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Wednesday, November 26, 2008
ICTV


International Committee on Taxonomy of Viruses (ICTV) is a universal system for classifying viruses and a unified taxonomy established since 1966. The system makes use of a series of ranked taxons, with the:



Order (-virales)
Family (-viridae)
Subfamily (-virinae)
Genus (-virus)
Type Species

Classification criteria include:


Five orders have been established by the ICTV:Caudovirales, Herpesvirales, Mononegavirales, Nidovirales, and Picornavirales. These orders span viruses with varying host ranges.


In ICTV, a minor point is that names of orders and families are italicized. Most notably, type species names generally take the form of [Disease] virus. The establishment of an order is based on the inference that the virus families contained within a single order have most likely evolved from a common ancestor. The majority of virus families remain unplaced. Currently (2008) 82 families and 2,083 species of virus have been defined. Not all viruses are assigned nomenclature accordingly yet.


How do we use this method?


E.g. 1. Ebolavirus
- Order Mononegavirales
- Family Filoviridae
- Genus Filovirus
- Type species: Ebola virus Zaire



E.g. 2. Herpesvirus

-No order assigned
-Family Herpesviridae
-Subfamily Alphaherpesviridae
-Genus Simplexvirus
-Type species: Human herpes virus 1


Blogged @ 6:30 AM

Friday, November 21, 2008
Baltimore's System


Invented by Nobel Prize winner David Baltimore in 1971, this method classifies based on the viral genome and its relationship to mRNA. It is the central dogma of molecular biology.

Classes:
I: Double-stranded DNA (Herpesviruses; Poxviruses, etc.

  • Usually must enter the host nucleus before it is able to replicate
  • Require host cell polymerases to replicate the viral genome--> highly dependent on the cell cycle
  • The virus may induce the cell to forcefully undergo cell division--> Causes cancer

There is only one well studied example in which a class 1 virus is not replicating within the nucleus, and that is the Poxvirus family, a highly pathogenic virus that infects vertebrates and includes the smallpox virus. They replicate in the cytoplasm and make their own enzymes for nucleic acid replication.


II: Single-stranded (+)sense DNA (Parvoviruses)Replication occurs in the nucleus, involving the formation of a (-)sense strand, which serves as a template for (+)strand RNA and DNA synthesis. Viruses that fall under this category include ones that are not as well studied, but still pertain highly to vertebrates.


III: Double-stranded RNA (Reoviruses; Birnaviruses)These viruses have segmented genomes. Each genome segment is transcribed separately to produce monocistronic mRNAs. As with most RNA viruses, this class replicates in the cytoplasm, not having to use the host replication polymerases as much as DNA viruses.


IV: Single-stranded (+)sense RNA (Picornaviruses etc.)a) Naked RNA is infectious, no virion particle associated polymerase. Translation results in the formation of a polyprotein product, which is subsequently cleaved to form the mature proteins.b) Complex Transcription e.g. Togaviruses. Two or more rounds of translation are necessary to produce the genomic RNA.

V: Single-stranded (-)sense RNA (Orthomyxoviruses etc.)Must have a virion particle RNA directed RNA polymerase.a) Segmented e.g. Orthomyxoviruses. First step in replication is transcription of the (-)sense RNA genome by the virion RNA-dependent RNA polymerase to produce monocistronic mRNAs, which also serve as the template for genome replication.b) Non-segmented e.g. Rhabdoviruses. Replication occurs as above and monocistronic mRNAs are produced.


VI: Single-stranded (+)sense RNA with DNA intermediate in life-cycle (Retroviruses)Genome is (+) sense but unique among viruses in that it is diploid, and does not serve as mRNA, but as a template for reverse transcription to convert the positive sense RNA into DNA. Instead of using the RNA for templates of proteins, they use DNA to create the templates, which is spliced into the host genome using integrase. Replication can then commence with the help of the host cell's polymerases.


VII: Double-stranded DNA with RNA intermediate (Hepadnaviruses)This group of viruses also relies on reverse transcription, but unlike the Retroviruses, this occurs inside the virus particle on maturation. On infection of a new cell, the first event to occur is repair of the gapped genome subsequently filled in to form a covalently closed circle , followed by transcription. The pregenome RNA serves as template for the viral reverse transcriptase and for production of the DNA genome.

Read the whole paper submitted by David Baltimore here.


For a brief overview of this topic, here are pictures that summarizes what is mentioned above:





Blogged @ 11:29 PM

Lwoff's Scheme


Invented by Lwoff, RW Horne and P Tournier in 1962, the Lwoff's Scheme is a classification for viruses based on the shared physical properties of the viruses themselves instead of those of their host.





Such physical properties include:

It forms the basis of ICTV classification but ICTV is more comprehensive.

Below is a picture of a comprehensive classification tree. Note, especially, the physical properties of the viruses mentioned above.


Blogged @ 11:11 PM

Wednesday, November 19, 2008
Classification of Viruses-Introduction


To understand more about viruses, we must firstly learn about the classification systems for viruses.

Unlike most living things on Earth, viruses are acellular and need to invade hosts to replicate and survive. Therefore they do not fall under the common classification method used for other living things [mainly the system invented by Carolus Linnaeus (the father of taxonomy)-- the popular system of classifying by Kingdom, Phylum, Class, Order, Family, Genus and Species],by the various methods invented and elaborated here.

Viral classification methods include:
  1. Lwoff's Scheme: A scheme devised by Lwoff, RW Horne and P Tournier in 1962 that uses physical properties of virus for classification
  2. Baltimore's System: Developed by David Baltimore in 1971, and based on viral genome and relaionship to mRNA
  3. ICTV (International Commitee on Taxonomy of Viruses) classification: Naming based on order, family, genus and type species

Important contributions to this area:

More details on Lwoff's Scheme will be in the next post.


Blogged @ 11:09 PM

Monday, November 17, 2008
WELCOME!


Welcome to our Virology blog!

The topics that we will be including are:

Hope you will find this useful for studying about virology! Cheers!


Blogged @ 8:47 AM


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Medical Microbiology-(bacteria)
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Baltimore Classification-Wiki
ICTVdB
Dengue Fever
Dengue Fever Fact Sheet
Yellow Fever
WHO on Yellow Fever
PHAC on West Nile
TMB on West Nile
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Herpesviridae-wiki
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Mechanisms of virus neutralization by Antibodies(Ab)
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Intro on Methods of Study of Viruses
Poxviridae

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