CSF MOG-AbMultifocal large white matter lesions; MOG-Ab may be positive

  • If initial HSV PCR is negative but clinical suspicion remains high → repeat LP at 3–7 days (PCR sensitivity increases after 72 hours of symptoms)
  • If patient is not improving on empirical treatment → repeat LP to check for:
    • Persistent pleocytosis (treatment failure)
    • New pathogens (superinfection)
    • Autoimmune antibodies not previously tested
  • At end of treatment (day 14–21) for HSV: repeat HSV PCR to confirm clearance. If still positive → extend treatment

High Yield Summary

  1. Diagnostic criteria (International Encephalitis Consortium): altered mental status ≥ 24h (major) + ≥ 2 of: fever, seizures, focal deficits, CSF pleocytosis, abnormal MRI, abnormal EEG (minor).
  2. LP is the most important investigation: CSF shows lymphocytic pleocytosis, normal glucose, mildly elevated protein [3][4][8]. Neutrophils may predominate in early stages [8].
  3. HSV DNA PCR in CSF is the standard diagnostic test [17]; can be false negative in first 72h → repeat if high suspicion.
  4. MRI is the neuroimaging modality of choice: temporal lobe hyperintensity = HSV; bilateral thalamic hyperintensity = JE [8].
  5. EEG: PLEDs over temporal region are highly suggestive of HSV encephalitis [3][4][8]. Also detects subclinical seizures/NCSE.
  6. CT brain is for excluding SOL before LP, NOT for diagnosing encephalitis [1][3][4].
  7. Always send: CSF (cell count, glucose with paired BG, protein, HSV/VZV/EV PCR), bloods (CBC, LRFT, glucose, blood C/ST, HIV), throat/stool/urine for viral culture.
  8. Start empirical IV aciclovir 10 mg/kg Q8H immediately — do NOT wait for results [3][4][8]. HSV encephalitis has ~70% mortality if untreated.
  9. Consider autoimmune encephalitis panel (CSF + serum) when viral PCR is negative and clinical picture is suggestive.

Active Recall - Diagnosis of Encephalitis


[1] Senior notes: Ryan Ho Neurology, Section 7.2 Encephalitis (p.147–149) [2] Senior notes: Maksim Medicine Notes, Section 9.6 CNS infections (p.197) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Encephalitis - Diagnosis (p.1199–1201) [4] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), Encephalitis - Diagnosis (p.520) [6] Senior notes: Block A - Electrolyte and Acid-Base Disorders, SIADH causes (p.21) [8] Lecture slides: GC 051. Fever and confusion_meningitis and encephalitis; suppurative brain infection.pdf (p.20, p.38–39) [14] Senior notes: Febrile seizures_ Clinical features and evaluation - UpToDate.pdf (p.14, p.19) [17] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), HSV encephalitis (p.1798) [18] Senior notes: Maksim Medicine Notes, Investigations - EEG (p.237)

The management of encephalitis follows a logical, stepwise approach built around three pillars:

  1. Immediate stabilisation and empirical treatment — because HSV encephalitis kills quickly if untreated
  2. Aetiology-directed definitive treatment — once you know what you're dealing with
  3. Supportive care and complication management — seizures, raised ICP, SIADH, ICU care

The overarching principle is: treat first, confirm later. The mortality of untreated HSV encephalitis is ~70%, but early aciclovir reduces this dramatically. The risk of empirical aciclovir (mainly reversible nephrotoxicity) is trivial compared to the catastrophic risk of delay.

Common, high mortality and morbidity if treatment delayed [8] Quick septic workup including blood culture before start of antibiotics [8] Early lumbar puncture if no contraindications [8] Initial high-dose broad spectrum parenteral antibiotics that penetrate the blood brain barrier, subsequent streamlining of antibiotics with availability of microbiological results [8] Regular monitoring of neurological status and vital signs [8] Look for the primary infective focus and also complications [8] Close liaison with microbiologist, neurologist and neurosurgeon [8]



Before any investigation, stabilise the patient. This follows standard emergency medicine principles:

StepActionRationale
AirwayAssess patency; recovery position if reduced GCS; intubate if GCS ≤ 8 or loss of airway reflexesEncephalitis patients may have reduced consciousness → risk of aspiration
BreathingHigh-flow O₂; monitor SpO₂Ensure adequate cerebral oxygenation; brainstem encephalitis may impair respiratory drive
CirculationIV access (at least 2 large-bore cannulae); IV fluids; monitor BP and HRFor drug administration and fluid resuscitation; autonomic instability may cause haemodynamic compromise
DisabilityCheck GCS, pupils, bedside glucoseExclude hypoglycaemia (instantly reversible cause of altered consciousness); baseline neuro assessment
ExposureTemperature; look for rash (vesicles, petechiae, eschar); check for meningeal signsDermatomal vesicles → VZV; petechiae → meningococcal; eschar → scrub typhus

Seizure control (if actively seizing):

  • Status epilepticus management: ABC + O₂ with IV access [5][19]
  • First-line: IV lorazepam 4 mg (or IM midazolam if no IV access)
  • Second-line: IV phenytoin/fosphenytoin loading dose or IV levetiracetam
  • Third-line (refractory SE): ICU for propofol/midazolam/thiopentone infusion with continuous EEG monitoring
  • The later a seizure is stopped, the more difficult it is to be stopped [5][19] — so act fast

2. Empirical Treatment — The Cornerstone

This is the single most important treatment decision in suspected encephalitis.

Aciclovir 10 mg/kg IV three times per day for 2–3 weeks for HSV encephalitis [8] Should be started in all patients with suspected viral encephalitis [8] Significantly reduced mortality of HSV encephalitis [8]

Empirical treatment: IV acyclovir 10 mg/kg Q8H for 10–14 days [3][4] (Note: current guidelines favour 14–21 days for confirmed HSV; GC lecture says 2–3 weeks [8])

How aciclovir works — from first principles:

Aciclovir = "acyclo-" (without a complete cycle) + "vir" (virus). It is a guanosine analogue that lacks a 3'-hydroxyl group on its sugar ring.

