Cited by 57Probiotics and Fermented FoodsGenomics and Phylogenetic StudiesBacterial Genetics and Biotechnology

Comparative genome analysis of the Lactobacillus brevis species

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Feyereisen, Marine, Mahony, Jennifer, Kelleher, Philip, Roberts, Richard John, O’Sullivan, Tadhg, Geertman, Jan-Maarten A., van Sinderen, Douwe·2019·BMC Genomics

Abstract

BACKGROUND: Lactobacillus brevis is a member of the lactic acid bacteria (LAB), and strains of L. brevis have been isolated from silage, as well as from fermented cabbage and other fermented foods. However, this bacterium is also commonly associated with bacterial spoilage of beer. RESULTS: In the current study, complete genome sequences of six isolated L. brevis strains were determined. Five of these L. brevis strains were isolated from beer (three isolates) or the brewing environment (two isolates), and were characterized as beer-spoilers or non-beer spoilers, respectively, while the sixth isolate had previously been isolated from silage. The genomic features of 19 L. brevis strains, encompassing the six L. brevis strains described in this study and thirteen L. brevis strains for which complete genome sequences were available in public databases, were analyzed with particular attention to evolutionary aspects and adaptation to beer. CONCLUSIONS: Comparative genomic analysis highlighted evolution of the taxon allowing niche colonization, notably adaptation to the beer environment, with approximately 50 chromosomal genes acquired by L. brevis beer-spoiler strains representing approximately 2% of their total chromosomal genetic content. These genes primarily encode proteins that are putatively involved in oxidation-reduction reactions, transcription regulation or membrane transport, functions that may be crucial to survive the harsh conditions associated with beer. The study emphasized the role of plasmids in beer spoilage with a number of unique genes identified among L. brevis beer-spoiler strains.

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  • Siphoviridae and Myoviridae are prophages frequently detected in L. brevis genomes.

    “Siphoviridae and Myoviridae are prophages frequently detected in L. brevis genomes [74].”

    From Bile Salt Hydrolase Activity in the Food-Derived Strain Levilactobacillus brevis M3R3: Genomic and Functional Characterization (2026) · cites this paper as [74]

    The Results and discussion section, “The predicted mobilome of L. brevis” (page unavailable), reports various predicted prophage regions in L. brevis genomes, most resembling phage LBR48. The References identify LBR48 as a Myoviridae phage, but our copy does not identify Siphoviridae among the detected prophages or establish that both families are frequently detected. (LLM, conf=0.84)

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Research works printed but not linked: 3

  1. [1]Vos, P., G. Garrity, D. Jones, N.R. Krieg, W. Ludwig, F.A. Rainey, K.-H. Schleifer, and W. Whitman, Bergey's manual of systematic bacteriology: volume 3: the Firmicutes. 2011. 3: p. 464–511.
  2. [37]Fraunhofer ME Geissler AJ Wefers D Bunzel M Jakob F Vogel RF Characterization of β-glucan formation by Lactobacillus brevis TMW 1.2112 isolated from slimy spoiled beer Int J Biol Macromol 2018 107 874 881 10.1016/j.ijbiomac.2017.09.063 28939514 · DOI
  3. [49]Fukao M Oshima K Morita H Toh H Suda W Kim S-W Suzuki S Yakabe T Hattori M Yajima N Genomic analysis by deep sequencing of the probiotic Lactobacillus brevis KB290 harboring nine plasmids reveals genomic stability PLoS One 2013 8 3 e60521 10.1371/journal.pone.0060521 23544154 PMC3609814 · DOI

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Authors
Feyereisen, M., Mahony, J., Kelleher, P., Roberts, R. J., O’Sullivan, T., Geertman, J.-M. A., & van Sinderen, D.
Affiliations
  • University College Cork (IE)
  • New England Biolabs (United States) (US)
  • Heineken (Netherlands) (NL)
Venue
BMC Genomics
Published
2019-05-23
Volume
20
Issue
1
Pages
416-416
ISSN
1471-2164 (ISSN-L)
OpenAlex
W2947179372
Cited by
57
References
50
Citations by year
2026: 5 · 2025: 9 · 2024: 11 · 2023: 9 · 2022: 6 · 2021: 3 · 2020: 11 · 2019: 3
FWCI
4.44
Type
journal article
Language
en
Open access
Locations
  • BMC Genomics (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • Arrow@dit (Dublin Institute of Technology) (acceptedVersion)
  • Cork Open Research Archive (University College Cork, Ireland) (submittedVersion, cc-by)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Funders
  • Irish Research Council (EPSPG/2015/7)
  • Science Foundation Ireland (450 13/IA/1953, 15/SIRG/3430)
Topics
  • Life Sciences › Agricultural and Biological Sciences › Food Science › Probiotics and Fermented Foods
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
Keywords
Lactobacillus brevis, beer spoilage, comparative genomics, lactic acid bacteria, niche adaptation, gene acquisition, plasmids, silage, fermented foods, transcriptional regulation, membrane transport genes
MeSH terms
Beer, Genes, Bacterial, Phylogeny, Plasmids, Genome, Bacterial, Evolution, Molecular, Levilactobacillus brevis

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