Association mapping of plant sex and cross-compatibility related traits in white Guinea yam (Dioscorea rotundata Poir.) clones

White Guinea yam (Dioscorea rotundata) is primarily a dioecious species with distinct male and female plants. Its breeding is constrained by sexual reproduction abnormalities, resulting in low success rates in cross-pollination. An accurate method for early detection of this plant's sex and com...

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Published in:BMC plant biology 2022-06, Vol.22 (1), p.294-294, Article 294
Main Authors: Asfaw, Asrat, Mondo, Jean M, Agre, Paterne A, Asiedu, Robert, Akoroda, Malachy O
Format: Article
Language:English
Subjects:
Abnormalities
Breeding
Candidate genes
Chromosomes
Cloning
Compatibility
Cross-pollination
Cross-pollination success
D. rotundata
Dioscorea rotundata
Domestication
Females
Flowers & plants
Gene mapping
Genes
Genetic aspects
Genetic research
Genome-wide association studies
Genomes
Genotype
Growth stage
Hormones
Identification and classification
Males
Markers
Methods
Nucleotides
Phylogenetics
Phylogeny
Plant breeding
Plant reproduction
Pollination
Polymorphism
Population
Population structure
Reproduction (biology)
Seedlings
Sex determination
Sex hormones
Sexual reproduction
Single-nucleotide polymorphism
Subpopulations
Success
Yams
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description White Guinea yam (Dioscorea rotundata) is primarily a dioecious species with distinct male and female plants. Its breeding is constrained by sexual reproduction abnormalities, resulting in low success rates in cross-pollination. An accurate method for early detection of this plant's sex and compatible fertile parents at the seedling stage would improve levels of cross-pollination success in breeding. We used the genome-wide association studies (GWAS) to dissect the molecular basis of plant sex and cross-compatibility-related traits in a panel of 112 parental clones used in D. rotundata crossing blocks from 2010 to 2020. Population structure and phylogeny analyses using 8326 single nucleotide polymorphism (SNP) markers grouped the 112 white yam clones into three subpopulations. Using Multi-locus random-SNP-effect Mixed Linear Model, we identified three, one, and three SNP markers that were significantly associated with the average crossability rate (ACR), the percentage of high crossability (PHC), and the plant sex, respectively. In addition, five genes considered to be directly linked to sexual reproduction or regulating the balance of sex hormones were annotated from chromosomal regions controlling the assessed traits. This study confirmed the female heterogametic sex determination (ZZ/ZW) system proposed for D. rotundata. This study provides valuable insights on the genomic control of sex identity and cross-pollination success in D. rotundata. It, therefore, opens an avenue for developing molecular markers for predicting plant sex and cross-pollination success at the early growth stage before field sex expression in this crop.
doi_str_mv 10.1186/s12870-022-03673-y
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subjects Abnormalities
Breeding
Candidate genes
Chromosomes
Cloning
Compatibility
Cross-pollination
Cross-pollination success
D. rotundata
Dioscorea rotundata
Domestication
Females
Flowers & plants
Gene mapping
Genes
Genetic aspects
Genetic research
Genome-wide association studies
Genomes
Genotype
Growth stage
Hormones
Identification and classification
Males
Markers
Methods
Nucleotides
Phylogenetics
Phylogeny
Plant breeding
Plant reproduction
Pollination
Polymorphism
Population
Population structure
Reproduction (biology)
Seedlings
Sex determination
Sex hormones
Sexual reproduction
Single-nucleotide polymorphism
Subpopulations
Success
Yams
title Association mapping of plant sex and cross-compatibility related traits in white Guinea yam (Dioscorea rotundata Poir.) clones
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