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GWAS determined genetic loci associated with callus induction in oil palm tissue culture

文献类型： 外文期刊

作者： Htwe, Yin Min 1 ; Shi, Peng 1 ; Zhang, Dapeng 1 ; Li, Zhiying 1 ; Yu, Qun 1 ; Wang, Yong 1 ;

作者机构： 1.Chinese Acad Trop Agr Sci, Coconut Res Inst, Natl Key Lab Trop Crop Breeding, Wenchang 571339, Hainan, Peoples R China

2.Chinese Acad Trop Agr Sci, Sanya Res Inst, Hainan Yazhou Bay Seed Lab, Sanya, Peoples R China

关键词： Allele; SNPs; Callus induction; Marker-assisted selection; Tissue culture

期刊名称：PLANT CELL REPORTS （ 影响因子：6.2； 五年影响因子：5.9 ）

ISSN： 0721-7714

年卷期： 2024 年 43 卷 5 期

页码：

收录情况： SCI

摘要： Key messageGWAS identified six loci at 25 kb downstream of WAK2, a crucial gene for cell wall and callus formation, enabling development of a SNP marker for enhanced callus induction potential.AbstractEfficient callus induction is vital for successful oil palm tissue culture, yet identifying genomic loci and markers for early detection of genotypes with high potential of callus induction remains unclear. In this study, immature male inflorescences from 198 oil palm accessions (dura, tenera and pisifera) were used as explants for tissue culture. Callus induction rates were collected at one-, two- and three-months after inoculation (C1, C2 and C3) as phenotypes. Resequencing generated 11,475,258 high quality single nucleotide polymorphisms (SNPs) as genotypes. GWAS was then performed, and correlation analysis revealed a positive association of C1 with both C2 (R = 0.81) and C3 (R = 0.50), indicating that C1 could be used as the major phenotype for callus induction rate. Therefore, only significant SNPs (P <= 0.05) in C1 were identified to develop markers for screening individuals with high potential of callus induction. Among 21 significant SNPs in C1, LD block analysis revealed six SNPs on chromosome 12 (Chr12) potentially linked to callus formation. Subsequently, 13 SNP markers were identified from these loci and electrophoresis results showed that marker C-12 at locus Chr12_12704856 can be used effectively to distinguish the GG allele, which showed the highest probability (69%) of callus induction. Furthermore, a rapid SNP variant detection method without electrophoresis was established via qPCR-based melting curve analysis. Our findings facilitated marker-assisted selection for specific palms with high potential of callus induction using immature male inflorescence as explant, aiding ortet palm selection in oil palm tissue culture.

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