skip to main content
Idioma:

Genome-wide scan for runs of homozygosity in South American Camelids

Pallotti, Stefano ; Picciolini, Matteo ; Antonini, Marco ; Renieri, Carlo ; Napolioni, Valerio

BMC genomics, 2023-08, Vol.24 (1), p.1-470, Article 470 [Periódico revisado por pares]

London: BioMed Central Ltd

Texto completo disponível

Citações Citado por
  • Título:
    Genome-wide scan for runs of homozygosity in South American Camelids
  • Autor: Pallotti, Stefano ; Picciolini, Matteo ; Antonini, Marco ; Renieri, Carlo ; Napolioni, Valerio
  • Assuntos: Adaptation ; Alpaca ; Alpacas ; Analysis ; Animal production ; Camelidae ; Camelids ; Chromosomes ; Dimensional analysis ; Domestication ; Fibroblast growth factor 5 ; Gene sequencing ; Genetic analysis ; Genetic aspects ; Genetic relationship ; Genetic research ; Genomes ; Genomics ; Grasslands ; Guanaco ; Haplotypes ; High altitude ; Homozygosity ; Hypotheses ; Identification and classification ; Inbreeding ; Lama glama ; Lama guanicoe ; Llama ; Phosphodiesterase ; Population ; Runs of homozygosity ; Sheep ; Signatures ; South American camelids ; Species ; Steppes ; Vicugna ; Whole genome sequencing
  • É parte de: BMC genomics, 2023-08, Vol.24 (1), p.1-470, Article 470
  • Notas: ObjectType-Article-1
    SourceType-Scholarly Journals-1
    ObjectType-Feature-2
    content type line 23
  • Descrição: Alpaca (Vicugna pacos), llama (Lama glama), vicugna (Vicugna vicugna) and guanaco (Lama guanicoe), are the camelid species distributed over the Andean high-altitude grasslands, the Altiplano, and the Patagonian arid steppes. Despite the wide interest on these animals, most of the loci under selection are still unknown. Using whole-genome sequencing (WGS) data we investigated the occurrence and the distribution of Runs Of Homozygosity (ROHs) across the South American Camelids (SACs) genome to identify the genetic relationship between the four species and the potential signatures of selection. A total of 37 WGS samples covering the four species was included in the final analysis. The multi-dimensional scaling approach showed a clear separation between the four species; however, admixture analysis suggested a strong genetic introgression from vicugna and llama to alpaca. Conversely, very low genetic admixture of the guanaco with the other SACs was found. The four species did not show significant differences in the number, length of ROHs (100-500 kb) and genomic inbreeding values. Longer ROHs (> 500 kb) were found almost exclusively in alpaca. Seven overlapping ROHs were shared by alpacas, encompassing nine loci (FGF5, LOC107034918, PRDM8, ANTXR2, LOC102534792, BSN, LOC116284892, DAG1 and RIC8B) while nine overlapping ROHs were found in llama with twenty-five loci annotated (ERC2, FZD9, BAZ1B, BCL7B, LOC116284208, TBL2, MLXIPL, PHF20, TRNAD-AUC, LOC116284365, RBM39, ARFGEF2, DCAF5, EXD2, HSPB11, LRRC42, LDLRAD1, TMEM59, LOC107033213, TCEANC2, LOC102545169, LOC116278408, SMIM15, NDUFAF2 and RCOR1). Four overlapping ROHs, with three annotated loci (DLG1, KAT6B and PDE4D) and three overlapping ROHs, with seven annotated genes (ATP6V1E1, BCL2L13, LOC116276952, BID, KAT6B, LOC116282667 and LOC107034552), were detected for vicugna and guanaco, respectively. The signatures of selection revealed genomic areas potentially selected for production traits as well as for natural adaptation to harsh environment. Alpaca and llama hint a selection driven by environment as well as by farming purpose while vicugna and guanaco showed selection signals for adaptation to harsh environment. Interesting, signatures of selection on KAT6B gene were identified for both vicugna and guanaco, suggesting a positive effect on wild populations fitness. Such information may be of interest to further ecological and animal production studies.
  • Editor: London: BioMed Central Ltd
  • Idioma: Inglês
Voltar para lista de resultados
Ir para página anteriorAnterior Resultado  3 AvançarIr para próxima página

  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

Buscando em bases de dados remotas. Favor aguardar.