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Scientific Publications

CTLGH researchers publish the results of their studies in a range of scientific publications to further the advancement of knowledge in the genetic improvement of livestock. Below are a selection of publications from authors either affiliated to the Centre or of work funded by the Centre.

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Clinical evaluation of Corridor disease in Bos indicus (Boran) cattle naturally infected with buffalo-derived Theileria parva. Cook, E., Sitt, T., Poole, J., Ndambuki, G., Mwaura, S., Chepkwony, M., Latre de Late, P., Miyunga, A., van Aardt, R., Prettejohn, G., Wragg, D., Prendergast, J., Morrison, W.I., Toye, P. (2021) Frontiers in Veterinary Science https://doi.org/10.3389/fvets.2021.731238

Avian Primordial Germ Cells Are Bipotent for Male or Female Gametogenesis. Ballantyne, M., Taylor, L., Hu, T., Meunier, D., Nandi, S., Sherman, A., Flack, B., Henshall, J.M., Hawken, R.J., McGrew, M.J. (2021) Frontiers in Cell & Developmental Biology https://doi.org/10.3389/fcell.2021.726827

Evaluation of Bayesian Alphabet and GBLUP Based on Different Marker Density for Genomic Prediction in Alpine Merino Sheep. Zhu, S., Guo, T., Yuan, C., Liu, J., Li, J., Han, M., Zhao, H., Wu, Y., Sun, W., Wang, T., Tiambo, C.K., Yue, Y., Yang, B. (2021) G3 Genes https://doi.org/10.1093/g3journal/jkab206

Breeding strategies for improving smallholder dairy cattle productivity in Sub-Saharan Africa. Chawala, A.R., Sanchez-Molano, E., Dewhurst, R.J., Peters, A., Chagunda, M.G.G, Banos, G. (2021) Animal Breeding and Genetics https://doi.org/10.1111/jbg.12556

Multiple country and breed genomic prediction of tick resistance in beef cattle. Cardoso, F.F., Matika, O., Djikeng, A., Mapholi, N., Burrow, H.M., Yokoo, M.J.I., Campos, G.S., Gomes, C.C.G., Riggio, V., Pong-Wong, R., Porto-Neto, L.R., Maiwashe, A., Hayes, B. (2021) Frontiers in Immunology https://doi.org/10.3389/fimmu.2021.620847

High throughput analysis of MHC-I and MHC-DR diversity of Brazilian cattle populations. Vasoya, D., Oliveira, P.S., Agundez Muriel, L., Tzelos, T., Vrettou, C., Morrison, W.I., Santos, I.K.F.D.M., Connelley, T. (2021) HLA https://doi.org/10.1111/tan.14339

Domestic chicken diversity: Origin, distribution and adaptation: Review Paper. Lawai, R.A., Hanotte, O. (2021) Animal Genetics https://doi.org/10.1111/age.13091

Integrated environmental and genomic analysis reveals the drivers of local adaptation in African indigenous chickens. Gheyas, A., Vallejo-Trujillo, A., Kebede, A., Lozano-Jaramillo, M., Dessie, T., Smith, J., Hanotte, O. (2021) Molecular Biology and Evolution https://doi.org/10.1093/molbev/msab156

Integral use of immunopeptidomics and immunoinformatics for the characterization of antigen presentation and rational identification of BoLA-DR presented peptides and epitopes. Fisch, A., Reynisson, B., Benedictus, L., Nicastri, A., Vasoya, D., Morrison, I., Buss, S., Ferreira, B.R., Santos, I., Terrentte, N., Connelley, T., Nielson, M. (2021) Journal of Immunology https://doi.org/10.4049/jimmunol.2001409

Socio-economic, technical characteristics and challenges in indigenous (taurine-type cattle) beef production in Cameroon. Ojong, E.T., Oben, P.M., Hako, T.B.A., Ectu, K.A., Motsa, J.S., Wozerou, N.N., Keambou, C.T. (2021) Applied Animal Husbandry & Rural Development https://www.sasas.co.za/wp-content/uploads/2021/04/Ojong-ET_2021-Vol-14-1.pdf

Genome-wide insights on gastrointestinal nematode resistance in autochthonous Tunisian sheep. Ahbara, A., Rouatbi, M., Gharbi, M., Rekik, M., Haile, A., Rischkowsky, B., Mwacharo, J.M. (2021) Nature Scientific Reports https://doi.org/10.1038/s41598-021-88501-3

