Comparative genomics of the lactic acid bacteria

K. Makarova, A. Slesarev, Y. Wolf, A. Sorokin, B. Mirkin, E. Koonin, A. Pavlov, N. Pavlova, V. Karamychev, M. Polouchine, V. Shakhova, I. Grigoriev, Y. Lou, D. Rohksar, S. Lucas, K. Huang, D. M. Goodstein, T. Hawkins, V. Plengvidhya, D. WelkerJ. Hughes, Y. Goh, A. Benson, K. Baldwin, J. H. Lee, I. Díaz-Muñiz, B. Dosti, V. Smeianov, W. Wechter, R. Barabote, G. Lorca, E. Altermann, R. Barrangou, B. Ganesan, Y. Xie, H. Rawsthorne, D. Tamir, C. Parker, F. Breidt, J. Broadbent, R. Hutkins, D. O'Sullivan, J. Steele, G. Unlu, M. Saier, T. Klaenhammer, P. Richardson, S. Kozyavkin, B. Weimer, D. Mills

Research output: Contribution to journalArticle

850 Citations (Scopus)

Abstract

Lactic acid-producing bacteria are associated with various plant and animal niches and play a key role in the production of fermented foods and beverages. We report nine genome sequences representing the phylogenetic and functional diversity of these bacteria. The small genomes of lactic acid bacteria encode a broad repertoire of transporters for efficient carbon and nitrogen acquisition from the nutritionally rich environments they inhabit and reflect a limited range of biosynthetic capabilities that indicate both prototrophic and auxotrophic strains. Phylogenetic analyses, comparison of gene content across the group, and reconstruction of ancestral gene sets indicate a combination of extensive gene loss and key gene acquisitions via horizontal gene transfer during the coevolution of lactic acid bacteria with their habitats.

Original languageEnglish (US)
Pages (from-to)15611-15616
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume103
Issue number42
DOIs
StatePublished - Oct 17 2006

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Genomics
Lactic Acid
Bacteria
Genes
Genome
Food and Beverages
Horizontal Gene Transfer
Ecosystem
Nitrogen
Carbon

Keywords

  • Evolutionary genomics
  • Fermentation

ASJC Scopus subject areas

  • General

Cite this

Makarova, K., Slesarev, A., Wolf, Y., Sorokin, A., Mirkin, B., Koonin, E., ... Mills, D. (2006). Comparative genomics of the lactic acid bacteria. Proceedings of the National Academy of Sciences of the United States of America, 103(42), 15611-15616. https://doi.org/10.1073/pnas.0607117103

Comparative genomics of the lactic acid bacteria. / Makarova, K.; Slesarev, A.; Wolf, Y.; Sorokin, A.; Mirkin, B.; Koonin, E.; Pavlov, A.; Pavlova, N.; Karamychev, V.; Polouchine, M.; Shakhova, V.; Grigoriev, I.; Lou, Y.; Rohksar, D.; Lucas, S.; Huang, K.; Goodstein, D. M.; Hawkins, T.; Plengvidhya, V.; Welker, D.; Hughes, J.; Goh, Y.; Benson, A.; Baldwin, K.; Lee, J. H.; Díaz-Muñiz, I.; Dosti, B.; Smeianov, V.; Wechter, W.; Barabote, R.; Lorca, G.; Altermann, E.; Barrangou, R.; Ganesan, B.; Xie, Y.; Rawsthorne, H.; Tamir, D.; Parker, C.; Breidt, F.; Broadbent, J.; Hutkins, R.; O'Sullivan, D.; Steele, J.; Unlu, G.; Saier, M.; Klaenhammer, T.; Richardson, P.; Kozyavkin, S.; Weimer, B.; Mills, D.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 103, No. 42, 17.10.2006, p. 15611-15616.

