Lecture 8 - Negative Strand RNA Viruses
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Questions and Answers

What role does the minor nucleocapsid protein VP30 play in Ebola virus mRNA synthesis?

  • It prevents the formation of viral protein complexes.
  • It activates viral mRNA synthesis by reversing inhibition from a stem-loop structure. (correct)
  • It initiates the replicative cycle.
  • It inhibits viral RNA polymerase activity.
  • What happens to transcription if the stem-loop structure at the beginning of the NP gene is disrupted?

  • Transcription becomes dependent on VP30.
  • Transcription is enhanced significantly.
  • Transcription proceeds without VP30. (correct)
  • Transcription ceases entirely.
  • Which viral protein is the most abundant and associated with the viral envelope in the filoviruses?

  • VP30
  • VP40 (correct)
  • NP
  • gp
  • What is the primary function of VP40 in the context of viral structure?

    <p>It bridges envelope glycoproteins to nucleocapsids. (C)</p> Signup and view all the answers

    What suggests the possibility of latent infection in survivors of Ebola virus infection?

    <p>Periodic spikes in EBOV antibodies months after recovery. (A)</p> Signup and view all the answers

    What term describes the recurrence of disease after a period of inactivity in the context of Ebola virus infection?

    <p>Recrudescence (A)</p> Signup and view all the answers

    Which cellular proteins may interact with VP40 to form virions at the plasma membrane?

    <p>Cellular proteins involved with trafficking and sorting of intracellular vesicles. (C)</p> Signup and view all the answers

    What is suggested as a potential preventive measure against disease recrudescence in Ebola virus survivors?

    <p>Vaccinating survivors to boost protective antibody responses. (A)</p> Signup and view all the answers

    What is the role of the 3’ leader in the viral genome?

    <p>It contains a promoter for viral RNA polymerase and packaging signal. (D)</p> Signup and view all the answers

    How does the viral RNA polymerase begin the transcription process for filoviruses?

    <p>At the 3’ terminal of the RNA genome. (A)</p> Signup and view all the answers

    What happens when little or no free NP protein is present during the initial infection?

    <p>RNA polymerase transcribes a short sequence and terminates to release free leader RNA. (B)</p> Signup and view all the answers

    What is added to the RNA during the transcription process to resemble cellular mRNAs?

    <p>A 3’ polyA tail and a methylated 5’ cap. (B)</p> Signup and view all the answers

    In the context of filovirus replication, when are high levels of NP important?

    <p>During the assembly of the nucleocapsids. (C)</p> Signup and view all the answers

    Which proteins are associated with the genomic RNA and/or nucleocapsid in filoviruses?

    <p>Red highlighted proteins. (A)</p> Signup and view all the answers

    What defines the transcription process of filoviruses compared to other '-‘ sense RNA viruses?

    <p>It occurs in the cytoplasm and uses the '-‘ sense RNA as a template. (D)</p> Signup and view all the answers

    What happens to RNA polymerase after it transcribes a short sequence during initial infection?

    <p>It terminates to release a free leader RNA and scans for an mRNA start site. (D)</p> Signup and view all the answers

    What are the two genera of filoviruses?

    <p>Marburgvirus and Ebolavirus (B)</p> Signup and view all the answers

    What is the most probable source of transmission of filoviruses to primates?

    <p>Fruit bats (D)</p> Signup and view all the answers

    What is the typical genome structure of filoviruses?

    <p>Negative sense single-stranded RNA (C)</p> Signup and view all the answers

    Which of the following is a characteristic of filovirus infections among humans?

    <p>Transmission typically requires close contact. (C)</p> Signup and view all the answers

    Which symptom is NOT associated with infections caused by Marburg and Ebola viruses?

    <p>Coughing (C)</p> Signup and view all the answers

    How many genes are contained within filovirus genomes?

    <p>Seven (D)</p> Signup and view all the answers

    What is the mortality rate that can be associated with filovirus infections?

    <p>Up to 90% (C)</p> Signup and view all the answers

    Which of the following proteins gets cleaved into GP1 and GP2 in filoviruses?

    <p>Envelope glycoprotein (GP) (B)</p> Signup and view all the answers

    What effect does the addition of an extra 'A' residue by RNA polymerase have on the derived protein?

    <p>It changes the Thr to Asn and alters the reading frame. (B)</p> Signup and view all the answers

    What type of immune response is commonly triggered by filovirus infections?

    <p>Cytokine release (D)</p> Signup and view all the answers

    Which of the following proteins is synthesized as a precursor and undergoes cleavage during processing?

