Literature DB >> 22275095

Genome sequence of Pseudomonas stutzeri SDM-LAC, a typical strain for studying the molecular mechanism of lactate utilization.

Tianyi Jiang1, Chao Gao, Fei Su, Wen Zhang, Chunhui Hu, Peipei Dou, Zhaojuan Zheng, Fei Tao, Cuiqing Ma, Ping Xu.   

Abstract

Pseudomonas stutzeri SDM-LAC is an efficient lactate utilizer with various applications in biocatalysis. Here we present a 4.2-Mb assembly of its genome. The annotated four adjacent genes form a lactate utilization operon, which could provide further insights into the molecular mechanism of lactate utilization.

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Year:  2012        PMID： 22275095      PMCID： PMC3272959          DOI： 10.1128/JB.06478-11

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


  16 in total

1.  Velvet: algorithms for de novo short read assembly using de Bruijn graphs.

Authors:  Daniel R Zerbino; Ewan Birney
Journal:  Genome Res       Date:  2008-03-18       Impact factor: 9.043

2.  tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.

Authors:  T M Lowe; S R Eddy
Journal:  Nucleic Acids Res       Date:  1997-03-01       Impact factor: 16.971

Review 3.  Biology of Pseudomonas stutzeri.

Authors:  Jorge Lalucat; Antoni Bennasar; Rafael Bosch; Elena García-Valdés; Norberto J Palleroni
Journal:  Microbiol Mol Biol Rev       Date:  2006-06       Impact factor: 11.056

4.  Pseudomonas stutzeri as a novel biocatalyst for pyruvate production from DL-lactate.

Authors:  Jianrong Hao; Cuiqing Ma; Chao Gao; Jianhua Qiu; Min Wang; Yinan Zhang; Xing Cui; Ping Xu
Journal:  Biotechnol Lett       Date:  2006-11-08       Impact factor: 2.461

5.  Membrane-bound L- and D-lactate dehydrogenase activities of a newly isolated Pseudomonas stutzeri strain.

Authors:  Cuiqing Ma; Chao Gao; Jianhua Qiu; Jianrong Hao; Wenwen Liu; Ailong Wang; Yinan Zhang; Min Wang; Ping Xu
Journal:  Appl Microbiol Biotechnol       Date:  2007-09-06       Impact factor: 4.813

6.  Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501.

Authors:  Yongliang Yan; Jian Yang; Yuetan Dou; Ming Chen; Shuzhen Ping; Junping Peng; Wei Lu; Wei Zhang; Ziying Yao; Hongquan Li; Wei Liu; Sheng He; Lizhao Geng; Xiaobing Zhang; Fan Yang; Haiying Yu; Yuhua Zhan; Danhua Li; Zhanglin Lin; Yiping Wang; Claudine Elmerich; Min Lin; Qi Jin
Journal:  Proc Natl Acad Sci U S A       Date:  2008-05-21       Impact factor: 11.205

7.  Enantioselective oxidation of racemic lactic acid to D-lactic acid and pyruvic acid by Pseudomonas stutzeri SDM.

Authors:  Chao Gao; Jianhua Qiu; Jingchen Li; Cuiqing Ma; Hongzhi Tang; Ping Xu
Journal:  Bioresour Technol       Date:  2008-11-11       Impact factor: 9.642

8.  RNAmmer: consistent and rapid annotation of ribosomal RNA genes.

Authors:  Karin Lagesen; Peter Hallin; Einar Andreas Rødland; Hans-Henrik Staerfeldt; Torbjørn Rognes; David W Ussery
Journal:  Nucleic Acids Res       Date:  2007-04-22       Impact factor: 16.971

9.  The RAST Server: rapid annotations using subsystems technology.

Authors:  Ramy K Aziz; Daniela Bartels; Aaron A Best; Matthew DeJongh; Terrence Disz; Robert A Edwards; Kevin Formsma; Svetlana Gerdes; Elizabeth M Glass; Michael Kubal; Folker Meyer; Gary J Olsen; Robert Olson; Andrei L Osterman; Ross A Overbeek; Leslie K McNeil; Daniel Paarmann; Tobias Paczian; Bruce Parrello; Gordon D Pusch; Claudia Reich; Rick Stevens; Olga Vassieva; Veronika Vonstein; Andreas Wilke; Olga Zagnitko
Journal:  BMC Genomics       Date:  2008-02-08       Impact factor: 3.969

