Complete genomic sequence of an infectious pancreatic necrosis virus isolated from rainbow trout (Oncorhynchus mykiss) in China

被引:19
作者
Ji, Feng [1 ,2 ]
Zhao, Jing-zhuang [1 ]
Liu, Miao [1 ]
Lu, Tong-yan [1 ]
Liu, Hong-bai [1 ]
Yin, Jiasheng [1 ]
Xu, Li-Ming [1 ]
机构
[1] Chinese Acad Fishery Sci, Heilongjiang River Fisheries Res Inst, Harbin, Peoples R China
[2] Shanghai Ocean Univ, Coll Fisheries & Life Sci, Shanghai, Peoples R China
关键词
Aquatic birnaviruses; Genogroups; Infectious pancreatic necrosis virus ChRtm213; Molecular characterization; Phylogeny; Rainbow trout; FLOUNDER PARALICHTHYS-OLIVACEUS; MOLECULAR CHARACTERIZATION; PHYLOGENETIC ANALYSIS; POLYPROTEIN; VP5; AQUABIRNAVIRUSES; EXPRESSION; BIRNAVIRUS; GENOGROUP; PROTEASE;
D O I
10.1007/s11262-016-1408-9
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Infectious pancreatic necrosis (IPN) is a significant disease of farmed salmonids resulting in direct economic losses due to high mortality in China. However, no gene sequence of any Chinese infectious pancreatic necrosis virus (IPNV) isolates was available. In the study, moribund rainbow trout fry samples were collected during an outbreak of IPN in Yunnan province of southwest China in 2013. An IPNV was isolated and tentatively named ChRtm213. We determined the full genome sequence of the IPNV ChRtm213 and compared it with previously identified IPNV sequences worldwide. The sequences of different structural and non-structural protein genes were compared to those of other aquatic birnaviruses sequenced to date. The results indicated that the complete genome sequence of ChRtm213 strain contains a segment A (3099 nucleotides) coding a polyprotein VP2-VP4-VP3, and a segment B (2789 nucleotides) coding a RNA-dependent RNA polymerase VP1. The phylogenetic analyses showed that ChRtm213 strain fell within genogroup 1, serotype A9 (Jasper), having similarities of 96.3% (segment A) and 97.3% (segment B) with the IPNV strain AM98 from Japan. The results suggest that the Chinese IPNV isolate has relative closer relationship with Japanese IPNV strains. The sequence of ChRtm213 was the first gene sequence of IPNV isolates in China. This study provided a robust reference for diagnosis and/or control of IPNV prevalent in China.
引用
收藏
页码:215 / 225
页数:11
相关论文
共 44 条
[1]  
Bain N, 2008, J FISH DIS, V31, P37, DOI 10.1111/j.1365-2761.2007.00864.x
[2]   INFECTIOUS PANCREATIC NECROSIS IN RAINBOW TROUT IN SCOTLAND [J].
BALL, HJ ;
MUNRO, ALS ;
ELLIS, A ;
ELSON, KGR ;
HODGKISS, W ;
MCFARLANE, IS .
NATURE, 1971, 234 (5329) :417-+
[3]  
Barrera-Mejía M, 2010, CAN J VET RES, V74, P218
[4]  
Besse P, 1965, Bull Acad Vet Fr, V38, P185
[5]   Phylogenetic relationships of aquatic birnaviruses based on deduced amino acid sequences of genome segment A cDNA [J].
Blake, S ;
Ma, JY ;
Caporale, DA ;
Jairath, S ;
Nicholson, BL .
DISEASES OF AQUATIC ORGANISMS, 2001, 45 (02) :89-102
[6]   Restriction fragment length polymorphisms and sequence analysis:: an approach for genotyping infectious pancreatic necrosis virus reference strains and other aquabirnaviruses isolated from northwestern Spain [J].
Cutrín, JM ;
Barja, JL ;
Nicholson, BL ;
Bandín, I ;
Blake, S ;
Dopazo, CP .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2004, 70 (02) :1059-1067
[7]   Sequence analysis of infectious pancreatic necrosis virus isolated from Iranian reared rainbow trout (Oncorhynchus mykiss) in 2012 [J].
Dadar, Maryam ;
Peyghan, Rahim ;
Memari, Hamid Rajabi ;
Shapouri, Masod Reza Seifi Abad ;
Hasanzadeh, Reza ;
Goudarzi, Laleh Moazzami ;
Vakharia, Vikram N. .
VIRUS GENES, 2013, 47 (03) :574-578
[8]   SYNTHESIS OF THE INFECTIOUS PANCREATIC NECROSIS VIRUS POLYPROTEIN, DETECTION OF A VIRUS-ENCODED PROTEASE, AND FINE-STRUCTURE MAPPING OF GENOME SEGMENT-A CODING REGIONS [J].
DUNCAN, R ;
NAGY, E ;
KRELL, PJ ;
DOBOS, P .
JOURNAL OF VIROLOGY, 1987, 61 (12) :3655-3664
[9]   Temporal and subcellular localization of infectious pancreatic necrosis virus structural proteins [J].
Espinoza, JC ;
Hjalmarsson, A ;
Everitt, E ;
Kuznar, J .
ARCHIVES OF VIROLOGY, 2000, 145 (04) :739-748
[10]   RAPID PRODUCTION OF FULL-LENGTH CDNAS FROM RARE TRANSCRIPTS - AMPLIFICATION USING A SINGLE GENE-SPECIFIC OLIGONUCLEOTIDE PRIMER [J].
FROHMAN, MA ;
DUSH, MK ;
MARTIN, GR .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1988, 85 (23) :8998-9002