  1. Selective activation: Aciclovir is a prodrug that requires phosphorylation to become active. The first phosphorylation step is performed by viral thymidine kinase (TK) — an enzyme only present in cells infected by herpes viruses (HSV, VZV). This is why aciclovir is selectively toxic to infected cells and has minimal toxicity to uninfected cells.
  2. Mechanism of action: Aciclovir triphosphate (the active form) competes with deoxyguanosine triphosphate (dGTP) for incorporation into viral DNA by viral DNA polymerase → once incorporated, the missing 3'-OH group means no further nucleotides can be added → chain termination → viral DNA replication stops.
  3. Selectivity: Viral DNA polymerase has a much higher affinity for aciclovir triphosphate than human DNA polymerase → selective antiviral effect with minimal host toxicity.
ParameterDetail
DrugAciclovir (acyclovir)
Dose10 mg/kg IV Q8H [3][4][8]
Duration2–3 weeks for HSV encephalitis [8]; minimum 14 days; 21 days in neonates or immunocompromised
RouteIV only (poor oral bioavailability insufficient for CNS infection)
When to startImmediately upon clinical suspicion — do NOT wait for PCR results [8]
SpectrumHSV-1, HSV-2, VZV (less potent against VZV → higher doses may be needed); minimal activity against CMV, EBV

Contraindications and cautions:

IssueDetailManagement
NephrotoxicityAciclovir can crystallise in renal tubules → acute tubular obstruction/injuryEnsure adequate hydration (pre-hydrate with NS); adjust dose for renal impairment; monitor creatinine
Renal impairmentDose reduction required if eGFR < 50 mL/minExtend dosing interval (e.g., Q12H or Q24H depending on eGFR)
NeurotoxicityRare — tremor, confusion, hallucinations, seizures (especially with renal impairment leading to drug accumulation)Monitor neurological status; reduce dose in renal impairment
PregnancyCategory B — no proven teratogenicity; benefits outweigh risks in HSV encephalitisDo not withhold in pregnant women with suspected HSV encephalitis
Known allergyRare hypersensitivityUse foscarnet as alternative

High Yield: When to Stop Aciclovir

  • If HSV PCR comes back positive: continue full course (14–21 days), then repeat LP at end of treatment. If PCR still positive → extend treatment.
  • If HSV PCR is negative AND clinical picture does NOT favour HSV (no temporal lobe features, alternative diagnosis found): can discontinue after discussing with neurology/microbiology.
  • If HSV PCR is negative BUT high clinical suspicion remains: continue aciclovir and repeat LP at 3–7 days (PCR sensitivity increases after 72h of symptoms).

Because bacterial meningitis cannot always be excluded at presentation (especially early when CSF may show neutrophilic predominance), empirical antibiotics should be given alongside aciclovir if there is any possibility of bacterial infection.

Empirical treatment: IV ceftriaxone 2g Q12h + aciclovir 10mg/kg Q8h [2]

ScenarioAdditional Empirical CoverageRationale
Standard adultIV ceftriaxone 2g Q12H [2]Broad-spectrum cephalosporin with excellent CSF penetration; covers S. pneumoniae, N. meningitidis, H. influenzae
Likely pneumococcal / TB+ IV dexamethasone 0.15 mg/kg Q6H [2]Reduces inflammatory damage; proven mortality benefit in pneumococcal meningitis
Advanced age ≥ 50 / pregnancy / immunocompromised+ IV ampicillin 2g Q4H [2]Covers Listeria monocytogenes (ceftriaxone does NOT cover Listeria — Listeria has intrinsic resistance to cephalosporins due to altered PBPs)
Risk of Pseudomonas+ IV meropenem at CNS dosage [2]Neurosurgical patients, post-craniotomy, CSF shunt infections
Drug-resistant S. pneumoniae± IV vancomycin 500 mg Q12H [2]Not common in HK [2] but covered empirically in some protocols

Why ceftriaxone specifically?

  • Third-generation cephalosporin → broad gram-negative and gram-positive coverage
  • Excellent CSF penetration (especially in inflamed meninges where BBB permeability is increased)
  • Long half-life → Q12H dosing
  • Note: meningitic dosing (2g Q12H) is higher than standard dosing (1-2g Q24H) because you need to achieve adequate CSF concentrations above MIC

IV dexamethasone 0.15 mg/kg Q6H for 4 days (1st dose before or together with antibiotics) [2]

Why dexamethasone? The inflammatory response to bacterial meningitis (neutrophil infiltration, cytokine release, BBB breakdown) causes significant collateral damage — cerebral oedema, raised ICP, vasculitis, ischaemia. Dexamethasone dampens this inflammatory cascade.

When to use dexamethasone in encephalitis:

ScenarioUse Dexamethasone?Rationale
Bacterial meningitis / meningoencephalitisYes — 1st dose before or together with antibiotics [2]Proven mortality benefit (especially S. pneumoniae); reduces hearing loss
HSV encephalitisControversialNo RCT evidence of benefit; theoretical concern that steroids may worsen viral replication. However, often used clinically when there is significant cerebral oedema
TB meningoencephalitisYes — IV dexamethasone for 6–8 weeks [2]Proven mortality benefit in TB meningitis (Thwaites et al., NEJM 2004); reduces inflammatory damage and hydrocephalus
Autoimmune encephalitisYes — as part of immunotherapyImmunosuppression is the treatment itself
Brain abscessDexamethasone if with significant cerebral oedema [2]Not routine; only if mass effect is causing neurological deterioration

3. Aetiology-Directed Definitive Treatment

Once investigations identify the cause, treatment is tailored accordingly.

IV aciclovir 10 mg/kg Q8H for 2–3 weeks [8]

AspectDetail
DrugIV aciclovir
Dose10 mg/kg Q8H
Duration14–21 days (21 days preferred for neonatal HSV and immunocompromised)
MonitoringRenal function (Cr, eGFR); repeat LP at end of treatment to confirm HSV PCR negativity
If PCR remains positiveExtend aciclovir treatment and re-check
Prognosis50–70% mortality if untreated [1]; with aciclovir mortality reduced to ~10–20%; however, significant neurological sequelae in ~50% of survivors
ResistanceRare in immunocompetent; may occur in immunocompromised (mutation in viral TK) → use foscarnet

Foscarnet: treatment of choice if aciclovir resistance (occasionally in immunocompromised hosts) [20]

Foscarnet ("phosphono-formic acid") directly inhibits viral DNA polymerase without requiring activation by viral TK → effective against TK-deficient aciclovir-resistant strains. Main toxicity: nephrotoxicity, electrolyte disturbances (hypocalcaemia, hypomagnesaemia).

