Indigenous Ammonia-Oxidizing Archaea in Oxic Subseafloor Oceanic Crust

MSystems
Rui ZhaoSteffen L Jørgensen

Abstract

Oceanic ridge flank systems represent one of the largest and least-explored microbial habitats on Earth. Fundamental ecological questions regarding community activity, recruitment, and succession in this environment remain unanswered. Here, we investigated ammonia-oxidizing archaea (AOA) in the sediment-buried basalts on the oxic and young ridge flank at North Pond, a sediment-filled pond on the western flank of the Mid-Atlantic Ridge, and compared them with those in the overlying sediments and bottom seawater. Nitrification in the North Pond basement is thermodynamically favorable and is supported by a reaction-transport model simulating the dynamics of nitrate in the crustal fluids. Nitrification rate is estimated to account for 6% to 7% of oxygen consumption, which is similar to the ratios found in marine oxic sediments, suggesting that aerobic mineralization of organic matter is the major ammonium source for crustal nitrifiers. Using the archaeal 16S rRNA and amoA genes as phylogenetic markers, we show that AOA, composed solely of Nitrosopumilaceae, are the major archaeal dwellers at North Pond. Phylogenetic analysis reveals that the crustal AOA communities are distinct from those in the bottom seawater and the upper oxic s...Continue Reading

References

Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Dec 25, 2004·Science·Steven D'HondtJuana Luz Solis Acosta
Sep 28, 2005·Proceedings of the National Academy of Sciences of the United States of America·Christopher A FrancisBrian B Oakley
Jul 25, 2009·Environmental Microbiology·Erwan G RousselMarie-Anne Cambon Bonavita
Aug 17, 2010·Bioinformatics·Robert C Edgar
Nov 17, 2010·PloS One·Olivia U MasonStephen J Giovannoni
Nov 26, 2010·The ISME Journal·Beth N OrcuttKatrina J Edwards
Sep 7, 2011·Nature Reviews. Microbiology·Katrina J EdwardsJason B Sylvan
Feb 22, 2012·Frontiers in Microbiology·Katrina J EdwardsC Geoffrey Wheat
Jul 14, 2012·The ISME Journal·Sean P JungbluthMichael S Rappé
Oct 3, 2012·Proceedings of the National Academy of Sciences of the United States of America·Steffen Leth JorgensenChrista Schleper
Nov 13, 2012·PloS One·Anders LanzénTim Urich
Jan 17, 2013·Nature Reviews. Microbiology·Tori M Hoehler, Bo Barker Jørgensen
Jan 19, 2013·Molecular Biology and Evolution·Kazutaka Katoh, Daron M Standley
Oct 1, 2010·Environmental Microbiology Reports·Alan M Durbin, Andreas Teske
Sep 28, 2013·Nature Communications·Beth N OrcuttWolfgang Bach
Nov 6, 2014·Molecular Biology and Evolution·Lam-Tung NguyenBui Quang Minh
Jul 4, 2015·The ISME Journal·Eduard Vico OtonCécile Gubry-Rangin
Aug 8, 2015·The ISME Journal·Guillem SalazarSilvia G Acinas
Sep 4, 2015·Molecular Ecology·Eva SintesGerhard J Herndl
Oct 7, 2015·Frontiers in Microbiology·Beth N OrcuttPeter R Girguis
Nov 27, 2015·Nature·Holger DaimsMichael Wagner
Nov 27, 2015·Nature·Maartje A H J van KesselSebastian Lücker
Dec 1, 2015·Frontiers in Microbiology·Everett C SalasKatrina J Edwards
Jun 16, 2016·Frontiers in Microbiology·Steffen L Jørgensen, Rui Zhao

❮ Previous
Next ❯

Citations

Oct 21, 2020·Proceedings of the National Academy of Sciences of the United States of America·Tatsuhiko HoshinoFumio Inagaki
Dec 22, 2020·Environmental Microbiology·Beth N OrcuttElizabeth Trembath-Reichert
Oct 19, 2021·Frontiers in Microbiology·Pauline BergstenViggó Thor Marteinsson

❮ Previous
Next ❯

Datasets Mentioned

BETA
SRP070121
PRJNA489438
MF999267
MF999866

Methods Mentioned

BETA
PCR
amplicon sequencing
PCRs

Software Mentioned

SilvaMod
MAFFT
ModelFinder
FunGene
BLASTn
RAxML
CREST
Functional Gene Pipeline Repository
mothur
- LINSi

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.