Urea Uptake and Carbon Fixation by Marine Pelagic Bacteria and Archaea during the Arctic Summer and Winter Seasons
Reads0
Chats0
TLDR
SIP experiments indicated a strong seasonal shift of bacterial and archaeal N utilization from ammonium during the summer to urea during the winter but did not support a similar seasonal pattern of nitrate utilization.Abstract:
How Arctic climate change might translate into alterations of biogeochemical cycles of carbon (C) and nitrogen (N) with respect to inorganic and organic N utilization is not well understood. This study combined 15N uptake rate measurements for ammonium, nitrate, and urea with 15N- and 13C-based DNA stable-isotope probing (SIP). The objective was to identify active bacterial and archeal plankton and their role in N and C uptake during the Arctic summer and winter seasons. We hypothesized that bacteria and archaea would successfully compete for nitrate and urea during the Arctic winter but not during the summer, when phytoplankton dominate the uptake of these nitrogen sources. Samples were collected at a coastal station near Barrow, AK, during August and January. During both seasons, ammonium uptake rates were greater than those for nitrate or urea, and nitrate uptake rates remained lower than those for ammonium or urea. SIP experiments indicated a strong seasonal shift of bacterial and archaeal N utilization from ammonium during the summer to urea during the winter but did not support a similar seasonal pattern of nitrate utilization. Analysis of 16S rRNA gene sequences obtained from each SIP fraction implicated marine group I Crenarchaeota (MGIC) as well as Betaproteobacteria, Firmicutes, SAR11, and SAR324 in N uptake from urea during the winter. Similarly, 13C SIP data suggested dark carbon fixation for MGIC, as well as for several proteobacterial lineages and the Firmicutes. These data are consistent with urea-fueled nitrification by polar archaea and bacteria, which may be advantageous under dark conditions.read more
Citations
More filters
Journal ArticleDOI
Physiological and genomic characterization of two novel marine thaumarchaeal strains indicates niche differentiation.
Barbara Bayer,Jana Vojvoda,Pierre Offre,Ricardo J. Eloy Alves,Nathalie H. Elisabeth,Juan Antonio García,Jean-Marie Volland,Abhishek Srivastava,Christa Schleper,Gerhard J. Herndl +9 more
TL;DR: The cultivation and characterization of two novel Nitrosopumilus strains, originating from coastal surface waters of the Northern Adriatic Sea, revealed that each strain exhibits different metabolic and functional traits, potentially reflecting contrasting life modes.
Book ChapterDOI
Chapter 4 – Dynamics of Dissolved Organic Nitrogen
TL;DR: In this article, Hansell et al. reviewed four major areas of DON research, including the methods used to analyze DON concentrations, global distributions, comparison of DON concentration across a range of aquatic systems and seasonal variations, and sources of DON to the water column.
Journal ArticleDOI
Cyanate and urea are substrates for nitrification by Thaumarchaeota in the marine environment.
Katharina Kitzinger,Katharina Kitzinger,Cory C. Padilla,Hannah K. Marchant,Philipp F. Hach,Craig W. Herbold,Abiel T. Kidane,Martin Könneke,Sten Littmann,Maria Mooshammer,Jutta Niggemann,Sandra Petrov,Andreas Richter,Frank J. Stewart,Michael Wagner,Marcel M. M. Kuypers,Laura A. Bristow,Laura A. Bristow +17 more
TL;DR: It is demonstrated that in the Gulf of Mexico, Thaumarchaeota use urea and cyanate both directly and indirectly as energy and N sources, and hypothesize that ureaand cyanate are substrates for ammonia-oxidizing Thaum archaeota throughout the ocean.
Journal ArticleDOI
Contribution of ammonia oxidation to chemoautotrophy in Antarctic coastal waters
Bradley B. Tolar,Meredith J Ross,Natalie J. Wallsgrove,Qian Liu,Lihini I. Aluwihare,Brian N. Popp,James T. Hollibaugh +6 more
TL;DR: The AO rates reported are ~10-fold greater than reported previously for Antarctic waters and suggest that inclusion of Antarctic coastal waters in global estimates of oceanic nitrification could increase global rate estimates by ~9%.
Journal ArticleDOI
Microbial Community Response to Terrestrially Derived Dissolved Organic Matter in the Coastal Arctic.
Rachel E. Sipler,Colleen T. E. Kellogg,Tara L. Connelly,Quinn N. Roberts,Patricia L. Yager,Deborah A. Bronk +5 more
TL;DR: The true ecological impact of terrestrially derived dissolved organic matter (tDOM) will be widespread across many bacterial taxa and that shifts in coastal microbial community composition should be anticipated.
References
More filters
Journal ArticleDOI
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
Book
A manual of chemical and biological methods for seawater analysis
TL;DR: In this article, the authors describe counting, media, and preservatives for analytical techniques, including soluble organic material, plant pigments, and photosynthesis in seawater, and show how to count media and preservative.
Journal ArticleDOI
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
Anna Klindworth,Elmar Pruesse,Timmy Schweer,Jörg Peplies,Christian Quast,Matthias Horn,Frank Oliver Glöckner +6 more
TL;DR: The results of this study may be used as a guideline for selecting primer pairs with the best overall coverage and phylum spectrum for specific applications, therefore reducing the bias in PCR-based microbial diversity studies.
Journal ArticleDOI
PyNAST: a flexible tool for aligning sequences to a template alignment
J. Gregory Caporaso,Kyle Bittinger,Frederic D. Bushman,Todd Z. DeSantis,Gary L. Andersen,Rob Knight +5 more
TL;DR: PyNAST as discussed by the authors is a complete reimplementation of NAST, which includes three convenient interfaces: a Mac OS X GUI, a command-line interface and a simple application programming interface (API).
Journal ArticleDOI
Impacts of climate change on the future of biodiversity.
TL;DR: Overall, this review shows that current estimates of future biodiversity are very variable, depending on the method, taxonomic group, biodiversity loss metrics, spatial scales and time periods considered.
Related Papers (5)
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples
Uptake of new and regenerated forms of nitrogen in primary productivity1
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss,Patrick D. Schloss,Sarah L. Westcott,Sarah L. Westcott,Thomas Ryabin,Justine R. Hall,Martin Hartmann,Emily B. Hollister,Ryan A. Lesniewski,Brian B. Oakley,Donovan H. Parks,Courtney J. Robinson,Jason W. Sahl,Blaz Stres,Gerhard G. Thallinger,David J. Van Horn,Carolyn F. Weber +16 more