AspectDetail
DrugIV aciclovir (VZV is less sensitive than HSV → may need higher doses)
Dose10–15 mg/kg Q8H
Duration14–21 days
Mild / post-infectious cerebellar ataxia in childrenOral valaciclovir or PO aciclovir may suffice; prognosis: usually resolves completely within 3 weeks [1]
ImmunocompromisedIV aciclovir if severe (especially if immunocompromised) [1]

AspectDetail
DrugIV ganciclovir ± IV foscarnet (combination for severe disease, especially in HIV)
DoseGanciclovir 5 mg/kg Q12H induction, then 5 mg/kg daily maintenance
DurationInduction 14–21 days, then long-term maintenance until immune reconstitution
Key toxicityGanciclovir: myelosuppression (neutropaenia, thrombocytopaenia) — monitor CBC
Why not aciclovir?CMV does not encode thymidine kinase → aciclovir cannot be activated in CMV-infected cells. Ganciclovir is phosphorylated by CMV-encoded UL97 kinase instead

No specific treatment [2] Serology × 2 (14 days apart) [2]

AspectDetail
TreatmentSupportive only [2] — no proven antiviral therapy
SupportiveSeizure control, ICP management, nutritional support, physiotherapy
PreventionVaccination available [2] — inactivated JE vaccine; recommended for travellers to endemic areas and residents in endemic regions
PrognosisMortality 20–30%; ~50% of survivors have significant neurological sequelae

  • No specific antiviral therapy for most of these
  • Management is supportive: seizure control, ICP management, fluid/electrolyte management, ICU support
  • Influenza encephalopathy: oseltamivir may be given but evidence of CNS benefit is limited

HRZE × 2 months + HR × 10 months (total 12 months) [2] IV dexamethasone for 6–8 weeks [2] HIV testing ± repeat LP to monitor CSF changes [2]

AspectDetail
Anti-TB regimenIntensive: isoniazid (H) + rifampicin (R) + pyrazinamide (Z) + ethambutol (E) for 2 months. Continuation: H + R for 10 months. Total: 12 months (longer than pulmonary TB's 6 months — because CNS penetration is limited and relapse consequences are devastating)
Adjunctive steroidIV dexamethasone for 6–8 weeks, then taper — proven to reduce mortality
MonitoringRepeat LP to monitor CSF glucose, protein, cell count; LFT monitoring (HRZE hepatotoxicity)
HydrocephalusMay require neurosurgical intervention (VP shunt or EVD)

IV Amphotericin B 1 mg/kg over 4–6h + PO 5-flucytosine for ≥ 2 weeks, then PO fluconazole 400 mg daily for ≥ 8 weeks [2]

PhaseDrugsDuration
InductionIV amphotericin B + oral flucytosine≥ 2 weeks
ConsolidationPO fluconazole 400 mg daily≥ 8 weeks
MaintenancePO fluconazole 200 mg dailyUntil immune reconstitution (CD4 > 200 for ≥ 6 months on ART)
  • Serial therapeutic LPs may be needed to manage raised ICP (opening pressure in crypto can be extremely high → therapeutic drainage to reduce pressure)
  • Monitor for amphotericin B toxicity: nephrotoxicity, hypokalaemia, hypomagnesaemia, anaemia

This is the management section that follows directly from the GC lecture:

Initial investigation and management approach similar to that of CNS infections [8] Infective aetiologies must be excluded [8] Blood and CSF for autoimmune antibodies (e.g. anti-NMDA receptor antibodies) if clinical suspicion [8]

Management [8]:

  • Close monitoring as patients may develop refractory seizures, autonomic instability
  • Immunotherapy
    • Acute stage – high dose intravenous prednisolone, intravenous immunoglobulin, plasmapheresis
    • Subsequent treatment with oral corticosteroids / steroid sparing agents
  • Anti-seizure medications if seizures
  • Supportive care

From the Handbook of Internal Medicine [21]:

Treatment of autoimmune encephalitis: 1. Immunotherapy — early immunotherapy can improve outcome

  • First line immunotherapy:
    • High dose corticosteroids (IV methylprednisolone 1g/day for 3–7 days, followed by oral prednisolone with slow taper)
    • Intravenous immunoglobulin (IVIg) 0.4 g/kg/day for 5 days
    • Plasma exchange
  • Second line immunotherapy: Can be considered if there is no meaningful clinical or radiological response to optimised first-line immunotherapy after 2–4 weeks; includes IV rituximab / cyclophosphamide 2. Symptomatic treatment — apart from immunotherapy, it is important to treat the co-existing seizures, movement disorders, sleep and autonomic dysfunction 3. ICU admission may be considered in patients with status epilepticus, especially when they are intubated 4. In NMDA encephalitis patients with ovarian teratoma, tumour resection is associated with faster rate of recovery and reduced relapse rate

Treatment summary for autoimmune encephalitis:

LineAgentsMechanism
1st lineIV methylprednisolone 1g/day × 3–7 days → oral prednisolone taperHigh-dose corticosteroid suppresses inflammation and immune response broadly
1st lineIVIg 0.4 g/kg/day × 5 daysImmunomodulation: Fc receptor blockade, anti-idiotypic antibodies, complement inhibition, cytokine modulation
1st linePlasma exchange (plasmapheresis)Physically removes pathogenic antibodies from circulation
2nd lineIV rituximabAnti-CD20 monoclonal antibody → depletes B cells → reduces antibody production
2nd lineIV cyclophosphamideAlkylating agent → suppresses both B and T cell function
Tumour removalOvarian teratoma resection (in anti-NMDA-R encephalitis)Removes the antigenic source that triggers the immune response → associated with faster recovery and reduced relapse rate [21]
Long-term maintenanceOral steroids / steroid-sparing agents (azathioprine, mycophenolate mofetil)Prevent relapse in antibody-mediated encephalitis

IV ceftriaxone 2g Q12H + IV metronidazole 500 mg Q8H [2] Consult NS for drainage [2] Duration of treatment: 6–8 weeks [2]


4. Supportive Care and Complication Management

Antiseizure medications may be needed [8]

ScenarioManagement
Acute seizure / SEIV lorazepam → IV phenytoin/levetiracetam → ICU if refractory
Recurrent seizuresStart regular antiseizure medication (ASM): levetiracetam (preferred — fewer drug interactions, IV and PO forms available, renal excretion) or phenytoin
Non-convulsive SEDetected on EEG; may require continuous IV midazolam infusion in ICU
Duration of ASMContinue throughout acute illness; consider weaning after recovery (typically 3–6 months seizure-free, guided by EEG and clinical course)

InterventionMechanismWhen to Use
Elevate head of bed 30°Facilitates venous drainage from cranium via jugular veins → reduces ICPAll patients with suspected raised ICP
Osmotic therapy: IV mannitol 20% (0.5–1g/kg) or hypertonic salineCreates osmotic gradient → draws water from brain tissue → reduces cerebral oedemaAcute raised ICP with clinical deterioration (Cushing reflex, pupil changes)
DexamethasoneReduces vasogenic oedema (stabilises BBB); limited role in cytotoxic oedemaPrimarily for bacterial meningitis and brain abscess; role in viral encephalitis uncertain
Hyperventilation (target pCO₂ 30–35 mmHg)Hypocapnia → cerebral vasoconstriction → reduces cerebral blood volume → reduces ICPTemporary bridge; only in acute deterioration (rebound effect if prolonged)
Neurosurgical interventionEVD (external ventricular drain) for acute hydrocephalus; decompressive craniectomy for refractory raised ICPSevere cases; TBM with hydrocephalus

SIADH caused by CNS infections (meningitis, encephalitis, brain abscess) [6][22]

SeverityManagement
Mild/chronicFluid restriction (800–1000 mL/day); monitor Na⁺ Q4-6H
ModerateFluid restriction ± IV hypertonic saline (careful titration)
Severe / seizuresUrgent partial correction with 3% hypertonic saline; target ↑Na⁺ by 4–6 mmol/L in first 6h, then maximum 8–10 mmol/L in 24h

Comes quick, correct quick; comes slow, correct slow [22] — acute symptomatic hyponatraemia (seizures, coma) warrants rapid partial correction. Chronic hyponatraemia must be corrected slowly to avoid central pontine myelinolysis (CPM) — also called osmotic demyelination syndrome.

