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Bioinformatic analysis of the ssc-miR-146b upstream promoter region

Xin Tao1, Xiaoming Men1, Ziwei Xu1

  • 1Institute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.

Animal Nutrition (Zhongguo Xu Mu Shou Yi Xue Hui)
|May 17, 2018
PubMed

Insights

Weaning stress in piglets significantly upregulates microRNA-146b-5p (miR-146b) in the small intestine. This study identified key transcription factor binding sites and CpG islands in the miR-146b promoter region, offering insights into its regulation.

Area of Science:

  • Genetics
  • Molecular Biology
  • Animal Science

Background:

  • Sus Scrofa microRNA-146b-5p (ssc-miR-146b) is differentially expressed in weaned piglets.
  • It shows high and increased expression in the small intestinal mucosa during weaning stress.

Purpose of the Study:

  • To investigate the regulatory mechanism of ssc-miR-146b during weaning stress in piglets.
  • To analyze the upstream promoter region of ssc-miR-146b for functional insights.

Main Methods:

  • Bioinformatic analysis of the ssc-miR-146b upstream promoter region.
  • Prediction of promoter length, CpG islands, and transcription factor binding sites using databases and analytical software.

Main Results:

  • ssc-miR-146b was identified as an intergenic microRNA.
  • The promoter region is 2,249 bp long, with a 167 bp CpG island.
  • Twenty-six binding sites for 9 transcription factors (e.g., Sp1, AP-1, MyoD, GATA) were discovered.

Conclusions:

  • The identified CpG island and transcription factor binding sites provide crucial information.
  • These findings are significant for understanding the transcriptional regulation of ssc-miR-146b in response to weaning stress-induced small intestinal injury.
Keywords:
Bioinformatic analysisIntestinePromoterSwinemicroRNA-146b-5p

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