Literature DB >> 22493196

Draft genome sequence of Rhizobium sp. strain PDO1-076, a bacterium isolated from Populus deltoides.

Steven D Brown1, Dawn M Klingeman, Tse-Yuan S Lu, Courtney M Johnson, Sagar M Utturkar, Miriam L Land, Christopher W Schadt, Mitchel J Doktycz, Dale A Pelletier.   

Abstract

Rhizobium sp. strain PDO1-076 is a plant-associated bacterium isolated from Populus deltoides, and its draft genome sequence is reported.

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Year:  2012        PMID： 22493196      PMCID： PMC3347069          DOI： 10.1128/JB.00198-12

Source DB:  PubMed          Journal:  J Bacteriol        ISSN： 0021-9193            Impact factor:   3.490


  11 in total

1.  Solexa Ltd.

Authors:  Simon Bennett
Journal:  Pharmacogenomics       Date:  2004-06       Impact factor: 2.533

2.  Genome sequencing in microfabricated high-density picolitre reactors.

Authors:  Marcel Margulies; Michael Egholm; William E Altman; Said Attiya; Joel S Bader; Lisa A Bemben; Jan Berka; Michael S Braverman; Yi-Ju Chen; Zhoutao Chen; Scott B Dewell; Lei Du; Joseph M Fierro; Xavier V Gomes; Brian C Godwin; Wen He; Scott Helgesen; Chun Heen Ho; Chun He Ho; Gerard P Irzyk; Szilveszter C Jando; Maria L I Alenquer; Thomas P Jarvie; Kshama B Jirage; Jong-Bum Kim; James R Knight; Janna R Lanza; John H Leamon; Steven M Lefkowitz; Ming Lei; Jing Li; Kenton L Lohman; Hong Lu; Vinod B Makhijani; Keith E McDade; Michael P McKenna; Eugene W Myers; Elizabeth Nickerson; John R Nobile; Ramona Plant; Bernard P Puc; Michael T Ronan; George T Roth; Gary J Sarkis; Jan Fredrik Simons; John W Simpson; Maithreyan Srinivasan; Karrie R Tartaro; Alexander Tomasz; Kari A Vogt; Greg A Volkmer; Shally H Wang; Yong Wang; Michael P Weiner; Pengguang Yu; Richard F Begley; Jonathan M Rothberg
Journal:  Nature       Date:  2005-07-31       Impact factor: 49.962

Review 3.  The role of root exudates in rhizosphere interactions with plants and other organisms.

Authors:  Harsh P Bais; Tiffany L Weir; Laura G Perry; Simon Gilroy; Jorge M Vivanco
Journal:  Annu Rev Plant Biol       Date:  2006       Impact factor: 26.379

4.  Analysis of core genes supports the reclassification of strains Agrobacterium radiobacter K84 and Agrobacterium tumefaciens AKE10 into the species Rhizobium rhizogenes.

Authors:  Encarna Velázquez; José Luis Palomo; Raúl Rivas; Hilario Guerra; Alvaro Peix; Martha E Trujillo; Pablo García-Benavides; Pedro F Mateos; Hiroetsu Wabiko; Eustoquio Martínez-Molina
Journal:  Syst Appl Microbiol       Date:  2010-08       Impact factor: 4.022

5.  Distinct microbial communities within the endosphere and rhizosphere of Populus deltoides roots across contrasting soil types.

Authors:  Neil R Gottel; Hector F Castro; Marilyn Kerley; Zamin Yang; Dale A Pelletier; Mircea Podar; Tatiana Karpinets; Ed Uberbacher; Gerald A Tuskan; Rytas Vilgalys; Mitchel J Doktycz; Christopher W Schadt
Journal:  Appl Environ Microbiol       Date:  2011-07-15       Impact factor: 4.792

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 sequence of the cellulolytic thermophile Caldicellulosiruptor obsidiansis OB47T.

Authors:  James G Elkins; Adriane Lochner; Scott D Hamilton-Brehm; Karen Walston Davenport; Mircea Podar; Steven D Brown; Miriam L Land; Loren J Hauser; Dawn M Klingeman; Babu Raman; Lynne A Goodwin; Roxanne Tapia; Linda J Meincke; J Chris Detter; David C Bruce; Cliff S Han; Anthony V Palumbo; Robert W Cottingham; Martin Keller; David E Graham
Journal:  J Bacteriol       Date:  2010-09-17       Impact factor: 3.490

8.  Molecular systematics of rhizobia based on maximum likelihood and Bayesian phylogenies inferred from rrs, atpD, recA and nifH sequences, and their use in the classification of Sesbania microsymbionts from Venezuelan wetlands.

Authors:  Pablo Vinuesa; Claudia Silva; María José Lorite; María Luisa Izaguirre-Mayoral; Eulogio J Bedmar; Esperanza Martínez-Romero
Journal:  Syst Appl Microbiol       Date:  2005-10       Impact factor: 4.022

9.  Prodigal: prokaryotic gene recognition and translation initiation site identification.

Authors:  Doug Hyatt; Gwo-Liang Chen; Philip F Locascio; Miriam L Land; Frank W Larimer; Loren J Hauser
Journal:  BMC Bioinformatics       Date:  2010-03-08       Impact factor: 3.169

10.  Genome sequences of three agrobacterium biovars help elucidate the evolution of multichromosome genomes in bacteria.