Indication for ICURationale
GCS ≤ 12 or rapidly decliningRisk of airway compromise; need for intubation
Refractory seizures / status epilepticus [8][21]Need for continuous IV sedation and EEG monitoring
Autonomic instability [8]Cardiac arrhythmias, labile BP — especially in anti-NMDA-R encephalitis
Respiratory failureBrainstem encephalitis (EV-71, Listeria) may impair respiratory drive
Need for invasive ICP monitoringSevere cerebral oedema

  • NG tube feeding if patient unable to swallow safely (reduced consciousness, dysphagia)
  • DVT prophylaxis: LMWH (enoxaparin) + compression stockings (immobilised patients at high risk of DVT/PE)
  • Pressure sore prevention: regular turning
  • Physiotherapy/occupational therapy: begin early to optimise functional recovery

AetiologyTreatmentDurationKey Points
HSV encephalitisIV aciclovir 10 mg/kg Q8H [2][3][4][8]2–3 weeks [8]Start empirically; repeat LP at end; foscarnet if resistance
VZV encephalitisIV aciclovir 10–15 mg/kg Q8H14–21 daysHigher dose than HSV; oral for mild post-infectious cerebellar ataxia
CMV encephalitisIV ganciclovir ± foscarnet14–21 days induction → maintenanceMainly immunocompromised; monitor CBC for myelosuppression
JENo specific treatment; supportive [2]—Vaccination for prevention
Other viralSupportive—No proven antivirals for most
Bacterial meningitisIV ceftriaxone 2g Q12H ± vancomycin ± ampicillin [2]By pathogen (7–21 days)+ dexamethasone before/with 1st dose antibiotics [2]
TB meningoencephalitisHRZE 2m + HR 10m [2]12 months total [2]+ dexamethasone 6–8 weeks [2]; VP shunt if hydrocephalus
CryptococcalAmphotericin B + flucytosine → fluconazole [2]Induction ≥ 2w → consolidation ≥ 8w → maintenanceSerial therapeutic LPs for raised ICP
Autoimmune (anti-NMDA-R)1st line: IV methylpred + IVIg + plasmapheresis; 2nd line: rituximab / cyclophosphamide [8][21]Variable; guided by responseTumour removal if teratoma present [21]; long-term immunosuppression
Brain abscessIV ceftriaxone + metronidazole; NS drainage [2]6–8 weeks [2]Neurosurgical drainage is often required
NeurosyphilisIM procaine penicillin 2.4 MU daily + probenecid QID for 17 days [2]17 daysStops but does not reverse the disease [2]
CJDNo specific treatment; disposable equipment [2]—Palliative care; prion disease prevention

StrategyDetails
JE vaccinationInactivated JE vaccine (Ixiaro); recommended for travellers to endemic areas and high-risk residents
Measles/mumps/rubella (MMR) vaccinationPrevents measles encephalitis, mumps encephalitis, SSPE, and rubella encephalitis
Varicella vaccinationPrevents primary VZV infection and thus reduces risk of VZV encephalitis/cerebellar ataxia
Rabies vaccinationPre-exposure (high-risk occupations) and post-exposure prophylaxis (wound care + vaccine ± rabies immunoglobulin)
Mosquito bite preventionDEET-based repellents, long sleeves, bed nets — for arboviral encephalitis prevention
HSV neonatal preventionAciclovir prophylaxis and consideration of caesarean section if active genital HSV lesions at time of delivery

High Yield Summary

  1. Start IV aciclovir 10 mg/kg Q8H immediately in ALL patients with suspected viral encephalitis [8] — do NOT wait for PCR. This significantly reduced mortality of HSV encephalitis [8].
  2. Empirical regimen: IV ceftriaxone 2g Q12H + IV aciclovir 10 mg/kg Q8H [2]. Add ampicillin if Listeria risk (age ≥ 50, pregnant, immunocompromised). Add dexamethasone if bacterial meningitis suspected.
  3. HSV encephalitis duration: 2–3 weeks [8]; repeat LP at end of treatment to confirm PCR negativity. Foscarnet for aciclovir-resistant strains.
  4. Autoimmune encephalitis management [8][21]: 1st line = IV methylprednisolone + IVIg + plasmapheresis. 2nd line = rituximab / cyclophosphamide. Tumour resection (ovarian teratoma) in anti-NMDA-R encephalitis associated with faster recovery and reduced relapse [21].
  5. Supportive care is critical throughout: seizure control (antiseizure medications may be needed [8]), ICP management, SIADH monitoring, ICU for refractory seizures/autonomic instability, rehabilitation.
  6. Close liaison with microbiologist, neurologist and neurosurgeon [8].
  7. TB meningoencephalitis: 12 months of anti-TB therapy + 6–8 weeks of dexamethasone.
  8. No specific treatment for JE, most enteroviral, and other viral encephalitis — supportive care only. Prevention (vaccination, mosquito control) is key.

Active Recall - Management of Encephalitis


[1] Senior notes: Ryan Ho Neurology, Section 7.2 Encephalitis (p.147–149) [2] Senior notes: Maksim Medicine Notes, Section 9.6 CNS infections — Management (p.198) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Encephalitis — Treatment (p.1199–1201) [4] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), Encephalitis — Treatment (p.520) [5] Senior notes: Adrian Lui Pediatrics Notes, Status Epilepticus (p.126); Ryan Ho Neurology, Status Epilepticus (p.109) [6] Senior notes: Block A - Electrolyte and Acid-Base Disorders, SIADH causes (p.21) [8] Lecture slides: GC 051. Fever and confusion_meningitis and encephalitis; suppurative brain infection.pdf (p.23, p.39, p.46) [19] Senior notes: Ryan Ho Neurology, Status Epilepticus (p.109) [20] Senior notes: Ryan Ho Rheumatology, HSV Infection — Treatment (p.137) [21] Lecture slides: Handbook of Internal Medicine 2024.pdf, Autoimmune Encephalitis — Treatment (p.338) [22] Senior notes: Ryan Ho Urogenital, SIADH and Hyponatraemia Management (p.17)

Complications of Encephalitis

Encephalitis is not just about the acute illness — it is about the cascade of complications that can occur during the acute phase and, critically, the long-term neurological sequelae that survivors carry. Understanding the pathophysiological basis of each complication is essential for anticipating, preventing, and managing them.

