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Series GSE168895 Query DataSets for GSE168895
Status Public on Mar 13, 2022
Title Regulatory response of methanogen cells to different forms of iron and sulfur
Organism Methanosarcina barkeri
Experiment type Expression profiling by high throughput sequencing
Summary We used comparative transcriptomics to explore cellular responses to growth on pyrite (FeS2) or aqueous iron (Fe(II)) and sulfur (cysteine or sulfide). Transcriptomic data from wild type M. barkeri identified subset of genes that was significantly upregulated during grown on FeS2 versus ferrous iron and cysteine or sulfide. Several of these genes, including a membrane-bound hydrolase, alpha-keto reductases, and flavin mononucleotide-dependent flavodoxin reductases were highly conserved among known FeS2-reducing methanogens and were located in a single gene cassette. Putative enzymatically catalyzed mechanisms of FeS2 reduction are proposed for each of these enzyme systems to guide their future biochemical and biophysical study. Transcriptomic data from wild type M. barkeri identified subset of genes that was significantly upregulated during grown on FeS2 versus ferrous iron and cysteine or sulfide. Several of these genes, including a membrane-bound hydrolase, alpha-keto reductases, and flavin mononucleotide-dependent flavodoxin reductases were highly conserved among known FeS2-reducing methanogens and were located in a single gene cassette. Putative enzymatically catalyzed mechanisms of FeS2 reduction are proposed for each of these enzyme systems to guide their future biochemical and biophysical study.
 
Overall design Methanosarcina barkeri strain MS cells were grown with three different sources of iron and sulfur: 20 uM ferrous iron and 2mM cysteine, 20 uM ferrous iron and 2 mM sulfide, or 2 mM pyrite (FeS2). Total mRNA from mid-log phase cells from four replicate for each condition were sequenced.
 
Contributor(s) Spietz RL, Payne D, Boyd ES
Citation(s) 35615515
Submission date Mar 15, 2021
Last update date May 26, 2022
Contact name Rachel L. Spietz
E-mail(s) rachel.spietz@montana.edu
Organization name Montana State University
Street address PO Box 173520
City Bozeman
State/province MT
ZIP/Postal code 59717
Country USA
 
Platforms (1)
GPL29851 Illumina NovaSeq 6000 (Methanosarcina barkeri)
Samples (12)
GSM5172029 Fe/Sulfide rep A
GSM5172030 Fe/Sulfide rep B
GSM5172031 Fe/Sulfide rep C
Relations
BioProject PRJNA714524
SRA SRP310637

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Supplementary file Size Download File type/resource
GSE168895_RAW.tar 210.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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