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Items: 47

1.

Population genomic footprints of environmental pollution pressure in natural populations of the Mediterranean mussel.

Ribeiro ÂM, Canchaya CA, Penaloza F, Galindo J, da Fonseca RR.

Mar Genomics. 2019 Jun;45:11-15. doi: 10.1016/j.margen.2018.10.009. Epub 2018 Nov 14.

PMID:
30447893
2.

Draft genome sequence of Bradyrhizobium paxllaeri LMTR 21T isolated from Lima bean (Phaseolus lunatus) in Peru.

Ormeño-Orrillo E, Rey L, Durán D, Canchaya CA, Rogel MA, Zúñiga-Dávila D, Imperial J, Ruiz-Argüeso T, Martínez-Romero E.

Genom Data. 2017 Jun 30;13:38-40. doi: 10.1016/j.gdata.2017.06.008. eCollection 2017 Sep.

3.

Genome sequence of Bradyrhizobium sp. LMTR 3, a diazotrophic symbiont of Lima bean (Phaseolus lunatus).

Ormeño-Orrillo E, Rey L, Durán D, Canchaya CA, Zúñiga-Dávila D, Imperial J, Martínez-Romero E, Ruiz-Argüeso T.

Genom Data. 2017 Jun 28;13:35-37. doi: 10.1016/j.gdata.2017.06.007. eCollection 2017 Sep.

4.

Genome of Rhizobium leucaenae strains CFN 299(T) and CPAO 29.8: searching for genes related to a successful symbiotic performance under stressful conditions.

Ormeño-Orrillo E, Gomes DF, Del Cerro P, Vasconcelos AT, Canchaya C, Almeida LG, Mercante FM, Ollero FJ, Megías M, Hungria M.

BMC Genomics. 2016 Aug 2;17:534. doi: 10.1186/s12864-016-2859-z.

5.

Correction: A First Insight into the Genome of the Filter-Feeder Mussel Mytilus galloprovincialis.

Murgarella M, Puiu D, Novoa B, Figueras A, Posada D, Canchaya C.

PLoS One. 2016 Jul 21;11(7):e0160081. doi: 10.1371/journal.pone.0160081. eCollection 2016.

6.

A First Insight into the Genome of the Filter-Feeder Mussel Mytilus galloprovincialis.

Murgarella M, Puiu D, Novoa B, Figueras A, Posada D, Canchaya C.

PLoS One. 2016 Mar 15;11(3):e0151561. doi: 10.1371/journal.pone.0151561. eCollection 2016. Erratum in: PLoS One. 2016;11(7):e0160081.

7.

RNA-Seq in Mytilus galloprovincialis: comparative transcriptomics and expression profiles among different tissues.

Moreira R, Pereiro P, Canchaya C, Posada D, Figueras A, Novoa B.

BMC Genomics. 2015 Sep 24;16:728. doi: 10.1186/s12864-015-1817-5.

8.

Mosaic-like sequences containing transposon, phage, and plasmid elements among Listeria monocytogenes plasmids.

Canchaya C, Giubellini V, Ventura M, de los Reyes-Gavilán CG, Margolles A.

Appl Environ Microbiol. 2010 Jul;76(14):4851-7. doi: 10.1128/AEM.02799-09. Epub 2010 May 28.

9.

Comparative genomics and proteomics of Helicobacter mustelae, an ulcerogenic and carcinogenic gastric pathogen.

O'Toole PW, Snelling WJ, Canchaya C, Forde BM, Hardie KR, Josenhans C, Graham RLj, McMullan G, Parkhill J, Belda E, Bentley SD.

BMC Genomics. 2010 Mar 10;11:164. doi: 10.1186/1471-2164-11-164.

10.

The Bifidobacterium dentium Bd1 genome sequence reflects its genetic adaptation to the human oral cavity.

