Potential SNP functional loci of <i>CASP14</i> gene.
<div><p>Under the current context of intensive farming, small-horned animals are more suitable for large-scale breeding. The <i>CASP14</i> gene, closely associated with skin and keratin formation, may influence horn size due to its link with skin development. This study compr...
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| مؤلفون آخرون: | , , , , , , |
| منشور في: |
2024
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| _version_ | 1852025008373628928 |
|---|---|
| author | Xiaoning Lu (206322) |
| author2 | Guoqing Zhang (151441) Hao Yang (328526) Mingzhu Shan (7834508) Xiaoxu Zhang (1422019) Yuqin Wang (2382697) Junyan Bai (20308583) Zhangyuan Pan (6548288) |
| author2_role | author author author author author author author |
| author_facet | Xiaoning Lu (206322) Guoqing Zhang (151441) Hao Yang (328526) Mingzhu Shan (7834508) Xiaoxu Zhang (1422019) Yuqin Wang (2382697) Junyan Bai (20308583) Zhangyuan Pan (6548288) |
| author_role | author |
| dc.creator.none.fl_str_mv | Xiaoning Lu (206322) Guoqing Zhang (151441) Hao Yang (328526) Mingzhu Shan (7834508) Xiaoxu Zhang (1422019) Yuqin Wang (2382697) Junyan Bai (20308583) Zhangyuan Pan (6548288) |
| dc.date.none.fl_str_mv | 2024-11-21T18:47:55Z |
| dc.identifier.none.fl_str_mv | 10.1371/journal.pone.0310464.t001 |
| dc.relation.none.fl_str_mv | https://figshare.com/articles/dataset/Potential_SNP_functional_loci_of_i_CASP14_i_gene_/27883850 |
| dc.rights.none.fl_str_mv | CC BY 4.0 info:eu-repo/semantics/openAccess |
| dc.subject.none.fl_str_mv | Biochemistry Genetics Molecular Biology Physiology Developmental Biology Science Policy Environmental Sciences not elsewhere classified Biological Sciences not elsewhere classified study comprehensively analyzed snp site 7944295 identified functional sites div >< p functional loci analysis five ase events sheep horn phenotypes scurred group com sheep horn scurred group horn development wgs ), using rna test analysis seq data scale breeding offering insights keratin formation kasp assays investigated allele intensive farming horned animals genome sequencing findings suggest current context closely associated casp14 </ breeding strategies |
| dc.title.none.fl_str_mv | Potential SNP functional loci of <i>CASP14</i> gene. |
| dc.type.none.fl_str_mv | Dataset info:eu-repo/semantics/publishedVersion dataset |
| description | <div><p>Under the current context of intensive farming, small-horned animals are more suitable for large-scale breeding. The <i>CASP14</i> gene, closely associated with skin and keratin formation, may influence horn size due to its link with skin development. This study comprehensively analyzed the tissue-specific expression of <i>CASP14</i> using RNA-Seq data, identified functional sites through whole-genome sequencing (WGS), and investigated allele-specific expression (ASE) validated by KASP assays. Results showed significantly higher <i>CASP14</i> expression in the scurred group com-pared to the SHE group, with pronounced expression in the skin. Interbreed comparisons also revealed elevated <i>CASP14</i> levels in the scurred group. Analysis of potential functional sites indicated structural similarities in the <i>CASP14</i> protein among horned mammals. Five ASE events were discovered, and intersecting these with SNPs and high fixation index loci (Fst > 0.05) identified three potential functional sites: 7941628, 7941817, and 7941830. The SNP site 7944295 was selected for T-test analysis and further validated through KASP assays, corroborating the role of <i>CASP14</i> in sheep horn phenotypes. Our findings suggest that <i>CASP14</i> plays a significant role in horn development, offering insights into breeding strategies for small-horned animals.</p></div> |
| eu_rights_str_mv | openAccess |
| id | Manara_99e26f8b96b7bd055a02ee4e4b8d4e5f |
| identifier_str_mv | 10.1371/journal.pone.0310464.t001 |
| network_acronym_str | Manara |
| network_name_str | ManaraRepo |
| oai_identifier_str | oai:figshare.com:article/27883850 |
| publishDate | 2024 |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| rights_invalid_str_mv | CC BY 4.0 |
