Genome-wide structure and dynamics of Nubian goats from Northeast Africa
Corresponding Author
Author(s)
Citation
N. Khayatzadeh, Getinet Mekuriaw, Ahmed R. Elbeltagy, Adel Mahmoud Aboul Naga, Aynalem Haile, Barbara Rischkowsky, Joram Mwacharo. (31/8/2018). Genome-wide structure and dynamics of Nubian goats from Northeast Africa.
Abstract
The Nubian goat breed-group includes the Algerian Mzabite, Egyptian Zaraibi and Nubian goats found in Ethiopia, Sudan and Eritrea, and is one of the ancestral founders of the Anglo-Nubian. Whether the breed-group comprises one or separate genepools remains unknown as is their genetic contribution to the Anglo-Nubian dairy traits. We used Caprine 52K SNP Beadchip generated data to investigate the genome structure of Nubian goats from Egypt, Sudan and Ethiopia. Population structure analysis revealed two genetic groups (A and B) in Egypt. These were distinct from the Ethiopian and Sudanese Nubians, which occurred, in close proximity suggesting close genetic relationship. TreeMix analysis however, revealed one weak migration event involving Egyptian group-A with Sudanese Nubian suggesting possible historical connections. From hapFLK analysis, eight selection sweeps were revealed on chromosomes 6, 8, 9, 11, 13, 18, 23 and 25, respectively. The one on chromosome 6 was present in both Egyptian groups, while the ones on chromosomes 9 and 18, and 11 and 25 were specific to group-A and -B, respectively. The sweeps on chromosomes 8, 13 and 23 were common to Sudanese and Ethiopian Nubians. Functional annotation of the candidate regions in the Egyptian groups revealed several genes implicated in dairy traits (ABCG2), fat metabolism (PPARGC1A, ACMS3) and reproduction (BMPR1B; LCORL) as well as ARL6IP1 and TNRC6A in group-A with roles in thermo-tolerance during lactation and climatic stress tolerance, respectively. The ones in Sudanese and Ethiopian Nubian were associated with adaptation and immune traits (RAP1, BPIFA/B gene family, HS3ST2, CDR2). Our findings suggest that the three genepools present in Northeast African Nubians, as a repository of diverse genes, are an integral component of agro-biodiversity that may be required at present, and in future, to respond to different production and climate change scenarios.
Author(s) ORCID(s)
Haile, Aynalemhttps://orcid.org/0000-0001-5914-0487
Rischkowsky, Barbarahttps://orcid.org/0000-0002-0035-471X
Mwacharo, Joramhttps://orcid.org/0000-0001-6981-8140
Subject(s)
AGROVOC Keywords
Click to enable
Related items
Showing items related by title, author, creator and subject.
-
Title: The database of the PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) project
Author(s)Hudson, Lawrence N.; Newbold, Tim; Contu, Sara; Hill, Samantha; Lysenko, Igor; De Palma, Adriana; Phillips, Helen; Alhusseini, Tamera; Bedford, Felicity; Bennett, Dominic; Booth, Hollie; Burton, Victoria; Chng, Charlotte; Choimes, Argyrios; Correia, David L. P.; Day, Julie; Echeverria-Londono, Susy; Emerson, Susan; Gao, Di; Garon, Morgan; Harrison, Michelle; Ingram, Daniel; Jung, Martin; Kemp, Victoria; Kirkpatrick, Lucinda; Martin, Callum D.; Pan, Yuan; Pask-Hale, Gwilym; Pynegar, Edwin; Robinson, Alexandra; Sanchez-Ortiz, Katia; Senior, Rebecca; Simmons, Benno; White, Hannah; Zhang, Hanbin; Aben, Job; Abrahamczyk, Stefan; Adum, Gilbert; Aguilar-Barquero, Virginia; Aizen, Marcelo; Albertos, Belén; Alcala, E.; del