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从孟加拉国虾中分离出的形成生物膜的BAU_Ef01菌株的基因组序列草图。

Draft genome sequence of biofilm-forming BAU_Ef01 strain isolated from shrimp () in Bangladesh.

作者信息

Ullah Md Ashek, Islam Md Saiful, Rana Md Liton, Ferdous Farhana Binte, Neloy Fahim Haque, Punom Sadia Afrin, Hassan Jayedul, Rahman Md Tanvir

机构信息

Department of Microbiology and Hygiene, Faculty of Veterinary Science, Bangladesh Agricultural University , Mymensingh, Bangladesh.

出版信息

Microbiol Resour Announc. 2023 Sep 19;12(9):e0055123. doi: 10.1128/MRA.00551-23. Epub 2023 Aug 18.

DOI:10.1128/MRA.00551-23
PMID:37594291
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10508126/
Abstract

Here, we sequence and analyze a biofilm-forming strain of BAU_Ef01 isolated from a shrimp in Bangladesh. The whole genome of the strain had a length of 2,862,301 bp, 38 contigs, an average G+C content of 37.36%, 80.0× genome coverage, and 35 predicted antibiotic resistance and virulence genes each.

摘要

在此，我们对从孟加拉国一只虾中分离出的BAU_Ef01生物膜形成菌株进行了测序和分析。该菌株的全基因组长度为2,862,301 bp，有38个重叠群，平均G+C含量为37.36%，基因组覆盖率为80.0×，并且分别预测有35个抗生素抗性基因和35个毒力基因。

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本文引用的文献

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Phenotypic and Genotypic Detection of Biofilm-Forming from Different Food Sources in Bangladesh.孟加拉国不同食物来源生物膜形成的表型和基因型检测
Biology (Basel). 2022 Jun 22;11(7):949. doi: 10.3390/biology11070949.
2
Molecular characterization and antimicrobial resistance of Enterococcus faecalis isolated from seafood samples.从海鲜样本中分离的屎肠球菌的分子特征及抗菌药物耐药性。
Vet Med Sci. 2022 May;8(3):1104-1112. doi: 10.1002/vms3.761. Epub 2022 Feb 13.
3
ResFinder - an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes.ResFinder-一个用于鉴定下一代测序数据中抗菌药物耐药基因和从基因型预测表型的开放在线资源。
Microb Genom. 2022 Jan;8(1). doi: 10.1099/mgen.0.000748.
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VFDB 2022: a general classification scheme for bacterial virulence factors.VFDB 2022：细菌毒力因子的通用分类方案。
Nucleic Acids Res. 2022 Jan 7;50(D1):D912-D917. doi: 10.1093/nar/gkab1107.
5
AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence.AMRFinderPlus 和参考基因目录有助于研究抗生素耐药性、应激反应和毒力之间的基因组联系。
Sci Rep. 2021 Jun 16;11(1):12728. doi: 10.1038/s41598-021-91456-0.
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CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database.CARD 2020：利用综合抗生素耐药数据库进行抗生素耐药组监测。
Nucleic Acids Res. 2020 Jan 8;48(D1):D517-D525. doi: 10.1093/nar/gkz935.
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Victors: a web-based knowledge base of virulence factors in human and animal pathogens.胜利者：一个基于网络的人类和动物病原体毒力因子知识库。
Nucleic Acids Res. 2019 Jan 8;47(D1):D693-D700. doi: 10.1093/nar/gky999.
8
Biofilm formation in enterococci: genotype-phenotype correlations and inhibition by vancomycin.肠球菌生物膜形成：基因型-表型相关性及万古霉素抑制作用。
Sci Rep. 2017 Jul 18;7(1):5733. doi: 10.1038/s41598-017-05901-0.
9
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads.单轮循环器：从短读长和长读长测序数据中解析细菌基因组组装结果
PLoS Comput Biol. 2017 Jun 8;13(6):e1005595. doi: 10.1371/journal.pcbi.1005595. eCollection 2017 Jun.
10
NCBI prokaryotic genome annotation pipeline.美国国立生物技术信息中心原核生物基因组注释管道
Nucleic Acids Res. 2016 Aug 19;44(14):6614-24. doi: 10.1093/nar/gkw569. Epub 2016 Jun 24.