Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes
Copy number variations regions (CNVRs) can be classified either as segregating, when found in both parents, and offspring, or non-segregating. A total of 65 segregating and 31 non-segregating CNVRs identified in at least 10 individuals within a dense pedigree of the Gochu Asturcelta pig breed was su...
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MDPI AG
2023-07-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/13/14/2351 |
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| author | Katherine D. Arias Juan Pablo Gutiérrez Iván Fernández Isabel Álvarez Félix Goyache |
| author_facet | Katherine D. Arias Juan Pablo Gutiérrez Iván Fernández Isabel Álvarez Félix Goyache |
| author_sort | Katherine D. Arias |
| collection | DOAJ |
| description | Copy number variations regions (CNVRs) can be classified either as segregating, when found in both parents, and offspring, or non-segregating. A total of 65 segregating and 31 non-segregating CNVRs identified in at least 10 individuals within a dense pedigree of the Gochu Asturcelta pig breed was subjected to enrichment and functional annotation analyses to ascertain their functional independence and importance. Enrichment analyses allowed us to annotate 1018 and 351 candidate genes within the bounds of the segregating and non-segregating CNVRs, respectively. The information retrieved suggested that the candidate genes spanned by segregating and non-segregating CNVRs were functionally independent. Functional annotation analyses allowed us to identify nine different significantly enriched functional annotation clusters (ACs) in segregating CNVR candidate genes mainly involved in immunity and regulation of the cell cycle. Up to five significantly enriched ACs, mainly involved in reproduction and meat quality, were identified in non-segregating CNVRs. The current analysis fits with previous reports suggesting that segregating CNVRs would explain performance at the population level, whereas non-segregating CNVRs could explain between-individuals differences in performance. |
| first_indexed | 2024-03-11T01:22:41Z |
| format | Article |
| id | doaj.art-91790e8e61e6480cacf2a6f6d2e6c1d3 |
| institution | Directory Open Access Journal |
| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-03-11T01:22:41Z |
| publishDate | 2023-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj.art-91790e8e61e6480cacf2a6f6d2e6c1d32023-11-18T18:01:11ZengMDPI AGAnimals2076-26152023-07-011314235110.3390/ani13142351Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of GenesKatherine D. Arias0Juan Pablo Gutiérrez1Iván Fernández2Isabel Álvarez3Félix Goyache4Área de Genética y Reproducción Animal, SERIDA-Deva, Camino de Rioseco 1225, 33394 Gijón, SpainDepartamento de Producción Animal, Universidad Complutense de Madrid, 28040 Madrid, SpainÁrea de Genética y Reproducción Animal, SERIDA-Deva, Camino de Rioseco 1225, 33394 Gijón, SpainÁrea de Genética y Reproducción Animal, SERIDA-Deva, Camino de Rioseco 1225, 33394 Gijón, SpainÁrea de Genética y Reproducción Animal, SERIDA-Deva, Camino de Rioseco 1225, 33394 Gijón, SpainCopy number variations regions (CNVRs) can be classified either as segregating, when found in both parents, and offspring, or non-segregating. A total of 65 segregating and 31 non-segregating CNVRs identified in at least 10 individuals within a dense pedigree of the Gochu Asturcelta pig breed was subjected to enrichment and functional annotation analyses to ascertain their functional independence and importance. Enrichment analyses allowed us to annotate 1018 and 351 candidate genes within the bounds of the segregating and non-segregating CNVRs, respectively. The information retrieved suggested that the candidate genes spanned by segregating and non-segregating CNVRs were functionally independent. Functional annotation analyses allowed us to identify nine different significantly enriched functional annotation clusters (ACs) in segregating CNVR candidate genes mainly involved in immunity and regulation of the cell cycle. Up to five significantly enriched ACs, mainly involved in reproduction and meat quality, were identified in non-segregating CNVRs. The current analysis fits with previous reports suggesting that segregating CNVRs would explain performance at the population level, whereas non-segregating CNVRs could explain between-individuals differences in performance.https://www.mdpi.com/2076-2615/13/14/2351CNV segregationcandidate genefunctional analysesbetween-individuals differences |
| spellingShingle | Katherine D. Arias Juan Pablo Gutiérrez Iván Fernández Isabel Álvarez Félix Goyache Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes Animals CNV segregation candidate gene functional analyses between-individuals differences |
| title | Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes |
| title_full | Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes |
| title_fullStr | Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes |
| title_full_unstemmed | Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes |
| title_short | Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes |
| title_sort | copy number variation regions differing in segregation patterns span different sets of genes |
| topic | CNV segregation candidate gene functional analyses between-individuals differences |
| url | https://www.mdpi.com/2076-2615/13/14/2351 |
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