    <p>GP (A)</p> Signup and view all the answers

    Which receptor is specifically associated with liver cells and involved in glycoprotein internalization?

    <p>Asialoglycoprotein receptor (D)</p> Signup and view all the answers

    Which of the following statements about the Ebola virus is true?

    <p>Ebola virus causes severe hemorrhagic fever. (B)</p> Signup and view all the answers

    Which protein is considered the most common product of Ebolavirus gene editing?

    <p>sGP (C)</p> Signup and view all the answers

    What role does cellular furin protease play in the processing of GP?

    <p>It cleaves GP into GP1 and GP2. (C)</p> Signup and view all the answers

    What is the primary function of filovirus GP proteins?

    <p>They mediate attachment and entry of the virus into cells. (D)</p> Signup and view all the answers

    What modification occurs to GP during its processing in the ER?

    <p>Extensive glycosylation (A)</p> Signup and view all the answers

    What is a possible outcome of the RNA polymerase 'stuttering' over a stretch of 'U's?

    <p>It may lead to the generation of a smaller sGP. (C)</p> Signup and view all the answers

    Which statement about filovirus pseudotypes is true?

    <p>They incorporate GP into the envelopes of unrelated recombinant viruses. (D)</p> Signup and view all the answers

    What type of bond holds GP1 and GP2 together after cleavage?

    <p>Disulfide bridge (D)</p> Signup and view all the answers

    What is the diameter range of influenza viruses?

    <p>80-120 nm (C)</p> Signup and view all the answers

    Which surface glycoproteins are used to differentiate subtypes of influenza viruses?

    <p>Hemagglutinin (HA) and neuraminidase (NA) (B)</p> Signup and view all the answers

    Which genera are included in the Orthomyxoviridae family besides influenza?

    <p>Thogotovirus and Isavirus (D)</p> Signup and view all the answers

    Which population is most likely to experience severe symptoms from influenza virus infections?

    <p>The elderly, infants, and the chronically ill (B)</p> Signup and view all the answers

    What annual impact do influenza A viruses typically have?

    <p>They lead to sporadic pandemics and regular epidemics in winter. (A)</p> Signup and view all the answers

    How many deaths does influenza cause annually in North America?

    <p>20,000 deaths (A)</p> Signup and view all the answers

    What compounding issue can arise from influenza virus infections in the respiratory tract?

    <p>Secondary bacterial infections (B)</p> Signup and view all the answers

    What is a potential outcome of emerging avian influenza virus strains?

    <p>Threat of another human pandemic (C)</p> Signup and view all the answers

    What mechanism do filoviruses use to enter host cells?

    <p>A low pH-triggered fusion within vesicles (C)</p> Signup and view all the answers

    Which statement about sGP is true?

    <p>sGP is released from infected cells and can serve as a biomarker. (B)</p> Signup and view all the answers

    What is speculated about the function of sGP?

    <p>It may limit GP cytotoxicity, leading to more efficient replication. (C)</p> Signup and view all the answers

    Which proteins are associated with the viral envelope of filoviruses?

    <p>The proteins highlighted in blue (B)</p> Signup and view all the answers

    In the context of filoviruses, what does GP2 refer to?

    <p>The C-terminal fragment of the glycoprotein involved in fusion (A)</p> Signup and view all the answers

    What is the primary role of the viral proteins highlighted in red?

    <p>They are largely associated with the viral genome or nucleocapsid. (B)</p> Signup and view all the answers

    How might sGP subvert the immune response?

    <p>By binding to antibodies and targeting host defense elements (D)</p> Signup and view all the answers

    Why might generating pseudotypes be challenging for studying attachment and entry of filoviruses?

    <p>Various vectors must be co-transfected for proper study. (B)</p> Signup and view all the answers

    Flashcards

    Filovirus Transmission

    Spread of filovirus infections between humans is primarily through close contact with bodily fluids (blood, feces, vomit, etc.).

    Zoonotic Spread (Filoviruses)

    Filoviruses likely jump to primates from fruit bats.

    Ebolavirus Species Naming

    Ebolavirus species are named after the location where they were first discovered (e.g., Bundibugyo, Zaire).

    Filovirus Genome

    Filoviruses have a linear, negative-sense, single-stranded RNA genome.

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    Filovirus Gene Structure

    Filovirus genomes contain seven genes that code for different proteins, arranged in a conserved order.

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    Filovirus Proteins

    Key filovirus proteins are Nucleocapsid (NP), RNA polymerase cofactor (VP35), Matrix (VP40), Envelope glycoproteins (GP), and RNA polymerase (L).

