All Outputs (49)

Phenotypic and genomic characterisation of performance of tropically adapted chickens raised in smallholder farm conditions in Ethiopia (2024)
Journal Article
Morris, K. M., Sutton, K., Girma, M., Sánchez-Molano, E., Solomon, B., Esatu, W., Dessie, T., Vervelde, L., Psifidi, A., Hanotte, O., & Banos, G. (2024). Phenotypic and genomic characterisation of performance of tropically adapted chickens raised in smallholder farm conditions in Ethiopia. Frontiers in Genetics, 15, Article 1383609. https://doi.org/10.3389/fgene.2024.1383609

Background:: In sub-Saharan Africa, 80% of poultry production is on smallholder village farms, where chickens are typically reared outdoors in free-ranging conditions. There is limited knowledge on chickens’ phenotypic characteristics and genetics un... Read More about Phenotypic and genomic characterisation of performance of tropically adapted chickens raised in smallholder farm conditions in Ethiopia.

Comprehensive analysis of differentially expressed mRNA profiles in chicken jejunum and cecum following Eimeria maxima infection (2024)
Journal Article
Jebessa, E., Bello, S. F., Xu, Y., Cai, B., Tuli, M. D., Girma, M., …Nie, Q. (2024). Comprehensive analysis of differentially expressed mRNA profiles in chicken jejunum and cecum following Eimeria maxima infection. Poultry Science, 103(6), Article 103716. https://doi.org/10.1016/j.psj.2024.103716

Coccidiosis, a protozoan disease that substantially impacts poultry production, is characterized by an intracellular parasite. The study utilized 48 one-day-old Horro chickens, randomly divided into the infected (I) and control (C) groups. The challe... Read More about Comprehensive analysis of differentially expressed mRNA profiles in chicken jejunum and cecum following Eimeria maxima infection.

Landscape genomics reveals regions associated with adaptive phenotypic and genetic variation in Ethiopian indigenous chickens (2024)
Journal Article
Kebede, F. G., Derks, M. F., Dessie, T., Hanotte, O., Barros, C. P., Crooijmans, R. P., Komen, H., & Bastiaansen, J. W. (2024). Landscape genomics reveals regions associated with adaptive phenotypic and genetic variation in Ethiopian indigenous chickens. BMC Genomics, 25(1), Article 284. https://doi.org/10.1186/s12864-024-10193-6

Climate change is a threat to sustainable livestock production and livelihoods in the tropics. It has adverse impacts on feed and water availability, disease prevalence, production, environmental temperature, and biodiversity. Unravelling the drivers... Read More about Landscape genomics reveals regions associated with adaptive phenotypic and genetic variation in Ethiopian indigenous chickens.

Exploring genetic diversity and variation of Ovar-DRB1 gene in Sudan Desert Sheep using targeted next-generation sequencing (2024)
Journal Article
Salim, B., Nakao, R., Chatanga, E., Marcuzzi, O., Eissawi, M. A., Almathen, F., …Giovambattista, G. (2024). Exploring genetic diversity and variation of Ovar-DRB1 gene in Sudan Desert Sheep using targeted next-generation sequencing. BMC Genomics, 25(1), Article 160. https://doi.org/10.1186/s12864-024-10053-3

Introduction
The Ovar-DRB1 gene, a crucial element of the Major Histocompatibility Complex (MHC) Class II region, initiates adaptive immunity by presenting antigens to T-cells. Genetic diversity in sheep, particularly in MHC Class II genes like Ovar... Read More about Exploring genetic diversity and variation of Ovar-DRB1 gene in Sudan Desert Sheep using targeted next-generation sequencing.

Whole-genome resource sequences of 57 indigenous Ethiopian goats (2024)
Journal Article
Belay, S., Belay, G., Nigussie, H., Jian-Lin, H., Tijjani, A., Ahbara, A. M., …Mwacharo, J. M. (2024). Whole-genome resource sequences of 57 indigenous Ethiopian goats. Scientific Data, 11(1), Article 139. https://doi.org/10.1038/s41597-024-02973-2

Domestic goats are distributed worldwide, with approximately 35% of the one billion world goat population occurring in Africa. Ethiopia has 52.5 million goats, ~99.9% of which are considered indigenous landraces deriving from animals introduced to th... Read More about Whole-genome resource sequences of 57 indigenous Ethiopian goats.

