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Nitrosopumilus maritimus SCM1

ABSTRACT: Autotrophic ammonia-oxidizing Archaea

PROVIDER: PRJNA19265 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR000221.fastq.gz	Fastqsanger.gz
	SRR000222.fastq.gz	Fastqsanger.gz
	SRR000223.fastq.gz	Fastqsanger.gz
	GCA_000018465.1_sequence_report.txt	Txt

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Nitrosopumilus maritimus SCM1: exponential phase control vs. 24 hours starvation vs. 24 hours recovery after starvation

Project description:Transcriptional profiling of marine ammonia oxidizing archaea Nitrosopumilus maritimus cells comparing exponential phase control cells with cells under 24 hours starvation and with cells under recovery after 24 hours starvation. Goal was to determine the effects of global transcriptional responses of N. maritimus cells under ammonia starvation and recovery conditions.

2017-11-01 | GSE103848 | GEO

Nitrosopumilus maritimus SCM1

Project description:Stress response of a marine ammonia-oxidizing archaeon N. maritimus SCM1 to copper

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Project description:Nitrosopumilus maritimus SCM1 transcriptome - Nmari S

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Project description:Nitrosopumilus maritimus SCM1 transcriptome - Nmari K

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Project description:Nitrosopumilus maritimus SCM1: exponential phase control vs. 24 hours starvation vs. 24 hours recovery after starvation

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Project description:Nitrosopumilus maritimus SCM1 transcriptome

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Iron requirements and uptake strategies of the globally abundant marine ammonia-oxidising archaeon, Nitrosopumilus maritimus SCM1.

Project description:Ammonia-oxidising archaea (AOA) mediate the rate-limiting step of nitrification, the central component of the marine nitrogen cycle that converts ammonia to nitrite then nitrate. Competition with phytoplankton for ammonium and light inhibition are considered to restrict AOA activity to below the photic zone, but observations of surface nitrification now demand a further understanding of the factors driving AOA distribution and activity. Pico- to nanomolar concentrations of iron (Fe) limit the growth of microorganisms in a significant portion of the world's surface oceans, yet there is no examination of the role of Fe in AOA growth despite the process of ammonia oxidation being considered to rely on the micronutrient. Here we investigate the Fe requirements and Fe uptake strategies of the Nitrosopumilus maritimus strain SCM1, a strain representative of globally abundant marine AOA. Using trace metal clean culturing techniques, we found that N. maritimus growth is determined by Fe availability, displaying a free inorganic Fe (Fe') half saturation constant 1-2 orders of magnitude greater for cell growth than numerous marine phytoplankton and heterotrophic bacterial species driven by a reduced affinity for Fe'. In addition, we discovered that whilst unable to produce siderophores to enhance access to Fe, N. maritimus is able to use the exogenous siderophore desferrioxamine B (DFB), likely through a reductive uptake pathway analogous to that demonstrated in phytoplankton. Our work suggests AOA growth in surface waters may be Fe limited and advances our understanding of AOA physiology on the cellular and mechanistic levels with implications for ecosystem dynamics and the biogeochemical N-cycle.

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Characterization of the Exometabolome of <i>Nitrosopumilus maritimus</i> SCM1 by Liquid Chromatography-Ion Mobility Mass Spectrometry.

Project description:Marine Thaumarchaeota (formerly known as the marine group I archaea) have received much research interest in recent years since these chemolithoautotrophic organisms are abundant in the subsurface ocean and oxidize ammonium to nitrite, which makes them a major contributor to the marine carbon and nitrogen cycles. However, few studies have investigated the chemical composition of their exometabolome and their contributions to the pool of dissolved organic matter (DOM) in seawater. This study exploits the recent advances in ion mobility mass spectrometry (IM-MS) and integrates this instrumental capability with bioinformatics to reassess the exometabolome of a model ammonia-oxidizing archaeon, Nitrosopumilus maritimus strain SCM1. Our method has several advantages over the conventional approach using an Orbitrap or ion cyclotron resonance mass analyzer and allows assignments or annotations of spectral features to known metabolites confidently and indiscriminately, as well as distinction of biological molecules from background organics. Consistent with the results of a previous report, the SPE-extracted exometabolome of N. maritimus is dominated by biologically active nitrogen-containing metabolites, in addition to peptides secreted extracellularly. Cobalamin and associated intermediates, including α-ribazole and α-ribazole 5'-phosphate, are major components of the SPE-extracted exometabolome of N. maritimus. This supports the proposition that Thaumarchaeota have the capacity of de novo biosynthesizing cobalamin. Other biologically significant metabolites, such as agmatidine and medicagenate, predicted by genome screening are also detected, which indicates that Thaumarchaeota have remarkable metabolic potentials, underlining their importance in driving elemental cycles critical to biological processes in the ocean.

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Project description:Ammonia-oxidizing Archaea

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