Inference of ancestries and heterozygosity proportion and genotype imputation in West African cattle populations. Gebrehiwot, N.Z., Aliloo, H., Strucken, E.M., Marshall, K., Gibson, J.P. (2021) Frontiers in Genetics https://doi.org/10.3389/fgene.2021.584355

SNP panels for the estimation of dairy breed proportion and parentage  assignment in African crossbred dairy cattle. Gebrehiwot, N.Z., Strucken, E.M., Marshall, K., Aliloo, H., Gibson, J.P. (2021) Genetics Selection and Evolution https://doi.org/10.1186/s12711-021-00615-4

Direct allele introgression into pure chicken breeds using Sire Dam Surrogate (SDS) mating. Ballantyne, M., Woodcock, M., Doddamani, D., Hu, T., Taylor, L., Hawken, R., McGrew, M.J. (2021) Nature Communications https://doi.org/10.1038/s41467-020-20812-x

Whole-Genome Sequence Data Suggest Environmental Adaptation of Ethiopian Sheep Populations. Weiner, P., Robert, C., Ahbara, A., Salavati, M., Abebe, A., Kebede, A., Wragg, D., Friedrich, J., Vasoya, D., Hume, D.A., Djikeng, A., Watson, M., Prendergast, J., Hanotte, O., Mwacharo, J.M., Clark, E (2021) Genome Biology and Evolution https://doi.org/10.1093/gbe/evab014

The patterns of admixture, divergence, and ancestry of African cattle populations determined from genome-wide SNP data. Gebrehiwot, N.Z., Strucken, E.M., Aliloo, H., Marshall, K., Al Kaladeh, M., Gibson, J.P. (2020) BMC Genetics https://doi.org/10.1186/s12864-020-07270-x

Single-cell RNA-seq reveals CD16- monocytes as key regulators of human monocyte transcriptional response to Toxoplasma. Patir, A., Gossner, A., Ramachandran, P., Alves, J., Freeman, T., Henderson, N., Watson, M., Hassan, M. (2020) Nature Scientific Reports https://doi.org/10.1038/s41598-020-78250-0

Determinants of vitamin D status in Kenyan calves. Callaby, R., Hurst, E., Handel, I., Toye, P., Bronsvoort, M., Mellanby, R.J. (2020) Nature Scientific Reports https://doi.org/10.1038/s41598-020-77209-5

Genetic Parameter estimates for Milkability Traits and their Relationship with Somatic Cell Score in South African Holstein Cattle. Tshilate, T.S., Bhebhe, E., Dude, C., Rhode, C., Mapholi, N.O., Matika, O., Banga, C.B. (2020) Tropical Animal Health and Production https://doi.org/10.1007/s11250-020-02483-4

Genetic diversity of Cameroon cattle and a putative genomic map for resistance to bovine tuberculosis. Callaby, R., Kelly, R., Mazeri, S., Egbe, F., Benedictus, L., Clark, E, Doeschl-Wilson, A, Bronsvoort, M., Salavati, M., Muwonge, A (2020) Frontiers in Genetics https://doi.org/10.3389/fgene.2020.550215

Global analysis of transcription start sites in the new ovine reference genome (Oar rambouillet v1.0). Salavati, M., Caulton, A., Clark, R., Gazova, I., Smith, T.P.L., Worley, K.C., Cockett, N.E., Archibald, A.L., Clarke, S.M., Murdoch, B.M., Clark, E (2020) Frontiers in Genetics https://doi.org/10.3389/fgene.2020.580580

Inverted CD4+/CD8+ T cell ratio in Boran (Bos indicus) cattle. Makau, M.C, Powell, J., Prendergast, J., de Late, P.L., Morrison, L.J., Fisch, A., Gathura, P., Kitala, P., Connelley, T., Toye, P. (2020) Veterinary Immunology & Immunopathology https://doi.org/10.1016/j.vetimm.2020.110126

A genome-wide loss-of-function screen identifies Toxoplasma gondii genes that determine fitness in interferon gamma-activated murine macrophages. Wang, Y., Sangare, L.O., Paredes-Santos, T.C., Krishnamurthy, S., Hussan, M., Furuta, A.M., Markus, B.M., Lourido, S., Saeij, J.P.J. (2020) Nature Communications https://doi.org/10.1038/s41467-020-18991-8

