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Results: 1 to 20 of 63

1.

Positive selection is the main driving force for evolution of citrus canker-causing Xanthomonas.

Zhang Y, Jalan N, Zhou X, Goss E, Jones JB, Setubal JC, Deng X, Wang N.

ISME J. 2015 Feb 17. doi: 10.1038/ismej.2015.15. [Epub ahead of print]

PMID:
25689023
2.

Genetic resources for methane production from biomass described with the Gene Ontology.

Purwantini E, Torto-Alalibo T, Lomax J, Setubal JC, Tyler BM, Mukhopadhyay B.

Front Microbiol. 2014 Dec 3;5:634. doi: 10.3389/fmicb.2014.00634. eCollection 2014.

3.

Genetic resources for advanced biofuel production described with the Gene Ontology.

Torto-Alalibo T, Purwantini E, Lomax J, Setubal JC, Mukhopadhyay B, Tyler BM.

Front Microbiol. 2014 Oct 10;5:528. doi: 10.3389/fmicb.2014.00528. eCollection 2014. Review.

4.

Draft Genome Sequence of FT9, a Novel Bacillus cereus Strain Isolated from a Brazilian Thermal Spring.

Raiol T, De-Souza MT, Oliveira JV, Silva HS, Orem JC, Cavalcante DA, Almeida NF, Telles GP, Setubal JC, Brigido MM, Torres FA, Stadler PS, Walter ME, Moraes LM.

Genome Announc. 2014 Oct 9;2(5). pii: e01027-14. doi: 10.1128/genomeA.01027-14.

5.

Alcohol and tobacco consumption affects bacterial richness in oral cavity mucosa biofilms.

Thomas AM, Gleber-Netto FO, Fernandes GR, Amorim M, Barbosa LF, Francisco AL, Guerra de Andrade A, Setubal JC, Kowalski LP, Nunes DN, Dias-Neto E.

BMC Microbiol. 2014 Oct 3;14(1):250. doi: 10.1186/s12866-014-0250-2.

6.

Core microbial functional activities in ocean environments revealed by global metagenomic profiling analyses.

Ferreira AJ, Siam R, Setubal JC, Moustafa A, Sayed A, Chambergo FS, Dawe AS, Ghazy MA, Sharaf H, Ouf A, Alam I, Abdel-Haleem AM, Lehvaslaiho H, Ramadan E, Antunes A, Stingl U, Archer JA, Jankovic BR, Sogin M, Bajic VB, El-Dorry H.

PLoS One. 2014 Jun 12;9(6):e97338. doi: 10.1371/journal.pone.0097338. eCollection 2014.

7.

A novel mercuric reductase from the unique deep brine environment of Atlantis II in the Red Sea.

Sayed A, Ghazy MA, Ferreira AJ, Setubal JC, Chambergo FS, Ouf A, Adel M, Dawe AS, Archer JA, Bajic VB, Siam R, El-Dorry H.

J Biol Chem. 2014 Jan 17;289(3):1675-87. doi: 10.1074/jbc.M113.493429. Epub 2013 Nov 26.

8.

The complete genome sequence of 'Candidatus Liberibacter americanus', associated with Citrus huanglongbing.

Wulff NA, Zhang S, Setubal JC, Almeida NF, Martins EC, Harakava R, Kumar D, Rangel LT, Foissac X, Bové JM, Gabriel DW.

Mol Plant Microbe Interact. 2014 Feb;27(2):163-76. doi: 10.1094/MPMI-09-13-0292-R.

9.

Comparative genomic and transcriptome analyses of pathotypes of Xanthomonas citri subsp. citri provide insights into mechanisms of bacterial virulence and host range.

Jalan N, Kumar D, Andrade MO, Yu F, Jones JB, Graham JH, White FF, Setubal JC, Wang N.

BMC Genomics. 2013 Aug 14;14:551. doi: 10.1186/1471-2164-14-551.

10.

Metagenomic analysis of a tropical composting operation at the são paulo zoo park reveals diversity of biomass degradation functions and organisms.

Martins LF, Antunes LP, Pascon RC, de Oliveira JC, Digiampietri LA, Barbosa D, Peixoto BM, Vallim MA, Viana-Niero C, Ostroski EH, Telles GP, Dias Z, da Cruz JB, Juliano L, Verjovski-Almeida S, da Silva AM, Setubal JC.

PLoS One. 2013 Apr 24;8(4):e61928. doi: 10.1371/journal.pone.0061928. Print 2013. Erratum in: PLoS One. 2013;8(6). doi:10.1371/annotation/2cca811e-d45b-4854-a420-d0405309ef43.

