- PII
- S3034510325110169-1
- DOI
- 10.7868/S3034510325110169
- Publication type
- Article
- Status
- Published
- Authors
- Volume/ Edition
- Volume 61 / Issue number 11
- Pages
- 147-151
- Abstract
- Transcribed regulatory elements (enhancers, promoters) represent a critical component in applied livestock genomics. Despite advances in genomic selection technologies (GWAS, CRISPR), incomplete annotation of non-coding genome regions remains a significant limitation. This study focuses on direct transcriptional activity analysis methods (CAGE-seq) that enable precise identification of regulatory elements and their association with phenotypic traits. Key research directions are examined, including epigenetic mechanisms (FarmEpiMap project), quantum computing applications for big data analysis, and development of tailored solutions for diverse livestock populations. The importance of international initiatives (FAANG consortium) is emphasized while highlighting the need to account for regional genetic specificities.
- Keywords
- генетика сельскохозяйственных животных GWAS аннотация генома животноводство
- Date of publication
- 01.11.2025
- Year of publication
- 2025
- Number of purchasers
- 0
- Views
- 32
References
- 1. Dekkers J.C., Hospital F. The use of molecular genetics in the improvement of agricultural populations // Nat. Rev. Genet. 2002. V. 1. P. 22–32. https://doi.org/10.1038/nrg70
- 2. Loffi C., Cavanna D., Sammarco G. et al. Non-targeted high-resolution mass spectrometry study for evaluation of milk freshness // J. Dairy Sci. 2021. V. 104. № 12. P. 12286–12294. https://doi.org/10.3168/jds.2021-20285
- 3. Tzanetou E.N., Manea-Karga E., Baira E. et al. Gas and liquid chromatography mass spectrometry as a tool for elucidating volatile organic compounds (VOCs) and metabolites in maternal milk: A perspective on infants’ health risk assessment // Chemosensors. 2024. V. 12. № 3. https://doi.org/10.3390/chemosensors12030030
- 4. Perera T.W., Skerrett-Byrne D.A., Gibb Z. et al. The future of biomarkers in veterinary medicine: Emerging approaches and associated challenges // Animals. (Basel). 2022. V. 12. № 17. https://doi.org/10.3390/ani12172194
- 5. Goddard M.E., Hayes B.J. Mapping genes for complex traits in domestic Animals and Their Use in Breeding Programmes // Nat. Rev. Genet. 2009. V. 10. P. 381–391. https://doi.org/10.1038/nrg2575
- 6. Koufariotis L., Chen Y.P., Bolormaa S., Hayes B.J. Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle // BMC Genomics. 2014. V. 15. https://doi.org/10.1186/1471-2164-15-436
- 7. Wang M., Hancock T.P., MacLeod I.M. et al. Putative enhancer sites in the bovine genome are enriched with variants affecting complex traits // Genet. Sel. Evol. 2017. V. 49. P. 56. https://doi.org/10.1186/s12711-017-0331-4
- 8. Lamas-Toranzo I., Guerrero-Sánchez J., Miralles-Bover H. et al. CRISPR is knocking on barn door // Reprod. Domest. Anim. 2017. V. 52. P. 39–47. https://doi.org/10.1111/rda.13047
- 9. Harrison P.W., Sokolov A., Nayak A. et al. The FAANG data portal: Global, Open-Access, “FAIR”, and richly validated genotype to phenotype data for high-quality functional annotation of animal genomes // Front. Genet. 2021. V. 12. https://doi.org/10.3389/fgene.2021.639238
- 10. Liu S., Gao Y., Canela-Xandri O. et al. A multi-tissue atlas of regulatory variants in cattle // Nat. Genet. 2022. V. 54. P. 1438–1447. https://doi.org/10.1038/s41588-022-01153-5
- 11. The CattleGTEx atlas reveals regulatory mechanisms underlying complex traits // Nat. Genet. 2022. V. 54. P. 1273–1274. https://doi.org/10.1038/s41588-022-01155-3
- 12. Kern C., Wang Y., Xu X. et al. Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research // Nat. Commun. 2021. V. 12. P. 1821. https://doi.org/10.1038/s41467-021-22100-8
- 13. Čítek J., Brzáková M., Bauer J. et al. Genome-Wide Association study for body conformation traits and fitness in Czech Holsteins // Animals. 2022. V. 12. https://doi.org/10.3390/ani12243522
- 14. Boytsov A., Abramov S., Aiusheeva A.Z. et al. ANANASTRA: Annotation and enrichment analysis of allele-specific transcription factor binding at SNPs // Nucl. Ac. Res. 2022. V. 50. P. 51–56. https://doi.org/10.1093/nar/gkac262
- 15. Bonetti A., Kwon A.T.-J., Arner E., Carninci P. Enhancers and promoters, methods and protocols // Methods Mol. Biology. 2021. V. 2351. P. 201–210. https://doi.org/10.1007/978-1-0716-1597-3_11
- 16. Abugessaisa I., Shimoji H., Sahin S. et al. FANTOMS Transcriptome catalog of cellular states based on semantic MediaWiki // Database J. Biol. Databases Curation. 2016. https://doi.org/10.1093/database/baw105
- 17. Frankish A., Diekhans M., Jungreis I. et al. GENCODE 2021 // Nucl. Ac. Res. 2020. V. 49. № D1. P. D916–D923. https://doi.org/10.1093/nar/gkaa1087
- 18. Deviatitarov R., Lizio M., Gusev O. Application of a CAGE method to an avian development study // Methods Mol. Biology. 2017. V. 1650. P. 101–109. https://doi.org/10.1007/978-1-4939-7216-6_6
- 19. Lizio M., Deviatitarov R., Nagai H. et al. Systematic analysis of transcription start sites in avian development // PloS Biol. 2017. V. 15. https://doi.org/10.1371/journal.pbio.2002887
- 20. Salavati M., Caulton A., Clark R. et al. Global analysis of transcription start sites in the new ovine reference genome (Oar Rambouillet v.1.0) // Front. Genet. 2020. V. 11. https://doi.org/10.3389/fgene.2020.580580
- 21. Davenport K.M., Massa A.T., Bhattarai S. et al. Characterizing genetic regulatory elements in ovine tissues // Front. Genet. 2021. V. 12. https://doi.org/10.3389/fgene.2021.628849