Neurological sequelae: difficulties in concentration, behavioural/speech disorder, memory loss [1] — only 61% survived without sequelae [1]. This means that roughly 4 in 10 survivors of encephalitis have lasting neurological impairment.

The complications of encephalitis can be divided into:

  1. Acute complications (during the illness)
  2. Long-term neurological sequelae (after recovery from the acute phase)
  3. Treatment-related complications (iatrogenic)

1. Acute Complications

This is one of the most feared acute complications and a hallmark of encephalitis.

CNS infections (classically encephalitis) are a classic cause of status epilepticus [5][19]

Why does encephalitis cause seizures?

  • Inflamed, oedematous cortex → disruption of the normal balance between excitatory (glutamatergic) and inhibitory (GABAergic) neurotransmission → synchronous neuronal discharges → seizures
  • Temporal lobe involvement (HSV-1) → particularly epileptogenic because the hippocampus and mesial temporal structures have the lowest seizure threshold in the brain
  • Metabolic derangements secondary to encephalitis (hyponatraemia from SIADH, hypoglycaemia) further lower the seizure threshold
  • Focal seizures are due to focal arterial ischaemia or infarction, cortical venous thrombosis with haemorrhage, or focal cerebral oedema [3][4]
  • Generalised seizures are due to cerebral anoxia or hyponatraemia [3][4]

Status epilepticus in encephalitis:

  • Status epilepticus: MEDICAL EMERGENCY! → the later a seizure is stopped, the more difficult it is to be stopped [5][19]
  • Mortality: 3–20% (↑ if prolonged seizure or identified acute brain insult) [5][19]
  • Both convulsive and non-convulsive SE can occur — the latter is particularly dangerous because it may go unrecognised (patient appears unconscious but without obvious convulsions → diagnosed only by EEG)

Workup and treat possible underlying cause: Tumour, Infection, CNS infection, Autoimmune encephalitis, Metabolic causes. Prevent complications [23]

Management:

  • Acute: IV lorazepam → IV phenytoin/levetiracetam → ICU with continuous EEG if refractory
  • Antiseizure medications may be needed [8]
  • Consider ICU admission, continuous EEG monitoring [23]

Why does encephalitis cause raised ICP?

  • Vasogenic oedema: BBB breakdown → plasma proteins and fluid leak into brain interstitium
  • Cytotoxic oedema: direct neuronal injury → cellular swelling
  • Both → ↑brain volume within the fixed cranial vault → ↑ICP

Clinical features of raised ICP:

  • Progressive headache (worse lying down, coughing, straining)
  • Vomiting (often projectile)
  • Altered mental status, papilloedema [3][4]
  • Cranial nerve palsy — CN VI (abducens nerve) is the most commonly affected nerve due to its long intracranial segment adjacent to the brainstem [3][4] — this is a false localising sign (it doesn't tell you where the lesion is; it just tells you the ICP is high)
  • Cerebellar herniation [3][4] — the most catastrophic outcome; uncal or tonsillar herniation → brainstem compression → death

Management: Elevate head of bed 30°; osmotic therapy (mannitol, hypertonic saline); dexamethasone (in bacterial/TB, controversial in viral); hyperventilation (temporary bridge); neurosurgical decompression if refractory.

Arteritis / thrombophlebitis → cerebral infarction [8]

Why does encephalitis cause stroke?

  • Brain parenchymal inflammation spreads to involve cerebral blood vessels → infectious vasculitis → vessel wall damage, thrombus formation → cerebral infarction
  • Cortical venous thrombosis: inflammation of cortical veins → venous thrombosis → venous infarction with haemorrhagic transformation
  • Particularly prominent in:
    • TB meningoencephalitis: stroke — infarcts observed in 26% of TBM [24] — due to basal meningeal inflammation affecting the Circle of Willis and its branches
    • VZV encephalitis: VZV can directly infect cerebral artery walls → VZV vasculopathy → large or small vessel ischaemic stroke (can occur weeks to months after VZV infection/reactivation)
    • Bacterial meningitis: cerebral infarction, haemorrhage, vasculitis and mycotic aneurysm [3][4]

Syndrome of inappropriate secretion of anti-diuretic hormone (SIADH) [8] CNS causes of SIADH: meningitis, encephalitis, brain abscess, head trauma, SAH, CVA, raised ICP [6]

Why does encephalitis cause SIADH?

  • Hypothalamic and posterior pituitary inflammation/dysfunction → inappropriate (non-osmotically stimulated) release of ADH → excessive water reabsorption in collecting ducts → dilutional hyponatraemia
  • Also contributes: raised ICP itself can trigger ADH release

Clinical consequences:

  • Hyponatraemia symptoms: malaise, lethargy, headache → confusion, convulsion, coma [6]
  • Creates a vicious cycle: hyponatraemia → worsens cerebral oedema → further lowers seizure threshold → more seizures → more brain damage

Must also consider cerebral salt wasting syndrome (CSWS) as an alternative cause of hyponatraemia in CNS disease — involves inappropriate natriuresis leading to volume depletion (cf SIADH which is euvolaemic). Management differs: CSWS requires volume replacement + sodium, while SIADH requires fluid restriction.

Meningeal adhesions → raised intracranial pressure, obstructive hydrocephalus [8] Communicating hydrocephalus is more common when inflammation produced by the infection impedes normal absorption of CSF from subarachnoid space via arachnoid villi → formation of arachnoid granulation adhesions [3][4]

Why does encephalitis (and meningoencephalitis) cause hydrocephalus?

  • Communicating hydrocephalus (most common): inflammatory exudates and adhesions in the subarachnoid space → block CSF reabsorption at the arachnoid granulations → CSF accumulates → ventricular dilatation
  • Obstructive hydrocephalus: in severe cases, inflammatory exudates or oedema can obstruct CSF flow pathways (e.g., cerebral aqueduct, 4th ventricle outlets)
  • Particularly prominent in TB meningoencephalitis — hydrocephalus (80%) [24] — due to thick basal exudates blocking CSF flow

Management: VP shunt or external ventricular drain (EVD); treat underlying infection.