Mar Alguacil, Maria; Alignier, Audrey; Ancrenaz, Marc; Andersen, Alan; Arbeláez-Cortés, Enrique; Armbrecht, Inge; Arroyo-Rodríguez, Víctor; Aumann, Tom; Axmacher, Jan; Azhar, Badrul; Azpiroz, Adrián; Baeten, Lander; Bakayoko, Adama; Báldi, András; Banks, John; Baral, Sharad; Barlow, Jos; Barratt, Barbara; Barrico, Lurdes; Bartolommei, Paola; Barton, Diane; Basset, Yves; Batáry, Peter; Bates, Adam; Louhaichi, Mounir; Katovai, Eric; Kellner, Klaus; Kessler, Michael; R Kirby, Kathryn; E Knight, Mairi; Knop, Eva; Koivula, Matti; Kolb, Annette; Kone, Mouhamadou; Korosi, adam; Krauss, Jochen; J. Fonte, Steven; Fournier, Anne; E Fowler, Robert; Franzen, Markus; H Fraser, Lauchlan; M. Fredriksson, Gabriella; B Freire Jr, Geraldo; L. M. Frizzo, Tiago; Furlani, Dario; Gaigher, Rene; U Ganzhorn, Jorg; P. Garcia, Karla; C. Garcia R, Juan; G. Garden, Jenni; Garilleti, Ricardo; Ge, Bao-Ming; Gendreau-Berthiaume, Benoit; J. Gerard, Philippa J. Gerard; Gheler-Costa, Carla; Gilbert, Benjamin; Giordani, Paolo; Giordano, Simonetta; Golodets, Carly; G. L. Gomes, Laurens; K. Gould, Rachelle; Goulson, Dave; Granjon, Laurent; Grass, Ingo; L. Gray, Claudia; Grogan, James; Guardiola, Moises; R Gunawardene, Nihara; G Gutierrez, Alvaro; L Gutierrez Lamus, Doris; H Haarmeyer, Daniela; E Hanley, Mick; R Hashim, Nor; N. Hassan, Shombe; G. Hatfield, Richard; E. Hawes, Joseph; W Hayward, MattDate: 2017-12-31Type: Journal ArticleStatus: Open accessThe PREDICTS project—Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (www.predicts.org.uk)—has collated from published studies a large, reasonably representative database of comparable samples ... -
Title: Peer-Reviewed Literature on Grain Legume Species in the WoS (1980–2018): A Comparative Analysis of Soybean and Pulses
Author(s)Magrini, Marie-Benoit; Cabanac, Guillaume; Lascialfari, Matteo; Plumecocq, Gaël; Amiot, Marie Josephe; Anton, Marc; Arvisenet, Gaëlle; Baranger, Alain; Bedoussac, Laurent; Chardigny, Jean-Michel; Duc, Gérard; Jeuffroy, Marie-Hélène; Journet, Etienne-Pascal; Juin, Hervé; Larre, Colette; Leiser, Hugues; Micard, Valérie; Millot, Dominique; Pilet-Nayel, Marie-Laure; Nguyen-Thé, Christophe; Salord, Tristan; Voisin, Anne-Sophie; Walrand, Stephane; Wery, JacquesDate: 2019-12-02Type: Journal ArticleStatus: Open accessGrain-legume crops are important for ensuring the sustainability of agrofood systems. Among them, pulse production is subject to strong lock-in compared to soya, the leading worldwide crop. To unlock the situation and ... -
Title: A Decade of Research Progress in Chickpea and Lentil Breeding and Genetics
Author(s)Fikre, Asnake; Korbu, Lijalem; Eshete, Million; Bekele, Dagnachew; Girma, Niguse; Mohamed, Redwan; Assefe, Syum; Bogale, Daniel Admasu; Tilahun, Getachew; Tesfaye, Tewdros; Kefelegn, Niguse; Tadesse, Tadele; Rezene, Yiheys; Moges, Yonas; Agrawal, Shiv Kumar; Bishaw, Zewdie; Gaur, Pooran; Varshney, Rajeev; Kemal, Seid AhmedDate: 2018-12-01Type: Journal ArticleStatus: Limited accessThis paper summarizes achievements of chickpea and lentil breeding during the last decade /2005-2015/ in Ethiopia. Gentic yield gains from decadal breeding efforts were 80 kg/ha/year for chickpea and 52 kg/ha/yr for lentil. ...