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Expanding the biotechnology potential of lactobacilli through comparative genomics of 213 strains and associated genera

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posted on 2022-08-23, 14:39 authored by Zhihong Sun, Hugh M. B. Harris, Angela McCann, Chenyi Guo, Silvia Argimon, Wenyi Zhang, Xianwei Yang, Ian B. Jeffrey, Jakki CooneyJakki Cooney, Todd F. Kagawa, Wenjun Liu, Yuqin Song, Elisa Salvetti, Agneszka Wrobel, Pia Rasinkangas, Julian Parkhill, Mary C. Rea, Orla O'Sullivan, Jarmo Ritari, Francois P. Douillard, Paul R. Ross, Ruifu Yang, Alexandra E. Briner, Giovanna E. Felis, Willem M. de Vos, Rodolphe Barrangou, Todd R. Klaenhammer, Page W. Caufield, Yujun Cui, Heping Zhang, Paul W. O'Toole
Lactobacilli are a diverse group of species that occupy diverse nutrient-rich niches associated with humans, animals, plants and food. They are used widely in biotechnology and food preservation, and are being explored as therapeutics. Exploiting lactobacilli has been complicated by metabolic diversity, unclear species identity and uncertain relationships between them and other commercially important lactic acid bacteria. The capacity for biotransformations catalysed by lactobacilli is an untapped biotechnology resource. Here we report the genome sequences of 213 Lactobacillus strains and associated genera, and their encoded genetic catalogue for modifying carbohydrates and proteins. In addition, we describe broad and diverse presence of novel CRISPR-Cas immune systems in lactobacilli that may be exploited for genome editing. We rationalize the phylogenomic distribution of host interaction factors and bacteriocins that affect their natural and industrial environments, and mechanisms to withstand stress during technological processes. We present a robust phylogenomic framework of existing species and for classifying new species.


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Nature Communications;6: 8322


Nature Publishing Group



Other Funding information

SFI, ERC, US National Institute of Dental and Craniofacial Research, National Natural Science Foundation of China, Academy of Finland



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