BIOL212 W6-2

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Questions and Answers

What was the initial public confirmation date for person-to-person spread of the virus?

  • January 22, 2020 (correct)
  • January 12, 2020
  • April 8, 2020
  • March 11, 2020

What is the official virus name of COVID-19?

  • SARS-CoV-2 (correct)
  • MERS-CoV
  • 2019-nCoV
  • COVID-19

Which statement regarding the Wuhan seafood market is accurate?

  • Game meat sold at the market is the confirmed source.
  • It is confirmed as the origin of the virus.
  • The market was shut down immediately after the outbreak.
  • The market has poor hygiene conditions. (correct)

What percentage of nucleotide sequence identity does SARS-CoV-2 have with bat SARS-like CoV?

<p>86.9% (B)</p> Signup and view all the answers

How long is the RNA genome of SARS-CoV-2 approximately?

<p>30 kilobases (D)</p> Signup and view all the answers

On what date did the WHO officially declare COVID-19 a pandemic?

<p>March 11, 2020 (A)</p> Signup and view all the answers

What type of virus is SARS-CoV-2 classified as?

<p>ssRNA (+) virus (B)</p> Signup and view all the answers

Which of the following features does NOT belong to SARS-CoV-2?

<p>Contains DNA genome (A)</p> Signup and view all the answers

When did the first clusters of pneumonia patients get reported to the public?

<p>Late December 2019 (B)</p> Signup and view all the answers

What method was used to identify new SARS-like sequences from clinical samples?

<p>Metagenomic approach (B)</p> Signup and view all the answers

What is the percentage similarity between the novel bat coronavirus Bat CoV RaTG13 and SARS-CoV-2?

<p>96% (B)</p> Signup and view all the answers

What unique feature is found in the receptor-binding domain of SARS-CoV-2?

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

Which animal has shown the highest sequence similarity to SARS-CoV-2 in its S protein?

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

Which of the following statements about the origins of SARS-CoV-2 is NOT true?

<p>It was transmitted directly from bats to humans. (C)</p> Signup and view all the answers

What is the role of the furin protease in relation to SARS-CoV-2?

<p>To cleave the polybasic sequence (D)</p> Signup and view all the answers

What percentage range of sequence similarity is observed between SARS-CoV-2 and coronaviruses found in Malayan pangolins?

<p>85.5% to 92.4% (B)</p> Signup and view all the answers

Which of the following statements about the PRRA insertion in SARS-CoV-2 is accurate?

<p>It is absent in all other coronaviruses. (A)</p> Signup and view all the answers

Which method can potentially lead to the identification of the origin of SARS-CoV-2?

<p>Genetic recombination analysis (B)</p> Signup and view all the answers

The receptor-binding domain in coronaviruses is primarily responsible for what function?

<p>Host cell attachment (D)</p> Signup and view all the answers

What type of bat was the Bat CoV RaTG13 found in?

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

Which factor is crucial for the development of a vaccine according to the key parameters outlined?

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

What practice is primarily used to manage disease transmission in public settings?

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

Which route of COVID-19 transmission is associated with contaminated surfaces?

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

Which animal has been shown to NOT be susceptible to SARS-CoV-2 infection?

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

What is a significant concern when it comes to the cold chain transportation of food related to COVID-19?

<p>Transmission of viruses (D)</p> Signup and view all the answers

What type of therapy is typically utilized for patients with severe COVID-19 respiratory issues?

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

Which of the following descriptions best characterizes COVID-19 as a type of disease?

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

What is one of the main components that most vaccine candidates target in SARS-CoV-2?

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

Which facility type has been established to manage the surge in hospitalizations during the pandemic?

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

Which group of animals has been shown to be capable of being infected by SARS-CoV-2, according to current evidence?

<p>Domestic cats and dogs (C)</p> Signup and view all the answers

What is the primary function of the spike (S) protein in coronaviruses?

<p>Binds to the ACE2 receptor on host cells (B)</p> Signup and view all the answers

What effect does an R0 value of less than 1 have on a viral infection?

<p>The disease will decline and potentially die out (D)</p> Signup and view all the answers

Which protein aids in facilitating the entry of the viral particle into host cells?

<p>TMPRSS2 (B)</p> Signup and view all the answers

In the infection cycle of the virus, what is directly translated from the genomic RNA?

