Literature DB >> 23241979

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

Steven Slater1, João C Setubal, Brad Goodner, Kathryn Houmiel, Jian Sun, Rajinder Kaul, Barry S Goldman, Stephen K Farrand, Nalvo Almeida, Thomas Burr, Eugene Nester, David M Rhoads, Ryosuke Kadoi, Trucian Ostheimer, Nicole Pride, Allison Sabo, Erin Henry, Erin Telepak, Lindsey Cromes, Alana Harkleroad, Louis Oliphant, Phil Pratt-Szegila, Roy Welch, Derek Wood.   

Abstract

Two groups independently sequenced the Agrobacterium tumefaciens C58 genome in 2001. We report here consolidation of these sequences, updated annotation, and additional analysis of the evolutionary history of the linear chromosome, which is apparently limited to the biovar I group of Agrobacterium.

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Year:  2012        PMID： 23241979      PMCID： PMC3568625          DOI： 10.1128/AEM.03192-12

Source DB:  PubMed          Journal:  Appl Environ Microbiol        ISSN： 0099-2240            Impact factor:   4.792


  22 in total

1.  The genome of the natural genetic engineer Agrobacterium tumefaciens C58.

Authors:  D W Wood; J C Setubal; R Kaul; D E Monks; J P Kitajima; V K Okura; Y Zhou; L Chen; G E Wood; N F Almeida; L Woo; Y Chen; I T Paulsen; J A Eisen; P D Karp; D Bovee; P Chapman; J Clendenning; G Deatherage; W Gillet; C Grant; T Kutyavin; R Levy; M J Li; E McClelland; A Palmieri; C Raymond; G Rouse; C Saenphimmachak; Z Wu; P Romero; D Gordon; S Zhang; H Yoo; Y Tao; P Biddle; M Jung; W Krespan; M Perry; B Gordon-Kamm; L Liao; S Kim; C Hendrick; Z Y Zhao; M Dolan; F Chumley; S V Tingey; J F Tomb; M P Gordon; M V Olson; E W Nester
Journal:  Science       Date:  2001-12-14       Impact factor: 47.728

2.  The CcrM DNA methyltransferase of Agrobacterium tumefaciens is essential, and its activity is cell cycle regulated.

Authors:  L S Kahng; L Shapiro
Journal:  J Bacteriol       Date:  2001-05       Impact factor: 3.490

3.  Rapid and efficient identification of Agrobacterium species by recA allele analysis: Agrobacterium recA diversity.

Authors:  Denis Costechareyre; Ali Rhouma; Céline Lavire; Perrine Portier; David Chapulliot; Franck Bertolla; Ali Boubaker; Yves Dessaux; Xavier Nesme
Journal:  Microb Ecol       Date:  2010-06-03       Impact factor: 4.552

4.  Genome sequence of the plant pathogen and biotechnology agent Agrobacterium tumefaciens C58.

Authors:  B Goodner; G Hinkle; S Gattung; N Miller; M Blanchard; B Qurollo; B S Goldman; Y Cao; M Askenazi; C Halling; L Mullin; K Houmiel; J Gordon; M Vaudin; O Iartchouk; A Epp; F Liu; C Wollam; M Allinger; D Doughty; C Scott; C Lappas; B Markelz; C Flanagan; C Crowell; J Gurson; C Lomo; C Sear; G Strub; C Cielo; S Slater
Journal:  Science       Date:  2001-12-14       Impact factor: 47.728

5.  Genome sequence of Agrobacterium tumefaciens strain F2, a bioflocculant-producing bacterium.

Authors:  Ang Li; Jianing Geng; Di Cui; Chang Shu; Si Zhang; Jixian Yang; Jie Xing; Jinna Wang; Fang Ma; Songnian Hu
Journal:  J Bacteriol       Date:  2011-10       Impact factor: 3.490

6.  A revision of Rhizobium Frank 1889, with an emended description of the genus, and the inclusion of all species of Agrobacterium Conn 1942 and Allorhizobium undicola de Lajudie et al. 1998 as new combinations: Rhizobium radiobacter, R. rhizogenes, R. rubi, R. undicola and R. vitis.

Authors:  J M Young; L D Kuykendall; E Martínez-Romero; A Kerr; H Sawada
Journal:  Int J Syst Evol Microbiol       Date:  2001-01       Impact factor: 2.747

7.  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.

Authors:  Daniel Wibberg; Jochen Blom; Sebastian Jaenicke; Florian Kollin; Oliver Rupp; Birgit Scharf; Susanne Schneiker-Bekel; Rafael Sczcepanowski; Alexander Goesmann; Joao Carlos Setubal; Rüdiger Schmitt; Alfred Pühler; Andreas Schlüter
Journal:  J Biotechnol       Date:  2011-02-15       Impact factor: 3.307

8.  Linear chromosome-generating system of Agrobacterium tumefaciens C58: protelomerase generates and protects hairpin ends.

