RNAseq of Geobacter sulfurreducens: anode at +0.15 V, 10 mM NH4+, rep... - SRA

SRX18462902: RNAseq of Geobacter sulfurreducens: anode at +0.15 V, 10 mM NH4+, replicate 2.
1 ILLUMINA (Illumina NovaSeq 6000) run: 33.2M spots, 10G bases, 2.7Gb downloads

Design: Anodes from MECs were removed and placed directly in RNAprotect Bacteria Reagent (QIAGEN) to preserve total RNA. The anode was vigorously scraped using a sterile razor to remove the biofilm cells, which were deposited in the preserving reagent for 5 min. After centrifuging the samples (5,000 g for 10 min at 4 C), the supernatant was removed, and the pellets were stored at 80 C until RNA was extracted. RNA extraction was performed using the RNeasy Mini Kit (QIAGEN) following the manufacturers instructions. Lysozyme and proteinase K were used to lyse bacterial cells, and DNAse I was added to remove DNA contamination. The RNA samples were subjected to ribodepletion, where ribosomal RNA (rRNA) was removed from the samples using the RiboMinus Transcriptome Isolation kit for bacteria followed by the RiboMinus Concentration Module (Thermo Fisher Scientific, Waltham, MA). cDNA libraries for next-generation sequencing were prepared using the NEBNext Ultra RNA library prep kit for Illumina (New England BioLabs Inc., Ipswich, MA).

Submitted by: North Carolina State University

Study: Gene expression analysis of nitrogen-fixing Geobacter sulfurreducens at different fixed potentials

PRJNA907487 • SRP410955 • All experiments • All runs

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The goal of the project was to identify changes in gene expression of nitrogen fixation and ammonium assimilation pathways of Geobacter sulfurreducens grown at different anode potentials in microbial electrolysis cells. This will allow us to understand how anode potential affects expression of nitrogen fixation and associated pathways to ultimately develop means of generating ammonium sustainably.

Sample: Transcriptome reads of G. sulfurreducens with 10 mM NH4+ added, growing at an anodic potential of +0.15 V vs SHE, replicate 2.

SAMN31982027 • SRS15940580 • All experiments • All runs

Organism: Geobacter sulfurreducens PCA

Library:

Name: HP2

Instrument: Illumina NovaSeq 6000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: RT-PCR

Layout: PAIRED

Runs: 1 run, 33.2M spots, 10G bases, 2.7Gb

Run	# of Spots	# of Bases	Size	Published
SRR22497760	33,162,210	10G	2.7Gb	2022-12-09

ID:: 25498321

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