Complete genome analysis of the novel Edwardsiella tarda phage vB_EtaM_ET-ABTNL-9
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Complete genome analysis of the novel Edwardsiella tarda phage vB_ EtaM_ET‑ABTNL‑9 Huijing Cui1 · Jiancheng Zhang2 · Cong Cong1 · Lili Wang1,3 · Xiaoyu Li1,3 · Bilal Murtaza1 · Yongping Xu1,3 Received: 26 December 2019 / Accepted: 26 February 2020 © Springer-Verlag GmbH Austria, part of Springer Nature 2020
Abstract This work describes the characterization and genome annotation of a new lytic phage, vB_EtaM_ET-ABTNL-9 (referred to as PETp9), isolated from waste water samples collected in Dalian, China, that can kill bacteria of the species Edwardsiella tarda. The genome of phage PETp9 is a circular double-stranded DNA molecule that is 89,762 bp in length with a G+C content of 37.26%, contains 132 ORFs, and encodes one tRNA. Phylogenetic analysis indicated that phage PETp9 should be considered a novel phage. Edwardsiellosis, caused by the bacterium Edwardsiella tarda, is a serious systemic bacterial disease that affects a variety of fish taxa and has a worldwide distribution both in fresh and marine waters [1]. E. tarda might also infect reptiles, amphibians, mammals and humans [2, 3]. Disease caused by this bacterium has resulted in considerable economic losses throughout the world [2]. Although many studies have been carried out on the disease and the agent, there is still no effective control method available for this disease due to poor understanding of the mechanism of infection and the non-availability of an effective chemotherapeutic agent. Lytic bacteriophages have been used as natural agents to kill the bacteria and thus have the potential to be used as therapeutic agents in aquaculture. In this study, we have sequenced and analyzed the complete genome of a newly isolated E. tarda phage that, to the best of our knowledge, has not been reported previously. Handling Editor: T. K. Frey. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s00705-020-04600-y) contains supplementary material, which is available to authorized users. * Yongping Xu [email protected] 1
School of Bioengineering, Dalian University of Technology, Dalian 116024, China
2
Dalian SEM Bio-Engineering Technology Co. Ltd., Dalian 116620, China
3
Ministry of Education Center for Food Safety of Animal Origin, Dalian 116600, China
The bacterial strain used as a host (ET9) was isolated in 2019 from a diseased turbot grown on a farm in Dalian, China. Isolation and purification of phage PETp9 from a seafood market in Dalian were done according to procedures described previously by Zhang et al. [4]. Based on its morphology, PETp9 could be classified as a member of the family Myoviridae, order Caudovirales. Phage genomic DNA was extracted from a preparation with a high titer of phage particles ( 1010 PFU/mL) using the phenol–chloroform–isoamyl alcohol method as described by Sambrook et al. [5]. Whole-genome sequencing was performed at Biozeron (China) using an Illumina HiSeq paired-end platform with read quality evaluated using Trimmomatic-0.33 [6]. Open readin
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