Literature DB >> 15087310

A System for Automated Bacterial (genome) Integrated Annotation--SABIA.

Luiz G P Almeida1, Roger Paixão, Rangel C Souza, Gisele C da Costa, Frank J A Barrientos, M Trindade dos Santos, Darcy F de Almeida, Ana Tereza R Vasconcelos.   

Abstract

UNLABELLED: A web-based software suite, SABIA (System for Automated Bacterial Integrated Annotation), is described that provides a comprehensive computational support for the assembly and annotation of whole bacterial genomes from the data derived from sequencing projects. AVAILABILITY: Both SABIA and supplementary materials are available at http://www.sabia.lncc.br

Mesh：

Year:  2004        PMID： 15087310     DOI： 10.1093/bioinformatics/bth273

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  55 in total

1.  Complete genome sequence of Burkholderia phenoliruptrix BR3459a (CLA1), a heat-tolerant, nitrogen-fixing symbiont of Mimosa flocculosa.

Authors:  Cláudio de Oliveira Cunha; Luiz Fernando Goda Zuleta; Luiz Gonzaga Paula de Almeida; Luciane Prioli Ciapina; Wardsson Lustrino Borges; Rosa Maria Pitard; José Ivo Baldani; Rosangela Straliotto; Sérgio Miana de Faria; Mariangela Hungria; Benildo Sousa Cavada; Fábio Martins Mercante; Ana Tereza Ribeiro de Vasconcelos
Journal:  J Bacteriol       Date:  2012-12       Impact factor: 3.490

2.  Common ancestry of iron oxide- and iron-sulfide-based biomineralization in magnetotactic bacteria.

Authors:  Fernanda Abreu; Mauricio E Cantão; Marisa F Nicolás; Fernando G Barcellos; Viviana Morillo; Luiz Gp Almeida; Fabrícia F do Nascimento; Christopher T Lefèvre; Dennis A Bazylinski; Ana Tereza R de Vasconcelos; Ulysses Lins
Journal:  ISME J       Date:  2011-04-21       Impact factor: 10.302

3.  A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs.

Authors:  Martin T Swain; Isheng J Tsai; Samual A Assefa; Chris Newbold; Matthew Berriman; Thomas D Otto
Journal:  Nat Protoc       Date:  2012-06-07       Impact factor: 13.491

4.  Novel genes related to nodulation, secretion systems, and surface structures revealed by a genome draft of Rhizobium tropici strain PRF 81.

Authors:  Fabiana G S Pinto; Ligia M O Chueire; Ana Tereza R Vasconcelos; Marisa F Nicolás; Luiz G P Almeida; Rangel C Souza; Pâmela Menna; Fernando G Barcellos; Manuel Megías; Mariangela Hungria
Journal:  Funct Integr Genomics       Date:  2009-01-29       Impact factor: 3.410

5.  MicroScope: a platform for microbial genome annotation and comparative genomics.

Authors:  D Vallenet; S Engelen; D Mornico; S Cruveiller; L Fleury; A Lajus; Z Rouy; D Roche; G Salvignol; C Scarpelli; C Médigue
Journal:  Database (Oxford)       Date:  2009-11-25       Impact factor: 3.451

6.  Deciphering unusual uncultured magnetotactic multicellular prokaryotes through genomics.

Authors:  Fernanda Abreu; Viviana Morillo; Fabrícia F Nascimento; Clarissa Werneck; Mauricio Egidio Cantão; Luciane Prioli Ciapina; Luiz Gonzaga Paula de Almeida; Christopher T Lefèvre; Dennis A Bazylinski; Ana Tereza Ribeiro de Vasconcelos; Ulysses Lins
Journal:  ISME J       Date:  2013-11-07       Impact factor: 10.302

7.  Genomic basis of broad host range and environmental adaptability of Rhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 which are used in inoculants for common bean (Phaseolus vulgaris L.).

