Multi-omics analysis of functional substances and expression verification in cashmere fineness
Abstract Background Numerous factors influence the growth and development of cashmere. Existing research on cashmere has predominantly emphasized a single omics level. Integrating multi-omics analyses can offer a more comprehensive understanding by encompassing the entire spectrum. This study more a...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-11-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-023-09825-0 |
| _version_ | 1797415919951020032 |
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| author | Yanan Xu Yu Zhang Yuting Qin Ming Gu Rui Chen Yinggang Sun Yanzhi Wu Qian Li Yanjun Qiao Xiaowei Wang Qiu Zhang Lingchao Kong Shuaitong Li Zeying Wang |
| author_facet | Yanan Xu Yu Zhang Yuting Qin Ming Gu Rui Chen Yinggang Sun Yanzhi Wu Qian Li Yanjun Qiao Xiaowei Wang Qiu Zhang Lingchao Kong Shuaitong Li Zeying Wang |
| author_sort | Yanan Xu |
| collection | DOAJ |
| description | Abstract Background Numerous factors influence the growth and development of cashmere. Existing research on cashmere has predominantly emphasized a single omics level. Integrating multi-omics analyses can offer a more comprehensive understanding by encompassing the entire spectrum. This study more accurately and comprehensively identified the key factors influencing cashmere fineness using multi-omics analysis. Methods This study used skin tissues of coarse cashmere type (CT_LCG) and fine cashmere type Liaoning cashmere goats (FT_LCG) for the analysis. This study employed an integrated approach involving transcriptomics, translatomics, proteomics, and metabolomics to identify substances associated with cashmere fineness. The findings were validated using parallel reaction monitoring (PRM) and multiple reaction monitoring (MRM) techniques. Results The GO functional enrichment analysis identified three common terms: multicellular organismal process, immune system process, and extracellular region. Furthermore, the KEGG enrichment analysis uncovered the involvement of the arachidonic acid metabolic pathway. Protein expression trends were verified using PRM technology. The expression trends of KRT79, as confirmed by PRM, were consistent with those observed in TMT proteomics and exhibited a positive regulatory effect on cashmere fineness. Metabolite expression trends were confirmed using MRM technology. The expression trends of 9 out of 15 validated metabolites were in agreement with those identified in the non-targeted metabolomics analysis. Conclusions This study employed multi-omics analysis to identify key regulators of cashmere fineness, including PLA2G12A, KRT79, and prostaglandin B2. The findings of this study offer valuable data and establish a theoretical foundation for conducting comprehensive investigations into the molecular regulatory mechanisms and functional aspects of cashmere fineness. |
| first_indexed | 2024-03-09T05:56:24Z |
| format | Article |
| id | doaj.art-910ceca4853b40c58d7faf3e8f380052 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-03-09T05:56:24Z |
| publishDate | 2023-11-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-910ceca4853b40c58d7faf3e8f3800522023-12-03T12:13:01ZengBMCBMC Genomics1471-21642023-11-0124111310.1186/s12864-023-09825-0Multi-omics analysis of functional substances and expression verification in cashmere finenessYanan Xu0Yu Zhang1Yuting Qin2Ming Gu3Rui Chen4Yinggang Sun5Yanzhi Wu6Qian Li7Yanjun Qiao8Xiaowei Wang9Qiu Zhang10Lingchao Kong11Shuaitong Li12Zeying Wang13College of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityCollege of Animal Science & Veterinary Medicine, Shenyang Agricultural UniversityAbstract Background Numerous factors influence the growth and development of cashmere. Existing research on cashmere has predominantly emphasized a single omics level. Integrating multi-omics analyses can offer a more comprehensive understanding by encompassing the entire spectrum. This study more accurately and comprehensively identified the key factors influencing cashmere fineness using multi-omics analysis. Methods This study used skin tissues of coarse cashmere type (CT_LCG) and fine cashmere type Liaoning cashmere goats (FT_LCG) for the analysis. This study employed an integrated approach involving transcriptomics, translatomics, proteomics, and metabolomics to identify substances associated with cashmere fineness. The findings were validated using parallel reaction monitoring (PRM) and multiple reaction monitoring (MRM) techniques. Results The GO functional enrichment analysis identified three common terms: multicellular organismal process, immune system process, and extracellular region. Furthermore, the KEGG enrichment analysis uncovered the involvement of the arachidonic acid metabolic pathway. Protein expression trends were verified using PRM technology. The expression trends of KRT79, as confirmed by PRM, were consistent with those observed in TMT proteomics and exhibited a positive regulatory effect on cashmere fineness. Metabolite expression trends were confirmed using MRM technology. The expression trends of 9 out of 15 validated metabolites were in agreement with those identified in the non-targeted metabolomics analysis. Conclusions This study employed multi-omics analysis to identify key regulators of cashmere fineness, including PLA2G12A, KRT79, and prostaglandin B2. The findings of this study offer valuable data and establish a theoretical foundation for conducting comprehensive investigations into the molecular regulatory mechanisms and functional aspects of cashmere fineness.https://doi.org/10.1186/s12864-023-09825-0Liaoning cashmere goatCashmere finenessTranscriptomicsTranslatomicsProteomicsMetabolomics |
| spellingShingle | Yanan Xu Yu Zhang Yuting Qin Ming Gu Rui Chen Yinggang Sun Yanzhi Wu Qian Li Yanjun Qiao Xiaowei Wang Qiu Zhang Lingchao Kong Shuaitong Li Zeying Wang Multi-omics analysis of functional substances and expression verification in cashmere fineness BMC Genomics Liaoning cashmere goat Cashmere fineness Transcriptomics Translatomics Proteomics Metabolomics |
| title | Multi-omics analysis of functional substances and expression verification in cashmere fineness |
| title_full | Multi-omics analysis of functional substances and expression verification in cashmere fineness |
| title_fullStr | Multi-omics analysis of functional substances and expression verification in cashmere fineness |
| title_full_unstemmed | Multi-omics analysis of functional substances and expression verification in cashmere fineness |
| title_short | Multi-omics analysis of functional substances and expression verification in cashmere fineness |
| title_sort | multi omics analysis of functional substances and expression verification in cashmere fineness |
| topic | Liaoning cashmere goat Cashmere fineness Transcriptomics Translatomics Proteomics Metabolomics |
| url | https://doi.org/10.1186/s12864-023-09825-0 |
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