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A new strain of white spot syndrome virus affecting Litopenaeus vannamei in Indian shrimp farms
Author(s) -
Sivakumar S,
Vimal S,
Abdul Majeed S,
Santhosh Kumar S,
Taju G,
Madan N,
Rajkumar T,
Thamizhvanan S,
Shamsudheen K V,
Scaria V,
Sivasubbu S,
Sahul Hameed A S
Publication year - 2018
Publication title -
journal of fish diseases
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.819
H-Index - 85
eISSN - 1365-2761
pISSN - 0140-7775
DOI - 10.1111/jfd.12811
Subject(s) - white spot syndrome , litopenaeus , biology , shrimp , primer (cosmetics) , virology , strain (injury) , virus , genome , gene , penaeidae , genetics , fishery , decapoda , crustacean , chemistry , organic chemistry , anatomy
White spot syndrome virus ( WSSV )‐infected shrimp samples collected from grow‐out ponds located at Nellore, Andhra Pradesh, India, showed WSSV negative and positive by PCR using primer sets specific to ORF 119 and VP 28 gene of WSSV , respectively. This indicated the deletion of genetic fragments in the genome of WSSV . The WSSV isolate along with lab strain of WSSV was subjected to next‐generation sequencing. The sequence analysis revealed a deletion of 13,170 bp at five positions in the genome of WSSV ‐ NS (new strain) relative to WSSV ‐ TH and WSSV ‐ LS (lab strain). The PCR analysis using the ORF 's specific primer sets revealed the complete deletion of 10 ORF s in the genome of WSSV ‐ NS strain. The primer set was designed based on sequence covering ORF 161/162/163 to amplify a product of 2,748 bp for WSSV ‐ LS and 402 bp for WSSV ‐ NS . Our surveillance programme carried out since 2002 revealed the replacement of WSSV ‐ LS by WSSV ‐ NS in Indian shrimp culture system.