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    Ebolavirus Secreted Glycoproteins

    Ebolaviruses produce additional secreted glycoproteins (sGP).

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    Filovirus Genome Order

    Filovirus genes are arranged in a particular and conserved order, reflecting transcription.

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    Filovirus Symptoms

    Filovirus infections cause severe hemorrhagic fever, with symptoms like fever, hemorrhages, liver problems, and shock.

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    Filovirus Spread Limitations

    Filovirus spread among humans mainly involves close contact

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    Filovirus Replication Location

    Filovirus replication occurs in the cytoplasm, similar to other negative-sense RNA viruses like Paramyxoviruses.

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    Filovirus mRNA Template

    The template for creating mRNA in filoviruses is the negative-sense RNA genome.

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    3' Leader Function

    The 3' leader sequence of the filovirus genome contains a promoter for viral RNA polymerase and a packaging signal.

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    Viral RNA Polymerase Initiation

    Viral RNA polymerase starts transcription at the 3' terminal of the filovirus genome.

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    NP Protein Influence on Transcription

    Low levels of NP protein trigger a short mRNA sequence transcription followed by termination and mRNA re-initiation.

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    L Protein Role in mRNA

    Protein L adds a methylated 5' cap and polyA tail to newly transcribed filovirus mRNAs, similar to cellular mRNAs.

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    Viral Protein Transcription

    A range of viral proteins (VP35, VP40, GP/sGP, VP30, VP24) are transcribed during different phases of infection.

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    Initial Infection Transcription

    When NP protein is unavailable, RNA polymerase transcribes a shorter region following sequence termination.

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    Filovirus RNA Editing

    Process where viral RNA polymerase adds extra 'A' residues, altering protein sequence, creating GP, ssGP, or sGP variants.

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    RNA Polymerase Stuttering

    RNA polymerase adding extra 'A' residue(s) during transcription.

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    GP Variants (Filoviruses)

    Different forms of the glycoprotein (GP) produced by RNA editing, including full-length GP, shorter ssGP, and sGP.

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    Filovirus GP

    Viral glycoprotein essential for attachment and entry of filoviruses into host cells.

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    GP Precursor Protein

    An initial form of the GP protein, containing an N-terminal signal sequence which is removed.

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    Glycosylation

    process of attaching sugar molecules to Filovirus GP protein.

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    GP Cleavage

    Process of cutting the GP precursor protein into GP1 (ectodomain) and GP2 (transmembrane) by furin.

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    Cellular Receptors

    Cells surface proteins that filoviruses attach to for entry.

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    Filovirus Pseudotypes

    Recombinant viruses designed to study filovirus proteins that incorporate the studied protein of interest, such as GP, into their envelope.

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    Filovirus Entry

    The process of a filovirus entering into a host cell, often involving fusion of the viral and cellular membranes.

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    Filovirus Fusion Peptide

    The fusion peptide located at the N-terminal of GP2 enables filoviruses to fuse with the vesicle membrane after entering the cell via macropinocytosis. This fusion allows the virus to release its genetic material inside the cell.

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    Filovirus GP2 & pH

    Filovirus fusion with the vesicle membrane, which releases the viral contents into the cell, is likely triggered by a low pH environment inside the vesicle.

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    sGP: Non-structural or Structural?

    Although typically considered non-structural, sGP can act as a structural protein by forming a complex with GP2. This complex may play a role in efficient viral replication and infectivity.

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    sGP: Cytotoxicity Limiting?

    Some studies suggest that sGP might limit the cytotoxicity of the GP protein. This could lead to more efficient replication and infectivity of the virus.

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    sGP: Immune System Subversion

    sGP can bind to antibodies, potentially interfering with the immune response and allowing the virus to evade detection by the immune system.

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    sGP: Potential Vaccine Target?

    Since sGP is released from infected cells and can be found in the blood of patients, it's a potential target for vaccines and antiviral therapies.

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    Filovirus Proteins: Red vs Blue

    Filoviruses have specialized proteins. Red proteins are associated with the viral genome and its packaging, while blue proteins are associated with the viral envelope.

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    VP30 Function

    VP30 is a viral protein in Ebolavirus that activates mRNA synthesis by reversing the inhibition caused by a stem-loop structure at the beginning of the NP gene.

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    Stem-loop Role

    The stem-loop structure in the NP gene acts as a "brake" on mRNA synthesis, preventing RNA polymerase from initiating transcription.