| spelling | Potential SNP functional loci of <i>CASP14</i> gene.Xiaoning Lu (206322)Guoqing Zhang (151441)Hao Yang (328526)Mingzhu Shan (7834508)Xiaoxu Zhang (1422019)Yuqin Wang (2382697)Junyan Bai (20308583)Zhangyuan Pan (6548288)BiochemistryGeneticsMolecular BiologyPhysiologyDevelopmental BiologyScience PolicyEnvironmental Sciences not elsewhere classifiedBiological Sciences not elsewhere classifiedstudy comprehensively analyzedsnp site 7944295identified functional sitesdiv >< pfunctional loci analysisfive ase eventssheep horn phenotypesscurred group comsheep hornscurred grouphorn developmentwgs ),using rnatest analysisseq datascale breedingoffering insightskeratin formationkasp assaysinvestigated alleleintensive farminghorned animalsgenome sequencingfindings suggestcurrent contextclosely associatedcasp14 </breeding strategies<div><p>Under the current context of intensive farming, small-horned animals are more suitable for large-scale breeding. The <i>CASP14</i> gene, closely associated with skin and keratin formation, may influence horn size due to its link with skin development. This study comprehensively analyzed the tissue-specific expression of <i>CASP14</i> using RNA-Seq data, identified functional sites through whole-genome sequencing (WGS), and investigated allele-specific expression (ASE) validated by KASP assays. Results showed significantly higher <i>CASP14</i> expression in the scurred group com-pared to the SHE group, with pronounced expression in the skin. Interbreed comparisons also revealed elevated <i>CASP14</i> levels in the scurred group. Analysis of potential functional sites indicated structural similarities in the <i>CASP14</i> protein among horned mammals. Five ASE events were discovered, and intersecting these with SNPs and high fixation index loci (Fst > 0.05) identified three potential functional sites: 7941628, 7941817, and 7941830. The SNP site 7944295 was selected for T-test analysis and further validated through KASP assays, corroborating the role of <i>CASP14</i> in sheep horn phenotypes. Our findings suggest that <i>CASP14</i> plays a significant role in horn development, offering insights into breeding strategies for small-horned animals.</p></div>2024-11-21T18:47:55ZDatasetinfo:eu-repo/semantics/publishedVersiondataset10.1371/journal.pone.0310464.t001https://figshare.com/articles/dataset/Potential_SNP_functional_loci_of_i_CASP14_i_gene_/27883850CC BY 4.0info:eu-repo/semantics/openAccessoai:figshare.com:article/278838502024-11-21T18:47:55Z |
| spellingShingle | Potential SNP functional loci of <i>CASP14</i> gene. Xiaoning Lu (206322) Biochemistry Genetics Molecular Biology Physiology Developmental Biology Science Policy Environmental Sciences not elsewhere classified Biological Sciences not elsewhere classified study comprehensively analyzed snp site 7944295 identified functional sites div >< p functional loci analysis five ase events sheep horn phenotypes scurred group com sheep horn scurred group horn development wgs ), using rna test analysis seq data scale breeding offering insights keratin formation kasp assays investigated allele intensive farming horned animals genome sequencing findings suggest current context closely associated casp14 </ breeding strategies |
| status_str | publishedVersion |
| title | Potential SNP functional loci of <i>CASP14</i> gene. |
| title_full | Potential SNP functional loci of <i>CASP14</i> gene. |
| title_fullStr | Potential SNP functional loci of <i>CASP14</i> gene. |
| title_full_unstemmed | Potential SNP functional loci of <i>CASP14</i> gene. |
| title_short | Potential SNP functional loci of <i>CASP14</i> gene. |
| title_sort | Potential SNP functional loci of <i>CASP14</i> gene. |
| topic | Biochemistry Genetics Molecular Biology Physiology Developmental Biology Science Policy Environmental Sciences not elsewhere classified Biological Sciences not elsewhere classified study comprehensively analyzed snp site 7944295 identified functional sites div >< p functional loci analysis five ase events sheep horn phenotypes scurred group com sheep horn scurred group horn development wgs ), using rna test analysis seq data scale breeding offering insights keratin formation kasp assays investigated allele intensive farming horned animals genome sequencing findings suggest current context closely associated casp14 </ breeding strategies |