Cranial nerve palsies [8] — result from:

  • Direct inflammatory involvement of CN nuclei in the brainstem (brainstem encephalitis / rhombencephalitis)
  • Compression due to brain swelling or perineuritis due to adjacent meningeal inflammatory reaction [3][4]
  • Raised ICP → CN VI palsy (false localising sign — the long intracranial course makes it susceptible to stretch)
  • Basal meningeal scarring, especially CN II, VI, VII, VIII [24] — particularly in TB
  • CN II: optic neuritis or papilloedema → visual loss
  • CN VI: diplopia (lateral rectus palsy → inability to abduct the eye → esotropia)
  • CN VII: facial palsy (LMN pattern if brainstem involved)
  • CN VIII: sensorineural hearing loss (SNHL) — especially Strep suis [2] but also seen in other bacterial meningoencephalitis and viral causes

Local spread of infection (cerebritis, cerebral abscess, subdural effusion / empyema) [8]

  • Cerebritis → brain abscess: poorly treated or fulminant encephalitis can lead to focal collections of pus. This is more common with bacterial aetiologies than viral, but can occur in any CNS infection.
  • Subdural empyema: pus collection between dura and arachnoid — a neurosurgical emergency
  • Ventriculitis: complication of severe meningitis / rupture of brain abscess, high mortality [2]

Disseminated intravascular coagulation [8]

  • Severe systemic infection/sepsis → widespread activation of coagulation cascade → consumption of clotting factors and platelets → paradoxical bleeding tendency
  • Particularly associated with meningococcal meningoencephalitis → Waterhouse-Friderichsen syndrome (bilateral adrenal haemorrhage from DIC)

  • Most prominent in anti-NMDA receptor encephalitis and rabies encephalitis
  • Manifestations: labile BP, tachycardia/bradycardia, central hyperthermia, cardiac arrhythmias, central hypoventilation
  • Can be life-threatening → ICU monitoring required
  • Close monitoring as patients may develop refractory seizures, autonomic instability [8]

These are common in any patient with prolonged reduced consciousness:

ComplicationMechanismPrevention
Aspiration pneumoniaReduced consciousness → impaired swallowing/gag reflex → aspiration of oral secretionsNil by mouth; NG feeding; elevate head of bed; chest physiotherapy
DVT / PEImmobility → venous stasis → thrombus formationLMWH prophylaxis + compression stockings
Pressure soresSustained pressure on bony prominences → tissue ischaemia → necrosisRegular turning (Q2H); pressure-relieving mattress
UTIUrinary catheter (often needed for monitoring) → ascending infectionMinimise catheter duration; aseptic technique
ContracturesProlonged immobility → joint stiffnessEarly physiotherapy; passive range of motion exercises
Malnutrition/dehydrationReduced oral intake, increased metabolic demandsNG feeding or TPN if needed; fluid balance monitoring

2. Long-Term Neurological Sequelae

These are the complications that persist after the acute infection has resolved. They are among the most devastating consequences of encephalitis and are a major source of long-term disability.

Neurological sequelae: difficulties in concentration, behavioural/speech disorder, memory loss [1] Only 61% survived without sequelae [1]

  • Memory deficits (anterograde amnesia): the most common and most debilitating sequela of HSV encephalitis
    • Why? Bilateral hippocampal damage (hippocampus is in the medial temporal lobe — directly in the "line of fire" for HSV-1)
    • Can be devastating: patients may lose the ability to form new memories entirely (severe anterograde amnesia, similar to Korsakoff syndrome)
  • Executive dysfunction: difficulty with planning, problem-solving, multitasking — due to frontal lobe damage (HSV involves orbitofrontal cortex)
  • Attention/concentration deficits: diffuse cortical damage
  • Intellectual impairment [3][4][8]

  • Disinhibition, emotional lability, aggression, apathy, social withdrawal
  • Why? Limbic system (amygdala) and orbitofrontal cortex damage → disruption of emotional regulation and social cognition
  • Can be profoundly disabling for patients and families
  • Particularly common after HSV encephalitis (temporal-frontal predilection)

  • Aphasia: expressive (Broca's) or receptive (Wernicke's) — if dominant hemisphere temporal/frontal lobe damaged
  • Dysarthria: if brainstem/cerebellar involvement
  • Difficulties in speech disorder [1]

  • Post-encephalitic epilepsy: a significant proportion of encephalitis survivors develop chronic epilepsy
  • Risk is highest with HSV encephalitis (temporal lobe involvement → temporal lobe epilepsy, the most common cause of pharmacoresistant epilepsy [5][19])
  • Typically presents as focal seizures (temporal lobe origin) with or without secondary generalisation
  • Seizures and epilepsy listed as a complication of meningitis/meningoencephalitis [8]
  • Management: long-term anti-seizure medications; refractory cases may require surgical evaluation (anterior temporal lobectomy or amygdalohippocampectomy)

  • Hemiparesis/hemiplegia: from cortical or subcortical damage, ischaemic infarction (vasculitis-related)
  • Acute flaccid paralysis: characteristic of enterovirus 71 and Japanese encephalitis (anterior horn cell tropism, polio-like syndrome)
  • Movement disorders: parkinsonism, dystonia, choreoathetosis — particularly after JE (basal ganglia/thalamic damage) or post-encephalitic parkinsonism (historically described after encephalitis lethargica)
  • Cerebral palsy [8] — in neonatal/infantile encephalitis, brain damage during the critical developmental period can result in cerebral palsy

  • SNHL (especially Strep suis) [2]
  • Also occurs with other bacterial meningoencephalitis (S. pneumoniae, N. meningitidis) — due to cochlear nerve (CN VIII) damage from inflammation
  • Hearing assessment should be performed in all survivors of bacterial meningoencephalitis

  • Optic neuritis, optic atrophy, cortical visual impairment
  • Visual loss (~1/4 in TBM): due to optochiasmic arachnoiditis, raised ICP, endarteritis [24]
  • Retinitis in CMV encephalitis (immunocompromised)

  • Depression, anxiety, PTSD, psychosis
  • Anti-NMDA-R encephalitis survivors may have prolonged psychiatric symptoms (months to years)
  • HSV encephalitis survivors may develop Klüver-Bucy syndrome (bilateral temporal lobe damage → hyperorality, hypersexuality, visual agnosia, placidity, hypermetamorphosis) — rare but classic

PathogenCharacteristic Complications
HSV-1Memory loss (hippocampal damage), personality change, temporal lobe epilepsy, Klüver-Bucy syndrome (rare), mortality ~70% if untreated
VZVCerebellar ataxia (usually self-limited in children) [1][25]; post-herpetic neuralgia [1][25]; cerebral vasculopathy → stroke; encephalitis: can be fatal [25]; Ramsay-Hunt syndrome; transverse myelitis
JEParkinsonism, dystonia, acute flaccid paralysis, cognitive impairment; ~50% survivors with significant sequelae
EV-71Acute flaccid paralysis, cardiopulmonary failure (neurogenic pulmonary oedema), brainstem dysfunction
CMVProgressive ventriculoencephalitis if untreated (immunocompromised); retinitis
TBHydrocephalus (80%), stroke (26%), CN palsies, visual loss (~25%), SIADH/CSWS [24]
Anti-NMDA-RRefractory seizures, autonomic instability [8]; prolonged psychiatric symptoms; relapse if teratoma not removed
MeaslesADEM (post-measles encephalomyelitis), SSPE (subacute sclerosing panencephalitis — years later), measles inclusion body encephalitis (MIBE) [26]

