Identification of baboon microRNAs expressed in liver and lymphocytes

Genesio M. Karere, Jeremy P. Glenn, John L. Vandeberg, Laura A. Cox

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Background. MicroRNAs (miRNAs) are small noncoding RNAs (∼22 nucleotides) that regulate gene expression by cleaving mRNAs or inhibiting translation. The baboon is a well-characterized cardiovascular disease model; however, no baboon miRNAs have been identified. Evidence indicates that the baboon and human genomes are highly conserved; based on this conservation, we hypothesized that comparative genomic methods could be used to identify baboon miRNAs. Methods. We employed an in silico comparative genomics approach and human miRNA arrays to identify baboon expressed miRNAs in liver (n = 6) and lymphocytes (n = 6). Expression profiles for selected miRNAs in multiple tissues were validated by RT-PCR. Results. We identified in silico 555 putative baboon pre-miRNAs, of which 41% exhibited 100% identity and an additional 58% shared more than 90% sequence identity with human pre-miRNAs. Some of these miRNAs are primate-specific and are clustered in the baboon genome like human miRNA clusters. We detected expression of 494 miRNAs on the microarray and validated expression of selected miRNAs in baboon liver and lymphocytes by RT-PCR. We also observed miRNA expression in additional tissues relevant to dyslipidemia and atherosclerosis. Approximately half of the miRNAs expressed on the array were not predicted in silico suggesting that we have identified novel baboon miRNAs, which could not be predicted using the current draft of the baboon genome. Conclusion. We identified a subset of baboon miRNAs using a comparative genomic approach, identified additional baboon miRNAs using a human array and showed tissue-specific expression of baboon miRNAs. Our discovery of baboon miRNAs in liver and lymphocytes will provide resources for studies on the roles of miRNAs in dyslipidemia and atherosclerosis, and for translational studies.

Original languageEnglish (US)
Article number54
JournalJournal of Biomedical Science
Volume17
Issue number1
DOIs
StatePublished - 2010
Externally publishedYes

Fingerprint

Lymphocytes
Papio
MicroRNAs
Liver
Computer Simulation
Genes
Human Genome
Tissue
Dyslipidemias
Atherosclerosis
Cardiovascular Models
Small Untranslated RNA
Polymerase Chain Reaction

ASJC Scopus subject areas

  • Clinical Biochemistry
  • Molecular Biology
  • Cell Biology
  • Biochemistry, medical
  • Endocrinology, Diabetes and Metabolism
  • Pharmacology (medical)

Cite this

Identification of baboon microRNAs expressed in liver and lymphocytes. / Karere, Genesio M.; Glenn, Jeremy P.; Vandeberg, John L.; Cox, Laura A.

In: Journal of Biomedical Science, Vol. 17, No. 1, 54, 2010.

Research output: Contribution to journalArticle

Karere, Genesio M. ; Glenn, Jeremy P. ; Vandeberg, John L. ; Cox, Laura A. / Identification of baboon microRNAs expressed in liver and lymphocytes. In: Journal of Biomedical Science. 2010 ; Vol. 17, No. 1.
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abstract = "Background. MicroRNAs (miRNAs) are small noncoding RNAs (∼22 nucleotides) that regulate gene expression by cleaving mRNAs or inhibiting translation. The baboon is a well-characterized cardiovascular disease model; however, no baboon miRNAs have been identified. Evidence indicates that the baboon and human genomes are highly conserved; based on this conservation, we hypothesized that comparative genomic methods could be used to identify baboon miRNAs. Methods. We employed an in silico comparative genomics approach and human miRNA arrays to identify baboon expressed miRNAs in liver (n = 6) and lymphocytes (n = 6). Expression profiles for selected miRNAs in multiple tissues were validated by RT-PCR. Results. We identified in silico 555 putative baboon pre-miRNAs, of which 41{\%} exhibited 100{\%} identity and an additional 58{\%} shared more than 90{\%} sequence identity with human pre-miRNAs. Some of these miRNAs are primate-specific and are clustered in the baboon genome like human miRNA clusters. We detected expression of 494 miRNAs on the microarray and validated expression of selected miRNAs in baboon liver and lymphocytes by RT-PCR. We also observed miRNA expression in additional tissues relevant to dyslipidemia and atherosclerosis. Approximately half of the miRNAs expressed on the array were not predicted in silico suggesting that we have identified novel baboon miRNAs, which could not be predicted using the current draft of the baboon genome. Conclusion. We identified a subset of baboon miRNAs using a comparative genomic approach, identified additional baboon miRNAs using a human array and showed tissue-specific expression of baboon miRNAs. Our discovery of baboon miRNAs in liver and lymphocytes will provide resources for studies on the roles of miRNAs in dyslipidemia and atherosclerosis, and for translational studies.",
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