Ventura M, Turroni F, Zomer A, Foroni E, Giubellini V, Bottacini F, Canchaya C, Claesson MJ, He F, Mantzourani M, Mulas L, Ferrarini A, Gao B, Delledonne M, Henrissat B, Coutinho P, Oggioni M, Gupta RS, Zhang Z, Beighton D, Fitzgerald GF, O'Toole PW, van Sinderen D.

PLoS Genet. 2009 Dec;5(12):e1000785. doi: 10.1371/journal.pgen.1000785. Epub 2009 Dec 24.

11.

Microbial diversity in the human intestine and novel insights from metagenomics.

Ventura M, Turroni F, Canchaya C, Vaughan EE, O'Toole PW, van Sinderen D.

Front Biosci (Landmark Ed). 2009 Jan 1;14:3214-21. Review.

PMID:
19273267
12.

Isolation of lactobacilli with probiotic properties from the human stomach.

Ryan KA, Jayaraman T, Daly P, Canchaya C, Curran S, Fang F, Quigley EM, O'Toole PW.

Lett Appl Microbiol. 2008 Oct;47(4):269-74.

PMID:
19241519
13.

Lactobacillus hordei sp. nov., a bacteriocinogenic strain isolated from malted barley.

Rouse S, Canchaya C, van Sinderen D.

Int J Syst Evol Microbiol. 2008 Sep;58(Pt 9):2013-7. doi: 10.1099/ijs.0.65584-0.

PMID:
18768596
14.

Comparative analyses of prophage-like elements present in two Lactococcus lactis strains.

Ventura M, Zomer A, Canchaya C, O'Connell-Motherway M, Kuipers O, Turroni F, Ribbera A, Foroni E, Buist G, Wegmann U, Shearman C, Gasson MJ, Fitzgerald GF, Kok J, van Sinderen D.

Appl Environ Microbiol. 2007 Dec;73(23):7771-80. Epub 2007 Oct 12.

15.

Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum.

Ventura M, Canchaya C, Tauch A, Chandra G, Fitzgerald GF, Chater KF, van Sinderen D.

Microbiol Mol Biol Rev. 2007 Sep;71(3):495-548. Review.

16.

GANNPhos: a new phosphorylation site predictor based on a genetic algorithm integrated neural network.

Tang YR, Chen YZ, Canchaya CA, Zhang Z.

Protein Eng Des Sel. 2007 Aug;20(8):405-12. Epub 2007 Jul 24.

PMID:
17652129
17.

Exploiting Bifidobacterium genomes: the molecular basis of stress response.

De Dea Lindner J, Canchaya C, Zhang Z, Neviani E, Fitzgerald GF, van Sinderen D, Ventura M.

Int J Food Microbiol. 2007 Nov 30;120(1-2):13-24. Epub 2007 Jun 14. Review.

PMID:
17629583
18.

Distribution of megaplasmids in Lactobacillus salivarius and other lactobacilli.

Li Y, Canchaya C, Fang F, Raftis E, Ryan KA, van Pijkeren JP, van Sinderen D, O'Toole PW.

J Bacteriol. 2007 Sep;189(17):6128-39. Epub 2007 Jun 22.

19.

Molecular characterization of hsp20, encoding a small heat shock protein of bifidobacterium breve UCC2003.

Ventura M, Canchaya C, Zhang Z, Fitzgerald GF, van Sinderen D.

Appl Environ Microbiol. 2007 Jul;73(14):4695-703. Epub 2007 May 18.

20.

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

Wegmann U, O'Connell-Motherway M, Zomer A, Buist G, Shearman C, Canchaya C, Ventura M, Goesmann A, Gasson MJ, Kuipers OP, van Sinderen D, Kok J.

J Bacteriol. 2007 Apr;189(8):3256-70. Epub 2007 Feb 16.

21.

Analysis of bifidobacterial evolution using a multilocus approach.

Ventura M, Canchaya C, Del Casale A, Dellaglio F, Neviani E, Fitzgerald GF, van Sinderen D.

Int J Syst Evol Microbiol. 2006 Dec;56(Pt 12):2783-92.

