Transcriptomes of subterranean mammals reveal that naked mole rats ha... - SRA

ERX12041462: Transcriptomes of subterranean mammals reveal that naked mole rats have distinctive cardiometabolic and genetic adaptations to their underground low-oxygen lifestyles
1 DNBSEQ (DNBSEQ-G400 FAST) run: 21.5M spots, 4.3G bases, 2.2Gb downloads

Design: Transcriptomes of subterranean mammals reveal that naked mole rats have distinctive cardiometabolic and genetic adaptations to their underground low-oxygen lifestyles

Submitted by: EBI (European Bioinformatics Institute)

Study: Transcriptomes of subterranean mammals reveal that naked mole rats have distinctive cardiometabolic and genetic adaptations to their underground low-oxygen lifestyles

PRJEB72773 • ERP157569 • All experiments • All runs

show Abstracthide Abstract

We performed RNAseq, metabolomics and pathway enrichment analysis on cardiac tissue from naked mole-rats (Heterocephalus glaber) and from seven other members of African mole rat genera, Cape mole-rat (Georychus capensis), Cape dune mole-rat (Bathyergus suillus), Common mole-rat (Cryptomys hottentotus hottentotus), Natal mole-rat (C. h. natalenesis), Mahali mole rat (C. h. mahali), Highveld mole-rat (C. h. pretoriae) and Damaraland mole-rats (Fukomys damarensis) representing differing burrow and soil types, degrees of sociality, lifespan and hypoxia tolerance. In addition, we include the evolutionarily highly divergent hottentot golden mole (Ambysomus hottentotus), an Afrotherian subterranean, solitary mammal, and the C57/BL6 laboratory mouse as a standard mammal control. After RNA sequencing, we removed the reads mapped to rRNAs and get rawdata, then we filtered the low quality reads (More than 20% of the bases qualities are lower than 10), reads with adaptors and reads with unknown bases (N bases more than 5%) to get the clean reads. These are the data uploaded.

Sample: FDQ_107

SAMEA115302056 • ERS18299242 • All experiments • All runs

Organism: Fukomys damarensis

Library:

Name: FDQ_107_p

Instrument: DNBSEQ-G400 FAST

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PolyA

Layout: PAIRED

Construction protocol: Heart was dissected and within 60 seconds placed in cryovial containing RNA later, and flash frozen in liquid nitrogen. Subsequently, samples were placed in the -80C freezer for storage. Total RNA extraction and analysis was performed commercially by BGI Tech solutions (Hong Kong). Oligo dT beads were used to enrich mRNA with a poly A tail. RNA fragmentation and first- strand cDNAs were generated using random N6-primed reverse transcription, followed by the second- strand cDNA synthesis. The synthesized cDNA was subjected to end-repair and then was 3' adenylated. Adaptors were ligated to the ends of these 3' adenylated cDNA fragments. PCR amplification was performed to enrich the purified cDNA template.

Runs: 1 run, 21.5M spots, 4.3G bases, 2.2Gb

Run	# of Spots	# of Bases	Size	Published
ERR12667330	21,471,424	4.3G	2.2Gb	2024-02-23

ID:: 32002336

SRA

Sequence Read Archive

Result Filters

Send to:

Supplemental Content

Related information

Recent activity