Integrating genetic and genomic analyses of combined health data across ecotypes to improve disease resistance in indigenous African chickens. Banos, G., Lindsay, V., Desta, T.T., Bettridge, J., Sanchez-Molano, E., Vallejo-Trujillo, A., Matika, O., Dessie, T., Wigley, P., Christley, R., Kaiser, P., Hanotte, O., Psifidi, A. (2020) Frontiers in Genetics https://doi.org/10.3389/fgene.2020.543890

The mosaic genome of indigenous African cattle as a unique genetic resource for African pastoralism. Kim, K., Kwon, T., Dessie, T., Yoo, D., Mwai, O., Jang, J., Sung, S., Lee, S., Salim, B., Jung, J., Jeong, H., Tarekegn, G.M., Tijjani, A., Lim, D., Cho, S., Oh, S.J., Lee, H-K., Kim. J., Jeong, C., Kemp, S., Hanotte, O., Kim, H. (2020) Nature Genetics https://doi.org/10.1038/s41588-020-0694-2

Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of recent selection across domesticated species. Dutta, P., Talenti, A., Young, A., Jayaraman, S., Callaby, R., Jadhav, S.K., Dhanikachalam, V., Manikandan, M., Biswa, B.B., Low, W.Y., Williams, J.L., Cook, E., Toye, P., Wall, E., Djikeng, A., Marshall, K., Archibald, A.L., Gokhale, S., Kumar, S., Hume, D.A., Prendergast, J. (2020) Nature Comms https://doi.org/10.1038/s41467-020-18550-1

Comprehensive transcriptome of the maize stalk borer, Busseola fusca, from multiple tissue types, developmental stages, and parasitoid wasp exposures. Hardwick, K.M., Bichang'a, G., Abtew, A.B., Awori, R.M., Cepko, L., Chebon-Bore, L.J., Darby, A., deVries, J.D., Filee, J., Fuad, M., Gachara, G., Githae, D., Gunga, P., Held, M., Kariuki, H., Sioma Kataka, E., Kerfua, S.D., Kimenyi, K.M., Le Ru, B., Lutomia, E.M., Luvai, E.A., Luvanda, M.K., Lyimo, B.M., Machuka, E.M., Maeda, D.G., Maini, S., Mathenge, P.G., Matoke-Muhia, D., Miller, C., Miruka, S.A., Mitema, A., Miyunga, A.A., Mukolwe, S.A., Muge, E.K., Mule, S.N., Murithi, M.K., Musabyimana, J.P., Muzoora, S., Mwangi, E.W., Mwangi, H.N., Mwangi, N., Mwaura, A.N., Ndungu, N., Ngalah, B.S., Ng'ang'a, P.N., Nyandika, B.N., Nyasani, J.O., Obange, F.A., Ochieng, S.J., Obhiambo, W.O., Ogat, H.A., Ojwang, A.M.E., Osowo, F.O., Ratemo, B.O., Sonta, T., Ssamula, A., Towett-Kirui, S., Twizerimana, A.P., Wachuin, K.M., Wacoo, A.P., Wamae, K., Webale, M.K., Yaa, R.M., Gunderson-Rindal, D.E., Stomeo, F., Djikeng, A., Calatayud, P-A., Schaack, S. (2020) Genome Biology and Evolution https://doi.org/10.1093/gbe/evaa195

Donor-derived spermatogenesis following stem call transplantation in sterile NANOS2 knockout males. Ciccarelli, C., Giasetti, M.I., Miao, D., Oatley, M.J., Robbins, C., Lopez-Biladeau, B., Waqas, M.S., Tibary, A., Whitelaw, B., Lillico, S., Park, C-H., Park, K-E., Telugu, B., Fan, Z., Liu, Y., Regouski, M., Polejaeva, I.A., Oatley, J. (2020) PNAS https://doi.org/10.1073/pnas.2010102117

1200 High Quality Metagenome-Assembled Genomes from the Rumen of African Cattle and their relevance in the context of sub-optimal feeding. Wilkinson, T., Korir, D., Ogugo, M., Stewart, R.D., Watson, M., Paxton, E., Goopy, J., Robert, C. (2020) Genome Biology https://doi.org/10.1186/s13059-020-02144-7

First detection of African swine fever (ASF) virus genotype X and serogroup 7 in symptomatic pigs in the Democratic Republic of Congo. Bisimwa, P.N., Ongus, J.R., Tiambo, C.K., Machuka, E.M., Bisimwa, E.B., Steinaa, L., Pelle, R. (2020) Virology Journal https://doi.org/10.1186/s12985-020-01398-8

