Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A

Lisa A. Fitzgerald, Michael V. Graves, Xiao Li, Tamara Feldblyum, William C. Nierman, James L Van Etten

Research output: Contribution to journalArticle

60 Citations (Scopus)

Abstract

Viruses NY-2A and AR158, members of the family Phycodnaviridae, genus Chlorovirus, infect the fresh water, unicellular, eukaryotic, chlorella-like green alga, Chlorella NC64A. The 368,683-bp genome of NY-2A and the 344,690-bp genome of AR158 are the two largest chlorella virus genomes sequenced to date; NY-2A contains 404 putative protein-encoding and 7 tRNA-encoding genes and AR158 contains 360 putative protein-encoding and 6 tRNA-encoding genes. The protein-encoding genes are almost evenly distributed on both strands, and intergenic space is minimal. Two of the NY-2A genes encode inteins, the large subunit of ribonucleotide reductase and a superfamily II helicase. These are the first inteins to be detected in the chlorella viruses. Approximately 40% of the viral gene products resemble entries in the public databases, including some that are unexpected for a virus. These include GDP-d-mannose dehydratase, fucose synthase, aspartate transcarbamylase, Ca++ transporting ATPase and ubiquitin. Comparison of NY-2A and AR158 protein-encoding genes with the prototype chlorella virus PBCV-1 indicates that 85% of the genes are present in all three viruses.

Original languageEnglish (US)
Pages (from-to)472-484
Number of pages13
JournalVirology
Volume358
Issue number2
DOIs
StatePublished - Feb 20 2007

Fingerprint

Chlorella
Viruses
Inteins
Genome
Transfer RNA
Genes
Phycodnaviridae
Proteins
Aspartate Carbamoyltransferase
Guanosine Diphosphate Mannose
Hydro-Lyases
Ribonucleotide Reductases
Chlorophyta
Fucose
Viral Proteins
Ubiquitin
Fresh Water
Adenosine Triphosphatases
Databases

Keywords

  • Chlorella viruses
  • Genome sequence
  • Phycodnaviridae
  • Virus AR158
  • Virus NY-2A

ASJC Scopus subject areas

  • Virology

Cite this

Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A. / Fitzgerald, Lisa A.; Graves, Michael V.; Li, Xiao; Feldblyum, Tamara; Nierman, William C.; Van Etten, James L.

In: Virology, Vol. 358, No. 2, 20.02.2007, p. 472-484.

Research output: Contribution to journalArticle

Fitzgerald, Lisa A. ; Graves, Michael V. ; Li, Xiao ; Feldblyum, Tamara ; Nierman, William C. ; Van Etten, James L. / Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A. In: Virology. 2007 ; Vol. 358, No. 2. pp. 472-484.
@article{c28d1aa6b1734fcd95705a6c8957a927,
title = "Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A",
abstract = "Viruses NY-2A and AR158, members of the family Phycodnaviridae, genus Chlorovirus, infect the fresh water, unicellular, eukaryotic, chlorella-like green alga, Chlorella NC64A. The 368,683-bp genome of NY-2A and the 344,690-bp genome of AR158 are the two largest chlorella virus genomes sequenced to date; NY-2A contains 404 putative protein-encoding and 7 tRNA-encoding genes and AR158 contains 360 putative protein-encoding and 6 tRNA-encoding genes. The protein-encoding genes are almost evenly distributed on both strands, and intergenic space is minimal. Two of the NY-2A genes encode inteins, the large subunit of ribonucleotide reductase and a superfamily II helicase. These are the first inteins to be detected in the chlorella viruses. Approximately 40{\%} of the viral gene products resemble entries in the public databases, including some that are unexpected for a virus. These include GDP-d-mannose dehydratase, fucose synthase, aspartate transcarbamylase, Ca++ transporting ATPase and ubiquitin. Comparison of NY-2A and AR158 protein-encoding genes with the prototype chlorella virus PBCV-1 indicates that 85{\%} of the genes are present in all three viruses.",
keywords = "Chlorella viruses, Genome sequence, Phycodnaviridae, Virus AR158, Virus NY-2A",
author = "Fitzgerald, {Lisa A.} and Graves, {Michael V.} and Xiao Li and Tamara Feldblyum and Nierman, {William C.} and {Van Etten}, {James L}",
year = "2007",
month = "2",
day = "20",
doi = "10.1016/j.virol.2006.08.033",
language = "English (US)",
volume = "358",
pages = "472--484",
journal = "Virology",
issn = "0042-6822",
publisher = "Academic Press Inc.",
number = "2",

}

TY - JOUR

T1 - Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A

AU - Fitzgerald, Lisa A.

AU - Graves, Michael V.

AU - Li, Xiao

AU - Feldblyum, Tamara

AU - Nierman, William C.

AU - Van Etten, James L

PY - 2007/2/20

Y1 - 2007/2/20

N2 - Viruses NY-2A and AR158, members of the family Phycodnaviridae, genus Chlorovirus, infect the fresh water, unicellular, eukaryotic, chlorella-like green alga, Chlorella NC64A. The 368,683-bp genome of NY-2A and the 344,690-bp genome of AR158 are the two largest chlorella virus genomes sequenced to date; NY-2A contains 404 putative protein-encoding and 7 tRNA-encoding genes and AR158 contains 360 putative protein-encoding and 6 tRNA-encoding genes. The protein-encoding genes are almost evenly distributed on both strands, and intergenic space is minimal. Two of the NY-2A genes encode inteins, the large subunit of ribonucleotide reductase and a superfamily II helicase. These are the first inteins to be detected in the chlorella viruses. Approximately 40% of the viral gene products resemble entries in the public databases, including some that are unexpected for a virus. These include GDP-d-mannose dehydratase, fucose synthase, aspartate transcarbamylase, Ca++ transporting ATPase and ubiquitin. Comparison of NY-2A and AR158 protein-encoding genes with the prototype chlorella virus PBCV-1 indicates that 85% of the genes are present in all three viruses.

AB - Viruses NY-2A and AR158, members of the family Phycodnaviridae, genus Chlorovirus, infect the fresh water, unicellular, eukaryotic, chlorella-like green alga, Chlorella NC64A. The 368,683-bp genome of NY-2A and the 344,690-bp genome of AR158 are the two largest chlorella virus genomes sequenced to date; NY-2A contains 404 putative protein-encoding and 7 tRNA-encoding genes and AR158 contains 360 putative protein-encoding and 6 tRNA-encoding genes. The protein-encoding genes are almost evenly distributed on both strands, and intergenic space is minimal. Two of the NY-2A genes encode inteins, the large subunit of ribonucleotide reductase and a superfamily II helicase. These are the first inteins to be detected in the chlorella viruses. Approximately 40% of the viral gene products resemble entries in the public databases, including some that are unexpected for a virus. These include GDP-d-mannose dehydratase, fucose synthase, aspartate transcarbamylase, Ca++ transporting ATPase and ubiquitin. Comparison of NY-2A and AR158 protein-encoding genes with the prototype chlorella virus PBCV-1 indicates that 85% of the genes are present in all three viruses.

KW - Chlorella viruses

KW - Genome sequence

KW - Phycodnaviridae

KW - Virus AR158

KW - Virus NY-2A

UR - http://www.scopus.com/inward/record.url?scp=33846362288&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33846362288&partnerID=8YFLogxK

U2 - 10.1016/j.virol.2006.08.033

DO - 10.1016/j.virol.2006.08.033

M3 - Article

VL - 358

SP - 472

EP - 484

JO - Virology

JF - Virology

SN - 0042-6822

IS - 2

ER -