VZV Complications: A Comprehensive Reminder

VZV causes a wide spectrum of neurological complications beyond just encephalitis [1][25]:

  • Acute cerebellar ataxia: commonest neurological complication of chickenpox; self-limited
  • Diffuse encephalitis: can be fatal
  • Post-herpetic neuralgia: pain > 3 months after rash; more common in elderly
  • Cranial neuropathies: Ramsay-Hunt syndrome (CN VII + CN VIII involvement with ear vesicles)
  • Cerebral vasculopathy: VZV infects cerebral arteries → stroke
  • Transverse myelitis, GBS, leukoencephalopathy

Drawing from the GC lecture slide directly [8]:

Complications of Meningitis (applicable to meningoencephalitis) [8]:

  • Meningeal adhesions → raised intracranial pressure, obstructive hydrocephalus, cranial nerve palsies
  • Arteritis / thrombophlebitis → cerebral infarction
  • Seizures and epilepsy
  • Local spread of infection (cerebritis, cerebral abscess, subdural effusion / empyema)
  • Intellectual impairment, cerebral palsy
  • Syndrome of inappropriate secretion of anti-diuretic hormone (SIADH)
  • Disseminated intravascular coagulation
  • Septic shock

From the Maksim notes [2]:

Complications of CNS infection:

  • Hydrocephalus
  • Cranial nerve palsy
  • Seizure
  • SNHL (especially Strep suis)
  • Vasculitic infarcts

FactorDetail
HSV encephalitis50–70% mortality if untreated [1]; ~10–20% mortality with aciclovir; ~50% of survivors have significant neurological sequelae (memory loss, epilepsy, personality change)
JE20–30% mortality; ~50% survivors have sequelae (cognitive, motor)
VZV cerebellar ataxiaUsually resolves completely within 3 weeks [1] — excellent prognosis
VZV encephalitisCan be fatal [25]
Anti-NMDA-R encephalitisEarly immunotherapy → favourable prognosis [23]; poor prognostic factors: not associated with malignancy, did not receive immunosuppression during 1st attack [27]
Overall encephalitisOnly 16% with established aetiological diagnosis; 61% survived without sequelae [1]

Autoimmune encephalitis: potentially treatable; early immunotherapy – favourable prognosis [23]


High Yield Summary

  1. Acute complications of encephalitis (mnemonic SHAVES): Seizures/Status epilepticus, Hydrocephalus, Arteritis/stroke, Ventriculitis/local spread, Electrolyte disturbance (SIADH → hyponatraemia), Systemic (DIC, septic shock, DVT, aspiration pneumonia).
  2. Seizures and status epilepticus are classic acute complications — CNS infections (classically encephalitis) cause SE [5][19]. Non-convulsive SE may be missed without EEG.
  3. SIADH causing hyponatraemia is a common metabolic complication → worsens cerebral oedema and lowers seizure threshold → vicious cycle [6][8].
  4. Cerebrovascular complications: arteritis/thrombophlebitis → cerebral infarction [8]; particularly prominent in TB (26% stroke rate) and VZV vasculopathy.
  5. Hydrocephalus: due to meningeal adhesions blocking CSF reabsorption (communicating) or inflammatory obstruction (obstructive); 80% in TB meningoencephalitis [24].
  6. Long-term sequelae in ~40% of survivors: memory loss (hippocampal damage in HSV), personality change, epilepsy (temporal lobe), motor deficits, SNHL, visual impairment, psychiatric symptoms.
  7. Only 61% survived without sequelae [1] — emphasises the importance of early treatment and rehabilitation.
  8. Anti-NMDA-R encephalitis: early immunotherapy = favourable prognosis [23]; tumour removal (ovarian teratoma) associated with faster recovery and reduced relapse [21].

Active Recall - Complications of Encephalitis


References

[1] Senior notes: Ryan Ho Neurology, Section 7.2 Encephalitis (p.147–149) [2] Senior notes: Maksim Medicine Notes, Section 9.6 CNS infections — Complications (p.196–198) [3] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Complications of Meningitis (p.1191–1193) [4] Senior notes: MBBS Final MB (Pediatrics) (Felix PY Lai), Complications of Meningitis (p.512) [5] Senior notes: Adrian Lui Pediatrics Notes, Status Epilepticus (p.126) [6] Senior notes: Block A - Electrolyte and Acid-Base Disorders, SIADH causes (p.21) [8] Lecture slides: GC 051. Fever and confusion_meningitis and encephalitis; suppurative brain infection.pdf (p.34, p.39, p.46) [19] Senior notes: Ryan Ho Neurology, Status Epilepticus (p.109) [21] Lecture slides: Handbook of Internal Medicine 2024.pdf, Autoimmune Encephalitis — Treatment (p.338) [23] Lecture slides: GC 081. Seizure and loss of consciousness Delirium and encephalopathy; epilepsy; coma and brain death; care of unconscious patients; electrophysiology I.pdf (p.69); GC 225. Neuroimmunological disorders of the central nervous system.pdf (p.26) [24] Senior notes: Ryan Ho Respiratory, TB meningitis — Complications (p.79) [25] Senior notes: Adrian Lui Pediatrics Notes, Chickenpox complications (p.478); MBBS Final MB (Medicine) (Felix PY Lai), Complications of chickenpox (p.1808); MBBS Final MB (Pediatrics) (Felix PY Lai), Complications of chickenpox (p.29) [26] Senior notes: MBBS Final MB (Medicine) (Felix PY Lai), Measles CNS complications (p.1824); MBBS Final MB (Pediatrics) (Felix PY Lai), Measles CNS complications (p.50) [27] Senior notes: Maksim Medicine Notes, Section 11.9 Autoimmune encephalitis — Prognosis (p.264)

High Yield Summary

  1. Definition: Encephalitis = inflammation of brain parenchyma. The hallmark is altered mental status distinguishing it from meningitis.
  2. Fever + neurological symptoms = CNS infection until proven otherwise [2].
  3. Most common sporadic cause: HSV-1 (temporal lobe predilection; treat empirically with IV aciclovir). Most common viral meningitis cause: enteroviruses.
  4. Two pathophysiological mechanisms: direct viral invasion vs post-infectious/autoimmune immune-mediated damage (ADEM, autoimmune encephalitis).
  5. Clinical features of encephalitis (vs meningitis): altered consciousness, seizures, focal neurological deficits (hemiparesis, aphasia, cerebellar ataxia), personality/behavioural change.
  6. SIADH is a common complication → hyponatraemia → worsens cerebral oedema and seizures.
  7. Status epilepticus is a feared complication — CNS infections (classically encephalitis) are a classic cause [5].
  8. Always consider autoimmune encephalitis (especially anti-NMDA-R in young women) as a treatable mimic.
  9. Pathogen-specific clues: temporal lobe features (HSV-1), dermatomal vesicles (VZV), cerebellar ataxia in child (VZV), parkinsonism (JE), rhombencephalitis (Listeria, EV-71), psychiatric onset (anti-NMDA-R), eschar (scrub typhus in HK).
  10. Hong Kong specifics: enteroviruses (EV-71 outbreaks), scrub typhus (endemic), JE (travel-related), TB meningoencephalitis (intermediate burden).