Ethiopian indigenous goats offer insights into past and recent demographic dynamics and local adaptation in sub-saharan African goats. Tarekegn, G.M., Khayatzadeh, N., Liu, B., Osama, S., Haile, A., Rischkowsky, B., Zhang, W., Tesfaye, K., Dessie, T., Mwai, O., Djikeng, A., Mwacharo, J.M. (2020) Evolutionary Application https://doi.org/10.1111/eva.13118

Paternal Origins and Migratory Episodes of Domestic Sheep. Deng, J., Xie, X-L., Wang, D-F., Zhao, C., Lv, F-H., Li, X., Yang, J., Yu, J-L., Shen, M., Gao, L., Yang, J-Q., Liu, M-J., Li, W-R., Wang, Y-T., Wang, F., Li, J-Q., Hehua, E., Liu, Y-G., Shen, Z.Q., Ren, Y-L., Liu, G-J., Chen, Z-H., Gorkhali, N.A., Rushdi, H.E., Salehian-Dehkordi, H., Esmailizadeh, A., Nosrati, M., Paivi, S.R., Caetano, A.R., Stepanek, O., Olsaker, I., Weimann, C., Erhardt, G., Curik, I., Kantanen, J., Mwacharo, J.M., Hanotte, O., Bruford, M.W., Ciani, E., Periasamy, K., Amills, M., Lenstra, J.A., Han, J-L., Zhang, H-P., Li, L., Li, M-H. (2020) Current Biology https://doi.org/10.1016/j.cub.2020.07.077

Transcriptional Analyses Identify Genes That Modulate Bovine Macrophage Response to Toxoplasma Infection and Immune Stimulation. Gossner, A., Hussan, M. (2020) Frontiers in Cellular and Infection Microbiology https://doi.org/10.3389/fcimb.2020.00437

Joint genetic analysis for dairy cattle performance across countries in sub-Saharan Africa. Opoola, O., Banos, G., Ojango, J.M.K, Mrode, R., Simm, G., Banga, C.B., Beffa, L.M., Chagunda, M.G.G (2020) South African Journal of Animal Science https://www.ajol.info/index.php/sajas/article/view/200978

Genetic Diversity and Population Structure of Brachiaria (syn. Urochloa) Ecotypes from Uganda. Namazzi, C., Sserumaga, J.P., Mugerwa, S., Kyalo, M., Mutai, C., Mwesigwa, R., Djikeng, A., Ghimire, S. (2020) Agronomy https://doi.org/10.3390/agronomy10081193

Reflections on IDEAL. Callaby, R., Jennings, A., Mwangi, S.T., Mbole-Kariuki, M., Van Wyk, I., Kiara, H., Coetzer, J.A.W., Woolhouse, M.E.J., Hanotte, O., Toye, P., Bronsvoort, M. (2020) Preventative Veterinary Medicine https://doi.org/10.1016/j.prevetmed.2020.105062

IDEAL, the Infectious Diseases of East African Livestock project open access database and biobank. Callaby, R., Pendarovski, C., Jennings, A., Mwangi, S.T., Van Wyk, I., Mbole-Kariuki, M., Kiara, H., Toye, P., Kemp, S., Hanotte, O., Coetzer, J.A.W., Handel, I., Woolhouse, M.E.J., Bronsvoort, M. (2020) Nature Scientific Data https://doi.org/10.1038/s41597-020-0559-7

Comparative Transcriptomics of the Bovine Apicomplexan Parasite Theileria parva Developmental Stages Reveals Massive Gene Expression Variation and Potential Vaccine Antigens. Atchou, K., Ongus, J.R., Machuka, E.M., Juma, J., Tiambo, C.K., Djikeng, A., Silva, J.C., Pelle, R. (2020) Frontiers in Veterinary Science https://doi.org/10.3389/fvets.2020.00287

Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits. Li, X., Yang, J., Shen, M., Xia, X-L., Liu, G-J., Xu, Y-X., Lv, H-H., Yang, H., Yang, Y-L., Liu, C-B, Zhou, P., Wan, P-C., Zhang, Y-S., Gao, L., Yang, J-Q., Pi, W-H., Ren, Y-L., Shen, Z.Q., Wang, F., Deng, J., Xu, S-S, Salehian-Dehkordi, H., Hehua, E., Esmailizadeh, A., Dehghani-Qanatqestani, M., Stepanek, O., Weimann, C., Erhardt, G., Amane, A., Mwacharo, J.M., Han, J-L., Hanotte, O., Lenstra, J.A., Kantanen, J., Coltman, D.W., Kijas, J.W., Bruford, M.W., Periasamy, K., Wang, X-H., Li, M-H. (2020) Nature Communications https://doi.org/10.1038/s41467-020-16485-1

