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Replication slippage in the evolution of potyviruses.
Hancock JM, Chaleeprom W, Chaleeprom W, Dale J, Gibbs A. Hancock JM, et al. J Gen Virol. 1995 Dec;76 ( Pt 12):3229-32. doi: 10.1099/0022-1317-76-12-3229. J Gen Virol. 1995. PMID: 8847535
Virus nomenclature descending into chaos.
Gibbs AJ. Gibbs AJ. Arch Virol. 2000;145(7):1505-7. doi: 10.1007/s007050070108. Arch Virol. 2000. PMID: 10963355 No abstract available.
Analysis of patterns of DNA sequence variation in flanking and coding regions of murine germ-line immunoglobulin heavy-chain variable genes: evolutionary implications.
Rothenfluh HS, Gibbs AJ, Blanden RV, Steele EJ. Rothenfluh HS, et al. Proc Natl Acad Sci U S A. 1994 Dec 6;91(25):12163-7. doi: 10.1073/pnas.91.25.12163. Proc Natl Acad Sci U S A. 1994. PMID: 7991601 Free PMC article.
Given that the DNA of unrearranged germ-line V elements cannot be the direct target for "natural-selection" antigen-binding forces (since V elements are only expressed somatically when rearranged in a mature lymphocyte), it is difficult to explain how these nonrandom seque …
Given that the DNA of unrearranged germ-line V elements cannot be the direct target for "natural-selection" antigen-binding forces (since V …
The haemagglutinin gene, but not the neuraminidase gene, of 'Spanish flu' was a recombinant.
Gibbs MJ, Armstrong JS, Gibbs AJ. Gibbs MJ, et al. Philos Trans R Soc Lond B Biol Sci. 2001 Dec 29;356(1416):1845-55. doi: 10.1098/rstb.2001.0998. Philos Trans R Soc Lond B Biol Sci. 2001. PMID: 11779383 Free PMC article.
The unusual virulence of the virus and why it produced a pandemic have remained unsolved. We have reanalysed the sequences of the three 1918 genes and found conflicting patterns of relatedness in all three. ...
The unusual virulence of the virus and why it produced a pandemic have remained unsolved. We have reanalysed the sequences of the thr …
Recombination in the hemagglutinin gene of the 1918 "Spanish flu".
Gibbs MJ, Armstrong JS, Gibbs AJ. Gibbs MJ, et al. Science. 2001 Sep 7;293(5536):1842-5. doi: 10.1126/science.1061662. Science. 2001. PMID: 11546876
Our reanalysis indicates that the hemagglutinin gene, a key virulence determinant, originated by recombination. The "globular domain" of the 1918 hemagglutinin protein was encoded by a part of a gene derived from a swine-lineage influenza, whereas the …
Our reanalysis indicates that the hemagglutinin gene, a key virulence determinant, originated by recombination. The "globular domain" …
An Iranian genomic sequence of Beet mosaic virus provides insights into diversity and evolution of the world population.
Mohammadi M, Gibbs AJ, Hosseini A, Hosseini S. Mohammadi M, et al. Virus Genes. 2018 Apr;54(2):272-279. doi: 10.1007/s11262-018-1533-8. Epub 2018 Jan 12. Virus Genes. 2018. PMID: 29330664
The primary divergence of the BtMV phylogeny is into USA and Eurasian lineages, and the latter then divides to form a cluster only found in Iran, and a sister cluster that includes all the European and Chinese isolates. A simple patristic dating method estima …
The primary divergence of the BtMV phylogeny is into USA and Eurasian lineages, and the latter then divides to form a cluster only fo …
The Timescale of Emergence and Spread of Turnip Mosaic Potyvirus.
Yasaka R, Fukagawa H, Ikematsu M, Soda H, Korkmaz S, Golnaraghi A, Katis N, Ho SYW, Gibbs AJ, Ohshima K. Yasaka R, et al. Sci Rep. 2017 Jun 26;7(1):4240. doi: 10.1038/s41598-017-01934-7. Sci Rep. 2017. PMID: 28652582 Free PMC article.
Turnip mosaic virus (TuMV) is a member of the genus Potyvirus in the family Potyviridae and is a major worldwide pathogen of brassica crops. ...Our Bayesian coalescent analyses used synonymous sites from a total of 417 novel and published whole-genome sequenc …
Turnip mosaic virus (TuMV) is a member of the genus Potyvirus in the family Potyviridae and is a major worldwide pathogen of b …
The temporal evolution and global spread of Cauliflower mosaic virus, a plant pararetrovirus.
Yasaka R, Nguyen HD, Ho SY, Duchêne S, Korkmaz S, Katis N, Takahashi H, Gibbs AJ, Ohshima K. Yasaka R, et al. PLoS One. 2014 Jan 21;9(1):e85641. doi: 10.1371/journal.pone.0085641. eCollection 2014. PLoS One. 2014. PMID: 24465629 Free PMC article.
Cauliflower mosaic virus (CaMV) is a plant pararetrovirus with a double-stranded DNA genome. It is the type member of the genus Caulimovirus in the family Caulimoviridae. ...We found that recombination has been a common feature of CaMV evolution, and that ORF …
Cauliflower mosaic virus (CaMV) is a plant pararetrovirus with a double-stranded DNA genome. It is the type member of the genu …
Rymovirus: a cautionary tale.
Gibbs AJ, Gibbs MJ. Gibbs AJ, et al. Arch Virol. 2018 Mar;163(3):815-817. doi: 10.1007/s00705-017-3676-7. Epub 2017 Dec 9. Arch Virol. 2018. PMID: 29224129
A recent proposal that the genus Rymovirus be assimilated into the genus Potyvirus is examined, discussed, and rejected. It illustrates the danger of using 'sequence identity' as a proxy for phylogenetic relatedness to distinguish closely related but distinct groups
A recent proposal that the genus Rymovirus be assimilated into the genus Potyvirus is examined, discussed, and rejected. It illustrat
The genetic diversity of narcissus viruses related to turnip mosaic virus blur arbitrary boundaries used to discriminate potyvirus species.
Ohshima K, Mitoma S, Gibbs AJ. Ohshima K, et al. PLoS One. 2018 Jan 4;13(1):e0190511. doi: 10.1371/journal.pone.0190511. eCollection 2018. PLoS One. 2018. PMID: 29300751 Free PMC article.
Many were found to be infected with a macluravirus and mixtures of different potyviruses, one third of them narcissus yellow stripe virus (NYSV)-like viruses. ...However, as all are from a single host species, and natural recombinants with NV-1 and NYSV-3 'parents h …
Many were found to be infected with a macluravirus and mixtures of different potyviruses, one third of them narcissus yellow stripe v …
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