High molecular weight dissolved organic matter enrichment selects for methylotrophs in dilution to extinction cultures View Full Text


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Article Info

DATE

2015-05-15

AUTHORS

Oscar A Sosa, Scott M Gifford, Daniel J Repeta, Edward F DeLong

ABSTRACT

The role of bacterioplankton in the cycling of marine dissolved organic matter (DOM) is central to the carbon and energy balance in the ocean, yet there are few model organisms available to investigate the genes, metabolic pathways, and biochemical mechanisms involved in the degradation of this globally important carbon pool. To obtain microbial isolates capable of degrading semi-labile DOM for growth, we conducted dilution to extinction cultivation experiments using seawater enriched with high molecular weight (HMW) DOM. In total, 93 isolates were obtained. Amendments using HMW DOM to increase the dissolved organic carbon concentration 4x (280 μM) or 10x (700 μM) the ocean surface water concentrations yielded positive growth in 4-6% of replicate dilutions, whereas <1% scored positive for growth in non-DOM-amended controls. The majority (71%) of isolates displayed a distinct increase in cell yields when grown in increasing concentrations of HMW DOM. Whole-genome sequencing was used to screen the culture collection for purity and to determine the phylogenetic identity of the isolates. Eleven percent of the isolates belonged to the gammaproteobacteria including Alteromonadales (the SAR92 clade) and Vibrio. Surprisingly, 85% of isolates belonged to the methylotrophic OM43 clade of betaproteobacteria, bacteria thought to metabolically specialize in degrading C1 compounds. Growth of these isolates on methanol confirmed their methylotrophic phenotype. Our results indicate that dilution to extinction cultivation enriched with natural sources of organic substrates has a potential to reveal the previously unsuspected relationships between naturally occurring organic nutrients and the microorganisms that consume them. More... »

PAGES

2725-2739

References to SciGraph publications

  • 2010-11-11. Environmental proteomics of microbial plankton in a highly productive coastal upwelling system in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2007-07-05. Improvements of high-throughput culturing yielded novel SAR11 strains and other abundant marine bacteria from the Oregon coast and the Bermuda Atlantic Time Series study site in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2012-03-03. Genome sequence of strain HIMB624, a cultured representative from the OM43 clade of marine Betaproteobacteria in ENVIRONMENTAL MICROBIOME
  • 2014-04-29. Discovery of a SAR11 growth requirement for thiamin’s pyrimidine precursor and its distribution in the Sargasso Sea in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2012-08-09. Isolation of an aerobic sulfur oxidizer from the SUP05/Arctic96BD-19 clade in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2004-10-14. Phylogenetic Screening of Ribosomal RNA Gene-Containing Clones in Bacterial Artificial Chromosome (BAC) Libraries from Different Depths in Monterey Bay in MICROBIAL ECOLOGY
  • 1998-06. Marine phosphorus is selectively remineralized in NATURE
  • 2002-08. Cultivation of the ubiquitous SAR11 marine bacterioplankton clade in NATURE
  • 1997-05. A major biopolymeric component to dissolved organic carbon in surface sea water in NATURE
  • 1987-11. Radiocarbon in dissolved organic matter in the central North Pacific Ocean in NATURE
  • 1997-11. Chemical composition of dissolved organic nitrogen in the ocean in NATURE
  • 2007-07-11. Dilution-to-Extinction Culturing of Psychrotolerant Planktonic Bacteria from Permanently Ice-covered Lakes in the McMurdo Dry Valleys, Antarctica in MICROBIAL ECOLOGY
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/ismej.2015.68

    DOI

    http://dx.doi.org/10.1038/ismej.2015.68

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1003291908

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/25978545


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