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Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90

BACKGROUND: Infectious hematopoietic necrosis virus (IHNV) is the type species of the genus Novirhabdovirus, within the family Rhabdoviridae, infecting several species of wild and hatchery reared salmonids. Similar to other rhabdoviruses, IHNV has a linear single-stranded, negative-sense RNA genome...

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Autores principales: Ammayappan, Arun, LaPatra, Scott E, Vakharia, Vikram N
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2820013/
https://www.ncbi.nlm.nih.gov/pubmed/20085652
http://dx.doi.org/10.1186/1743-422X-7-10
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author Ammayappan, Arun
LaPatra, Scott E
Vakharia, Vikram N
author_facet Ammayappan, Arun
LaPatra, Scott E
Vakharia, Vikram N
author_sort Ammayappan, Arun
collection PubMed
description BACKGROUND: Infectious hematopoietic necrosis virus (IHNV) is the type species of the genus Novirhabdovirus, within the family Rhabdoviridae, infecting several species of wild and hatchery reared salmonids. Similar to other rhabdoviruses, IHNV has a linear single-stranded, negative-sense RNA genome of approximately 11,000 nucleotides. The IHNV genome encodes six genes; the nucleocapsid, phosphoprotein, matrix protein, glycoprotein, non-virion protein and polymerase protein genes, respectively. This study describes molecular characterization of the virulent IHNV strain 220-90, belonging to the M genogroup, and its phylogenetic relationships with available sequences of IHNV isolates worldwide. RESULTS: The complete genomic sequence of IHNV strain 220-90 was determined from the DNA of six overlapping clones obtained by RT-PCR amplification of genomic RNA. The complete genome sequence of 220-90 comprises 11,133 nucleotides (GenBank GQ413939) with the gene order of 3'-N-P-M-G-NV-L-5'. These genes are separated by conserved gene junctions, with di-nucleotide gene spacers. An additional uracil nucleotide was found at the end of the 5'-trailer region, which was not reported before in other IHNV strains. The first 15 of the 16 nucleotides at the 3'- and 5'-termini of the genome are complementary, and the first 4 nucleotides at 3'-ends of the IHNV are identical to other novirhadoviruses. Sequence homology and phylogenetic analysis of the glycoprotein genes show that 220-90 strain is 97% identical to most of the IHNV strains. Comparison of the virulent 220-90 genomic sequences with less virulent WRAC isolate shows more than 300 nucleotides changes in the genome, which doesn't allow one to speculate putative residues involved in the virulence of IHNV. CONCLUSION: We have molecularly characterized one of the well studied IHNV isolates, 220-90 of genogroup M, which is virulent for rainbow trout, and compared phylogenetic relationship with North American and other strains. Determination of the complete nucleotide sequence is essential for future studies on pathogenesis of IHNV using a reverse genetics approach and developing efficient control strategies.
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spelling pubmed-28200132010-02-11 Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90 Ammayappan, Arun LaPatra, Scott E Vakharia, Vikram N Virol J Research BACKGROUND: Infectious hematopoietic necrosis virus (IHNV) is the type species of the genus Novirhabdovirus, within the family Rhabdoviridae, infecting several species of wild and hatchery reared salmonids. Similar to other rhabdoviruses, IHNV has a linear single-stranded, negative-sense RNA genome of approximately 11,000 nucleotides. The IHNV genome encodes six genes; the nucleocapsid, phosphoprotein, matrix protein, glycoprotein, non-virion protein and polymerase protein genes, respectively. This study describes molecular characterization of the virulent IHNV strain 220-90, belonging to the M genogroup, and its phylogenetic relationships with available sequences of IHNV isolates worldwide. RESULTS: The complete genomic sequence of IHNV strain 220-90 was determined from the DNA of six overlapping clones obtained by RT-PCR amplification of genomic RNA. The complete genome sequence of 220-90 comprises 11,133 nucleotides (GenBank GQ413939) with the gene order of 3'-N-P-M-G-NV-L-5'. These genes are separated by conserved gene junctions, with di-nucleotide gene spacers. An additional uracil nucleotide was found at the end of the 5'-trailer region, which was not reported before in other IHNV strains. The first 15 of the 16 nucleotides at the 3'- and 5'-termini of the genome are complementary, and the first 4 nucleotides at 3'-ends of the IHNV are identical to other novirhadoviruses. Sequence homology and phylogenetic analysis of the glycoprotein genes show that 220-90 strain is 97% identical to most of the IHNV strains. Comparison of the virulent 220-90 genomic sequences with less virulent WRAC isolate shows more than 300 nucleotides changes in the genome, which doesn't allow one to speculate putative residues involved in the virulence of IHNV. CONCLUSION: We have molecularly characterized one of the well studied IHNV isolates, 220-90 of genogroup M, which is virulent for rainbow trout, and compared phylogenetic relationship with North American and other strains. Determination of the complete nucleotide sequence is essential for future studies on pathogenesis of IHNV using a reverse genetics approach and developing efficient control strategies. BioMed Central 2010-01-19 /pmc/articles/PMC2820013/ /pubmed/20085652 http://dx.doi.org/10.1186/1743-422X-7-10 Text en Copyright ©2010 Ammayappan et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research
Ammayappan, Arun
LaPatra, Scott E
Vakharia, Vikram N
Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title_full Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title_fullStr Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title_full_unstemmed Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title_short Molecular characterization of the virulent infectious hematopoietic necrosis virus (IHNV) strain 220-90
title_sort molecular characterization of the virulent infectious hematopoietic necrosis virus (ihnv) strain 220-90
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2820013/
https://www.ncbi.nlm.nih.gov/pubmed/20085652
http://dx.doi.org/10.1186/1743-422X-7-10
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