Diversity of endogenous Avian Leukosis Virus subgroup E (ALVE) insertions in indigenous chickens. Mason, A., Miedzinska-Bielecka, K., Kebede, A., Bamidele, O., Al-Jumaili, A.S., Dessie, T., Hanotte, O., Smith, J. (2020) Genetic Selection Evolution https://doi.org/10.1186/s12711-020-00548-4

Bioengineering horizon scan 2020. Kemp, L., Adam, L., Boehm, C.R., Breitling, R., Casagrande, R., Dando, M., Djikeng, A., Evans, N.G., Hammond, R., Hills, R., Holt, L.A., Kuiken, T., Markotic, A., Millett, P., Napier, J.A., Nelson, C., OhEigeartaigh, S.S., Osbourn, A., Palmer, M., Patron, N.J., Perello, E., Piyawattanametha, W., Restrepo-Schild, V., Rios-Rojas, C., Rhodes, C., Roessing, A., Scott, D., Shapira, P., Simuntala, C., Smith, R.D., Sundaram, L.S., Takano, E., Uttmark, G., Wintle, B., Zahra, N.B., Sutherland, W.J. (2020) eLife https://doi.org/10.7554/eLife.54489

Analysis of the Role of TpUB05 Antigen from Theileria parva in Immune Responses to Malaria in Humans Compared to Its Homologue in Plasmodium falciparum the UB05 Antigen. Dinga, J.N., Perimbie, S.N., Gamau, S.D., Chuma, F.N.G., Njimoh, D.L., Djikeng, A., Pelle, R., Titanji, V.P.K. (2020) Pathogens https://doi.org/10.3390/pathogens9040271

Association of LEI0258 Marker Alleles and Susceptibility to Virulent Newcastle Diseases Infection in Kuroiler, sasso and Local Tanzanian chicken embryos. Mpenda, F.N., Keambou, C.T., Kyallo, M., Juma, J., Pelle, R., Lyantagaye, S.L., Buza, J. (2020) Journal of Pathogens https://doi.org/10.1155/2020/5187578

The maternal origin of indigenous domestic chicken from the Middle East, the north and the horn of Africa. Al-Jumaili, A.S., Boudali, S.F., Kebede, A., Al-Bayatti, S.A., Essa, A.A., Ahbara, A., Alijumaah, R.S., Alatiyat, R.M., Mwacharo, J.M., Bjornstad, G., Naqvi, A.N., Gaouar, S.B.S., Hanotte, O. (2020) BMC Genetics https://doi.org/10.1186/s12863-020-0830-0

The wild species genome ancestry of domestic chickens. Lawal, R.A., Martin, S.H., Vanmechelen, K., Vereijken, A., Silva, P., Al-Atiyat, R.M., Alijumaah, R.S., Mwacharo, J.M., Wu, D.D., Zhang, Y.P., Hocking, P.M., Smith, J., Wragg, D., Hanotte, O. (2020) BMC Biology https://doi.org/10.1186/s12915-020-0738-1

Genetic and antigenic variation of the bovine tick-borne pathogen Theileria parva in the Great Lakes region of Central Africa. Amzati, G.S., Djikeng, A., Odongo, D., Nimpaye, H., Sibeko, K.P., Muhigwa, J.B.B., Madder, M., Kirschvink, N., Marcotty, T. (2019) Parasites and Vectors https://doi.org/10.1186/s13071-019-3848-2

Leveraging genomic diversity to promote human and animal health. Ramsay, M., Brunner, H.G., Djikeng, A. (2019) Nature Communications Biology https://doi.org/10.1038/s42003-019-0708-8

Evidence for the Presence of African Swine Fever Virus in Apparently Healthy Pigs in South-Kivu Province of the Democratic Republic of Congo. Patrick, B.N., Machuka, E.M., Githae, D., Banswe, G., Amimo, J.O., Ongus, J.R., Masembe, C., Bishop, R.P., Steinaa, L., Djikeng, A., Pelle, R. (2019) Veterinary Microbiology https://doi.org/10.1016/j.vetmic.2019.108521