Genomic analysis of Nigerian indigenous chickens reveals their genetic diversity and adaptation to heat-stress (2024)
Journal Article
Rachman, M. P., Bamidele, O., Dessie, T., Smith, J., Hanotte, O., & Gheyas, A. A. (2024). Genomic analysis of Nigerian indigenous chickens reveals their genetic diversity and adaptation to heat-stress. Scientific Reports, 14(1), Article 2209. https://doi.org/10.1038/s41598-024-52569-4

Indigenous poultry breeds from Africa can survive in harsh tropical environments (such as long arid seasons, excessive rain and humidity, and extreme heat) and are resilient to disease challenges, but they are not productive compared to their commerc... Read More about Genomic analysis of Nigerian indigenous chickens reveals their genetic diversity and adaptation to heat-stress.

MicroRNA expression profile of chicken jejunum in different time points Eimeria maxima infection (2024)
Journal Article
Jebessa, E., Bello, S. F., Guo, L., Tuli, M. D., Hanotte, O., & Nie, Q. (2024). MicroRNA expression profile of chicken jejunum in different time points Eimeria maxima infection. Frontiers in Immunology, 14, Article 1331532. https://doi.org/10.3389/fimmu.2023.1331532

Coccidiosis stands as a protozoan disease of notable economic impact, characterized by an intracellular parasite that exerts substantial influence over poultry production. This invasion disrupts the integrity of the enteric mucosa, leading to the eme... Read More about MicroRNA expression profile of chicken jejunum in different time points Eimeria maxima infection.

Mapping restricted introgression across the genomes of admixed indigenous African cattle breeds (2023)
Journal Article
Friedrich, J., Bailey, R. I., Talenti, A., Chaudhry, U., Ali, Q., Obishakin, E. F., …Wiener, P. (2023). Mapping restricted introgression across the genomes of admixed indigenous African cattle breeds. Genetics Selection Evolution, 55(1), Article 91. https://doi.org/10.1186/s12711-023-00861-8

Background: The genomes of indigenous African cattle are composed of components with Middle Eastern (taurine) and South Asian (indicine) origins, providing a valuable model to study hybridization and to identify genetic barriers to gene flow. In this... Read More about Mapping restricted introgression across the genomes of admixed indigenous African cattle breeds.

Agroecologies defined by species distribution models improve model fit of genotype by environment interactions to identify the best performing chicken breeds for smallholder systems (2023)
Journal Article
Kebede, F. G., Komen, H., Dessie, T., Hanotte, O., Kemp, S., Alemu, S. W., & Bastiaansen, J. W. M. (2023). Agroecologies defined by species distribution models improve model fit of genotype by environment interactions to identify the best performing chicken breeds for smallholder systems. Frontiers in Sustainable Food Systems, 7, Article 1305799. https://doi.org/10.3389/fsufs.2023.1305799

Animal performance is an outcome of genetic effects, environmental influences, and their interaction. Understanding the influences of the environment on performance is important to identify the right breeds for a given environment. Agroecological zon... Read More about Agroecologies defined by species distribution models improve model fit of genotype by environment interactions to identify the best performing chicken breeds for smallholder systems.

Candidate signatures of positive selection for environmental adaptation in indigenous African cattle: A review (2023)
Journal Article
Kambal, S., Tijjani, A., Ibrahim, S. A., Ahmed, M. K. A., Mwacharo, J. M., & Hanotte, O. (in press). Candidate signatures of positive selection for environmental adaptation in indigenous African cattle: A review. Animal Genetics, https://doi.org/10.1111/age.13353

Environmental adaptation traits of indigenous African cattle are increasingly being investigated to respond to the need for sustainable livestock production in the context of unpredictable climatic changes. Several studies have highlighted genomic re... Read More about Candidate signatures of positive selection for environmental adaptation in indigenous African cattle: A review.