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    VP40's Role

    VP40 is the most abundant viral protein in Ebolavirus and is crucial for forming the viral envelope.

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    VP40 Location

    VP40 is found at the cytoplasmic side of the plasma membrane and the inner side of the viral envelope.

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    VP40's Impact on Cells

    When expressed in mammalian cells, VP40 can create virus-like particles that bud from the plasma membrane.

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    VP40 and Cellular Proteins

    VP40 interacts with cellular proteins involved in vesicle trafficking and sorting, helping to form virions at the plasma membrane.

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    Latent Infection

    In survivors of Ebola virus infection, periodic spikes in antibodies suggest a latent infection, where the virus persists and could reactivate.

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    Ebolavirus Recrudescence

    Recrudescence refers to the recurrence of disease or symptoms after a period of inactivity, which can happen in Ebolavirus survivors.

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    Influenza Virus Size

    Influenza viruses are relatively small, ranging in diameter from 80 to 120 nanometers.

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    Influenza Virus Structure

    Influenza viruses have a compact helical nucleocapsid, which contains their genetic material (RNA).

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    What are HA and NA?

    Hemagglutinin (HA) and neuraminidase (NA) are surface glycoproteins on influenza viruses. They play a crucial role in the virus's ability to attach to and infect host cells.

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    Types of Influenza

    Influenza viruses are classified into three types: A, B, and C. Multiple subtypes within each type are distinguished by variations in HA and NA.

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    Avian Influenza

    Avian influenza viruses can be highly pathogenic or low pathogenic. Some strains can infect humans, posing a serious threat to public health.

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    Influenza Symptoms

    Common influenza symptoms include high fever, sore throat, cough, headache, and muscular pain.

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    Influenza Transmission

    Influenza viruses are primarily spread through respiratory droplets released when an infected person coughs or sneezes.

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    Influenza Mortality

    Influenza can be particularly dangerous for the elderly, infants, and people with chronic illnesses. It can lead to serious complications, even death.

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    Study Notes

    Lecture 8 - Negative Strand RNA Viruses

    • Filoviruses are characterized by their filamentous, enveloped structure.
    • Filovirus diameter is 80 nm, and length can exceed 800 nm.
    • Filoviruses have a negative-sense single-stranded RNA genome, approximately 15-19 kb in size.
    • Their genome encodes proteins such as nucleocapsid protein (NP), glycoprotein (GP), RNA polymerase cofactor (VP35), polymerase (L), matrix protein (VP40), and VP24

    Filoviruses - Structure

    • Filoviridae derives from the Latin word "filum" (filament or thread-like).
    • These viruses are filamentous and enveloped.

    Filoviruses - Disease and Spread

    • The first Marburg virus outbreak occurred in Marburg and Frankfurt, Germany in 1967.
    • Laboratory workers processing monkey tissues were affected, with a 22% mortality rate (7 deaths out of 32 cases).
    • A similar virus, Ebolavirus, emerged independently in Zaire (now the Democratic Republic of Congo) and Sudan in 1976.
    • Different Ebolavirus species exist, including Sudan ebolavirus (SEBOV) and Zaire ebolavirus (ZEBOV).
    • Marburg and Ebola viruses are sporadically re-emerging viruses causing severe, often fatal disease in Africa.
    • A 1994 outbreak originated from Cote d'Ivoire, resulting in the third EBOV species (CIEBOV or Tai Forest).
    • Experimental monkeys shipped from the Philippines to Reston, Virginia (USA) in 1990 harbored a non-pathogenic ebolavirus (REBOV).
    • Bundibugyo Ebola virus (BEBOV) was discovered in Uganda in 2007.
    • The 2014-15 EBOV outbreak was the largest in history, originating in Guinea.

    Filoviruses - Genome and Proteins

    • Filovirus genomes are linear, negative-sense, single-stranded RNA (~15-19 kb).
    • Seven genes transcribed in series from 3' end of the genome using viral RNA polymerase.
    • Most genes produce a single mRNA and a single protein (except glycoprotein GP, which is cleaved into multiple proteins).
    • Proteins of filoviruses:
      • Nucleocapsid protein (NP)
      • RNA polymerase cofactor (VP35)
      • Matrix protein (VP40)
      • Glycoprotein (GP, cleaved into GP1, GP2, or sGP)
      • Membrane protein (VP24)
      • RNA polymerase (L)
    • Glycoproteins are either secreted glycoprotein (sGP) (making up 80%) or GP (20%).

