Animal Bioscience

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
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Integrative and comparative analysis of whole-transcriptome sequencing in circCOL1A1-knockdown and circCOL1A1-overexpressing goat hair follicle stem cells

  • Jian Wang (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University) ;
  • Xi Wu (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University) ;
  • Liuming Zhang (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University) ;
  • Xiaomei Sun (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University) ;
  • Wei Sun (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University) ;
  • Kunzhe Dong (Immunology Center of Georgia, Medical College of Georgia, Augusta University) ;
  • Yongjun Li (Key Laboratory of Animal Genetics & Molecular Breeding of Jiangsu Province, College of Animal Science and Technology, Yangzhou University)
  • Received : 2024.11.20
  • Accepted : 2025.01.09
  • Published : 2025.06.01
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Abstract

Objective: Hair morphogenesis is tightly related to hair follicle stem cells (HFSCs) proliferation and hair follicle (HF) development. Yangtze River Delta white goats (YRDWG) HFSCs are important for producing superior-quality brush hair (SQBH). Nonetheless, the known regulatory mechanisms are not sufficient to explain YRDWG gHFSCs growth, HF development, and SQBH formation. Methods: To deeply investigate the interaction networks and mechanisms of circCOL1A1 in the HF development and SQBH formation of YRDWG in detail, we applied whole-transcriptome sequencing and bioinformatics analysis of circCOL1A1-knockdown and circCOL1A1-overexpressing HFSCs from YRDWG. STRING and other databases were used to construct multiple interaction networks. Differentially expressed (DE) genes, DE-miRNAs, and DE-circRNAs were further confirmed via real-time quantitative polymerase chain reaction and Sanger sequencing. Results: A total of 87 genes, 96 miRNAs, and 135 circRNAs were DE between circCOL1A1-knockdown and circCOL1A1-overexpressing gHFSCs. Functional enrichment, gene ontology annotation and Kyoto encyclopedia of genes and genomes analyses identified marked enrichment of these DE-genes, DE-miRNAs, and DE-circRNAs in the MAPK, PI3K/Akt, and focal adhesion signaling pathways, which are closely associated with gHFSCs growth and HF development. In addition, through interaction network construction, four important regulatory axes were obtained, namely, the chi-circCOL1A1-miR-149-5p-CMTM3-AR, chi-circACTN1-miR-671-5p-MAPK3/COL13A1, chi-circITGA6-miR-18a-5p-FGF1/MAP3K1 and chi-circ COBLL1-miR-30a-5p/miR-128-3p-ITGA6/MAPK14/FGF14 axes. Conclusion: These novel findings provide a valuable and comprehensive basis for investigating the complex mechanism by which circRNAs participate in and regulate HF development and SQBH formation in YRDWG.

Keywords

Acknowledgement

The authors extend their sincere gratitude to all individuals and institutions who participated in this research, as well as to the National Science Foundation of China (31572355), the Young Natural Science Foundation of Jiangsu Province (No. BK20230583), 2023 Jiangsu Funding Program for Excellent Postdoctoral Talent (No. 2023ZB061, 322340), a Project Funded by the Priority Academic Program Development of Jiangsu Higher Education Institutions (PAPD, 2014-134), and a Project Supported by the Open Project Program of International Joint Research Laboratory in Universities of Jiangsu Province of China for Domestic Animal Germplasm Resources and Genetic Improvement (IJRLD-KF202213) for funding this work.

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