Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363

Wegmann U, O'Connell-Motherwy M, Zomer A, Buist G, Shearman C, Canchaya C, Ventura M, Goesmann A, Gasson MJ, Kuipers OP, van Sinderen D, et al. (2007)
JOURNAL OF BACTERIOLOGY 189(8): 3256-3270.

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Wegmann, Udo; O'Connell-Motherwy, Mary; Zomer, Aldert; Buist, Girbe; Shearman, Claire; Canchaya, Carlos; Ventura, Marco; Goesmann, AlexanderUniBi ; Gasson, Michael J.; Kuipers, Oscar P.; van Sinderen, Douwe; Kok, Jan
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Wegmann U, O'Connell-Motherwy M, Zomer A, et al. Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363. JOURNAL OF BACTERIOLOGY. 2007;189(8):3256-3270.
Wegmann, U., O'Connell-Motherwy, M., Zomer, A., Buist, G., Shearman, C., Canchaya, C., Ventura, M., et al. (2007). Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363. JOURNAL OF BACTERIOLOGY, 189(8), 3256-3270.
Wegmann, Udo, O'Connell-Motherwy, Mary, Zomer, Aldert, Buist, Girbe, Shearman, Claire, Canchaya, Carlos, Ventura, Marco, et al. 2007. “Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363”. JOURNAL OF BACTERIOLOGY 189 (8): 3256-3270.
Wegmann, U., O'Connell-Motherwy, M., Zomer, A., Buist, G., Shearman, C., Canchaya, C., Ventura, M., Goesmann, A., Gasson, M. J., Kuipers, O. P., et al. (2007). Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363. JOURNAL OF BACTERIOLOGY 189, 3256-3270.
Wegmann, U., et al., 2007. Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363. JOURNAL OF BACTERIOLOGY, 189(8), p 3256-3270.
U. Wegmann, et al., “Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363”, JOURNAL OF BACTERIOLOGY, vol. 189, 2007, pp. 3256-3270.
Wegmann, U., O'Connell-Motherwy, M., Zomer, A., Buist, G., Shearman, C., Canchaya, C., Ventura, M., Goesmann, A., Gasson, M.J., Kuipers, O.P., van Sinderen, D., Kok, J.: Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363. JOURNAL OF BACTERIOLOGY. 189, 3256-3270 (2007).
Wegmann, Udo, O'Connell-Motherwy, Mary, Zomer, Aldert, Buist, Girbe, Shearman, Claire, Canchaya, Carlos, Ventura, Marco, Goesmann, Alexander, Gasson, Michael J., Kuipers, Oscar P., van Sinderen, Douwe, and Kok, Jan. “Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp cremoris MG1363”. JOURNAL OF BACTERIOLOGY 189.8 (2007): 3256-3270.