11.

Peptide nucleic acids inhibit growth of Brucella suis in pure culture and in infected murine macrophages.

Rajasekaran P, Alexander JC, Seleem MN, Jain N, Sriranganathan N, Wattam AR, Setubal JC, Boyle SM.

Int J Antimicrob Agents. 2013 Apr;41(4):358-62. doi: 10.1016/j.ijantimicag.2012.11.017. Epub 2013 Jan 8.

12.

Reconciliation of sequence data and updated annotation of the genome of Agrobacterium tumefaciens C58, and distribution of a linear chromosome in the genus Agrobacterium.

Slater S, Setubal JC, Goodner B, Houmiel K, Sun J, Kaul R, Goldman BS, Farrand SK, Almeida N Jr, Burr T, Nester E, Rhoads DM, Kadoi R, Ostheimer T, Pride N, Sabo A, Henry E, Telepak E, Cromes L, Harkleroad A, Oliphant L, Pratt-Szegila P, Welch R, Wood D.

Appl Environ Microbiol. 2013 Feb;79(4):1414-7. doi: 10.1128/AEM.03192-12. Epub 2012 Dec 14.

13.

Comparative genomics of early-diverging Brucella strains reveals a novel lipopolysaccharide biosynthesis pathway.

Wattam AR, Inzana TJ, Williams KP, Mane SP, Shukla M, Almeida NF, Dickerman AW, Mason S, Moriyón I, O'Callaghan D, Whatmore AM, Sobral BW, Tiller RV, Hoffmaster AR, Frace MA, De Castro C, Molinaro A, Boyle SM, De BK, Setubal JC.

MBio. 2012 Nov 6;3(5):e00246-11. doi: 10.1128/mBio.00388-12.

14.

Sequence verification of synthetic DNA by assembly of sequencing reads.

Wilson ML, Cai Y, Hanlon R, Taylor S, Chevreux B, Setubal JC, Tyler BM, Peccoud J.

Nucleic Acids Res. 2013 Jan 7;41(1):e25. doi: 10.1093/nar/gks908. Epub 2012 Oct 4.

15.

Comparative genomics of early-diverging Brucella strains reveals a novel lipopolysaccharide biosynthesis pathway.

Wattam AR, Inzana TJ, Williams KP, Mane SP, Shukla M, Almeida NF, Dickerman AW, Mason S, Moriyón I, O'Callaghan D, Whatmore AM, Sobral BW, Tiller RV, Hoffmaster AR, Frace MA, De Castro C, Molinaro A, Boyle SM, De BK, Setubal JC.

MBio. 2012 Aug 28;3(5):e00246-12. doi: 10.1128/mBio.00246-12. Print 2012. Erratum in: MBio. 2012 Nov-Dec;3(6):e00388-12.

16.

SIS: a program to generate draft genome sequence scaffolds for prokaryotes.

Dias Z, Dias U, Setubal JC.

BMC Bioinformatics. 2012 May 14;13:96. doi: 10.1186/1471-2105-13-96.

17.

Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes.

Dos Santos PC, Fang Z, Mason SW, Setubal JC, Dixon R.

BMC Genomics. 2012 May 3;13:162. doi: 10.1186/1471-2164-13-162.

18.

Non-coding transcription characterization and annotation: a guide and web resource for non-coding RNA databases.

Paschoal AR, Maracaja-Coutinho V, Setubal JC, Simões ZL, Verjovski-Almeida S, Durham AM.

RNA Biol. 2012 Mar;9(3):274-82. doi: 10.4161/rna.19352. Epub 2012 Mar 1. Review.

PMID:
22336709
19.

REGEN: Ancestral Genome Reconstruction for Bacteria.

Yang K, Heath LS, Setubal JC.

Genes (Basel). 2012 Jul 18;3(3):423-43. doi: 10.3390/genes3030423.

20.

Vascular ligand-receptor mapping by direct combinatorial selection in cancer patients.

Staquicini FI, Cardó-Vila M, Kolonin MG, Trepel M, Edwards JK, Nunes DN, Sergeeva A, Efstathiou E, Sun J, Almeida NF, Tu SM, Botz GH, Wallace MJ, O'Connell DJ, Krajewski S, Gershenwald JE, Molldrem JJ, Flamm AL, Koivunen E, Pentz RD, Dias-Neto E, Setubal JC, Cahill DJ, Troncoso P, Do KA, Logothetis CJ, Sidman RL, Pasqualini R, Arap W.

Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):18637-42. doi: 10.1073/pnas.1114503108. Epub 2011 Nov 2.

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