气候变化领域集成服务门户(CCPortal): Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species

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DOI	10.1186/s12864-023-09907-z
	Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species
	Ousmael, Kedra M.; Cappa, Eduardo P.; Hansen, Jon K.; Hendre, Prasad; Hansen, Ole K.
发表日期	2024
ISSN	1471-2164
起始页码	25
结束页码	1
卷号	25 期号:1
英文摘要	BackgroundPlanting tested forest reproductive material is crucial to ensure the increased resilience of intensively managed productive stands for timber and wood product markets under climate change scenarios. Single-step Genomic Best Linear Unbiased Prediction (ssGBLUP) analysis is a cost-effective option for using genomic tools to enhance the accuracy of predicted breeding values and genetic parameter estimation in forest tree species. Here, we tested the efficiency of ssGBLUP in a tropical multipurpose tree species, Cordia africana, by partial population genotyping. A total of 8070 trees from three breeding seedling orchards (BSOs) were phenotyped for height. We genotyped 6.1% of the phenotyped individuals with 4373 single nucleotide polymorphisms. The results of ssGBLUP were compared with pedigree-based best linear unbiased prediction (ABLUP) and genomic best linear unbiased prediction (GBLUP), based on genetic parameters, theoretical accuracy of breeding values, selection candidate ranking, genetic gain, and predictive accuracy and prediction bias.ResultsGenotyping a subset of the study population provided insights into the level of relatedness in BSOs, allowing better genetic management. Due to the inbreeding detected within the genotyped provenances, we estimated genetic parameters both with and without accounting for inbreeding. The ssGBLUP model showed improved performance in terms of additive genetic variance and theoretical breeding value accuracy. Similarly, ssGBLUP showed improved predictive accuracy and lower bias than the pedigree-based relationship matrix (ABLUP).ConclusionsThis study of C. africana, a species in decline due to deforestation and selective logging, revealed inbreeding depression. The provenance exhibiting the highest level of inbreeding had the poorest overall performance. The use of different relationship matrices and accounting for inbreeding did not substantially affect the ranking of candidate individuals. This is the first study of this approach in a tropical multipurpose tree species, and the analysed BSOs represent the primary effort to breed C. africana.
英文关键词	Single-step GBLUP; Quantitative genetic parameters; Cordia africana; Tropical tree breeding; Genetic management
语种	英语
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS类目	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS记录号	WOS:001135505200010
来源期刊	BMC GENOMICS
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/303297
作者单位	University of Copenhagen; Instituto Nacional de Tecnologia Agropecuaria (INTA); Consejo Nacional de Investigaciones Cientificas y Tecnicas (CONICET); CGIAR; World Agroforestry (ICRAF)
推荐引用方式 GB/T 7714	Ousmael, Kedra M.,Cappa, Eduardo P.,Hansen, Jon K.,et al. Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species[J],2024,25(1).
APA	Ousmael, Kedra M.,Cappa, Eduardo P.,Hansen, Jon K.,Hendre, Prasad,&Hansen, Ole K..(2024).Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species.BMC GENOMICS,25(1).
MLA	Ousmael, Kedra M.,et al."Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species".BMC GENOMICS 25.1(2024).