Comparative Genome Analysis of Lactobacillus reuteri and Lactobacillus fermentum Reveal a Genomic Island for Reuterin and Cobalamin Production

Morita, Hidetoshi; Toh, Hidehiro; Fukuda, Shinji; Horikawa, Hiroshi; Oshima, Kenshiro; Suzuki, Takehito; Murakami, Masaru; Hisamatsu, Shin; Kato, Yukio; Takizawa, Tatsuya; Fukuoka, Hideo; Yoshimura, Tetsuhiko; Itoh, Kikuji; O'Sullivan, Daniel J.; McKay, Larry L.; Ohno, Hiroshi; Kikuchi, Jun; Masaoka, Toshio; Hattori, Masahira

doi:10.1093/dnares/dsn009

Title: Comparative Genome Analysis of Lactobacillus reuteri and Lactobacillus fermentum Reveal a Genomic Island for Reuterin and Cobalamin Production

Journal Article · Fri May 16 00:00:00 EDT 2008 · DNA Research

DOI:https://doi.org/10.1093/dnares/dsn009· OSTI ID:1625312

Morita, Hidetoshi ^[1]; Toh, Hidehiro ^[2]; Fukuda, Shinji ^[3]; Horikawa, Hiroshi ^[1]; Oshima, Kenshiro ^[4]; Suzuki, Takehito ^[1]; Murakami, Masaru ^[1]; Hisamatsu, Shin ^[5]; Kato, Yukio ^[1]; Takizawa, Tatsuya ^[1]; Fukuoka, Hideo ^[1]; Yoshimura, Tetsuhiko ^[6]; Itoh, Kikuji ^[7]; O'Sullivan, Daniel J. ^[8]; McKay, Larry L. ^[8]; Ohno, Hiroshi ^[3]; Kikuchi, Jun ^[9]; Masaoka, Toshio ^[1]; Hattori, Masahira ^[10]

Azabu Univ., Sagamihara (Japan). School of Veterinary Medicine
RIKEN Genomic Sciences Center, Yokohama (Japan); Kitasato Univ., Sagamihara (Japan). Kitasato Inst. for Life Sciences
RIKEN Research Center for Allergy and Immunology, Yokohama (Japan); Yokohama City Univ., Yokohama (Japan). International Graduate School of Arts and Sciences
Kitasato Univ., Sagamihara (Japan). Kitasato Inst. for Life Sciences
Azabu Univ., Sagamihara (Japan). College of Environmental Health
Yamagata Promotional Organization for Industrial Technology, Yamagata (Japan)
Univ. of Tokyo (Japan). Graduate School of Agricultural and Life Sciences
Univ. of Minnesota, St.Paul, MN (United States). Dept. of Food Science and Nutrition
Yokohama City Univ., Yokohama (Japan). International Graduate School of Arts and Sciences; RIKEN Plant Science Center, Yokohama (Japan); Nagoya Univ. (Japan). Graduate School of Frontier Sciences
RIKEN Genomic Sciences Center, Yokohama (Japan); Univ. of Tokyo (Japan). Graduate School of Frontier Sciences

Lactobacillus reuteri is a heterofermentative lactic acid bacterium that naturally inhabits the gut of humans and other animals. The probiotic effects of L. reuteri have been proposed to be largely associated with the production of the broad-spectrum antimicrobial compound reuterin during anaerobic metabolism of glycerol. We determined the complete genome sequences of the reuterin-producing L. reuteri JCM 1112T and its closely related species Lactobacillus fermentum IFO 3956. Both are in the same phylogenetic group within the genus Lactobacillus. Comparative genome analysis revealed that L. reuteri JCM 1112T has a unique cluster of 58 genes for the biosynthesis of reuterin and cobalamin (vitamin B12). The 58-gene cluster has a lower GC content and is apparently inserted into the conserved region, suggesting that the cluster represents a genomic island acquired from an anomalous source. Two-dimensional nuclear magnetic resonance (2D-NMR) with 13C3-glycerol demonstrated that L. reuteri JCM 1112T could convert glycerol to reuterin in vivo, substantiating the potential of L. reuteri JCM 1112T to produce reuterin in the intestine. Given that glycerol is shown to be naturally present in feces, the acquired ability to produce reuterin and cobalamin is an adaptive evolutionary response that likely contributes to the probiotic properties of L. reuteri.