Authors:  Steven C Slater; Barry S Goldman; Brad Goodner; João C Setubal; Stephen K Farrand; Eugene W Nester; Thomas J Burr; Lois Banta; Allan W Dickerman; Ian Paulsen; Leon Otten; Garret Suen; Roy Welch; Nalvo F Almeida; Frank Arnold; Oliver T Burton; Zijin Du; Adam Ewing; Eric Godsy; Sara Heisel; Kathryn L Houmiel; Jinal Jhaveri; Jing Lu; Nancy M Miller; Stacie Norton; Qiang Chen; Waranyoo Phoolcharoen; Victoria Ohlin; Dan Ondrusek; Nicole Pride; Shawn L Stricklin; Jian Sun; Cathy Wheeler; Lindsey Wilson; Huijun Zhu; Derek W Wood
Journal:  J Bacteriol       Date:  2009-02-27       Impact factor: 3.490
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  13 in total

1.  Twenty-one genome sequences from Pseudomonas species and 19 genome sequences from diverse bacteria isolated from the rhizosphere and endosphere of Populus deltoides.

Authors:  Steven D Brown; Sagar M Utturkar; Dawn M Klingeman; Courtney M Johnson; Stanton L Martin; Miriam L Land; Tse-Yuan S Lu; Christopher W Schadt; Mitchel J Doktycz; Dale A Pelletier
Journal:  J Bacteriol       Date:  2012-11       Impact factor: 3.490

2.  Draft genome sequences for two metal-reducing Pelosinus fermentans strains isolated from a Cr(VI)-contaminated site and for type strain R7.

Authors:  Steven D Brown; Mircea Podar; Dawn M Klingeman; Courtney M Johnson; Zamin K Yang; Sagar M Utturkar; Miriam L Land; Jennifer J Mosher; Richard A Hurt; Tommy J Phelps; Anthony V Palumbo; Adam P Arkin; Terry C Hazen; Dwayne A Elias
Journal:  J Bacteriol       Date:  2012-09       Impact factor: 3.490

3.  LuxR- and luxI-type quorum-sensing circuits are prevalent in members of the Populus deltoides microbiome.

Authors:  Amy L Schaefer; Colin R Lappala; Ryan P Morlen; Dale A Pelletier; Tse-Yuan S Lu; Patricia K Lankford; Caroline S Harwood; E Peter Greenberg
Journal:  Appl Environ Microbiol       Date:  2013-07-12       Impact factor: 4.792

4.  Draft genome sequences for three mercury-methylating, sulfate-reducing bacteria.

Authors:  Steven D Brown; Richard A Hurt; Cynthia C Gilmour; Dwayne A Elias
Journal:  Genome Announc       Date:  2013-08-15

5.  A LuxR Homolog in a Cottonwood Tree Endophyte That Activates Gene Expression in Response to a Plant Signal or Specific Peptides.

Authors:  Amy L Schaefer; Yasuhiro Oda; Bruna Goncalves Coutinho; Dale A Pelletier; Justin Weiburg; Vittorio Venturi; E Peter Greenberg; Caroline S Harwood
Journal:  MBio       Date:  2016-08-02       Impact factor: 7.867

6.  Cultivating the Bacterial Microbiota of Populus Roots.

Authors:  Dana L Carper; David J Weston; Aditya Barde; Collin M Timm; Tse-Yuan Lu; Leah H Burdick; Sara S Jawdy; Dawn M Klingeman; Michael S Robeson; Allison M Veach; Melissa A Cregger; Udaya C Kalluri; Christopher W Schadt; Mircea Podar; Mitchel J Doktycz; Dale A Pelletier
Journal:  mSystems       Date:  2021-06-22       Impact factor: 6.496

7.  Draft Genome Sequence of Rhodococcus rhodochrous Strain ATCC 21198.

Authors:  Sara A Shields-Menard; Steven D Brown; Dawn M Klingeman; Karl Indest; Dawn Hancock; Jayani J Wewalwela; W Todd French; Janet R Donaldson
Journal:  Genome Announc       Date:  2014-02-13

8.  Comparison of single-molecule sequencing and hybrid approaches for finishing the genome of Clostridium autoethanogenum and analysis of CRISPR systems in industrial relevant Clostridia.

Authors:  Steven D Brown; Shilpa Nagaraju; Sagar Utturkar; Sashini De Tissera; Simón Segovia; Wayne Mitchell; Miriam L Land; Asela Dassanayake; Michael Köpke
Journal:  Biotechnol Biofuels       Date:  2014-03-21       Impact factor: 6.040

9.  Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences.

Authors:  Sagar M Utturkar; Dawn M Klingeman; Miriam L Land; Christopher W Schadt; Mitchel J Doktycz; Dale A Pelletier; Steven D Brown
Journal:  Bioinformatics       Date:  2014-06-14       Impact factor: 6.937

10.  Draft Genome Sequences of Four Streptomyces Isolates from the Populus trichocarpa Root Endosphere and Rhizosphere.

Authors:  Dawn M Klingeman; Sagar Utturkar; Tse-Yuan S Lu; Christopher W Schadt; Dale A Pelletier; Steven D Brown
Journal:  Genome Announc       Date:  2015-11-12
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