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Population genomics of Lacticaseibacillus paracasei: pan-genome, integrated prophage, antibiotic resistance, and carbohydrate utilization

  • Published:2023-08-17 Issue:10 Volume:39 Page:
  • ISSN:0959-3993
  • Container-title:World Journal of Microbiology and Biotechnology
  • language:en
  • Short-container-title:World J Microbiol Biotechnol

Author:

Pei Zhangming,Li Xiaoshu,Cui Shumao,Yang Bo,Lu Wenwei,Zhao Jianxin,Mao Bingyong,Chen Wei

Funder

National Natural Science Foundation of China

Collaborative Innovationcenter of Food Safety and Quality Control in Jiangsu Province

Key Technologies Research and Development Program

Publisher

Springer Science and Business Media LLC

Subject

Applied Microbiology and Biotechnology,General Medicine,Physiology,Biotechnology

Reference59 articles.

1. Abby SS, Neron B, Menager H, Touchon M, Rocha EP (2014) MacSyFinder: a program to mine genomes for molecular systems with an application to CRISPR-Cas systems. PLoS ONE 9:e110726. https://doi.org/10.1371/journalpone0110726

2. Alcock BP, Raphenya AR, Lau TTY, Tsang KK, Bouchard M, Edalatmand A, Huynh W, Nguyen AV, Cheng AA, Liu S, Min SY, Miroshnichenko A, Tran HK, Werfalli RE, Nasir JA, Oloni M, Speicher DJ, Florescu A, Singh B, Faltyn M, Hernandez-Koutoucheva A, Sharma AN, Bordeleau E, Pawlowski AC, Zubyk HL, Dooley D, Griffiths E, Maguire F, Winsor GL, Beiko RG, Brinkman FSL, Hsiao WWL, Domselaar GV, McArthur AG (2020) CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database. Nucleic Acids Res 48:D517–D525. https://doi.org/10.1093/nar/gkz935

3. Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, Wishart DS (2016) PHASTER: a better faster version of the PHAST phage search tool. Nucleic Acids Res 44:W16-21. https://doi.org/10.1093/nar/gkw387

4. Arndt D, Marcu A, Liang Y, Wishart DS (2019) PHAST, PHASTER, and PHASTEST: tools for finding prophage in bacterial genomes. Briefings Bioinf 20:1560–1567. https://doi.org/10.1093/bib/bbx121

5. Aronsson L, Huang Y, Parini P, Korach-André M, Håkansson J, Gustafsson J, Pettersson S, Arulampalam V, Rafter J (2010) Decreased fat storage by Lactobacillus paracasei is associated with increased levels of angiopoietin-like 4 protein (ANGPTL4). PLoS ONE 5:e13087. https://doi.org/10.1371/journalpone0013087

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