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Research Organization:: Azabu Univ., Sagamihara (Japan)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division; Ministry of Education, Culture, Sports, Science and Technology of Japan

Grant/Contract Number:: 18580275; 17020007; 17710191

OSTI ID:: 1625312

Journal Information:: DNA Research, Vol. 15, Issue 3; ISSN 1340-2838

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

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Uneven distribution of cobamide biosynthesis and dependence in bacteria predicted by comparative genomics Shelton, Amanda N.; Seth, Erica C.; Mok, Kenny C. The ISME Journal, Vol. 13, Issue 3 https://doi.org/10.1038/s41396-018-0304-9	journal	November 2018
Core Fluxome and Metafluxome of Lactic Acid Bacteria under Simulated Cocoa Pulp Fermentation Conditions Adler, Philipp; Bolten, Christoph Josef; Dohnt, Katrin Applied and Environmental Microbiology, Vol. 79, Issue 18 https://doi.org/10.1128/aem.01483-13	journal	September 2013
The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation Engels, Christina; Ruscheweyh, Hans-Joachim; Beerenwinkel, Niko Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.00713	journal	May 2016
Host-microbial symbiosis in the vertebrate gastrointestinal tract and the Lactobacillus reuteri paradigm Walter, J.; Britton, R. A.; Roos, S. Proceedings of the National Academy of Sciences, Vol. 108, Issue Supplement_1 https://doi.org/10.1073/pnas.1000099107	journal	June 2010
Genomic Analysis by Deep Sequencing of the Probiotic Lactobacillus brevis KB290 Harboring Nine Plasmids Reveals Genomic Stability Fukao, Masanori; Oshima, Kenshiro; Morita, Hidetoshi PLoS ONE, Vol. 8, Issue 3 https://doi.org/10.1371/journal.pone.0060521	journal	March 2013
An integrated process for the production of 1,3-propanediol, lactate and 3-hydroxypropionic acid by an engineered Lactobacillus reuteri Suppuram, Pandiaraj; Ramakrishnan, Gopi Gopal; Subramanian, Ramalingam Bioscience, Biotechnology, and Biochemistry, Vol. 83, Issue 4 https://doi.org/10.1080/09168451.2018.1559720	journal	April 2019
Reuterin Demonstrates Potent Antimicrobial Activity Against a Broad Panel of Human and Poultry Meat Campylobacter spp. Isolates Asare, Paul Tetteh; Zurfluh, Katrin; Greppi, Anna Microorganisms, Vol. 8, Issue 1 https://doi.org/10.3390/microorganisms8010078	journal	January 2020
Probiotic attributes of Lactobacillus fermentum isolated from human feces and dairy products Archer, Ann Catherine; Halami, Prakash M. Applied Microbiology and Biotechnology, Vol. 99, Issue 19 https://doi.org/10.1007/s00253-015-6679-x	journal	May 2015
Host Specific Diversity in Lactobacillus johnsonii as Evidenced by a Major Chromosomal Inversion and Phage Resistance Mechanisms Guinane, Caitriona M.; Kent, Robert M.; Norberg, Sarah PLoS ONE, Vol. 6, Issue 4 https://doi.org/10.1371/journal.pone.0018740	journal	April 2011
Probiotics genomics: Genomics update Siezen, Roland J.; Wilson, Greer Microbial Biotechnology, Vol. 3, Issue 1 https://doi.org/10.1111/j.1751-7915.2009.00159.x	journal	December 2009
Comparative genomics of lactic acid bacteria reveals a niche-specific gene set O'Sullivan, Orla; O'Callaghan, John; Sangrador-Vegas, Amaia BMC Microbiology, Vol. 9, Issue 1 https://doi.org/10.1186/1471-2180-9-50	journal	March 2009

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