干旱区生态环境知识资源中心(Arid): Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment

Arid

DOI	10.3390/ani10112181
	Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment
	Chebii, Vivien J.; Oyola, Samuel O.; Kotze, Antoinette; Domelevo Entfellner, Jean-Baka; Musembi Mutuku, J.; Agaba, Morris
通讯作者	Chebii, VJ
来源期刊	ANIMALS
ISSN	2076-2615
出版年	2020
卷号	10 期号:11
英文摘要	Simple Summary The Nubian ibex is a wild relative of the domestic goat found in hot deserts of Northern Africa and Arabia. The domestic goat is an important livestock species that is mainly found in arid and semi-arid regions of Africa and Asia. The Nubian ibex is well adapted to challenging environments in hot deserts characterized by high diurnal temperatures, intense solar radiation, and scarce water resources. It is therefore important to understand the genetic basis of its adaptation for scientific and economic importance. To identify genes with adaptive traits, the Nubian ibex genome was sequenced and compared with that of related mammals. We identified twenty-five genes under selection in the Nubian ibex that play diverse biological roles such as immune response, visual development, signal transduction, and reproduction. Three other genes under adaptive evolution involved in protective functions of the skin against damaging solar radiation in the desert were identified in Nubian ibex genome. Our finding provides valuable genomic insights into the adaptation of Nubian ibex to desert environments. The genomic information generated in this study can be used in developing appropriate breeding programs aimed at enhancing adaptation of local goats to less favorable habitats in response to changing climates. The domestic goat (Capra hircus) is an important livestock species with a geographic range spanning all continents, including arid and semi-arid regions of Africa and Asia. The Nubian ibex (Capra nubiana), a wild relative of the domestic goat inhabiting the hot deserts of Northern Africa and the Arabian Peninsula, is well-adapted to challenging environments in hot deserts characterized by intense solar radiation, thermal extremes, and scarce water resources. The economic importance of C. hircus breeds, as well as the current trends of global warming, highlights the need to understand the genetic basis of adaptation of C. nubiana to the desert environments. In this study, the genome of a C. nubiana individual was sequenced at an average of 37x coverage. Positively selected genes were identified by comparing protein-coding DNA sequences of C. nubiana and related species using dN/dS statistics. A total of twenty-two positively selected genes involved in diverse biological functions such as immune response, protein ubiquitination, olfactory transduction, and visual development were identified. In total, three of the twenty-two positively selected genes are involved in skin barrier development and function (ATP binding cassette subfamily A member 12, Achaete-scute family bHLH transcription factor 4, and UV stimulated scaffold protein A), suggesting that C. nubiana has evolved skin protection strategies against the damaging solar radiations that prevail in deserts. The positive selection signatures identified here provide new insights into the potential adaptive mechanisms to hot deserts in C. nubiana.
英文关键词	Capra nubiana genome positive selection desert adaptation dN dS analysis solar radiation
类型	Article
语种	英语
开放获取类型	Green Published, gold
收录类别	SCI-E
WOS记录号	WOS:000593641300001
WOS关键词	AMINO-ACID SITES ; CODON-SUBSTITUTION MODELS ; ADAPTIVE EVOLUTION ; CODING DNA ; ALIGNMENT ; MUTATIONS ; ABCA12 ; SKIN ; PHYLOGENIES ; UNDERLIE
WOS类目	Agriculture, Dairy & Animal Science ; Veterinary Sciences
WOS研究方向	Agriculture ; Veterinary Sciences
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/327716
作者单位	[Chebii, Vivien J.; Agaba, Morris] Nelson Mandela Africa Inst Sci & Technol, Sch Life Sci & Bioengn, POB 447, Arusha 23306, Tanzania; [Chebii, Vivien J.; Domelevo Entfellner, Jean-Baka; Musembi Mutuku, J.; Agaba, Morris] Biosci Eastern & Cent Africa Int Livestock Res In, POB 30709, Nairobi 00100, Kenya; [Oyola, Samuel O.] Int Livestock Res Inst ILRI, POB 30709, Nairobi 00100, Kenya; [Kotze, Antoinette] South African Natl Biodivers Inst, POB 754, ZA-0001 Pretoria, South Africa; [Kotze, Antoinette] Univ Free State, Dept Genet, POB 339, ZA-9300 Bloemfontein, South Africa; [Musembi Mutuku, J.] Univ Felix Houphouet Boigny, Cent & West African Virus Epidemiol WAVE, Pole Sci & Innovat Bingerville, 01 BP V34, Abidjan, Cote Ivoire
推荐引用方式 GB/T 7714	Chebii, Vivien J.,Oyola, Samuel O.,Kotze, Antoinette,et al. Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment[J],2020,10(11).
APA	Chebii, Vivien J.,Oyola, Samuel O.,Kotze, Antoinette,Domelevo Entfellner, Jean-Baka,Musembi Mutuku, J.,&Agaba, Morris.(2020).Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment.ANIMALS,10(11).
MLA	Chebii, Vivien J.,et al."Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment".ANIMALS 10.11(2020).