Authors:  Ernesto Ormeño-Orrillo; Pâmela Menna; Luiz Gonzaga P Almeida; Francisco Javier Ollero; Marisa Fabiana Nicolás; Elisete Pains Rodrigues; Andre Shigueyoshi Nakatani; Jesiane Stefânia Silva Batista; Ligia Maria Oliveira Chueire; Rangel Celso Souza; Ana Tereza Ribeiro Vasconcelos; Manuel Megías; Mariangela Hungria; Esperanza Martínez-Romero
Journal:  BMC Genomics       Date:  2012-12-27       Impact factor: 3.969

8.  Genomic taxonomy of Vibrios.

Authors:  Cristiane C Thompson; Ana Carolina P Vicente; Rangel C Souza; Ana Tereza R Vasconcelos; Tammi Vesth; Nelson Alves; David W Ussery; Tetsuya Iida; Fabiano L Thompson
Journal:  BMC Evol Biol       Date:  2009-10-27       Impact factor: 3.260

9.  Swine and poultry pathogens: the complete genome sequences of two strains of Mycoplasma hyopneumoniae and a strain of Mycoplasma synoviae.

Authors:  Ana Tereza R Vasconcelos; Henrique B Ferreira; Cristiano V Bizarro; Sandro L Bonatto; Marcos O Carvalho; Paulo M Pinto; Darcy F Almeida; Luiz G P Almeida; Rosana Almeida; Leonardo Alves-Filho; Enedina N Assunção; Vasco A C Azevedo; Maurício R Bogo; Marcelo M Brigido; Marcelo Brocchi; Helio A Burity; Anamaria A Camargo; Sandro S Camargo; Marta S Carepo; Dirce M Carraro; Júlio C de Mattos Cascardo; Luiza A Castro; Gisele Cavalcanti; Gustavo Chemale; Rosane G Collevatti; Cristina W Cunha; Bruno Dallagiovanna; Bibiana P Dambrós; Odir A Dellagostin; Clarissa Falcão; Fabiana Fantinatti-Garboggini; Maria S S Felipe; Laurimar Fiorentin; Gloria R Franco; Nara S A Freitas; Diego Frías; Thalles B Grangeiro; Edmundo C Grisard; Claudia T Guimarães; Mariangela Hungria; Sílvia N Jardim; Marco A Krieger; Jomar P Laurino; Lucymara F A Lima; Maryellen I Lopes; Elgion L S Loreto; Humberto M F Madeira; Gilson P Manfio; Andrea Q Maranhão; Christyanne T Martinkovics; Sílvia R B Medeiros; Miguel A M Moreira; Márcia Neiva; Cicero E Ramalho-Neto; Marisa F Nicolás; Sergio C Oliveira; Roger F C Paixão; Fábio O Pedrosa; Sérgio D J Pena; Maristela Pereira; Lilian Pereira-Ferrari; Itamar Piffer; Luciano S Pinto; Deise P Potrich; Anna C M Salim; Fabrício R Santos; Renata Schmitt; Maria P C Schneider; Augusto Schrank; Irene S Schrank; Adriana F Schuck; Hector N Seuanez; Denise W Silva; Rosane Silva; Sérgio C Silva; Célia M A Soares; Kelly R L Souza; Rangel C Souza; Charley C Staats; Maria B R Steffens; Santuza M R Teixeira; Turan P Urmenyi; Marilene H Vainstein; Luciana W Zuccherato; Andrew J G Simpson; Arnaldo Zaha
Journal:  J Bacteriol       Date:  2005-08       Impact factor: 3.490

10.  Pyrosequencing-based analysis reveals a novel capsular gene cluster in a KPC-producing Klebsiella pneumoniae clinical isolate identified in Brazil.

Authors:  Pablo Ivan Pereira Ramos; Renata Cristina Picão; Eliana Carolina Vespero; Marsileni Pelisson; Luiz Fernando Goda Zuleta; Luiz Gonzaga P Almeida; Alexandra L Gerber; Ana Tereza R Vasconcelos; Ana Cristina Gales; Marisa Fabiana Nicolás
Journal:  BMC Microbiol       Date:  2012-08-11       Impact factor: 3.605
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