Journal
NATURE COMMUNICATIONS
Volume 6, Issue -, Pages -Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/ncomms9322
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Funding
- US National Institute of Dental and Craniofacial Research [R01DE019455]
- Science Foundation Ireland [07-IN.1-B1780]
- Centre award to the Alimentary Pharmabiotic Centre [SFI/12/RC/2273]
- National Natural Science Foundation of China [31430066]
- Beijing by the State Key Development Program for Basic Research of China [2015CB554202]
- Academy of Finland [141140, 252123]
- European Research Council [250172]
- Science Foundation Ireland (SFI) [07/IN.1/B1780] Funding Source: Science Foundation Ireland (SFI)
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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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