Authors:  Wai Mun Huang; Jeanne DaGloria; Heather Fox; Qiurong Ruan; John Tillou; Ke Shi; Hideki Aihara; John Aron; Sherwood Casjens
Journal:  J Biol Chem       Date:  2012-05-10       Impact factor: 5.157

9.  Deep sequencing uncovers numerous small RNAs on all four replicons of the plant pathogen Agrobacterium tumefaciens.

Authors:  Ina Wilms; Aaron Overlöper; Minou Nowrousian; Cynthia M Sharma; Franz Narberhaus
Journal:  RNA Biol       Date:  2012-02-16       Impact factor: 4.652

10.  Theoretical prediction and experimental verification of protein-coding genes in plant pathogen genome Agrobacterium tumefaciens strain C58.

Authors:  Qian Wang; Yang Lei; Xiwen Xu; Gejiao Wang; Ling-Ling Chen
Journal:  PLoS One       Date:  2012-09-11       Impact factor: 3.240
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  14 in total

1.  Bacterial PerO Permeases Transport Sulfate and Related Oxyanions.

Authors:  Marie-Christine Hoffmann; Yvonne Pfänder; Marc Tintel; Bernd Masepohl
Journal:  J Bacteriol       Date:  2017-06-27       Impact factor: 3.490

Review 2.  The changing paradigm of rhizobial taxonomy and its systematic growth upto postgenomic technologies.

Authors:  Jina Rajkumari; Prashant Katiyar; Shrivardhan Dheeman; Piyush Pandey; Dinesh Kumar Maheshwari
Journal:  World J Microbiol Biotechnol       Date:  2022-08-26       Impact factor: 4.253

3.  Non-pathogenic Rhizobium radiobacter F4 deploys plant beneficial activity independent of its host Piriformospora indica.

Authors:  Stefanie P Glaeser; Jafargholi Imani; Ibrahim Alabid; Huijuan Guo; Neelendra Kumar; Peter Kämpfer; Martin Hardt; Jochen Blom; Alexander Goesmann; Michael Rothballer; Anton Hartmann; Karl-Heinz Kogel
Journal:  ISME J       Date:  2015-10-23       Impact factor: 10.302

Review 4.  Ecological and evolutionary dynamics of a model facultative pathogen: Agrobacterium and crown gall disease of plants.

Authors:  Ian S Barton; Clay Fuqua; Thomas G Platt
Journal:  Environ Microbiol       Date:  2017-12-04       Impact factor: 5.491

5.  Genome Sequence of the Octopine-Type Agrobacterium tumefaciens Strain Ach5.

Authors:  Christiaan V Henkel; Amke den Dulk-Ras; Xiaorong Zhang; Paul J J Hooykaas
Journal:  Genome Announc       Date:  2014-03-27

Review 6.  Historical account on gaining insights on the mechanism of crown gall tumorigenesis induced by Agrobacterium tumefaciens.

Authors:  Clarence I Kado
Journal:  Front Microbiol       Date:  2014-08-07       Impact factor: 5.640

7.  Ancestral Genome Estimation Reveals the History of Ecological Diversification in Agrobacterium.

Authors:  Florent Lassalle; Rémi Planel; Simon Penel; David Chapulliot; Valérie Barbe; Audrey Dubost; Alexandra Calteau; David Vallenet; Damien Mornico; Thomas Bigot; Laurent Guéguen; Ludovic Vial; Daniel Muller; Vincent Daubin; Xavier Nesme
Journal:  Genome Biol Evol       Date:  2017-12-01       Impact factor: 3.416

8.  The Abundance of Endofungal Bacterium Rhizobium radiobacter (syn. Agrobacterium tumefaciens) Increases in Its Fungal Host Piriformospora indica during the Tripartite Sebacinalean Symbiosis with Higher Plants.

Authors:  Huijuan Guo; Stefanie P Glaeser; Ibrahim Alabid; Jafargholi Imani; Hossein Haghighi; Peter Kämpfer; Karl-Heinz Kogel
Journal:  Front Microbiol       Date:  2017-04-13       Impact factor: 5.640

9.  Draft Genome Sequence of Agrobacterium sp. Strain UHFBA-218, Isolated from Rhizosphere Soil of Crown Gall-Infected Cherry Rootstock Colt.

Authors:  Ankita Dua; Naseer Sangwan; Jasvinder Kaur; Anjali Saxena; Puneet Kohli; A K Gupta; Rup Lal
Journal:  Genome Announc       Date:  2013-05-30

10.  Large deletions in the pAtC58 megaplasmid of Agrobacterium tumefaciens can confer reduced carriage cost and increased expression of virulence genes.

Authors:  Elise R Morton; Peter M Merritt; James D Bever; Clay Fuqua
Journal:  Genome Biol Evol       Date:  2013       Impact factor: 3.416
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