http://hdl.handle.net/10174/22 Sat, 04 Apr 2026 09:10:00 GMT 2026-04-04T09:10:00Z http://hdl.handle.net/10174/41403 Title: Adipose gene expression profiles of four cattle breeds highlight selective pressures and tissue functions. Authors: Ruvinskiy, D; Pokharel, K; Amaral, A; Weldenegodguad, M; Honkatukia, M; Lindberg, H; Peippo, J; Soppela, P; Uimari, P; Ginja, C; Kantanen, J Abstract: Less functional genomic characterization of cattle breeds has been applied in studies focusing on population genomics, adaptation genomics and cattle genetic resources. Adipose tissues are crucial in regulating metabolism and energy balance with their ability to re-structure based on external changes. We have sequenced RNA samples extracted from metacarpal, perirenal, tailhead and prescapular adipose tissues of 81 individuals of Yakutian cattle (Sakha Republic), Northern Finncattle (Finland), Mirandesa (Portugal), and the commercial Holstein breed, and compared differentially expressed genes (DEGs) between tissues, breeds, and sexes. In total, 20,714 genes were expressed in our data, and we found the highest number of tissue-specific expressed genes in the metacarpal adipose tissue (672). The gene with the highest mean abundance in the metacarpal adipose tissue was HOXD13 associated with adipogenesis. Moreover, the principal component analysis of normalized expression profiles showed a separation of the metacarpal adipose tissue from the others. In breed comparisons, some upregulated genes in Yakutian cattle are associated with energy metabolism and response to cold temperatures (NR4A3, TEKT3, and FGGY). In the Mirandesa Tue, 04 Jul 2023 23:00:00 GMT http://hdl.handle.net/10174/41403 2023-07-04T23:00:00Z http://hdl.handle.net/10174/41399 Title: GENETIC CHARACTERIZATION NATIVE CATTLE OF ANGOLA USING WHOLE GENOME SEQUENCING Authors: Sebastino, K; Chiaia, H; Teixeira, F; Gaspar, J; Afonso, P; Cláudio, S; Nanga, P; Pires, J; Adelino, M; Ngola, S; Casimiro, J; Gomes, L; Dala, E; Cordeiro, JM; Alexandre, A; Leitão, A; Amaral, A Abstract: In Angola, about 70% of the population relies on subsistence agriculture, with cattle production crucial to the economy and culture of the southern regions. Local cattle breeds face extinction due to crossbreeding with improved breeds or replacement by exotic commercial breeds, risking the loss of unique genetic traits vital for adapting to Angola's ecosystems. This project aims to establish a biobank representing the genetic diversity of native cattle biotypes, and to investigate its diversity using high-throughput genome sequencing, and identify genetic markers linked to adaptive traits. The project aims to collect samples from various parts of the country , in areas where there are reports of biotypes (breeds) of autochthonous cattle. So far 68 samples have been collected in provinces located in the Northwest, Southwest and Southeast of the country. A total of six samples collected in Namibe and Cunene were sequenced, generating a total of 339Gb of data, the depth reached was 10X for 4 samples and 30X depth for two samples. The level of genetic diversity and its relationship with other breeds of the world will be presented and discussed. Tue, 05 Nov 2024 00:00:00 GMT http://hdl.handle.net/10174/41399 2024-11-05T00:00:00Z http://hdl.handle.net/10174/41396 Title: GENETIC DIVERSITY OF NATIVE GOATS (CAPRA HIRCUS) FROM ANGOLA AND IDENTIFICATION OF SELECTION SIGNATURES FOR TRYPANOSOMIASIS RESISTANCE Authors: Chiaia, H; Sebastino, K; Afonso, P; Gaspar, J; Teixeira, F; Ngola, S; Simão, C; Casimiro, J; Nanga, P; Pires, J; Miguel, Adelino; Gomes, Ladislau; Dala, E; Cordeiro, JM; Morais, J; Leitão, A; Amaral, A Abstract: In Angola, about 70% of the population relies on subsistence agriculture, with cattle production crucial to the economy and culture of the southern regions. Local cattle breeds face extinction due to crossbreeding with improved breeds or replacement by exotic commercial breeds, risking the loss of unique genetic traits vital for adapting to Angola's ecosystems. This project aims to establish a biobank representing the genetic diversity of native cattle biotypes, and to investigate its diversity using high-throughput genome sequencing, and identify genetic markers linked to adaptive traits. The project aims to collect samples from various parts of the country (Angola), in areas where there are reports of biotypes (breeds) of autochthonous cattle. So far 68 samples have been collected in provinces located in the Northwest, Southwest and Southeast of the country. A total of six samples collected in Namibe and Cunene were sequenced, generating a total of 339Gb of data, the depth reached was 10X for 4 samples and 30X depth for two samples. The level of genetic diversity Tue, 05 Nov 2024 00:00:00 GMT http://hdl.handle.net/10174/41396 2024-11-05T00:00:00Z http://hdl.handle.net/10174/41395 Title: Whole-genome sequencing of Landim pigs of Mozambique reveals a close relationship with Angolan native pigs and suggests selection for immune response Authors: Teixeira, F; Sá, P; Garrine, C; Zimba, R; Souza, L; Chiaia, H; Leitão, A; Cordeiro, JM; Gama, LT; Amaral, AJ Abstract: Landim pigs, a population of native pigs from Mozambique are currently threatened by the recent introduction of European exotic breeds. Like most African pig populations, Landim pigs have never been characterized at the genome level and are well adapted to harsh conditions which include adaptation to endemic diseases. In this study, we provide a comprehensive genetic characterization of Landim pigs using whole-genome sequencing (WGS). We generated genomes from Landim pigs (n = 6) and compared these genomes to local pigs from Angola and European and Asian domestic pigs and wild boars currently in the public domain (n = 78). Analyses of population structure showed that Angola local and Landim pigs are closely related, and both are more closely related to European than Asian breeds. Preliminary results suggest that Landim pigs display a duplication in Chr4 that has been reported only in Chinese domestic pigs, overlapping the TBX19 gene thatis associated with development and growth. The functional analysis of missense SNPs in Landim pigs shows that these occur in genes related to immune system response. The integrated haplotype score (iHS) analysis revealed candidate regions under selection overlapping genes also related to immune response. This study represents the first assessment of the genetic background of native pigs from Mozambique and opens the path to understanding the dynamic and interlinked history of African pig populations. The present study further reports unique genetic attributes related to an immune response that should be further explored. Tue, 04 Jul 2023 23:00:00 GMT http://hdl.handle.net/10174/41395 2023-07-04T23:00:00Z