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Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues

(2007) PHYSIOLOGICAL GENOMICS. 29(1). p.35-43
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Abstract
MicroRNAs are small similar to 22 nucleotide-long noncoding RNAs capable of controlling gene expression by inhibiting translation. Alignment of human microRNA stem-loop sequences (mir) against a recent draft sequence assembly of the bovine genome resulted in identification of 334 predicted bovine mir. We sequenced five tissue-specific cDNA libraries derived from the small RNA fractions of bovine embryo, thymus, small intestine, and lymph node to validate these predictions and identify new mir. This strategy combined with comparative sequence analysis identified 129 sequences that corresponded to mature microRNAs (miR). A total of 107 sequences aligned to known human mir, and 100 of these matched expressed miR. The other seven sequences represented novel miR expressed from the complementary strand of previously characterized human mir. The 22 sequences without matches displayed characteristic mir secondary structures when folded in silico, and 10 of these retained sequence conservation with other vertebrate species. Expression analysis based on sequence identity counts revealed that some miR were preferentially expressed in certain tissues, while bta-miR-26a and bta-miR-103 were prevalent in all tissues examined. These results support the premise that species differences in regulation of gene expression by miR occur primarily at the level of expression and processing.
Keywords
ZEBRAFISH, PLATFORM, CELLS, GENES, SYSTEM, IDENTIFICATION, RNA, PREDICTION, EXPRESSION, ANIMAL DEVELOPMENT, immune, embryo, small RNA, microRNA

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Citation

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MLA
Coutinho, Luiz L. et al. “Discovery and Profiling of Bovine microRNAs from Immune-related and Embryonic Tissues.” PHYSIOLOGICAL GENOMICS 29.1 (2007): 35–43. Print.
APA
Coutinho, L. L., Matukumalli, L. K., Sonstegard, T. S., Van Tassell, C. P., Gasbarre, L. C., Capuco, A., & Smith, T. P. L. (2007). Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues. PHYSIOLOGICAL GENOMICS, 29(1), 35–43.
Chicago author-date
Coutinho, Luiz L., Lakshmi K. Matukumalli, Tad S. Sonstegard, Curtis P. Van Tassell, Louis C. Gasbarre, Anthony Capuco, and Timothy P. L. Smith. 2007. “Discovery and Profiling of Bovine microRNAs from Immune-related and Embryonic Tissues.” Physiological Genomics 29 (1): 35–43.
Chicago author-date (all authors)
Coutinho, Luiz L., Lakshmi K. Matukumalli, Tad S. Sonstegard, Curtis P. Van Tassell, Louis C. Gasbarre, Anthony Capuco, and Timothy P. L. Smith. 2007. “Discovery and Profiling of Bovine microRNAs from Immune-related and Embryonic Tissues.” Physiological Genomics 29 (1): 35–43.
Vancouver
1.
Coutinho LL, Matukumalli LK, Sonstegard TS, Van Tassell CP, Gasbarre LC, Capuco A, et al. Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues. PHYSIOLOGICAL GENOMICS. BETHESDA, MD (USA): AMER PHYSIOLOGICAL SOC; 2007;29(1):35–43.
IEEE
[1]
L. L. Coutinho et al., “Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues,” PHYSIOLOGICAL GENOMICS, vol. 29, no. 1, pp. 35–43, 2007.
@article{931730,
  abstract     = {MicroRNAs are small similar to 22 nucleotide-long noncoding RNAs capable of controlling gene expression by inhibiting translation. Alignment of human microRNA stem-loop sequences (mir) against a recent draft sequence assembly of the bovine genome resulted in identification of 334 predicted bovine mir. We sequenced five tissue-specific cDNA libraries derived from the small RNA fractions of bovine embryo, thymus, small intestine, and lymph node to validate these predictions and identify new mir. This strategy combined with comparative sequence analysis identified 129 sequences that corresponded to mature microRNAs (miR). A total of 107 sequences aligned to known human mir, and 100 of these matched expressed miR. The other seven sequences represented novel miR expressed from the complementary strand of previously characterized human mir. The 22 sequences without matches displayed characteristic mir secondary structures when folded in silico, and 10 of these retained sequence conservation with other vertebrate species. Expression analysis based on sequence identity counts revealed that some miR were preferentially expressed in certain tissues, while bta-miR-26a and bta-miR-103 were prevalent in all tissues examined. These results support the premise that species differences in regulation of gene expression by miR occur primarily at the level of expression and processing.},
  author       = {Coutinho, Luiz L. and Matukumalli, Lakshmi K. and Sonstegard, Tad S. and Van Tassell, Curtis P. and Gasbarre, Louis C. and Capuco, Anthony and Smith, Timothy P. L.},
  issn         = {1094-8341},
  journal      = {PHYSIOLOGICAL GENOMICS},
  keywords     = {ZEBRAFISH,PLATFORM,CELLS,GENES,SYSTEM,IDENTIFICATION,RNA,PREDICTION,EXPRESSION,ANIMAL DEVELOPMENT,immune,embryo,small RNA,microRNA},
  language     = {eng},
  number       = {1},
  pages        = {35--43},
  publisher    = {AMER PHYSIOLOGICAL SOC},
  title        = {Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues},
  url          = {http://dx.doi.org/10.1152/physiolgenomics.00081.2006},
  volume       = {29},
  year         = {2007},
}

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