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暹罗鳄幼体SC002的全基因组序列分析

Complete genome sequence analysis of SC002 from hatchlings of Siamese crocodile.

作者信息

Rehman Muhammad Nafees Ur, Dawar Farman Ullah, Zeng Jifeng, Fan Lixia, Feng Wei, Wang Mengqi, Yang Nuo, Guo Guiying, Zheng Jiping

机构信息

Laboratory of Microbiological Engineering (Infection and Immunity), School of Life Sciences, Hainan University, Haikou, China.

Department of Zoology, Kohat University of Science and Technology, Kohat, Pakistan.

出版信息

Front Vet Sci. 2023 Mar 9;10:1140655. doi: 10.3389/fvets.2023.1140655. eCollection 2023.

DOI:10.3389/fvets.2023.1140655
PMID:36968469
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10034365/
Abstract

is a Gram-negative, facultative anaerobic rod-shaped bacterium and the causative agent of the systemic disease "Edwardsiellosis". It is commonly prevalent in aquatic organisms with subsequent economic loss and hence has attracted increasing attention from researchers. In this study, we investigated the complete genome sequence of a highly virulent isolate SC002 isolated from hatchlings of the Siamese crocodile. The genome of SC002 consisted of one circular chromosome of length 3,662,469 bp with a 57.29% G+C content and four novel plasmids. A total of 3,734 protein-coding genes, 12 genomic islands (GIs), 7 prophages, 48 interspersed repeat sequences, 248 tandem repeat sequences, a CRISPR component with a total length of 175 bp, and 171 ncRNAs (tRNA = 106, sRNA = 37, and rRNA = 28) were predicted. In addition, the coding genes of assembled genome were successfully annotated against eight general databases (NR = 3,618/3,734, COG = 2,947/3,734, KEGG = 3,485/3,734, SWISS-PROT = 2,787/3,734, GO = 2,648/3,734, Pfam = 2,648/3,734, CAZy = 130/3,734, and TCDB = 637/3,734) and four pathogenicity-related databases (ARDB = 11/3,734, CARD = 142/3,734, PHI = 538/3,734, and VFDB = 315/3,734). Pan-genome and comparative genome analyses of the complete sequenced genomes confirmed their evolutionary relationships. The present study confirmed that SC002 is a potential pathogen bearing a bulk amount of antibiotic resistance, virulence, and pathogenic genes and its open pan-genome may enhance its host range in the future.

摘要

是一种革兰氏阴性兼性厌氧杆状细菌，是系统性疾病“爱德华氏菌病”的病原体。它在水生生物中普遍存在，随后造成经济损失，因此引起了研究人员越来越多的关注。在本研究中，我们调查了从暹罗鳄幼体中分离出的高毒力菌株SC002的完整基因组序列。SC002的基因组由一条长度为3,662,469 bp、G+C含量为57.29%的环状染色体和四个新质粒组成。共预测到3,734个蛋白质编码基因、12个基因组岛（GIs）、7个原噬菌体、48个散布重复序列、248个串联重复序列、一个总长度为175 bp的CRISPR组件以及171个非编码RNA（tRNA = 106，sRNA = 37，rRNA = 28）。此外，已将组装基因组的编码基因成功注释到八个通用数据库（NR = 3,618/3,734，COG = 2,947/3,734，KEGG = 3,485/3,734，SWISS-PROT = 2,787/3,734，GO = 2,648/3,734，Pfam = 2,648/3,734，CAZy = 130/3,734，TCDB = 637/3,734）和四个与致病性相关的数据库（ARDB = 11/3,734，CARD = 142/3,734，PHI = 538/3,734，VFDB = 315/3,734）。对完整测序基因组的泛基因组和比较基因组分析证实了它们的进化关系。本研究证实，SC002是一种潜在病原体，携带大量抗生素抗性、毒力和致病基因，其开放的泛基因组可能会在未来扩大其宿主范围。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/9dad90994503/fvets-10-1140655-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/ea0099a94ff1/fvets-10-1140655-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/48ffd4ec9247/fvets-10-1140655-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/0a4ff574dd01/fvets-10-1140655-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/9dad90994503/fvets-10-1140655-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/ea0099a94ff1/fvets-10-1140655-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/48ffd4ec9247/fvets-10-1140655-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/0a4ff574dd01/fvets-10-1140655-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/317e/10034365/9dad90994503/fvets-10-1140655-g0004.jpg

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3
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4
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4
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