Literature DB >> 21914881

Genome sequence of Kosmotoga olearia strain TBF 19.5.1, a thermophilic bacterium with a wide growth temperature range, isolated from the Troll B oil platform in the North Sea.

Kristen S Swithers1, Jonathan L DiPippo, David C Bruce, Christopher Detter, Roxanne Tapia, Shunsheng Han, Lynne A Goodwin, James Han, Tanja Woyke, Sam Pitluck, Len Pennacchio, Matthew Nolan, Natalia Mikhailova, Miriam L Land, Camilla L Nesbø, J Peter Gogarten, Kenneth M Noll.   

Abstract

Kosmotoga olearia strain TBF 19.5.1 is a member of the Thermotogales that grows best at 65°C and very well even at 37°C. Information about this organism is important for understanding the evolution of mesophiles from thermophiles. Its genome sequence reveals extensive gene gains and a large content of mobile genetic elements. It also contains putative hydrogenase genes that have no homologs in the other member of the Thermotogales.

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Year:  2011        PMID： 21914881      PMCID： PMC3187421          DOI： 10.1128/JB.05828-11

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


  12 in total

1.  Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.

Authors:  A Krogh; B Larsson; G von Heijne; E L Sonnhammer
Journal:  J Mol Biol       Date:  2001-01-19       Impact factor: 5.469

2.  Rfam: an RNA family database.

Authors:  Sam Griffiths-Jones; Alex Bateman; Mhairi Marshall; Ajay Khanna; Sean R Eddy
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

3.  Improved prediction of signal peptides: SignalP 3.0.

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Journal:  J Mol Biol       Date:  2004-07-16       Impact factor: 5.469

4.  GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes.

Authors:  Amrita Pati; Natalia N Ivanova; Natalia Mikhailova; Galina Ovchinnikova; Sean D Hooper; Athanasios Lykidis; Nikos C Kyrpides
Journal:  Nat Methods       Date:  2010-05-02       Impact factor: 28.547

5.  Evidence for existence of "mesotogas," members of the order Thermotogales adapted to low-temperature environments.

Authors:  Camilla L Nesbø; Marlena Dlutek; Olga Zhaxybayeva; W Ford Doolittle
Journal:  Appl Environ Microbiol       Date:  2006-07       Impact factor: 4.792

6.  Base-calling of automated sequencer traces using phred. I. Accuracy assessment.

Authors:  B Ewing; L Hillier; M C Wendl; P Green
Journal:  Genome Res       Date:  1998-03       Impact factor: 9.043

7.  Consed: a graphical tool for sequence finishing.

Authors:  D Gordon; C Abajian; P Green
Journal:  Genome Res       Date:  1998-03       Impact factor: 9.043

8.  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

9.  Kosmotoga olearia gen. nov., sp. nov., a thermophilic, anaerobic heterotroph isolated from an oil production fluid.

Authors:  Jonathan L Dipippo; Camilla L Nesbø; Håkon Dahle; W Ford Doolittle; Nils-Kåre Birkland; Kenneth M Noll
Journal:  Int J Syst Evol Microbiol       Date:  2009-07-30       Impact factor: 2.747

10.  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
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  8 in total

1.  Extreme Thermophiles: Moving beyond single-enzyme biocatalysis.

Authors:  Andrew D Frock; Robert M Kelly
Journal:  Curr Opin Chem Eng       Date:  2012-11-12       Impact factor: 5.163

2.  Integration of transcriptomic and proteomic analyses of cold shock response in Kosmotoga olearia, a typical thermophile with an incredible minimum growth temperature at 20 °C.

Authors:  Xia Li; Dan Li; Shichun Ma; Yi Yang
Journal:  Braz J Microbiol       Date:  2022-01-07       Impact factor: 2.476

3.  Horizontal gene transfer and genome evolution in Methanosarcina.

Authors:  Sofya K Garushyants; Marat D Kazanov; Mikhail S Gelfand
Journal:  BMC Evol Biol       Date:  2015-06-05       Impact factor: 3.260

4.  Comparative analysis of amino acid sequences from mesophiles and thermophiles in respective of carbon-nitrogen hydrolase family.

Authors:  Sarita Devi; Nikhil Sharma; Tek Chand Bhalla
Journal:  3 Biotech       Date:  2013-01-16       Impact factor: 2.406

5.  Vitamin B(12) synthesis and salvage pathways were acquired by horizontal gene transfer to the Thermotogales.

Authors:  Kristen S Swithers; Amanda K Petrus; Michael A Secinaro; Camilla L Nesbø; J Peter Gogarten; Kenneth M Noll; Nicholas C Butzin
Journal:  Genome Biol Evol       Date:  2012-07-12       Impact factor: 3.416

6.  Genome sequence of the Thermotoga thermarum type strain (LA3(T)) from an African solfataric spring.

Authors:  Markus Göker; Stefan Spring; Carmen Scheuner; Iain Anderson; Ahmet Zeytun; Matt Nolan; Susan Lucas; Hope Tice; Tijana Glavina Del Rio; Jan-Fang Cheng; Cliff Han; Roxanne Tapia; Lynne A Goodwin; Sam Pitluck; Konstantinos Liolios; Konstantinos Mavromatis; Ioanna Pagani; Natalia Ivanova; Natalia Mikhailova; Amrita Pati; Amy Chen; Krishna Palaniappan; Miriam Land; Loren Hauser; Yun-Juan Chang; Cynthia D Jeffries; Manfred Rohde; John C Detter; Tanja Woyke; James Bristow; Jonathan A Eisen; Victor Markowitz; Philip Hugenholtz; Nikos C Kyrpides; Hans-Peter Klenk; Alla Lapidus
Journal:  Stand Genomic Sci       Date:  2014-05-15

7.  Draft Genome Sequences of Kosmotoga sp. Strain DU53 and Kosmotoga arenicorallina S304.

Authors:  Stephen M J Pollo; Rhianna Charchuk; Camilla L Nesbø
Journal:  Genome Announc       Date:  2016-06-16

8.  Genomic insights into temperature-dependent transcriptional responses of Kosmotoga olearia, a deep-biosphere bacterium that can grow from 20 to 79 °C.

Authors:  Stephen M J Pollo; Abigail A Adebusuyi; Timothy J Straub; Julia M Foght; Olga Zhaxybayeva; Camilla L Nesbø
Journal:  Extremophiles       Date:  2017-09-11       Impact factor: 2.395
  8 in total

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