Complete Genome Sequence of Shewanella sp. Strain TH2012, Isolated from Shrimp in a Cultivation Pond Exhibiting Early Mortality Syndrome.

Piyanuch Wechprasit,Siripong Thitamadee,Kallaya Sritunyalucksana,Anuphap Prachumwat,Muthita Panphloi,Steven R Gill

doi:10.1128/mra.01703-18

Abstract

Here, we present the complete genome sequence of a Shewanella isolate, TH2012, from a shrimp pond in which shrimp exhibited early mortality syndrome (EMS)/acute hepatopancreatic necrosis disease (AHPND). The complete genome of TH2012 has a prophage-like element and a number of potential virulence factors, making TH2012 a possible contributing factor to EMS outbreaks.

Highlights

We present the complete genome sequence of a Shewanella isolate, TH2012, from a shrimp pond in which shrimp exhibited early mortality syndrome (EMS)/acute hepatopancreatic necrosis disease (AHPND)
Genome size DNA coding genes DNA GϩC content No of DNA scaffolds Total no. of genes No of protein-coding genes No of RNA genes No of genes in internal clusters No of genes with function prediction No of genes assigned to COGsa No of genes with Pfam domains No of genes with signal peptides No of genes with transmembrane helices
Pfam domains were predicted by an hmmscan search against Pfam-A.hmm with an E value of Ͻ0.01 [20], whereas clusters of orthologous groups (COGs) were obtained by a BLASTP [21] search against the UniProt database of eggNOG [22], with top hits for E values of Ͻ10Ϫ3

Summary

Introduction

We present the complete genome sequence of a Shewanella isolate, TH2012, from a shrimp pond in which shrimp exhibited early mortality syndrome (EMS)/acute hepatopancreatic necrosis disease (AHPND). Of genes No of protein-coding genes No of RNA genes No of genes in internal clusters No of genes with function prediction No of genes assigned to COGsa No of genes with Pfam domains No of genes with signal peptides No of genes with transmembrane helices 100 97.05 2.95 18.01 75.14 67.46 89.13 14.32 26.05 observed with the Integrative Genomics Viewer (IGV; version 2.4.18) [16].

Results

Conclusion