Genome-wide diversity and admixture of five indigenous cattle populations from the Tigray region of northern Ethiopia (2023)
Journal Article
Zegeye, T., Belay, G., Vallejo-Trujillo, A., Han, J., & Hanotte, O. (2023). Genome-wide diversity and admixture of five indigenous cattle populations from the Tigray region of northern Ethiopia. Frontiers in Genetics, 14, Article 1050365. https://doi.org/10.3389/fgene.2023.1050365

The Tigray region, where we found around eight per cent of the indigenous cattle population of Ethiopia, is considered as the historic centre of the country, with the ancient pre-Aksumite and Aksumite civilisations in contact with the civilisations o... Read More about Genome-wide diversity and admixture of five indigenous cattle populations from the Tigray region of northern Ethiopia.

Yolk Fatty Acid Content, Lipid Health Indices, and Oxidative Stability in Eggs of Slow-Growing Sasso Chickens Fed on Flaxseed Supplemented with Plant Polyphenol Extracts (2023)
Journal Article
Tadesse, D., Retta, N., Girma, M., Ndiwa, N., Dessie, T., Hanotte, O., …Maak, S. (2023). Yolk Fatty Acid Content, Lipid Health Indices, and Oxidative Stability in Eggs of Slow-Growing Sasso Chickens Fed on Flaxseed Supplemented with Plant Polyphenol Extracts. Foods, 12(9), Article 1819. https://doi.org/10.3390/foods12091819

Genetic variation and demographic history of Sudan desert sheep reveal two diversified lineages (2023)
Journal Article
Salim, B., Alasmari, S., Mohamed, N. S., Ahmed, M.-K. A., Nakao, R., & Hanotte, O. (2023). Genetic variation and demographic history of Sudan desert sheep reveal two diversified lineages. BMC Genomics, 24, Article 118. https://doi.org/10.1186/s12864-023-09231-6

More than 400 million sheep are raised on the African continent, the majority of which are indigenous and are primarily reared for sustenance. They have effectively adapted to various climatic and production environments, surviving and flourishing. T... Read More about Genetic variation and demographic history of Sudan desert sheep reveal two diversified lineages.

Fourth Report on Chicken Genes and Chromosomes 2022 (2023)
Journal Article
Smith, J., Alfieri, J. M., Anthony, N., Arensburger, P., Athrey, G. N., Balacco, J., Balic, A., Bardou, P., Barela, P., Bigot, Y., Blackmon, H., Borodin, P. M., Carroll, R., Casono, M. C., Charles, M., Cheng, H., Chiodi, M., Cigan, L., Coghill, L. M., Crooijmans, R., …Zhou, H. (2023). Fourth Report on Chicken Genes and Chromosomes 2022. Cytogenetic and Genome Research, 162(8-9), 405–528. https://doi.org/10.1159/000529376

The chicken continues to hold its position as a leading model organism within many areas of research, as well as being a major source of protein for human consumption. The First Report on Chicken Genes and Chromosomes [Schmid et al., 2000], which was... Read More about Fourth Report on Chicken Genes and Chromosomes 2022.

Analysis of tail morphology and osteology in Ethiopian indigenous sheep (2023)
Journal Article
Amane, A., Belay, G., Kebede, A., Dessie, T., Worku, S., Hanotte, O., & Vila, E. (2023). Analysis of tail morphology and osteology in Ethiopian indigenous sheep. Journal of Archaeological Science: Reports, 47, Article 103776. https://doi.org/10.1016/j.jasrep.2022.103776

Sheep adaptive diversity, including tail morphology, has been shaped by various factors, including natural and/or artificial selection for different traits. The Horn of Africa has historically been a major livestock entry point on the African contine... Read More about Analysis of tail morphology and osteology in Ethiopian indigenous sheep.

