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Freshwater sediment metagenome

ABSTRACT: Multi-omics of the nitrate-reducing iron(II)-oxidizing culture BP

PROVIDER: PRJNA693457 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR13489100_1.fastq.gz	Fastqsanger.gz
	SRR13489100_2.fastq.gz	Fastqsanger.gz
	SRR13489101_1.fastq.gz	Fastqsanger.gz
	SRR13489101_2.fastq.gz	Fastqsanger.gz

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Similar Datasets

Project description:Multi-omics of the nitrate-reducing iron(II)-oxidizing culture KS

| PRJNA682552 | ENA

LC-MS/MS of autotrophic culture BP, that performs nitrate reduction coupled to iron(II) oxidation (NDFO)

Project description:Nitrate-reducing iron(II)-oxidizing (NDFO) bacteria are widespread in the environment contribute to nitrate removal and influence the fate of the greenhouse gases nitrous oxide and carbon dioxide. The autotrophic growth of nitrate-reducing iron(II)-oxidizing bacteria is rarely investigated and poorly understood. The most prominent model system for this type of studies is enrichment culture KS, which originates from a freshwater sediment in Bremen, Germany. A second NDFO culture, culture BP, was obtained with a sample taken in 2015 at the same pond and cultured in a similar way. To gain insights in the metabolism of nitrate reduction coupled to iron(II) oxidation under in the absence of organic carbon and oxygen limited conditions, we performed metagenomic, metatranscriptomic and metaproteomic analyses of culture BP. Raw sequencing data of 16S rRNA amplicon sequencing (V4 region with Illumina and near full-length with PacBio), shotgun metagenomics, metagenome assembly, raw sequencing data of shotgun metatranscriptomes (2 conditions, triplicates) can be found at SRA in https://www.ncbi.nlm.nih.gov/bioproject/PRJNA693457. This dataset contains proteomics data for 2 conditions in triplicates. Samples R23, R24, and R25 are grown in autotrophic conditions, samples R26, R27, and R28 in heterotrophic conditions.

2021-05-17 | PXD023710 | Pride

Project description:EMG produced TPA metagenomics assembly of PRJNA693457 data set (Multi-omics of the nitrate-reducing iron(II)-oxidizing culture BP).

| PRJEB48511 | ENA

LC-MS/MS of autotrophic culture KS, that performs nitrate reduction coupled to iron(II) oxidation (NDFO)

Project description:Nitrate-reducing iron(II)-oxidizing bacteria are widespread in the environment contribute to nitrate removal and influence the fate of the greenhouse gases nitrous oxide and carbon dioxide. The autotrophic growth of nitrate-reducing iron(II)-oxidizing bacteria is rarely investigated and poorly understood. The most prominent model system for this type of studies is enrichment culture KS, which originates from a freshwater sediment in Bremen, Germany. To gain insights in the metabolism of nitrate reduction coupled to iron(II) oxidation under in the absence of organic carbon and oxygen limited conditions, we performed metagenomic, metatranscriptomic and metaproteomic analyses of culture KS. Raw sequencing data of 16S rRNA amplicon sequencing, shotgun metagenomics (short reads: Illumina; long reads: Oxford Nanopore Technologies), metagenome assembly, raw sequencing data of shotgun metatranscriptomes (2 conditions, triplicates) can be found at SRA in https://www.ncbi.nlm.nih.gov/bioproject/PRJNA682552. This dataset contains proteomics data for 2 conditions (heterotrophic and autotrophic growth conditions) in triplicates.

2021-05-17 | PXD023186 | Pride

Project description:EMG produced TPA metagenomics assembly of PRJNA682552 data set (Multi-omics of the nitrate-reducing iron(II)-oxidizing culture KS).

| PRJEB48532 | ENA

Project description:Diversity of the autotrophic, nitrate-reducing, Fe(II)-oxidizing enrichment culture KS

| PRJNA433782 | ENA

freshwater metagenome

Project description:Iron-reducing metagenome

| PRJNA561022 | ENA

Project description:composition and diversity of nitrate-reducing Fe(II)-oxidizing (NRFeOx) microorganisms

| PRJNA769796 | ENA

biofilter metagenome

Project description:biofilter metagenome isolate: Nitrate-reducing iron-oxidation

| PRJNA834785 | ENA

citrate vs nitrate Reducing cultures

Project description:The effect of nitrate reduction (anaerobic cultivation in the presence of heme, vitamin K2 and nitrate) was compared with anaerobic cultivation supplemented with citrate (Lactobacillus plantarum). The medium was chemically defined medium with mannitol as main carbon source Two-condition experiment, nitrate vs citrate reducing cells. Biological replicates: 4 nitrate reducing cultures, 4 citrate reducing cultures, independently grown and harvested. Two slides were used, each slide contained 8 Arrays. Citrate reducing cultures are called reactor 1-4, Nitrate reducing cultures are called reactor A-D

2010-05-16 | E-GEOD-18339 | biostudies-arrayexpress

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