A mini-atlas of gene expression for the domestic goat (Capra hircus). Muriuki, C., Bush, S.J., Salavati, M., McCulloch, M.E.B., Lisowski, Z.M., Agaba, M., Djikeng, A., Hume, D.A., Clark, E (2019) Frontiers in Genetics https://doi.org/10.3389/fgene.2019.01080

A comprehensive survey of the prevalence and spatial distribution of ticks infesting cattle in different agro-ecological zones of Cameroon. Silatsa, B.A., Simo, G., Githaka, N., Mwaura, S., Kamga, R.M., Oumarou, F., Keambou, C.T., Bishop, R.P., Djikeng, A., Kuiate, J.R., Njiokou, F., Pelle, R. (2019) Parasites and Vectors https://doi.org/10.1186/s13071-019-3738-7

Genome-wide identification of splicing quantitative trait loci (sQTL) in diverse ecotypes of Arabidopsis thaliana. Khokhar, W., Hassan, M., Reddy, A.S.N., Chaudhary, S., Jabre, I., Byrne, L.J., Syed, N.H. (2019) Frontiers in Plant Science https://doi.org/10.3389/fpls.2019.01160

Draft genome sequence of Solanum aethiopicum provides insights into disease resistance, drought tolerance, and the evolution of the genome. Song, B., Song, Y., Fu, Y., Kizito, E.B., Kamenya, S.N., Kabod, P.N., Liu, H., Muthemba, S., Kariba, R., Njuguna, J., Maina, S., Stomeo, F., Djikeng, A., Hendre, P.S., Chen, X., Chen, W., Li, X., Sun, W., Wang, S., Cheng, S., Muchugi, A., Jamnadass, R., Shapiro, H.Y., Van Deynze, A., Yang, H., Wang, J., Xu, X., Odeny, D.A., Liu, X. (2019) GigaScience https://doi.org/10.1093/gigascience/giz115

Breeding and Productivity in Ending Hunger and Achieving Food Security and Nutrition. Avana-Tientcheu, M.L., Keambou, C.T. (2019) Chapter in 'Zero Hunger' Book https://doi.org/10.1007/978-3-319-69626-3_59-1

Functional evolution of the Colony Stimulating Factor 1 Receptor (CSF1R) and its ligands in birds. Hume, D.A., Gutowska-Ding, W., Garcia-Morales, C., Kabade, A., Bamidele, A., Vallejo-Trujillo, A., Gheyas, A., Smith, J. (2019) Journal of Leukocyte Biology https://doi.org/10.1002/JLB.6MA0519-172R

Draft genome of Busseola fusca, the maize stalk borer, a major crop pest in Sub-Saharan Africa. Hardwick, K.M., Ojwang, A.M.E., Stomeo, F., Maina, S., Bichang'a, G., Calatayud, P-A., Filee, J., Djikeng, A., Miller, C., Cepko, L., Darby, A., Le Ru, B., Schaack, S. (2019) Genome Biology and Evolution https://doi.org/10.1093/gbe/evz166

Signatures of Selection for Environmental Adaptation and Zebu × Taurine Hybrid Fitness in East African Shorthorn Zebu. Bahbahani, H., Tijjani, A., Mukasa, C., Wragg, D., Almathen, F., Nash, O., Akpa, G.N., Mbole-Kariuki, M., Malla, S., Woolhouse, M., Sonstegard, T., Van Tassell, C., Blythe, M., Huson, H., Hanotte, O. (2019) Frontiers in Genetics https://doi.org/10.3389/fgene.2017.00068

Towards a new phenotype for tick resistance in beef and dairy cattle: a review. Burrow, H.M., Mans, B.J., Cardoso, F.F., Birkett, M.A., Kotze, A.C., Hayes, B.J., Mapholi, N., Dzama, K., Marufu, M.C., Githaka, N.W., Djikeng, A. (2019) Animal Production Science https://doi.org/10.1071/AN18487

Livestock genomics for developing countries – African examples in practice. Marshall, K., Gibson, J.P., Mwai, O., Mwacharo, J.M., Haile, A., Tesfaye, G., Mrode, R., Kemp, S. (2019) Frontiers in Genetics https://doi.org/10.3389/fgene.2019.00297

