2. Academic Validation
  3. Identification, characterization, and phylogenetic analysis of eight new inducible prophages in Lactobacillus

Identification, characterization, and phylogenetic analysis of eight new inducible prophages in Lactobacillus

  • Virus Res. 2020 Sep;286:198003. doi: 10.1016/j.virusres.2020.198003.
Zhangming Pei 1,  Faizan Ahmed Sadiq 1,  Xiao Han 1,  Jianxin Zhao 2,  Hao Zhang 2,  R Paul Ross 3,  Wenwei Lu 4,  Wei Chen 5
Affiliations

Affiliations

  • 1 State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi 214122, China.
  • 2 State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi 214122, China; International Joint Research Center for Probiotics & Gut Health, Jiangnan University, Wuxi, Jiangsu, China.
  • 3 International Joint Research Center for Probiotics & Gut Health, Jiangnan University, Wuxi, Jiangsu, China; APC Microbiome Ireland, University College Cork, Cork, Ireland.
  • 4 State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi 214122, China; National Engineering Research Center for Functional Food, Jiangnan University, Wuxi 214122, China.
  • 5 State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi 214122, China; National Engineering Research Center for Functional Food, Jiangnan University, Wuxi 214122, China; International Joint Research Center for Probiotics & Gut Health, Jiangnan University, Wuxi, Jiangsu, China; Beijing Innovation Centre of Food Nutrition and Human Health, Beijing Technology and Business University (BTBU), Beijing 100048, China. Electronic address: chenwei66@jiangnan.edu.cn.
PMID: 32450182 DOI: 10.1016/j.virusres.2020.198003
Abstract

Lysogenic Bacterial strains abound in the Lactobacillus genus and contain dormant prophages inserted within their genomes. To evaluate the prophage-induction potential of the Lactobacillus strains of six species, 142 randomly selected strains from these species were induced with Mitomycin C. Eight newly-induced phages were identified and found to be diverse in morphology. Among the six species assessed, Lactobacillus plantarum and Lactobacillus rhamnosus strains were generally insensitive to induction. The genomic characterizations of eight phages were performed via whole genome sequencing and protein prediction. Meanwhile, genome comparison of the induced phages and predicted prophages demonstrated that the prediction software PHASTER can accurately locate major prophage regions in Lactobacillus. A phylogenetic tree of the Lactobacillus phage population was constructed to obtain further insights into the clustering of individuals, two major groups were found, one of which consisted mostly of L. plantarum virulent phages, the other was represented by Lactobacillus casei/paracasei temperate phages. Finally, it was confirmed via genomic collinear analysis, which seven of the eight Lactobacillus temperate phages were newly discovered, and two Lactobacillus brevis temperate phages belonged to a novel lineage.

Keywords

Lactobacillus; induction; new lineage; phylogenetic analysis; prophage; temperate phage.

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