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The changing face of dairy starter culture research: From genomics to economics
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Comparative genomics of enzymes in flavor-forming pathways from amino acids in lactic acid bacteria.
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Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R; Gene Ontology Consortium., Nucleic Acids Res. 32(Database issue), 2004
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Conversion of Lactococcus lactis from homolactic to homoalanine fermentation through metabolic engineering.
Hols P, Kleerebezem M, Schanck AN, Ferain T, Hugenholtz J, Delcour J, de Vos WM., Nat. Biotechnol. 17(6), 1999
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Nisin-controlled production of pediocin PA-1 and colicin V in nisin- and non-nisin-producing Lactococcus lactis strains.
Horn N, Fernandez A, Dodd HM, Gasson MJ, Rodriguez JM., Appl. Environ. Microbiol. 70(8), 2004
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Transfer of conjugative plasmid pAM beta 1 from Lactococcus lactis to mouse intestinal bacteria.
Igimi S, Ryu CH, Park SH, Sasaki Y, Sasaki T, Kumagai S., Lett. Appl. Microbiol. 23(1), 1996
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The simultaneous biosynthesis and uptake of amino acids by Lactococcus lactis studied by (13)C-labeling experiments.
Jensen NB, Christensen B, Nielsen J, Villadsen J., Biotechnol. Bioeng. 78(1), 2002
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Minimal Requirements for Exponential Growth of Lactococcus lactis.
Jensen PR, Hammer K., Appl. Environ. Microbiol. 59(12), 1993
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The KEGG databases at GenomeNet.
Kanehisa M, Goto S, Kawashima S, Nakaya A., Nucleic Acids Res. 30(1), 2002
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Controlled gene expression systems for lactic acid bacteria: transferable nisin-inducible expression cassettes for Lactococcus, Leuconostoc, and Lactobacillus spp.
Kleerebezem M, Beerthuyzen MM, Vaughan EE, de Vos WM, Kuipers OP., Appl. Environ. Microbiol. 63(11), 1997
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Complete genome sequence of Lactobacillus plantarum WCFS1.
Kleerebezem M, Boekhorst J, van Kranenburg R, Molenaar D, Kuipers OP, Leer R, Tarchini R, Peters SA, Sandbrink HM, Fiers MW, Stiekema W, Lankhorst RM, Bron PA, Hoffer SM, Groot MN, Kerkhoven R, de Vries M, Ursing B, de Vos WM, Siezen RJ., Proc. Natl. Acad. Sci. U.S.A. 100(4), 2003
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To have neighbour's fare: extending the molecular toolbox for Streptococcus pneumoniae.
Kloosterman TG, Bijlsma JJ, Kok J, Kuipers OP., Microbiology (Reading, Engl.) 152(Pt 2), 2006
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Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.
Krogh A, Larsson B, von Heijne G, Sonnhammer EL., J. Mol. Biol. 305(3), 2001
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Plasmid transfer in the animal intestine and other dynamic bacterial populations: the role of community structure and environment.
Licht TR, Christensen BB, Krogfelt KA, Molin S., Microbiology (Reading, Engl.) 145 ( Pt 9)(), 1999
PMID: 10517615
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 N, 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, Diaz-Muniz 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., Proc. Natl. Acad. Sci. U.S.A. 103(42), 2006
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CDD: a Conserved Domain Database for protein classification.
Marchler-Bauer A, Anderson JB, Cherukuri PF, DeWeese-Scott C, Geer LY, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Marchler GH, Mullokandov M, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Yamashita RA, Yin JJ, Zhang D, Bryant SH., Nucleic Acids Res. 33(Database issue), 2005
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Development of joint application strategies for two microbial gene finders.
McHardy AC, Goesmann A, Puhler A, Meyer F., Bioinformatics 20(10), 2004
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SIGI: score-based identification of genomic islands.
Merkl R., BMC Bioinformatics 5(), 2004
PMID: 15113412
GenDB--an open source genome annotation system for prokaryote genomes.
Meyer F, Goesmann A, McHardy AC, Bartels D, Bekel T, Clausen J, Kalinowski J, Linke B, Rupp O, Giegerich R, Puhler A., Nucleic Acids Res. 31(8), 2003
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10 years of the nisin-controlled gene expression system (NICE) in Lactococcus lactis.
Mierau I, Kleerebezem M., Appl. Microbiol. Biotechnol. 68(6), 2005
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The InterPro Database, 2003 brings increased coverage and new features.
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Barrell D, Bateman A, Binns D, Biswas M, Bradley P, Bork P, Bucher P, Copley RR, Courcelle E, Das U, Durbin R, Falquet L, Fleischmann W, Griffiths-Jones S, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lopez R, Letunic I, Lonsdale D, Silventoinen V, Orchard SE, Pagni M, Peyruc D, Ponting CP, Selengut JD, Servant F, Sigrist CJ, Vaughan R, Zdobnov EM., Nucleic Acids Res. 31(1), 2003
PMID: 12520011


Respiration metabolism reduces oxidative and acid stress to improve long-term survival of Lactococcus lactis.
Rezaiki L, Cesselin B, Yamamoto Y, Vido K, van West E, Gaudu P, Gruss A., Mol. Microbiol. 53(5), 2004
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Microbial gene identification using interpolated Markov models.
Salzberg SL, Delcher AL, Kasif S, White O., Nucleic Acids Res. 26(2), 1998
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Two homologous oligopeptide binding protein genes (oppA) in Lactococcus lactis opp2 [corrected].
Sanz Y, Lanfermeijer FC, Hellendoorn M, Kok J, Konings WN, Poolman B., Int. J. Food Microbiol. 97(1), 2004
PMID: 15527913


