J
João C. Setubal
Researcher at University of São Paulo
Publications - 216
Citations - 13903
João C. Setubal is an academic researcher from University of São Paulo. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 50, co-authored 195 publications receiving 12114 citations. Previous affiliations of João C. Setubal include Virginia Bioinformatics Institute & University of Washington.
Papers
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Journal ArticleDOI
Comparison of the genomes of two Xanthomonas pathogens with differing host specificities
A.C.R. da Silva,Jesus Aparecido Ferro,Fernando C. Reinach,Chuck S. Farah,Luiz Roberto Furlan,Ronaldo Bento Quaggio,Claudia Barros Monteiro-Vitorello,M. A. Van Sluys,Nalvo F. Almeida,Lucia Maria Carareto Alves,A. M. do Amaral,Maria Célia Bertolini,Luis Eduardo Aranha Camargo,Giovana Camarotte,Fabiana de Souza Cannavan,Cardozo Jc,Felipe S. Chambergo,L. P. Ciapina,Regina Maria Barretto Cicarelli,Luiz Lehmann Coutinho,Jeny R. Cursino-Santos,Hamza El-Dorry,J. B. Faria,Ari J. S. Ferreira,Rita de Cássia Café Ferreira,Maria Inês Tiraboschi Ferro,Eduardo Fernandes Formighieri,Marília Caixeta Franco,Christian C. Greggio,Arthur Gruber,Angela M. Katsuyama,Luciano Takeshi Kishi,Rui P. Leite,Eliana Gertrudes de Macedo Lemos,Manoel Victor Franco Lemos,E. C. Locali,Marcos Antonio Machado,Alda Maria Backx Noronha Madeira,Nilce Maria Martinez-Rossi,E. C. Martins,João Meidanis,Carlos Frederico Martins Menck,Cristina Yumi Miyaki,D. H. Moon,Leandro Marcio Moreira,M. T. M. Novo,Vagner K. Okura,Mariana Cabral de Oliveira,V. R. Oliveira,H. A. Pereira,Antonio Rossi,Janete Apparecida Desidério Sena,Cícero Lopes da Silva,R. F. B. de Souza,L. A. F. Spinola,Marco Aurélio Takita,Rodrigo Esaki Tamura,E. C. Teixeira,R. I. D. Tezza,M. Trindade dos Santos,Daniela Truffi,Siu Mui Tsai,Frank F. White,Frank F. White,João C. Setubal,João Paulo Kitajima +65 more
TL;DR: The genus Xanthomonas is a diverse and economically important group of bacterial phytopathogens, belonging to the γ-subdivision of the Proteobacteria, and several groups of strain-specific genes are identified and proposed mechanisms that may explain the differing host specificities and pathogenic processes are proposed.
Journal ArticleDOI
The genome of woodland strawberry ( Fragaria vesca )
Vladimir Shulaev,Daniel J. Sargent,Ross N. Crowhurst,Todd C. Mockler,Otto Folkerts,Arthur L. Delcher,Pankaj Jaiswal,Keithanne Mockaitis,Aaron Liston,Shrinivasrao P. Mane,Paul Burns,Thomas M. Davis,Janet P. Slovin,Nahla V. Bassil,Roger P. Hellens,Clive Evans,Tim Harkins,Chinnappa D. Kodira,Brian Desany,Oswald Crasta,Roderick V. Jensen,Andrew C. Allan,Andrew C. Allan,Todd P. Michael,João C. Setubal,Jean-Marc Celton,D. Jasper G. Rees,Kelly P. Williams,Sarah H. Holt,Juan Jairo Ruiz Rojas,Mithu Chatterjee,Bo Liu,Herman Silva,Lee A. Meisel,Avital Adato,Sergei A. Filichkin,Michela Troggio,Roberto Viola,Tia-Lynn Ashman,Hao Wang,Palitha Dharmawardhana,Justin Elser,Rajani Raja,Henry D. Priest,Douglas W. Bryant,Samuel E. Fox,Scott A. Givan,Larry J. Wilhelm,Sushma Naithani,Alan Christoffels,David Y. Salama,Jade Carter,Elena Lopez Girona,Anna Zdepski,Wenqin Wang,Randall A. Kerstetter,Wilfried Schwab,Schuyler S. Korban,Jahn Davik,Amparo Monfort,Beatrice Denoyes-Rothan,Pere Arús,Ron Mittler,Barry S. Flinn,Asaph Aharoni,Jeffrey L. Bennetzen,Steven L. Salzberg,Allan W. Dickerman,Riccardo Velasco,Mark Borodovsky,Richard E. Veilleux,Kevin M. Folta +71 more
TL;DR: New phylogenetic analysis of 154 protein-coding genes suggests that assignment of Populus to Malvidae, rather than Fabidae, is warranted, and macrosyntenic relationships between Fragaria and Prunus predict a hypothetical ancestral Rosaceae genome that had nine chromosomes.
