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SRX2865125: RNA-Seq of Ochotona dauurica at different oxygen concentrations
1 ILLUMINA (Illumina HiSeq 2500) run: 16.1M spots, 3.2G bases, 1.7Gb downloads

Design: Total RNA, excluding miRNA (less than 200 nucleotides in length), was extracted and purified from RNAprotect-stabilized blood samples using the Qiagen RNeasy Protect Animal Blood Kit following the manufactureŐs protocol. Libraries were created using the Illumina TruSeq RNA sample preparation kit.
Submitted by: Stanford University
Study: Experimental study of hypoxia-induced changes in gene expression in the Asian pika, Ochotona dauurica
show Abstracthide Abstract
Acclimation to environmental changes driven by alterations in gene expression will serve as an important response for some species facing rapid Anthropogenic climate change. Pikas, genus Ochotona, are particularly vulnerable to climate change and current trends suggest that only the highest, coldest elevations within their ranges will remain suitable habitat for these species. In this study we aimed to assess the role of changes in gene expression in potentially facilitating elevational movements in pikas by measuring gene expression in the only known captive pika population, Ochotona dauurica, in response to different hypoxic conditions. Using a controlled experiment, we exposed four male pikas to oxygen concentrations characteristic of sea-level, 2000 m, and 4000 m for 5 days each. Using blood samples collected after each treatment, we used RNAseq to determine if candidate pathways were undergoing significant changes in gene expression at different levels of oxygen (~100%, ~77%, and ~61% of oxygen at sea-level). Gene set enrichment analyses showed that gene sets associated with the oxidative phosphorylation pathway and electron transport chain were significantly enriched for up-regulated genes in the 4000 m samples compared to samples from the same individuals at lower-elevation conditions. Up-regulation of these pathways is consistent with known mechanisms of oxygen compensation. Our results suggest that these pikas have the acclimation capacity to tolerate oxygen concentrations characteristic of any elevation within their species range and that gene expression can be changed in a matter of days to accommodate drastically different oxygen concentrations. Thus, rapid and radical elevational movements that may be required of some pika species to avoid warmer temperatures in the Anthropocene will likely not be limited by hypoxic stress.
Sample:
SAMN07155456 • SRS2236317 • All experiments • All runs
Library:
Name: 51_4000m_RNAseq_2500
Instrument: Illumina HiSeq 2500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: RANDOM
Layout: PAIRED
Runs: 1 run, 16.1M spots, 3.2G bases, 1.7Gb
Run# of Spots# of BasesSizePublished
SRR562157016,069,1023.2G1.7Gb2020-09-30

ID:
4104320

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