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PLoS Comput Biol. 2020 Nov 2;16(11):e1008214. doi: 10.1371/journal.pcbi.1008214. eCollection 2020 Nov.
2
NCBI Taxonomy: a comprehensive update on curation, resources and tools.NCBI 分类学:在管理、资源和工具方面的全面更新。
Database (Oxford). 2020 Jan 1;2020. doi: 10.1093/database/baaa062.
3
Apollo: Democratizing genome annotation.阿波罗:基因组注释的民主化。
PLoS Comput Biol. 2019 Feb 6;15(2):e1006790. doi: 10.1371/journal.pcbi.1006790. eCollection 2019 Feb.
4
Phage on Tap: A Quick and Efficient Protocol for the Preparation of Bacteriophage Laboratory Stocks.随时可用的噬菌体:一种快速高效制备噬菌体实验室储备液的方法。
Methods Mol Biol. 2018;1838:37-46. doi: 10.1007/978-1-4939-8682-8_4.
5
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.Galaxy 平台:用于可访问、可重复和协作的生物医学分析:2018 年更新。
Nucleic Acids Res. 2018 Jul 2;46(W1):W537-W544. doi: 10.1093/nar/gky379.
6
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation.美国国立生物技术信息中心的参考序列(RefSeq)数据库:当前状态、分类扩展及功能注释。
Nucleic Acids Res. 2016 Jan 4;44(D1):D733-45. doi: 10.1093/nar/gkv1189. Epub 2015 Nov 8.
7
A widespread bacteriophage abortive infection system functions through a Type IV toxin-antitoxin mechanism.一种广泛存在的噬菌体流产感染系统通过 IV 型毒素-抗毒素机制发挥作用。
Nucleic Acids Res. 2014 Apr;42(7):4590-605. doi: 10.1093/nar/gkt1419. Epub 2014 Jan 24.
8
Influence of medium components on the expression of recombinant lipoproteins in Escherichia coli.培养基成分对大肠杆菌中重组脂蛋白表达的影响。
Appl Microbiol Biotechnol. 2012 Feb;93(4):1539-52. doi: 10.1007/s00253-011-3516-8. Epub 2011 Aug 6.
9
The gp38 adhesins of the T4 superfamily: a complex modular determinant of the phage's host specificity.T4 超家族的 gp38 黏附素:噬菌体宿主特异性的复杂模块决定因素。
Genome Biol Evol. 2011;3:674-86. doi: 10.1093/gbe/evr059. Epub 2011 Jul 11.
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Lysis from without.外源性溶解
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噬菌体SV76的宿主范围及基因组特征

Phage SV76 Host Range and Genomic Characterization.

作者信息

Carmody Caitlin M, Farquharson Emma L, Nugen Sam R

机构信息

Department of Food Science, Cornell University, Ithaca, NY 14853, USA.

出版信息

Phage (New Rochelle). 2022 Mar;3(1):59-63. doi: 10.1089/phage.2022.0005. Epub 2022 Mar 18.

DOI:10.1089/phage.2022.0005
PMID:35495085
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9041521/
Abstract

BACKGROUND

Increasing the quantity and detail of bacteriophage genomic data is critical to broadening our understanding of how bacteriophages operate to allow us to harness their unique properties for biotechnology advancements. Here we present the complete sequence of phage SV76's assembled and annotated genome (Accession OM339528). SV76 has previously been classified as a T4-like bacteriophage belonging to the genus within the family of contractile tailed bacteriophages.

MATERIALS AND METHODS

Whole genome sequencing, assembly, and annotation was performed on SV76. Double-agar spot assays were utilized to determine SV76's host range against a panel of 72 isolates meant to represent the diversity of , as well as a series of knockouts designed to identify required receptor binding proteins. The genome and host range were compared to the closely related phage, T2.

RESULTS

Spot assays revealed that SV76 could plaque on 10 of the 72 strains (13.9 %) and nine of the nine K12 single gene knockout of known phage receptors (100%). SV76 did not plate on a indicating suggesting a requirement as a receptor binding protein.

CONCLUSIONS

SV76 is closely related to T2 with similar host ranges within ECOR. This study presents novel host range and genomic data on SV76 phage, providing a foundation for future studies to further characterize SV76 to understand more about SV76 and other T4-like phages that can be applied to create novel biotechnologies.

摘要

背景

增加噬菌体基因组数据的数量和细节对于拓宽我们对噬菌体如何运作的理解至关重要,这使我们能够利用其独特特性推动生物技术进步。在此,我们展示了噬菌体SV76组装和注释后的完整基因组序列(登录号OM339528)。SV76先前被归类为一种类T4噬菌体,属于收缩尾噬菌体科中的一个属。

材料与方法

对SV76进行了全基因组测序、组装和注释。利用双层琼脂斑点试验来确定SV76对一组72个分离株的宿主范围,这些分离株旨在代表[具体菌属]的多样性,以及一系列用于鉴定所需受体结合蛋白的基因敲除菌株。将该基因组和宿主范围与密切相关的噬菌体T2进行了比较。

结果

斑点试验表明,SV76能在72个菌株中的10个(13.9%)以及9个已知噬菌体受体的K12单基因敲除菌株中的9个(100%)上形成噬菌斑。SV76不能在[某菌株]上形成噬菌斑,表明[某蛋白]作为受体结合蛋白的必要性。

结论

SV76与T2密切相关,在大肠杆菌参考菌株(ECOR)中有相似的宿主范围。本研究展示了关于SV76噬菌体的新宿主范围和基因组数据,为未来进一步表征SV76以更深入了解SV76及其他可用于开发新型生物技术的类T4噬菌体的研究奠定了基础。