    Filoviruses - Replication

    • Transcription and replication occurs in the cytoplasm.
    • The template for mRNA synthesis is the negative-sense RNA genome.
    • The 3' leader contains a promoter for viral RNA polymerase and packaging signal for nucleocapsid assembly.
    • During replication, viral RNA polymerase adds a methylated 5' cap and poly(A) tail.
    • Genome replication occurs through the synthesis of antigenome RNA.
    • Viral RNA polymerase changes its mode to no longer recognize termination/polyA-re-initiation sites.
    • Genome RNA is packaged into nucleocapsids during replication.

    Filoviruses - RNA Editing

    • Ebolavirus uses RNA editing to produce two glycoproteins (sGP and GP) from a single gene.
    • sGP (~80%) is a shorter protein without the transmembrane domain located at the C-terminus.
    • GP (~20%) has an extra adenine (A) residue.

    Filoviruses - Attachment and Entry

    • The glycoprotein (GP) is synthesized as a precursor protein and inserted into the endoplasmic reticulum (ER).
    • An N-terminal signal sequence is cleaved off during the insertion in ER.
    • GP undergoes extensive glycosylation in ER and Golgi and transported to the plasma membrane.
    • Cellular furin protease cleaves GP into ectodomain, GP1 (N-terminal) and transmembrane GP2 (C-terminal) proteins.
    • GP1 and GP2 are held together by a disulfide bridge (between cysteine residues).
    • Filovirus GP mediates binding to multiple cellular receptors.
    • Cellular receptors include, asialoglycoprotein receptor, folate receptor–a, integrins, and DC-SIGN.
    • Filovirus pseudotypes can be used to study attachment and entry.

    Filoviruses - Protein Function

    • sGP is released from infected cells and found in serum, acting as a biomarker and potential vaccine/antiviral target.
    • sGP's function is unclear; it may substitute as a structural protein or influence replication and infectivity.
    • VP40 is the most abundant viral protein and is associated with the viral envelope (located at the cytoplasmic side of the plasma membrane or inner side of the viral envelope).
    • VP40, similar to other enveloped virus matrix proteins, bridges envelope glycoproteins to nucleocapsids.
    • Expressed VP40 in mammalian cells leads to virus-like particles budding from the plasma membrane.
    • Cellular proteins involved in trafficking/sorting of intracellular vesicles (e.g., Nedd4, Tsg101) interact with VP40 in the formation of virions at the plasma membrane.

    Influenza Viruses - Structure

    • Orthomyxoviridae is derived from Greek 'ortho' (correct/normal) and myxa (mucus).
    • The virus is characterized by its enveloped particles, quasi-spherical to filamentous, in shape derived from host membrane via budding.
    • Viruses have a diameter of 80-120 nm, and compact helical nucleocapsids.

    Influenza Viruses - Types

    • Subtypes are distinguished by variations in surface glycoproteins (hemagglutinin (HA) and neuraminidase (NA)).
    • Avian influenza viruses (e.g., H5N1, H7N9) can be highly pathogenic, whereas low pathogenic avian influenza viruses have decreased ability to kill chickens in labs.
    • Influenza A viruses, most commonly, infect humans. Influenza B viruses mostly infect humans.
    • Other genera found in Orthomyxoviridae family, include Thogotovirus and Isavirus.

    Influenza Viruses - Disease and Spread

    • Influenza A virus infections typically lead to symptoms such as high fever, sore throat, cough headache, and muscular pain, often with secondary bacterial infections in the elderly, infants, and those with chronic illnesses.
    • Influenza A viruses cause sporadic pandemics and annual epidemics.
    • Avian influenzas are a continual threat to birds, and have potential to infect humans, leading to outbreaks.

    Influenza Viruses - Genome

    • Influenza viruses have segmented, negative-sense RNA genomes (6-8 different segments).
    • Single virions house a complete set of genome fragments.
    • The genome size is approximately 10-15 kb.

    Influenza Viruses - Genome and Proteins

    • Influenza A virus genome has multiple RNA segments (with corresponding proteins).
    • Proteins include polymerase complex (PB2, PB1, PA), nucleoprotein (NP), hemagglutinin (HA), neuraminidase (NA), matrix (M1), and M2 ion channels, nuclear export protein (NEP).

    Summary

    • Virus classifications are used to understand their characteristics, evolution, impact and behaviour.

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    Description

    This quiz covers the characteristics, structure, and spread of filoviruses, including Marburg and Ebolavirus. Learn about their filamentous, enveloped structure and negative-sense single-stranded RNA genome. Explore the impact of filoviruses on human health through historical outbreaks.

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