High Yield Summary

  1. The GC lecture DDx for "fever and confusion" [8] is the highest-yield list: CNS infections, non-CNS infections with encephalopathy, sepsis with primary psychiatric disorder, autoimmune encephalitis, inflammatory brain disorders (vasculitis, cerebral lupus), NCSE, thyroid storm.
  2. Encephalitis vs encephalopathy: encephalitis = brain inflammation (CSF pleocytosis, MRI changes); encephalopathy = altered mental state from any cause (including septic, metabolic, toxic, hepatic) — CSF and MRI are normal.
  3. Meningitis vs encephalitis: the distinguishing feature is abnormal cerebral function (altered mental status, personality change, sensory/motor deficits, speech/movement disorders) [3][4][9][10].
  4. Autoimmune encephalitis (anti-NMDA-R) is a critical DDx — treatable, associated with ovarian teratoma, presents with psychiatric symptoms → seizures → movement disorders → autonomic instability [8].
  5. The DDx list from senior notes [3][4][9][10]: meningitis (complicated), brain tumours, brain abscess, syphilis, toxic encephalopathy, metabolic encephalopathy (hypoglycaemia, electrolyte disturbance).
  6. In children with fever + seizure: always consider meningitis and encephalitis as the main concerns [14].
  7. In immunocompromised: expand DDx to include toxoplasmosis, cryptococcus, CMV, PML, primary CNS lymphoma.
  8. Always start empirical IV aciclovir when encephalitis is suspected — do not wait for confirmatory tests.

High Yield Summary

  1. Diagnostic criteria (International Encephalitis Consortium): altered mental status ≥ 24h (major) + ≥ 2 of: fever, seizures, focal deficits, CSF pleocytosis, abnormal MRI, abnormal EEG (minor).
  2. LP is the most important investigation: CSF shows lymphocytic pleocytosis, normal glucose, mildly elevated protein [3][4][8]. Neutrophils may predominate in early stages [8].
  3. HSV DNA PCR in CSF is the standard diagnostic test [17]; can be false negative in first 72h → repeat if high suspicion.
  4. MRI is the neuroimaging modality of choice: temporal lobe hyperintensity = HSV; bilateral thalamic hyperintensity = JE [8].
  5. EEG: PLEDs over temporal region are highly suggestive of HSV encephalitis [3][4][8]. Also detects subclinical seizures/NCSE.
  6. CT brain is for excluding SOL before LP, NOT for diagnosing encephalitis [1][3][4].
  7. Always send: CSF (cell count, glucose with paired BG, protein, HSV/VZV/EV PCR), bloods (CBC, LRFT, glucose, blood C/ST, HIV), throat/stool/urine for viral culture.
  8. Start empirical IV aciclovir 10 mg/kg Q8H immediately — do NOT wait for results [3][4][8]. HSV encephalitis has ~70% mortality if untreated.
  9. Consider autoimmune encephalitis panel (CSF + serum) when viral PCR is negative and clinical picture is suggestive.

High Yield Summary

  1. Start IV aciclovir 10 mg/kg Q8H immediately in ALL patients with suspected viral encephalitis [8] — do NOT wait for PCR. This significantly reduced mortality of HSV encephalitis [8].
  2. Empirical regimen: IV ceftriaxone 2g Q12H + IV aciclovir 10 mg/kg Q8H [2]. Add ampicillin if Listeria risk (age ≥ 50, pregnant, immunocompromised). Add dexamethasone if bacterial meningitis suspected.
  3. HSV encephalitis duration: 2–3 weeks [8]; repeat LP at end of treatment to confirm PCR negativity. Foscarnet for aciclovir-resistant strains.
  4. Autoimmune encephalitis management [8][21]: 1st line = IV methylprednisolone + IVIg + plasmapheresis. 2nd line = rituximab / cyclophosphamide. Tumour resection (ovarian teratoma) in anti-NMDA-R encephalitis associated with faster recovery and reduced relapse [21].
  5. Supportive care is critical throughout: seizure control (antiseizure medications may be needed [8]), ICP management, SIADH monitoring, ICU for refractory seizures/autonomic instability, rehabilitation.
  6. Close liaison with microbiologist, neurologist and neurosurgeon [8].
  7. TB meningoencephalitis: 12 months of anti-TB therapy + 6–8 weeks of dexamethasone.
  8. No specific treatment for JE, most enteroviral, and other viral encephalitis — supportive care only. Prevention (vaccination, mosquito control) is key.

High Yield Summary

  1. Acute complications of encephalitis (mnemonic SHAVES): Seizures/Status epilepticus, Hydrocephalus, Arteritis/stroke, Ventriculitis/local spread, Electrolyte disturbance (SIADH → hyponatraemia), Systemic (DIC, septic shock, DVT, aspiration pneumonia).
  2. Seizures and status epilepticus are classic acute complications — CNS infections (classically encephalitis) cause SE [5][19]. Non-convulsive SE may be missed without EEG.
  3. SIADH causing hyponatraemia is a common metabolic complication → worsens cerebral oedema and lowers seizure threshold → vicious cycle [6][8].
  4. Cerebrovascular complications: arteritis/thrombophlebitis → cerebral infarction [8]; particularly prominent in TB (26% stroke rate) and VZV vasculopathy.
  5. Hydrocephalus: due to meningeal adhesions blocking CSF reabsorption (communicating) or inflammatory obstruction (obstructive); 80% in TB meningoencephalitis [24].
  6. Long-term sequelae in ~40% of survivors: memory loss (hippocampal damage in HSV), personality change, epilepsy (temporal lobe), motor deficits, SNHL, visual impairment, psychiatric symptoms.
  7. Only 61% survived without sequelae [1] — emphasises the importance of early treatment and rehabilitation.
  8. Anti-NMDA-R encephalitis: early immunotherapy = favourable prognosis [23]; tumour removal (ovarian teratoma) associated with faster recovery and reduced relapse [21].

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