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Abundance and distribution of diverse membrane-bound monooxygenase (Cu-MMO) genes within the Costa Rica oxygen minimum zone

Tavormina, Patricia L. and Ussler, William, III and Steele, Joshua A. and Connon, Stephanie A. and Klotz, Martin G. and Orphan, Victoria J. (2013) Abundance and distribution of diverse membrane-bound monooxygenase (Cu-MMO) genes within the Costa Rica oxygen minimum zone. Environmental Microbiology Reports, 5 (3). pp. 414-423. ISSN 1758-2229. doi:10.1111/1758-2229.12025. https://resolver.caltech.edu/CaltechAUTHORS:20130619-100723976

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Abstract

Diverse copper-containing membrane-bound monooxygenase-encoding sequences (Cu-MMOs) have recently been described from the marine environment, suggesting widespread potential for oxidation of reduced substrates. Here, we used the well-defined oxygen and methane gradients associated with the Costa Rican oxygen minimum zone (OMZ) to gain insight into the physico-chemical parameters influencing the distribution and abundance of Cu-MMO-encoding marine microorganisms. Two Methylococcales-related Cu-MMO-encoding lineages, termed groups OPU1 and OPU3, demonstrated differences in their relative abundance, with both pmoA and candidate 16S rRNA genes correlating significantly with reduced environmental oxygen concentrations and depth. In contrast, a newly identified Cu-MMO-encoding lineage, Group C, was primarily associated with the oxygenated euphotic zone. An updated phylogenetic analysis including these sequences, a marine pxmABC gene cluster, ethylene-utilizing Cu-MMO-encoding lineages and previously reported planktonic Cu-MMOs (Groups W, X, Z and O) demonstrates the breadth of diversity of Cu-MMO-encoding marine microorganisms. Groups C and X affiliated phylogenetically with ethane- and ethylene-oxidizing Cu-MMOs, Groups W and O affiliated phylogenetically with the recently described Cu-MMO ‘pXMO’, and Group Z clustered with Cu-MMOs recovered from soils. Collectively, these data demonstrate widespread genetic potential in ocean waters for the oxidation of small, reduced molecules and advance our understanding of the microorganisms involved in methane cycling in the OMZ environment.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1111/1758-2229.12025DOIArticle
http://onlinelibrary.wiley.com/doi/10.1111/1758-2229.12025/abstractPublisherArticle
ORCID:
AuthorORCID
Orphan, Victoria J.0000-0002-5374-6178
Additional Information:© 2012 John Wiley & Sons Ltd and Society for Applied Microbiology. Received 6 September, 2012; accepted 3 December, 2012. Article first published online: 29 Jan 2013. We would like to thank the captain and crew of the RV Atlantis for the 2009 and 2010 Costa Rica expeditions, Shana Goffredi and Rachel Poretsky for assistance in collecting and processing samples, and numerous lab members and three anonymous reviewers for critical review and improving the quality of this study. Support was provided by grants from NASA ASTEP (NNG06GB34G to V. J. O.) and the National Science Foundation OCE (MCB-0348492 to V. J. O.) and MCB (EF-0541797 and MCB-0948202 to M. G. K.) programmes and through a grant to the Monterey Bay Aquarium Research Institute from the David and Lucile Packard Foundation (W. U.).
Funders:
Funding AgencyGrant Number
NASANNG06GB34G
NSFMCB-0348492
NSFEF-0541797
NSFMCB-0948202
Monterey Bay Aquarium Research InstituteUNSPECIFIED
David and Lucile Packard FoundationUNSPECIFIED
Issue or Number:3
DOI:10.1111/1758-2229.12025
Record Number:CaltechAUTHORS:20130619-100723976
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20130619-100723976
Official Citation:Tavormina, P. L., Ussler, W., Steele, J. A., Connon, S. A., Klotz, M. G. and Orphan, V. J. (2013), Abundance and distribution of diverse membrane-bound monooxygenase (Cu-MMO) genes within the Costa Rica oxygen minimum zone. Environmental Microbiology Reports, 5: 414–423. doi: 10.1111/1758-2229.12025
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:38983
Collection:CaltechAUTHORS
Deposited By: Ruth Sustaita
Deposited On:19 Jun 2013 18:25
Last Modified:09 Nov 2021 23:41

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