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Results: 1 to 20 of 58

1.

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.

PMID:
24921648
[PubMed - in process]
Free PMC Article
2.

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.

PMID:
24280218
[PubMed - indexed for MEDLINE]
3.

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.

PMID:
24200077
[PubMed - indexed for MEDLINE]
4.

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.

PMID:
23941402
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

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.

PMID:
23637931
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

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.

PMID:
23305655
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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.

PMID:
23241979
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

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.

PMID:
23131829
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

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.

PMID:
23042248
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

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.

PMID:
22930339
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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.

PMID:
22583530
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

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.

PMID:
22554235
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

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
[PubMed - indexed for MEDLINE]
14.

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.

PMID:
24704978
[PubMed]
Free PMC Article
15.

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.

PMID:
22049339
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Comparative genomic analysis of Xanthomonas axonopodis pv. citrumelo F1, which causes citrus bacterial spot disease, and related strains provides insights into virulence and host specificity.

Jalan N, Aritua V, Kumar D, Yu F, Jones JB, Graham JH, Setubal JC, Wang N.

J Bacteriol. 2011 Nov;193(22):6342-57. doi: 10.1128/JB.05777-11. Epub 2011 Sep 9.

PMID:
21908674
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

The plant pathogen Pseudomonas syringae pv. tomato is genetically monomorphic and under strong selection to evade tomato immunity.

Cai R, Lewis J, Yan S, Liu H, Clarke CR, Campanile F, Almeida NF, Studholme DJ, Lindeberg M, Schneider D, Zaccardelli M, Setubal JC, Morales-Lizcano NP, Bernal A, Coaker G, Baker C, Bender CL, Leman S, Vinatzer BA.

PLoS Pathog. 2011 Aug;7(8):e1002130. doi: 10.1371/journal.ppat.1002130. Epub 2011 Aug 25.

PMID:
21901088
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Transcriptional profiling of nitrogen fixation in Azotobacter vinelandii.

Hamilton TL, Ludwig M, Dixon R, Boyd ES, Dos Santos PC, Setubal JC, Bryant DA, Dean DR, Peters JW.

J Bacteriol. 2011 Sep;193(17):4477-86. doi: 10.1128/JB.05099-11. Epub 2011 Jul 1.

PMID:
21724999
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper.

Potnis N, Krasileva K, Chow V, Almeida NF, Patil PB, Ryan RP, Sharlach M, Behlau F, Dow JM, Momol M, White FF, Preston JF, Vinatzer BA, Koebnik R, Setubal JC, Norman DJ, Staskawicz BJ, Jones JB.

BMC Genomics. 2011 Mar 11;12:146. doi: 10.1186/1471-2164-12-146.

PMID:
21396108
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Complete genome sequencing of Agrobacterium sp. H13-3, the former Rhizobium lupini H13-3, reveals a tripartite genome consisting of a circular and a linear chromosome and an accessory plasmid but lacking a tumor-inducing Ti-plasmid.

Wibberg D, Blom J, Jaenicke S, Kollin F, Rupp O, Scharf B, Schneiker-Bekel S, Sczcepanowski R, Goesmann A, Setubal JC, Schmitt R, Pühler A, Schlüter A.

J Biotechnol. 2011 Aug 20;155(1):50-62. doi: 10.1016/j.jbiotec.2011.01.010. Epub 2011 Feb 15.

PMID:
21329740
[PubMed - indexed for MEDLINE]

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