Phylogenetic Analysis of a Frog Virus 3–Like Ranavirus Found at a Site with Recurrent Mortality and Morbidity Events in Southeastern Ontario, Canada: Partial Major Capsid Protein Sequence Alone Is Not Sufficient for Fine-Scale Differentiation

2013 ◽  
Vol 49 (2) ◽  
pp. 464-467 ◽  
Author(s):  
Amanda L. J. Duffus ◽  
Abby M. Andrews
Keyword(s):  
Phylogenetic Analysis ◽  
Capsid Protein ◽  
Protein Sequence ◽  
Major Capsid Protein ◽  
Fine Scale ◽  
Frog Virus 3 ◽  
Mortality And Morbidity ◽  
Capsid Protein Sequence ◽  
Frog Virus ◽  
A Site

scholarly journals Revised Mimivirus major capsid protein sequence reveals intron-containing gene structure and extra domain

2009 ◽  
Vol 10 (1) ◽  
pp. 39 ◽  
Author(s):  
Saïd Azza ◽  
Christian Cambillau ◽  
Didier Raoult ◽  
Marie Suzan-Monti
Keyword(s):  
Capsid Protein ◽  
Gene Structure ◽  
Protein Sequence ◽  
Major Capsid Protein ◽  
Capsid Protein Sequence

scholarly journals Cloning, Sequence Analysis, and Expression of the Major Capsid Protein of the Iridovirus Frog Virus 3

Virology ◽  
1996 ◽  
Vol 216 (2) ◽  
pp. 431-436 ◽  
Author(s):  
J. MAO ◽  
T.N. THAM ◽  
G.A. GENTRY ◽  
A. AUBERTIN ◽  
V.G. CHINCHAR
Keyword(s):  
Sequence Analysis ◽  
Capsid Protein ◽  
Major Capsid Protein ◽  
Frog Virus 3 ◽  
Frog Virus

scholarly journals Phylogenetic Analysis of Members of the Phycodnaviridae Virus Family, Using Amplified Fragments of the Major Capsid Protein Gene

2008 ◽  
Vol 74 (10) ◽  
pp. 3048-3057 ◽  
Author(s):  
J. B. Larsen ◽  
A. Larsen ◽  
G. Bratbak ◽  
R.-A. Sandaa
Keyword(s):  
Phylogenetic Analysis ◽  
Capsid Protein ◽  
Major Capsid Protein ◽  
Pcr Primers ◽  
Type I ◽  
Virus Family ◽  
The Family ◽  
Algal Viruses ◽  
Viral Communities ◽  
Phaeocystis Pouchetii

ABSTRACT Algal viruses are considered ecologically important by affecting host population dynamics and nutrient flow in aquatic food webs. Members of the family Phycodnaviridae are also interesting due to their extraordinary genome size. Few algal viruses in the Phycodnaviridae family have been sequenced, and those that have been have few genes in common and low gene homology. It has hence been difficult to design general PCR primers that allow further studies of their ecology and diversity. In this study, we screened the nine type I core genes of the nucleocytoplasmic large DNA viruses for sequences suitable for designing a general set of primers. Sequence comparison between members of the Phycodnaviridae family, including three partly sequenced viruses infecting the prymnesiophyte Pyramimonas orientalis and the haptophytes Phaeocystis pouchetii and Chrysochromulina ericina (Pyramimonas orientalis virus 01B [PoV-01B], Phaeocystis pouchetii virus 01 [PpV-01], and Chrysochromulina ericina virus 01B [CeV-01B], respectively), revealed eight conserved regions in the major capsid protein (MCP). Two of these regions also showed conservation at the nucleotide level, and this allowed us to design degenerate PCR primers. The primers produced 347- to 518-bp amplicons when applied to lysates from algal viruses kept in culture and from natural viral communities. The aim of this work was to use the MCP as a proxy to infer phylogenetic relationships and genetic diversity among members of the Phycodnaviridae family and to determine the occurrence and diversity of this gene in natural viral communities. The results support the current legitimate genera in the Phycodnaviridae based on alga host species. However, while placing the mimivirus in close proximity to the type species, PBCV-1, of Phycodnaviridae along with the three new viruses assigned to the family (PoV-01B, PpV-01, and CeV-01B), the results also indicate that the coccolithoviruses and phaeoviruses are more diverged from this group. Phylogenetic analysis of amplicons from virus assemblages from Norwegian coastal waters as well as from isolated algal viruses revealed a cluster of viruses infecting members of the prymnesiophyte and prasinophyte alga divisions. Other distinct clusters were also identified, containing amplicons from this study as well as sequences retrieved from the Sargasso Sea metagenome. This shows that closely related sequences of this family are present at geographically distant locations within the marine environment.

Capsid protein sequence diversity of avian nephritis virus

2011 ◽  
Vol 40 (3) ◽  
pp. 249-259 ◽  
Author(s):  
D. Todd ◽  
J. Trudgett ◽  
V. J. Smyth ◽  
B. Donnelly ◽  
N. McBride ◽  
...  
Keyword(s):  
Capsid Protein ◽  
Protein Sequence ◽  
Sequence Diversity ◽  
Capsid Protein Sequence ◽  
Avian Nephritis Virus

scholarly journals Capsid protein sequence diversity of chicken astrovirus

2012 ◽  
Vol 41 (2) ◽  
pp. 151-159 ◽  
Author(s):  
V. J. Smyth ◽  
D. Todd ◽  
J. Trudgett ◽  
A. Lee ◽  
M. D. Welsh
Keyword(s):  
Capsid Protein ◽  
Protein Sequence ◽  
Sequence Diversity ◽  
Capsid Protein Sequence

scholarly journals Prevalence of human astrovirus serotype 4: capsid protein sequence and comparison with other strains

1995 ◽  
Vol 114 (2) ◽  
pp. 385-391 ◽  
Author(s):  
M. M. Willcocks ◽  
J. B. Kurtz ◽  
T. W. Lee ◽  
M. J. Carter
Keyword(s):  
Amino Acid ◽  
Capsid Protein ◽  
Structural Gene ◽  
Protein Sequence ◽  
Amino Acid Substitutions ◽  
Functional Constraints ◽  
Capsid Protein Sequence ◽  
C Terminus ◽  
Human Astrovirus ◽  
Relative Prevalence

SummaryAstrovirus serotype 4 has increased in relative prevalence in the Oxford, UK area in 1993. The structural gene of human astrovirus serotype 4 has been sequenced and the results indicate that this protein differs substantially from serotypes 1 and 2. In particular, conservation at the C terminus is greatly reduced. However, amino acid substitutions in this region show a strong conservation in character suggesting that structural or functional constraints operate in this region.

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