Morphological and osteological characterization of indigenous domestic chickens (Gallus gallus domesticus): validation of Rensch’s, Bergmann’s and Allen’s rules (2023)
Journal Article
Gebru, G., Belay, G., Dessie, T., Zenebe Kelkay, M., Birhanie Dagnhegn, M., & Hanotte, O. (2023). Morphological and osteological characterization of indigenous domestic chickens (Gallus gallus domesticus): validation of Rensch’s, Bergmann’s and Allen’s rules. Frontiers in Ecology and Evolution, 11, Article 1032082. https://doi.org/10.3389/fevo.2023.1032082

Ecogeographical habitat heterogeneity in wild endotherm species results in morphological variability associated with physiological mechanisms for maintaining their body temperature at a thermoneutral state in different environments. This habitat-indu... Read More about Morphological and osteological characterization of indigenous domestic chickens (Gallus gallus domesticus): validation of Rensch’s, Bergmann’s and Allen’s rules.

In Vitro Antioxidant Activities of Plant Polyphenol Extracts and Their Combined Effect with Flaxseed on Raw and Cooked Breast Muscle Fatty Acid Content, Lipid Health Indices and Oxidative Stability in Slow-Growing Sasso Chickens (2022)
Journal Article
Tadesse, D., Retta, N., Girma, M., Ndiwa, N., Dessie, T., Hanotte, O., Getachew, P., Dannenberger, D., & Maak, S. (2023). In Vitro Antioxidant Activities of Plant Polyphenol Extracts and Their Combined Effect with Flaxseed on Raw and Cooked Breast Muscle Fatty Acid Content, Lipid Health Indices and Oxidative Stability in Slow-Growing Sasso Chickens. Foods, 12(1), Article 115. https://doi.org/10.3390/foods12010115

Adding flaxseed was found to decrease oxidative stability in feed and increase the antioxidant needs of chicken. This has also been associated with a decrease in the nutritional value and oxidative stability of meat if sufficient dietary antioxidants... Read More about In Vitro Antioxidant Activities of Plant Polyphenol Extracts and Their Combined Effect with Flaxseed on Raw and Cooked Breast Muscle Fatty Acid Content, Lipid Health Indices and Oxidative Stability in Slow-Growing Sasso Chickens.

Genomic adaptation of Ethiopian indigenous cattle to high altitude (2022)
Journal Article
Terefe, E., Belay, G., Han, J., Hanotte, O., & Tijjani, A. (2022). Genomic adaptation of Ethiopian indigenous cattle to high altitude. Frontiers in Genetics, 13, Article 960234. https://doi.org/10.3389/fgene.2022.960234

The mountainous areas of Ethiopia represent one of the most extreme environmental challenges in Africa faced by humans and other inhabitants. Selection for high-altitude adaptation is expected to have imprinted the genomes of livestock living in thes... Read More about Genomic adaptation of Ethiopian indigenous cattle to high altitude.

Transcriptome analysis of differentially expressed circRNAs miRNAs and mRNAs during the challenge of coccidiosis (2022)
Journal Article
Chen, X., Wang, Z., Chen, Y., Akinci, I., Luo, W., Xu, Y., …Nie, Q. (2022). Transcriptome analysis of differentially expressed circRNAs miRNAs and mRNAs during the challenge of coccidiosis. Frontiers in Immunology, 13, Article 910860. https://doi.org/10.3389/fimmu.2022.910860

Avian coccidiosis is a common enzootic disease caused by infection of Eimeria species parasites. It causes huge economic losses in the global poultry industry. Current control using anticoccidial drugs or vaccination is limited due to drug resistance... Read More about Transcriptome analysis of differentially expressed circRNAs miRNAs and mRNAs during the challenge of coccidiosis.

Genome-Wide Genetic Diversity and Population Structure of Local Sudanese Sheep Populations Revealed by Whole-Genome Sequencing (2022)
Journal Article
Amane, A., Belay, G., Tijjani, A., Dessie, T., Musa, H. H., & Hanotte, O. (2022). Genome-Wide Genetic Diversity and Population Structure of Local Sudanese Sheep Populations Revealed by Whole-Genome Sequencing. Diversity, 14(11), Article 895. https://doi.org/10.3390/d14110895

Local Sudanese sheep populations inhabiting diverse environmental conditions and holding opposing morphologies provide opportunities for molecular-genetic research. Characterizing their genome is crucial for sustainable breeding improvement and targe... Read More about Genome-Wide Genetic Diversity and Population Structure of Local Sudanese Sheep Populations Revealed by Whole-Genome Sequencing.