The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

Amber L. Hartman; Cédric Norais; Jonathan H. Badger; Stéphane Delmas; Sam Haldenby; Ramana Madupu; Jeffrey Robinson; Hoda Khouri; Qinghu Ren; Todd M. Lowe; Julie Maupin-Furlow; Mecky Pohlschroder; Charles Daniels; Friedhelm Pfeiffer; Thorsten Allers; Jonathan A. Eisen

doi:10.1371/journal.pone.0009605

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Research Article

The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

Amber L. Hartman,

Affiliations Department of Biology, Johns Hopkins University, Baltimore, Maryland, United States of America, The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America, UC Davis Genome Center, University of California Davis, Davis, California, United States of America
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Cédric Norais,

Affiliations Institut de Génétique et Microbiologie, Université Paris-Sud, Paris, France, Department of Biochemistry, University of Wisconsin-Madison, Madison, Wisconsin, United States of America
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Jonathan H. Badger,

Affiliation The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America
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Stéphane Delmas,

Affiliation Institute of Genetics, University of Nottingham, Nottingham, United Kingdom
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Sam Haldenby,

Affiliation Institute of Genetics, University of Nottingham, Nottingham, United Kingdom
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Ramana Madupu,

Current address: J. Craig Venter Institute, Rockville, Maryland, United States of America

Affiliation The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America
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Jeffrey Robinson,

Affiliation The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America
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Hoda Khouri,

Affiliation The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America
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Qinghu Ren,

Affiliation The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America
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Todd M. Lowe,

Affiliation Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, California, United States of America
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Julie Maupin-Furlow,

Affiliation Department of Microbiology and Cell Science, University of Florida, Gainesville, Florida, United States of America
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Mecky Pohlschroder,

Affiliation Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
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Charles Daniels,

Affiliation Department of Microbiology, Ohio State University, Columbus, Ohio, United States of America
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Friedhelm Pfeiffer,

Affiliation Department of Membrane Biochemistry, Max-Planck-Institute of Biochemistry, Martinsried, Germany
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Thorsten Allers,

Affiliation Institute of Genetics, University of Nottingham, Nottingham, United Kingdom
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[ ... ],
Jonathan A. Eisen

* E-mail: jaeisen@ucdavis.edu

Affiliations The Institute for Genomic Research (J. Craig Venter Institute), Rockville, Maryland, United States of America, UC Davis Genome Center, University of California Davis, Davis, California, United States of America, Department of Medical Microbiology and Immunology, University of California Davis, Davis, California, United States of America, Department of Evolution and Ecology, University of California Davis, Davis, California, United States of America
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The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

Amber L. Hartman,
Cédric Norais,
Jonathan H. Badger,
Stéphane Delmas,
Sam Haldenby,
Ramana Madupu,
Jeffrey Robinson,
Hoda Khouri,
Qinghu Ren,
Todd M. Lowe

Published: March 19, 2010
https://doi.org/10.1371/journal.pone.0009605

Reader Comments

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Statement is unsupported

Posted by PapkeLab on 19 Mar 2010 at 21:47 GMT

If present, this could explain the high transformation efficiency, natural competence, and mating ability of Hfx. volcanii [126] [127].
http://plosone.org/article/info:doi/10.1371/journal.pone.0009605#article1.body1.sec2.sec3.sec7.p1

There is no published evidence for natural competence in any haloarchaeal species and the two references cited, Mevarech and Werczberger 1985 and Rosenshine et al. 1989, do not involve natural competence (rather the authors were investigating mating/conjugation). Nor do the two references for this statement support the high transformation efficiency claim. Additionally, the only existing method for achieving transformation in haloarchaea relies on PEG-mediated chemical competence, implying that the possible DNA secretion system in Haloferax volcanii is unrelated to transformation efficiency/natural competence claims. We believe this statement is incorrect and should be retracted.

No competing interests declared.

RE: Statement is unsupported

jeisen replied to PapkeLab on 20 Mar 2010 at 00:05 GMT

Thanks for the comments. I am looking into this in more detail and will post soon when I have checked with the co-authors of our paper.

Competing interests declared: I am the senior author of the paper here.

RE: RE: Statement is unsupported

jeisen replied to jeisen on 22 Mar 2010 at 18:27 GMT

Upon consultation with my co-authors and with others in the community, we agree with you that our statement was inaccurate. We are going to submit a correction to fix this to say something like "If present, this could explain the mating ability of Hfx. volcani". Do you believe that would be accurate?

Competing interests declared: I am the senior author on the paper

RE: RE: RE: Statement is unsupported

PapkeLab replied to jeisen on 25 Mar 2010 at 18:27 GMT

Yes. Thank you for your attention on this matter.

No competing interests declared.

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The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

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Statement is unsupported

Posted by PapkeLab on 19 Mar 2010 at 21:47 GMT

RE: Statement is unsupported

jeisen replied to PapkeLab on 20 Mar 2010 at 00:05 GMT

RE: RE: Statement is unsupported

jeisen replied to jeisen on 22 Mar 2010 at 18:27 GMT

RE: RE: RE: Statement is unsupported

PapkeLab replied to jeisen on 25 Mar 2010 at 18:27 GMT