<p>RNA-dependent RNA polymerase (C)</p> Signup and view all the answers

Which component significantly contributes to the infectious nature of COVID-19, as indicated by its R0 value?

<p>Transmission through asymptomatic carriers (B)</p> Signup and view all the answers

Which symptom is NOT commonly associated with COVID-19?

<p>Rash on the body (C)</p> Signup and view all the answers

What is the impact of R0 value equal to 1 on a viral disease?

<p>The disease remains stable but does not escalate (D)</p> Signup and view all the answers

Which characteristic is true for the virus's assembly and release process?

<p>It is carried out in the Golgi complex (D)</p> Signup and view all the answers

What is one of the main reasons for the high transmission rates of the Omicron variant compared to earlier strains?

<p>Higher R0 value indicating increased infectivity (C)</p> Signup and view all the answers

Which population is predominantly affected by severe outcomes from COVID-19?

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

Flashcards

COVID-19 outbreak origin

Wuhan, China, late December 2019, possibly linked to a seafood market.

SARS-CoV-2

Official name of the COVID-19 virus.

Pandemic declaration

WHO declared COVID-19 a pandemic on March 11, 2020.

Wuhan city

City in China where the COVID-19 outbreak began, initially sealed off.

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Pneumonia in COVID-19

Lung inflammation feature of the disease.

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Viral Genome Sequencing

Determining the genetic code of SARS-CoV-2 by molecular diagnostic companies in Wuhan.

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ssRNA (+) virus

The type of genetic material of SARS-CoV-2.

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Phylogenetic Similarity

SARS-CoV-2's genetic similarity to bat SARS-like coronaviruses.

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Human-to-human transmission

Confirmed January 22, 2020, by Chinese health experts.

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Genome Structure SARS-CoV-2

Single-stranded RNA virus w/ multiple open reading frames.

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SARS-CoV-2 Similarity to Bat CoV RaTG13

SARS-CoV-2 shares a high degree of similarity (96%) with a bat coronavirus (RaTG13).

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SARS-CoV-2 Similarity to Pangolin Coronaviruses

SARS-CoV-2 shows similarity (85.5% to 92.4%) in its genetic sequence with coronaviruses from Malayan pangolins.

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High Similarity in Receptor-Binding Domain (RBD)

The spike protein (S protein) of SARS-CoV-2 has a very high (97.4%) sequence similarity to the Guangdong pangolin coronavirus's RBD.

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Polybasic Sequence in SARS-CoV-2

SARS-CoV-2 has a unique 'polybasic sequence' (PRRA) in its receptor-binding domain, which is a furin cleavage motif.

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Furin Cleavage Motif

Furin protease can split proteins at the sequence pattern Arg-X-X-Arg (arginine-X-X-arginine), facilitating viral entry.

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Intermediate Host Hypothesis

The theory that SARS-CoV-2 may have infected an intermediate animal host before spreading to humans.

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Bat Coronavirus Origin

The most likely origin of SARS-CoV-2 is a bat coronavirus (RaTG13).

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Rhinolophus affinis

A species of horseshoe bat from Yunnan province, China,

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Sequence Similarity

The percentage of matching genetic code between two viruses or genomes.

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Recombination in Coronaviruses

The process where genetic material is exchanged between different viruses, possibly leading to new viruses like SARS-CoV-2.

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Baltimore Classification

A system for classifying viruses based on their genome type and how they produce mRNA.

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Spike Protein (S)

A glycoprotein on the surface of coronaviruses that binds to the host cell's ACE2 receptor, allowing the virus to enter.

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ACE2 Receptor

A protein on the surface of human cells that SARS-CoV-2 binds to for entry.

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TMPRSS2

A protease enzyme that helps the virus enter the cell by cleaving the spike protein.

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RNA-dependent RNA Polymerase (RdRp)

An enzyme that uses RNA as a template to make more RNA, a crucial process for viral replication.

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R0 (pronounced 'R naught')

The average number of people an infected person will spread the disease to. It indicates the rate of transmission.

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Viral Replication

The process by which a virus makes more of itself inside a host cell.

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Symptoms of COVID-19

Common symptoms include fever, cough, fatigue, shortness of breath, and loss of smell and taste.