Comparative analysis of the chicken IFITM locus by targeted genome sequencing reveals evolution of the locus and positive selection in IFITM1 and IFITM3. Bassano, I., Ong, S.H., Sanz-Hernandez, M., Vinkler, M., Kebede, A., Hanotte, O., Onuigbo, E., Fife, M., Kellam, P. (2019) BMC Genetics https://doi.org/10.1186/s12864-019-5621-5

Genome-wide diversity and demographic dynamics of Cameroon goats and their divergence from east African, north African, and Asian conspecifics. Tarekegn, G.M., Wouobeng, P., Jaures, K.S., Mrode, R., Edea, Z., Liu, B., Zhang, W., Mwai, O., Dessie, T., Tesfaye, G., Strandberg, E., Berglund, B., Mutai, C., Osama, S., Wolde, A.T., Birungi, J., Djikeng, A., Meutchieye, F. (2019) PLoS ONE https://doi.org/10.1371/journal.pone.0214843

A countrywide molecular survey leads to a seminal identification of the invasive cattle tick Rhipicephalus (Boophilus) microplus in Cameroon, a decade after it was reported in Cote d’Ivoire. Silatsa, B.A., Kuiate, J.R., Nijiokou, F., Simo, G., Kameni, J-M.F., Alabi, T., Amzati, G.S., Bett, B., Bishop, R., Githaka, N.W., Opiyo, S.O., Djikeng, A., Pelle, R. (2019) Ticks and Tick-borne Diseases https://doi.org/10.1016/j.ttbdis.2019.02.002

Three Toxoplasma gondii dense granule proteins are required for induction of Lewis rat macrophage pyroptosis. Wang, Y., Cirelli, K.M., Barros, P.D.C., Sangare, L.O., Butty, V., Hassan, M., Pasavento, P., Mete, A., Saeij, P.J. (2019) mBio https://doi.org/10.1128/mBio.02388-18

Clonal and atypical Toxoplasma strain differences in virulence varies with mouse sub-species. Hassan, M., Olijnik, A-A., Frickel, E-M., Saeij, J.P. (2019) International Journal For Parasitology https://doi.org/10.1016/j.ijpara.2018.08.007

Transcriptomics reveal potential vaccine antigens and a drastic increase of upregulated genes during Theileria parva development from arthropod to bovine infective stages. Tonui, T., Corredor-Moreno, P., Kanduma, E.G., Njuguna, J., Njahira, M.N., Nyanjom, S.G., Silva, J.C., Djikeng, A., Pelle, R. (2018) PLoS ONE https://doi.org/10.1371/journal.pone.0204047

Genetic diversity and population structure of Urochloa grass accessions from Tanzania using simple sequence repeat (SSR) markers. Kuwi, S.O., Kyalo, M., Mutai, C., Mwilawa, A., Hanson, J., Djikeng, A., Ghimire, S. (2018) Brazilian Journal of Botany https://doi.org/10.1007/s40415-018-0482-8

Invited review: Genomic selection for small ruminants in developed countries: how applicable for the rest of the world?. Mrode, R., Tarekegn, G.M., Mwacharo, J.M., Djikeng, A. (2018) Animal https://doi.org/10.1017/S1751731117003688

Mitochondrial phylogeography and population structure of the cattle tick Rhipicephalus appendiculatus in the African Great Lakes region. Amzati, G.S., Pelle, R., Muhigwa, J.B.B., Kanduma, E.G., Djikeng, A., Madder, M., Kirschvink, N., Marcotty, T. (2018) Parasites and Vectors https://doi.org/10.1186/s13071-018-2904-7

Metagenomic analysis of viruses associated with maize lethal necrosis in Kenya. Wamaitha, M.J., Nigam, D., Maina, S., Stomeo, F., Wangai, A., Njuguna, J.N., Holton, T.A., Wanjala, B.W., Wamalwa, M., Lucas, T., Djikeng, A., Garcia-Ruiz, H. (2018) Virology Journal https://doi.org/10.1186/s12985-018-0999-2

Variations in mitochondrial cytochrome b region among Ethiopian indigenous cattle populations assert Bos taurus maternal origin and historical dynamics. Tarekegn, G.M., Ji, X-Y., Bai, X., Liu, B., Zhang, W., Birungi, J., Djikeng, A., Tesfaye, K. (2018) Asian-Australasian Journal of Animal Sciences https://doi.org/10.5713/ajas.17.0596