PMID:
17158978
22.

Diversity of the genus Lactobacillus revealed by comparative genomics of five species.

Canchaya C, Claesson MJ, Fitzgerald GF, van Sinderen D, O'Toole PW.

Microbiology. 2006 Nov;152(Pt 11):3185-96.

PMID:
17074890
23.

Genomics as a means to understand bacterial phylogeny and ecological adaptation: the case of bifidobacteria.

Ventura M, Canchaya C, Fitzgerald GF, Gupta RS, van Sinderen D.

Antonie Van Leeuwenhoek. 2007 May;91(4):351-72. Epub 2006 Oct 28. Review. Erratum in: Antonie Van Leeuwenhoek. 2007 Aug;92(2):265.

PMID:
17072531
24.

Polyphasic analysis indicates that Lactobacillus salivarius subsp. salivarius and Lactobacillus salivarius subsp. salicinius do not merit separate subspecies status.

Li Y, Raftis E, Canchaya C, Fitzgerald GF, van Sinderen D, O'Toole PW.

Int J Syst Evol Microbiol. 2006 Oct;56(Pt 10):2397-403.

PMID:
17012569
25.

How high G+C Gram-positive bacteria and in particular bifidobacteria cope with heat stress: protein players and regulators.

Ventura M, Canchaya C, Zhang Z, Bernini V, Fitzgerald GF, van Sinderen D.

FEMS Microbiol Rev. 2006 Sep;30(5):734-59. Review.

26.

Sequence and comparative genomic analysis of lactococcal bacteriophages jj50, 712 and P008: evolutionary insights into the 936 phage species.

Mahony J, Deveau H, Mc Grath S, Ventura M, Canchaya C, Moineau S, Fitzgerald GF, van Sinderen D.

FEMS Microbiol Lett. 2006 Aug;261(2):253-61.

27.

Comparative and functional analysis of sortase-dependent proteins in the predicted secretome of Lactobacillus salivarius UCC118.

van Pijkeren JP, Canchaya C, Ryan KA, Li Y, Claesson MJ, Sheil B, Steidler L, O'Mahony L, Fitzgerald GF, van Sinderen D, O'Toole PW.

Appl Environ Microbiol. 2006 Jun;72(6):4143-53.

28.

Comparative genomics and transcriptional analysis of prophages identified in the genomes of Lactobacillus gasseri, Lactobacillus salivarius, and Lactobacillus casei.

Ventura M, Canchaya C, Bernini V, Altermann E, Barrangou R, McGrath S, Claesson MJ, Li Y, Leahy S, Walker CD, Zink R, Neviani E, Steele J, Broadbent J, Klaenhammer TR, Fitzgerald GF, O'toole PW, van Sinderen D.

Appl Environ Microbiol. 2006 May;72(5):3130-46.

29.

Multireplicon genome architecture of Lactobacillus salivarius.

Claesson MJ, Li Y, Leahy S, Canchaya C, van Pijkeren JP, Cerdeño-Tárraga AM, Parkhill J, Flynn S, O'Sullivan GC, Collins JK, Higgins D, Shanahan F, Fitzgerald GF, van Sinderen D, O'Toole PW.

Proc Natl Acad Sci U S A. 2006 Apr 25;103(17):6718-23. Epub 2006 Apr 14.

30.

Genetic characterization of the Bifidobacterium breve UCC 2003 hrcA locus.

Ventura M, Canchaya C, Bernini V, Del Casale A, Dellaglio F, Neviani E, Fitzgerald GF, van Sinderen D.

Appl Environ Microbiol. 2005 Dec;71(12):8998-9007.

31.

Prophage-like elements in bifidobacteria: insights from genomics, transcription, integration, distribution, and phylogenetic analysis.

Ventura M, Lee JH, Canchaya C, Zink R, Leahy S, Moreno-Munoz JA, O'Connell-Motherway M, Higgins D, Fitzgerald GF, O'Sullivan DJ, van Sinderen D.