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Asymptomatic Carrier

A person who has the virus but shows no symptoms, yet can still transmit the disease.

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COVID-19 Severity

The disease can range from mild to severe, with some individuals developing serious respiratory complications.

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COVID-19 Transmission Routes

COVID-19 spreads through direct contact with contaminated surfaces, aerosols from breathing, coughing, and sneezing, and cold surfaces or cold chain transportation where the virus can survive for extended periods.

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Zoonotic Disease

A disease that originates in animals and can be transmitted to humans.

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COVID-19 and Animals

SARS-CoV-2, the virus causing COVID-19, can infect various animals, including cats, dogs, ferrets, and minks. However, it's not known to infect pigs, chickens, mice, or rats. Evidence suggests pet owners can pass the virus to their pets, but not vice versa.

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Vaccine Development Stages

Vaccine development involves various stages, including safety and efficacy testing. Phase III clinical trials are crucial for assessing a vaccine's effectiveness and safety in large groups of people.

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Vaccine Candidate Key Parameters

Key parameters evaluated for vaccine candidates include safety, efficacy, cost, availability, and public acceptance.

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Vaccine Efficacy

The effectiveness of a vaccine in preventing disease. The US FDA requires at least 50% efficacy for vaccine approval.

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Oxygen Therapy

Medical treatment that provides supplemental oxygen to patients with respiratory problems.

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Ventilator

A machine that helps patients breathe by delivering air or oxygen to their lungs.

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ECMO (Extracorporeal Membrane Oxygenation)

A life-support technology that provides oxygen and removes carbon dioxide from the blood outside the body.

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Temporary Hospitals

Temporary medical facilities established to cope with emergencies like a pandemic, providing additional hospital beds to manage a high influx of patients.

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Study Notes

The Pandemic

  • Clusters of pneumonia patients first reported in Wuhan, late December 2019.
  • Hospitals in Wuhan were overwhelmed during the initial outbreak.
  • First public confirmation of person-to-person spread was January 22, 2020, by Chinese health experts.
  • Wuhan City was sealed off from January 22 until April 8.
  • WHO declared COVID-19 a pandemic on March 11.

The Wuhan Seafood Market

  • Suspected origin of the virus due to a cluster of cases linked to this market.
  • Wild game meat sold at the market was suspected as a source.
  • However, the market is not the origin; wild animal meat is unlikely the source.

Viral Particles

  • Transmission electron microscopy showed viral particles with crown-like shapes and protruding spikes.

Name and Sequences of the Novel Coronavirus

  • Disease name: Coronavirus Disease 2019 (COVID-19).
  • Official virus name: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), previously known as 2019-nCoV.
  • First viral genome sequences were determined by molecular diagnostic companies in Wuhan, using clinical samples and a metagenomic approach.
  • China publicly shared the genetic sequence of COVID-19 on January 12.

Genome Structure

  • Single-stranded RNA (+) virus.
  • Contains multiple open reading frames within a ~30 kilobase genome.
  • Possesses a 5'-terminal cap structure for efficient protein translation and a 3'-end poly(A) sequence.
  • Likely produced by viral polymerase or cytoplasmic poly(A) polymerase.

Phylogenetic Tree

  • Phylogenetic tree shows similarity to known bat coronaviruses.
  • 86.9% nucleotide sequence identity to bat SARS-like CoV (bat-SL-CoVZC45).

Unique Features of SARS-CoV-2

  • Novel bat coronavirus (RaTG13) shows 96% similarity to SARS-CoV-2.
  • Previously detected in Rhinolophus affinis bats in Yunnan province.
  • SARS-CoV-2-related coronaviruses in Malayan pangolins show 85.5%-92.4% sequence similarity.
  • The S protein of SARS-CoV-2 exhibits 97.4% sequence similarity to Guangdong pangolin coronaviruses in the receptor-binding domain(RBD).

Polybasic Amino Acids in the Receptor

  • Unique polybasic sequence (RRAR) to SARS-CoV-2, which has a positively charged side group.
  • RRAR is a furin cleavage motif.
  • Furin protease can cleave protein at the Arg-X-X-Arg sequence.

Origin of SARS-CoV-2

  • Most likely originated from a bat coronavirus (RaTG13) and was incubated in an intermediate mammalian host before jumping to humans.

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