Mitochondrial DNA variation reveals maternal origins and demographic dynamics of Ethiopian indigenous goats. Tarekegn, G.M., Tesfaye, K., Mwai, O., Djikeng, A., Dessie, T., Birungi, J., Osama, S., Zergaw, N., Alemu, A., Achieng, G., Tutah, J., Mutai, C., Njuguna, J., Mwacharo, J.M. (2018) Ecology and Evolution https://doi.org/10.1002/ece3.3710

Comparative ribosome profiling uncovers a dominant role for translational control in Toxoplasma gondii. Hassan, M., Vasquez, J., Guo-Liang, C., Meissner, M., Siegal, T.N. (2017) BMC Genetics https://doi.org/10.1186/s12864-017-4362-6

Viral metagenomics of aphids present in bean and maize plots on mixed-use farms in Kenya reveals the presence of three dicistroviruses including a novel Big Sioux River virus-like dicistrovirus. Wamonje, F., Michuki, G., Braidwood, L., Njuguna, J.N., Musembi Mutuku, J., Djikeng, A., Harvey, J., Carr, J. (2017) Virology Journal https://doi.org/10.1186/s12985-017-0854-x

Whole genome detection of signature of positive selection in African cattle reveals selection for thermotolerance. Taye, M., Lee, W., Caetano-Anolles, K., Dessie, T., Hanotte, O., Mwai, O., Kemp, S., Cho, S., Oh, S.J., Lee, H-K., Kim, H. (2017) Animal Science Journal https://doi.org/10.1111/asj.12851

Exploring evidence of positive selection signatures in cattle breeds selected for different traits. Taye, M., Lee, W., Jeon, S.M., Yoon, J., Dessie, T., Hanotte, O., Mwai, O., Kemp, S., Cho, S., Jong, S., Lee, H-K., Kim, H. (2017) Mammalian Genome https://doi.org/10.1007/s00335-017-9715-6

Cattle genome-wide analysis reveals genetic signatures in trypanotolerant N’Dama. Kim, S-J., Ka, S., Ha, J-W., Kim. J., Yoo, D., Kim, K., Lee, H-K., Lim, D., Cho, S., Hanotte, O., Mwai, O., Dessie, T., Kemp, S., Oh, S.J., Kim, H. (2017) BMC Genetics https://doi.org/10.1186/s12864-017-3742-2

Phenotypic and genetic parameters for selected production and reproduction traits of Mpwapwa cattle in low-input production systems. Chawala, A.R., Banos, G., Komwihangilo, D.M., Peters, A., Chagunda, M.G.G (2017) South African Journal of Animal Science https://doi.org/10.4314/sajas.v47i3.7

The genome landscape of indigenous African cattle. Kim. J., Hanotte, O., Mwai, O., Dessie, T., Salim, B., Boubacar, D., Morris, A., Kim, K., Woori, K., Sung, S., Minseok, S., Hyeonsoo, J., Taehyung, K., Mengistie, T., Ki-Duk, S., Dajeong, L., Cho, S., Hyon-Jeong, L., Yoon, D., Oh, S.J., Kemp, S., Lee, H-K., Kim, H. (2017) Genome Biology https://doi.org/10.1186/s13059-017-1153-y

Whole genome scan reveals the genetic signature of African Ankole cattle breed and potential for higher quality beef. Taye, M., Kim. J., Yoon, S.H., Lee, W., Hanotte, O., Dessie, T., Kemp, S., Mwai, O., Caetano-Anolles, K., Cho, S., Oh, S.J., Lee, H-K., Kim, H. (2017) BMC Genetics https://doi.org/10.1186/s12863-016-0467-1

Valuing the project: A knowledge-action response to network governance in collaborative research. Freeman, P.L., Millar, A.J. (2017) Public Money & Management https://doi.org/10.1080/09540962.2016.1241577

Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations Using Next-Generation Sequencing. Vasoya, D., Law, A., Degnan, K., Motta, P., Yu, M., Muwonge, A., Cook, E., Li, X., Bryson, K., MacCallam, A., Toye, P., Bronsvoort, M., Watson, M., Morrison, I., Connelley, T. (2016) Immunogenetics http://dx.doi.org/10.1007/s00251-016-0945-7

Cloning of the African indigenous cattle breed Kenyan Boran. Yu, M., Muteti, C., Ogugo, M., Ritchie, W.A., Raper, J., Kemp, S. (2016) Animal Genetics https://doi.org/10.1111/age.12441