Appl Environ Microbiol. 2005 Dec;71(12):8692-705.

32.

The ClgR protein regulates transcription of the clpP operon in Bifidobacterium breve UCC 2003.

Ventura M, Zhang Z, Cronin M, Canchaya C, Kenny JG, Fitzgerald GF, van Sinderen D.

J Bacteriol. 2005 Dec;187(24):8411-26.

33.

Comparative genomics of the T4-Like Escherichia coli phage JS98: implications for the evolution of T4 phages.

Chibani-Chennoufi S, Canchaya C, Bruttin A, Brüssow H.

J Bacteriol. 2004 Dec;186(24):8276-86.

34.

Characterization of the groEL and groES loci in Bifidobacterium breve UCC 2003: genetic, transcriptional, and phylogenetic analyses.

Ventura M, Canchaya C, Zink R, Fitzgerald GF, van Sinderen D.

Appl Environ Microbiol. 2004 Oct;70(10):6197-209.

35.

Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion.

Brüssow H, Canchaya C, Hardt WD.

Microbiol Mol Biol Rev. 2004 Sep;68(3):560-602, table of contents. Review.

36.

The impact of prophages on bacterial chromosomes.

Canchaya C, Fournous G, Brüssow H.

Mol Microbiol. 2004 Jul;53(1):9-18. Review.

37.

Bifidobacterium lactis DSM 10140: identification of the atp (atpBEFHAGDC) operon and analysis of its genetic structure, characteristics, and phylogeny.

Ventura M, Canchaya C, van Sinderen D, Fitzgerald GF, Zink R.

Appl Environ Microbiol. 2004 May;70(5):3110-21.

38.

The prophages of Lactobacillus johnsonii NCC 533: comparative genomics and transcription analysis.

Ventura M, Canchaya C, Pridmore RD, Brüssow H.

Virology. 2004 Mar 15;320(2):229-42.

39.

The prophage sequences of Lactobacillus plantarum strain WCFS1.

Ventura M, Canchaya C, Kleerebezem M, de Vos WM, Siezen RJ, Brüssow H.

Virology. 2003 Nov 25;316(2):245-55.

40.
41.

Phage as agents of lateral gene transfer.

Canchaya C, Fournous G, Chibani-Chennoufi S, Dillmann ML, Brüssow H.

Curr Opin Microbiol. 2003 Aug;6(4):417-24. Review.

PMID:
12941415
42.

Integration and distribution of Lactobacillus johnsonii prophages.

Ventura M, Canchaya C, Pridmore D, Berger B, Brüssow H.

J Bacteriol. 2003 Aug;185(15):4603-8.

43.

Prophage genomics.

Canchaya C, Proux C, Fournous G, Bruttin A, Brüssow H.

Microbiol Mol Biol Rev. 2003 Jun;67(2):238-76, table of contents. Review. Erratum in: Microbiol Mol Biol Rev. 2003 Sep;67(3):473.

44.

Genome analysis of an inducible prophage and prophage remnants integrated in the Streptococcus pyogenes strain SF370.

Canchaya C, Desiere F, McShan WM, Ferretti JJ, Parkhill J, Brüssow H.

Virology. 2002 Oct 25;302(2):245-58.

45.

Transcription analysis of Streptococcus thermophilus phages in the lysogenic state.

Ventura M, Bruttin A, Canchaya C, Brüssow H.

Virology. 2002 Oct 10;302(1):21-32.

46.

Comparative genomics of phages and prophages in lactic acid bacteria.

Desiere F, Lucchini S, Canchaya C, Ventura M, Brüssow H.

Antonie Van Leeuwenhoek. 2002 Aug;82(1-4):73-91. Review.

PMID:
12369206
47.

Transcription mapping as a tool in phage genomics: the case of the temperate Streptococcus thermophilus phage Sfi21.

Ventura M, Foley S, Bruttin A, Chennoufi SC, Canchaya C, Brüssow H.

Virology. 2002 Apr 25;296(1):62-76.

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