10.  The COG database: an updated version includes eukaryotes.

Authors:  Roman L Tatusov; Natalie D Fedorova; John D Jackson; Aviva R Jacobs; Boris Kiryutin; Eugene V Koonin; Dmitri M Krylov; Raja Mazumder; Sergei L Mekhedov; Anastasia N Nikolskaya; B Sridhar Rao; Sergei Smirnov; Alexander V Sverdlov; Sona Vasudevan; Yuri I Wolf; Jodie J Yin; Darren A Natale
Journal:  BMC Bioinformatics       Date:  2003-09-11       Impact factor: 3.169
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  14 in total

1.  Lactate utilization is regulated by the FadR-type regulator LldR in Pseudomonas aeruginosa.

Authors:  Chao Gao; Chunhui Hu; Zhaojuan Zheng; Cuiqing Ma; Tianyi Jiang; Peipei Dou; Wen Zhang; Bin Che; Yujiao Wang; Min Lv; Ping Xu
Journal:  J Bacteriol       Date:  2012-03-09       Impact factor: 3.490

2.  A Bacterial Multidomain NAD-Independent d-Lactate Dehydrogenase Utilizes Flavin Adenine Dinucleotide and Fe-S Clusters as Cofactors and Quinone as an Electron Acceptor for d-Lactate Oxidization.

Authors:  Tianyi Jiang; Xiaoting Guo; Jinxin Yan; Yingxin Zhang; Yujiao Wang; Manman Zhang; Binbin Sheng; Cuiqing Ma; Ping Xu; Chao Gao
Journal:  J Bacteriol       Date:  2017-10-17       Impact factor: 3.490

3.  Coupling between d-3-phosphoglycerate dehydrogenase and d-2-hydroxyglutarate dehydrogenase drives bacterial l-serine synthesis.

Authors:  Wen Zhang; Manman Zhang; Chao Gao; Yipeng Zhang; Yongsheng Ge; Shiting Guo; Xiaoting Guo; Zikang Zhou; Qiuyuan Liu; Yingxin Zhang; Cuiqing Ma; Fei Tao; Ping Xu
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-21       Impact factor: 11.205

4.  NAD-Independent L-Lactate Dehydrogenase Required for L-Lactate Utilization in Pseudomonas stutzeri A1501.

Authors:  Chao Gao; Yujiao Wang; Yingxin Zhang; Min Lv; Peipei Dou; Ping Xu; Cuiqing Ma
Journal:  J Bacteriol       Date:  2015-04-27       Impact factor: 3.490

5.  Genome sequence of the moderately halotolerant, arsenite-oxidizing bacterium Pseudomonas stutzeri TS44.

Authors:  Xiangyang Li; Jing Gong; Yao Hu; Lin Cai; Laurel Johnstone; Gregor Grass; Christopher Rensing; Gejiao Wang
Journal:  J Bacteriol       Date:  2012-08       Impact factor: 3.490

6.  Genome sequence of the lactate-utilizing Pseudomonas aeruginosa strain XMG.

Authors:  Chao Gao; Chunhui Hu; Cuiqing Ma; Fei Su; Hao Yu; Tianyi Jiang; Peipei Dou; Yujiao Wang; Tong Qin; Min Lv; Ping Xu
Journal:  J Bacteriol       Date:  2012-09       Impact factor: 3.490

7.  NAD-independent L-lactate dehydrogenase is required for L-lactate utilization in Pseudomonas stutzeri SDM.

Authors:  Chao Gao; Tianyi Jiang; Peipei Dou; Cuiqing Ma; Lixiang Li; Jian Kong; Ping Xu
Journal:  PLoS One       Date:  2012-05-04       Impact factor: 3.240

8.  Draft Genome Sequence of the Toluene-Degrading Pseudomonas stutzeri Strain ST-9.

Authors:  Margarita Gomila; Antonio Busquets; Elena García-Valdés; Esti Michael; Rivka Cahan; Yeshayahu Nitzan; Jorge Lalucat
Journal:  Genome Announc       Date:  2015-06-04

9.  Draft Genome of the Nitrogen-Fixing Bacterium Pseudomonas stutzeri Strain KOS6 Isolated from Industrial Hydrocarbon Sludge.

Authors:  Tatiana V Grigoryeva; Aleksandr V Laikov; Rimma P Naumova; Aleksandr I Manolov; Andrey K Larin; Irina Y Karpova; Tatiana A Semashko; Dmitry G Alexeev; Elena S Kostryukova; Rudolf Müller; Vadim M Govorun
Journal:  Genome Announc       Date:  2013-01-31

10.  Efficient production of pyruvate from DL-lactate by the lactate-utilizing strain Pseudomonas stutzeri SDM.

Authors:  Chao Gao; Jianhua Qiu; Cuiqing Ma; Ping Xu
Journal:  PLoS One       Date:  2012-07-09       Impact factor: 3.240
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