MPI für molekulare Genetik / Department of Human Molecular Genetics |
|Genomic Analysis of miRNAs in an Extreme Mammalian Hibernator, the Arctic Ground Squirrel.|
|Authors:||Liu, Yuting; Hu, Wenchao; Wang, Haifang; Lu, Minghua; Shao, Chunxuan; Menzel, Corinna; Yan, Zheng; Li, Ying; Zhao, Sen; Khaitovich, Philipp; Liu, Mofang; Chen, Wei; Barnes, Brian M.; Yan, Jun|
|Research Context:||We acknowledge support from National Basic Research Program of China Grant 2006CB910700, Shanghai Science and Technology Committee Grant 08QA1407500 (J. Yan), SA-SIBS Scholarship Program (J. Yan), National Science Foundation Grants 0076039 and 0732755, and US Army Medical Research and Materiel Command Grant #05178001|
|Date of Publication (YYYY-MM-DD):||2010-05-04|
|Title of Journal:||Physiological Genomics|
|Journal Abbrev.:||Physiol. Genomics|
|Issue / Number:||1|
|Copyright:||© 2010 the American Physiological Society|
|Review Status:||not specified|
|Abstract / Description:||MicroRNAs (miRNAs) are 19- to 25-nucleotide-long small and noncoding RNAs now well-known for their regulatory roles in gene expression through posttranscriptional and translational controls. Mammalian hibernation is a physiological process involving profound changes in set-points for food consumption, body mass and growth, body temperature, and metabolic rate in which miRNAs may play important regulatory roles. In an initial study, we analyzed miRNAs in the liver of an extreme hibernating species, the Arctic ground squirrel (Spermophilus parryii), using massively parallel Illumina sequencing technology. We identified >200 ground squirrel miRNAs, including 18 novel miRNAs specific to ground squirrel and mir-506 that is fast evolving in the ground squirrel lineage. Comparing animals sampled after at least 8 days of continuous torpor (late torpid), within 5 h of a spontaneous arousal episode (early aroused), and 1–2 mo after hibernation had ended (nonhibernating), we identified differentially expressed miRNAs during hibernation, which are also compared with the results from two other miRNA profiling methods: Agilent miRNA microarray and real-time PCR. Among the most significant miRNAs, miR-320 and miR-378 were significantly underexpressed during both stages of hibernation compared with nonhibernating animals, whereas miR-486 and miR-451 were overexpressed in late torpor but returned in early arousal to the levels similar to those in nonhibernating animals. Analyses of their putative target genes suggest that these miRNAs could play an important role in suppressing tumor progression and cell growth during hibernation. High-throughput sequencing data and microarray data have been submitted to GEO database with accession: GSE19808.|
|Comment of the Author/Creator:||Correspondence: J. Yan, CAS-MPG Partner Inst. for Computational Biology, Shanghai Institutes of Biological Sciences, 320 Yue Yang Rd., Shanghai, 200031, China (e-mail: email@example.com).
The online version of this article contains supplemental material.
|External Publication Status:||published|
|Communicated by:||Hans-Hilger Ropers|
|Affiliations:||MPI für molekulare Genetik|
|External Affiliations:||1.CAS-MPG Partner Institute for Computational Biology, Shanghai, China;
2.Core Facility for Noncoding RNA, Institute of Biochemistry and Cell Biology, Shanghai Institutes of Biological Sciences, Shanghai, China;
3.Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, Alaska.
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