Journal ArticleDOI
The genome sequence of the plant pathogen Xylella fastidiosa
Andrew J. G. Simpson,Fernando C. Reinach,Paulo Arruda,F. A. Abreu,Marcio Luis Acencio,R. Alvarenga,Lucia Maria Carareto Alves,Jorge E. Araya,Gilson S. Baia,C. S. Baptista,Mario H. Barros,Eric D. Bonaccorsi,Silvana Bordin,Joseph M. Bové,Marcelo R.S. Briones,M. R.P. Bueno,Anamaria A. Camargo,Luis Eduardo Aranha Camargo,Dirce Maria Carraro,Helaine Carrer,N. B. Colauto,Carlos Augusto Colombo,Fernando Ferreira Costa,M. C. R. Costa,Claudio M. Costa-Neto,Luiz Lehmann Coutinho,M. Cristofani,Emmanuel Dias-Neto,C. Docena,Hamza El-Dorry,Agda Paula Facincani,Ari J. S. Ferreira,V. C.A. Ferreira,Jesus Aparecido Ferro,Jane Silveira Fraga,Suzelei C. França,Marília Caixeta Franco,Marcus Frohme,Luiz Roberto Furlan,M. Garnier,Gustavo H. Goldman,Maria Helena S. Goldman,Suely Lopes Gomes,Arthur Gruber,Paulo L. Ho,Joerg Hoheisel,M.L. Junqueira,Edson L. Kemper,João Paulo Kitajima,José Eduardo Krieger,Eiko E. Kuramae,F. Laigret,Marcio Rodrigues Lambais,Luciana C. C. Leite,Eliana Gertrudes de Macedo Lemos,Manoel Victor Franco Lemos,Silvio A. Lopes,Catalina Romero Lopes,J. A. Machado,Marco Antonio Machado,Alda Maria Backx Noronha Madeira,Humberto Maciel França Madeira,Humberto Maciel França Madeira,Celso Luis Marino,Marilis V. Marques,Elizabeth A. L. Martins,E. M.F. Martins,Adriana Yamaguti Matsukuma,Carlos Frederico Martins Menck,E. C. Miracca,Cristina Yumi Miyaki,Claudia Barros Monteiro-Vitorello,D. H. Moon,Maria Aparecida Nagai,Ana L. T. O. Nascimento,Luis Eduardo Soares Netto,A. Nhani,Francisco G. Nobrega,Francisco G. Nobrega,Luiz R. Nunes,Marcos Antonio de Oliveira,M. C. de Oliveira,R. C. de Oliveira,Darío Abel Palmieri,A. Paris,B. R. Peixoto,Gonçalo A.G. Pereira,H. A. Pereira,João Bosco Pesquero,Ronaldo Bento Quaggio,Patrícia G. Roberto,Vanderlei Rodrigues,Artur J.M. Rosa,V. E. de Rosa,R. G. de Sá,Roberto Vicente Santelli,H. E. Sawasaki,A.C.R. da Silva,A M da Silva,F. R. da Silva,Wilson A. Silva,J. F. da Silveira,M. L.Z. Silvestri,Walter José Siqueira,A. A. de Souza,A. P. de Souza,M. F. Terenzi,Daniela Truffi,Siu Mui Tsai,M. H. Tsuhako,Homero Vallada,M. A. Van Sluys,Sergio Verjovski-Almeida,André Luiz Vettore,Marco Antônio Zago,Mayana Zatz,João Meidanis,João C. Setubal +117 more
TL;DR: The complete genome sequence of X. fastidiosa clone 9a5c is reported, providing direct evidence of phage-mediated horizontal gene transfer and indicating that the molecular basis for bacterial pathogenicity is both conserved and independent of host.
Journal ArticleDOI
The Genome of the Natural Genetic Engineer Agrobacterium tumefaciens C58
Derek W. Wood,João C. Setubal,Rajinder Kaul,Dave E. Monks,João Paulo Kitajima,Vagner K. Okura,Yang Zhou,Lishan Chen,Gwendolyn E. Wood,Nalvo F. Almeida,Lisa Woo,Yuching Chen,Ian T. Paulsen,Jonathan A. Eisen,Peter D. Karp,Donald Bovee,Peter Chapman,James B. Clendenning,Glenda Deatherage,Will Gillet,Charles E. Grant,Tatyana Kutyavin,Ruth Levy,Meng-Jin Li,Erin K. McClelland,Anthony Palmieri,Christopher K. Raymond,Gregory Rouse,Channakhone Saenphimmachak,Zaining Wu,Pedro Romero,David E. Gordon,Shiping Zhang,Heayun Yoo,Yumin Tao,Phyllis Biddle,Mark Timothy Jung,William Krespan,Michael Perry,Bill Gordon-Kamm,Li Liao,Sun Kim,Carol A. Hendrick,Zuo-Yu Zhao,Maureen Dolan,Forrest Chumley,Scott V. Tingey,Jean-Francois Tomb,Milton P. Gordon,Maynard V. Olson,Eugene W. Nester +50 more
TL;DR: The 5.67-megabase genome of the plant pathogen Agrobacterium tumefaciens C58 consists of a circular chromosome, a linear chromosome, and two plasmids that suggest a recent evolutionary divergence.
Book
Introduction to Computational Molecular Biology
João C. Setubal,João Meidanis +1 more
TL;DR: This chapter discusses the construction of phylogenetic trees, a type of tree-building based on DNA assembly, and its applications in medicine, dentistry, and neuroscience.