Functional ingredient production: application of global metabolic models.
Smid EJ, Molenaar D, Hugenholtz J, de Vos WM, Teusink B., Curr. Opin. Biotechnol. 16(2), 2005
PMID: 15831386
The Staden package, 1998.
Staden R, Beal KF, Bonfield JK., Methods Mol. Biol. 132(), 2000
PMID: 10547834
Cell wall attachment of a widely distributed peptidoglycan binding domain is hindered by cell wall constituents.
Steen A, Buist G, Leenhouts KJ, El Khattabi M, Grijpstra F, Zomer AL, Venema G, Kuipers OP, Kok J., J. Biol. Chem. 278(26), 2003
PMID: 12684515
Treatment of murine colitis by Lactococcus lactis secreting interleukin-10.
Steidler L, Hans W, Schotte L, Neirynck S, Obermeier F, Falk W, Fiers W, Remaut E., Science 289(5483), 2000
PMID: 10958782
Biological containment of genetically modified Lactococcus lactis for intestinal delivery of human interleukin 10.
Steidler L, Neirynck S, Huyghebaert N, Snoeck V, Vermeire A, Goddeeris B, Cox E, Remon JP, Remaut E., Nat. Biotechnol. 21(7), 2003
PMID: 12808464

A probabilistic method for identifying start codons in bacterial genomes.
Suzek BE, Ermolaeva MD, Schreiber M, Salzberg SL., Bioinformatics 17(12), 2001
PMID: 11751220

Effects of cultivation conditions on folate production by lactic acid bacteria.
Sybesma W, Starrenburg M, Tijsseling L, Hoefnagel MH, Hugenholtz J., Appl. Environ. Microbiol. 69(8), 2003
PMID: 12902240
The COG database: an updated version includes eukaryotes.
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA., BMC Bioinformatics 4(), 2003
PMID: 12969510

Genetic and biochemical characterization of the oligopeptide transport system of Lactococcus lactis.
Tynkkynen S, Buist G, Kunji E, Kok J, Poolman B, Venema G, Haandrikman A., J. Bacteriol. 175(23), 1993
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Projector: automatic contig mapping for gap closure purposes.
van Hijum SA, Zomer AL, Kuipers OP, Kok J., Nucleic Acids Res. 31(22), 2003
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Natural diversity and adaptive responses of Lactococcus lactis.
van Hylckama Vlieg JE, Rademaker JL, Bachmann H, Molenaar D, Kelly WJ, Siezen RJ., Curr. Opin. Biotechnol. 17(2), 2006
PMID: 16517150
Flavour formation from amino acids by lactic acid bacteria: predictions from genome sequence analysis.
Kranenburg Rvan, Kleerebezem M, Hylckama Vlieg Jvan, Ursing BM, Boekhorst J, Smit BA, Ayad EHE, Smit G, Siezen RJ., Int. Dairy J. 12(2/3), 2002
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The complete genome sequence of Bacillus licheniformis DSM13, an organism with great industrial potential.
Veith B, Herzberg C, Steckel S, Feesche J, Maurer KH, Ehrenreich P, Baumer S, Henne A, Liesegang H, Merkl R, Ehrenreich A, Gottschalk G., J. Mol. Microbiol. Biotechnol. 7(4), 2004
PMID: 15383718
Proteome analyses of heme-dependent respiration in Lactococcus lactis: involvement of the proteolytic system.
Vido K, Le Bars D, Mistou MY, Anglade P, Gruss A, Gaudu P., J. Bacteriol. 186(6), 2004
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MvirDB--a microbial database of protein toxins, virulence factors and antibiotic resistance genes for bio-defence applications.
Zhou CE, Smith J, Lam M, Zemla A, Dyer MD, Slezak T., Nucleic Acids Res. 35(Database issue), 2006
PMID: 17090593

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