Research output: Contribution to journalArticle

Makarova, K, Slesarev, A, Wolf, Y, Sorokin, A, Mirkin, B, Koonin, E, Pavlov, A, Pavlova, N, Karamychev, V, Polouchine, M, Shakhova, V, Grigoriev, I, Lou, Y, Rohksar, D, Lucas, S, Huang, K, Goodstein, DM, Hawkins, T, Plengvidhya, V, Welker, D, Hughes, J, Goh, Y, Benson, A, Baldwin, K, Lee, JH, Díaz-Muñiz, I, Dosti, B, Smeianov, V, Wechter, W, Barabote, R, Lorca, G, Altermann, E, Barrangou, R, Ganesan, B, Xie, Y, Rawsthorne, H, Tamir, D, Parker, C, Breidt, F, Broadbent, J, Hutkins, R, O'Sullivan, D, Steele, J, Unlu, G, Saier, M, Klaenhammer, T, Richardson, P, Kozyavkin, S, Weimer, B & Mills, D 2006, 'Comparative genomics of the lactic acid bacteria', Proceedings of the National Academy of Sciences of the United States of America, vol. 103, no. 42, pp. 15611-15616. https://doi.org/10.1073/pnas.0607117103
Makarova, K. ; Slesarev, A. ; Wolf, Y. ; Sorokin, A. ; Mirkin, B. ; Koonin, E. ; Pavlov, A. ; Pavlova, N. ; Karamychev, V. ; Polouchine, M. ; Shakhova, V. ; Grigoriev, I. ; Lou, Y. ; Rohksar, D. ; Lucas, S. ; Huang, K. ; Goodstein, D. M. ; Hawkins, T. ; Plengvidhya, V. ; Welker, D. ; Hughes, J. ; Goh, Y. ; Benson, A. ; Baldwin, K. ; Lee, J. H. ; Díaz-Muñiz, I. ; Dosti, B. ; Smeianov, V. ; Wechter, W. ; Barabote, R. ; Lorca, G. ; Altermann, E. ; Barrangou, R. ; Ganesan, B. ; Xie, Y. ; Rawsthorne, H. ; Tamir, D. ; Parker, C. ; Breidt, F. ; Broadbent, J. ; Hutkins, R. ; O'Sullivan, D. ; Steele, J. ; Unlu, G. ; Saier, M. ; Klaenhammer, T. ; Richardson, P. ; Kozyavkin, S. ; Weimer, B. ; Mills, D. / Comparative genomics of the lactic acid bacteria. In: Proceedings of the National Academy of Sciences of the United States of America. 2006 ; Vol. 103, No. 42. pp. 15611-15616.
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AU - Slesarev, A.

AU - Wolf, Y.

AU - Sorokin, A.

AU - Mirkin, B.

AU - Koonin, E.

AU - Pavlov, A.

AU - Pavlova, N.

AU - Karamychev, V.

AU - Polouchine, M.

AU - Shakhova, V.

AU - Grigoriev, I.

AU - Lou, Y.

AU - Rohksar, D.

AU - Lucas, S.

AU - Huang, K.

AU - Goodstein, D. M.

AU - Hawkins, T.

AU - Plengvidhya, V.

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AU - Goh, Y.

AU - Benson, A.

AU - Baldwin, K.

AU - Lee, J. H.

AU - Díaz-Muñiz, I.

AU - Dosti, B.

AU - Smeianov, V.

AU - Wechter, W.

AU - Barabote, R.

AU - Lorca, G.

AU - Altermann, E.

AU - Barrangou, R.

AU - Ganesan, B.

AU - Xie, Y.

AU - Rawsthorne, H.

AU - Tamir, D.

AU - Parker, C.

AU - Breidt, F.

AU - Broadbent, J.

AU - Hutkins, R.

AU - O'Sullivan, D.

AU - Steele, J.

AU - Unlu, G.

AU - Saier, M.

AU - Klaenhammer, T.

AU - Richardson, P.

AU - Kozyavkin, S.

AU - Weimer, B.

AU - Mills, D.

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