Phylogenomic analysis in Latilactobacillus sakei by using polymorphisms detected by next-generation sequencing.

IF 3.1 4区医学 Q2 Agricultural and Biological Sciences

Bioscience of Microbiota, Food and Health Pub Date : 2023-01-01 DOI:10.12938/bmfh.2022-017

Chisato Nishiyama, Suguru Sekiguchi, Yu Sugihara, Minami Nishikawa, Natsu Makita, Tenta Segawa, Momoka Terasaki, Hiroki Takagi, Takashi Koyanagi

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Abstract

Latilactobacillus sakei is a lactic acid bacterium used to produce a wide range of fermented food products. To understand their characteristics and adaptability to various nutrient sources, we applied strain-specific, nucleotide-concatenated (SSC) sequences to the phylogenetic analysis of 32 L. sakei strains isolated from various locations and products. SSC sequences were developed by concatenating the polymorphisms detected by whole-genome sequencing. This enabled us to use sufficient polymorphisms and avoid the bias caused by selecting partial sequences, such as that in core genome and multi-locus sequence typing. SSC sequence-based analysis revealed that the phylogenetic relations for L. sakei are based on the different nutrition sources rather than geographical distance.

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利用新一代测序检测的多态性分析酒井乳酸杆菌的系统基因组学。

酒井乳杆菌是一种乳酸菌，用于生产各种发酵食品。为了了解它们的特性和对各种营养来源的适应性，我们利用菌株特异性的核苷酸连接(SSC)序列对来自不同地点和产品的32株L. sakei菌株进行了系统发育分析。SSC序列由全基因组测序检测到的多态性串联而成。这使我们能够利用足够多的多态性，避免了因选择部分序列而造成的偏差，如核心基因组和多位点序列分型。基于SSC序列的分析结果表明，不同营养来源的sakei的系统发育关系与地理距离无关。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Bioscience of Microbiota, Food and Health Immunology and Microbiology-Applied Microbiology and Biotechnology

CiteScore

5.50

自引率

3.20%

发文量

期刊介绍： Bioscience of Microbiota, Food and Health (BMFH) is a peer-reviewed scientific journal with a specific area of focus: intestinal microbiota of human and animals, lactic acid bacteria (LAB) and food immunology and food function. BMFH contains Full papers, Notes, Reviews and Letters to the editor in all areas dealing with intestinal microbiota, LAB and food immunology and food function. BMFH takes a multidisciplinary approach and focuses on a broad spectrum of issues.