Genome-wide association analysis of fiber fineness and yield in ramie (Boehmeria nivea) using SLAF-seq

Ramie (Boehmeria nivea L. Gaudich) is a major natural fiber crop cultivated in East Asia. The improvement of its yield and fineness are important breeding goals. Fiber complex quantitative trait comprising ramet number, stem diameter, plant height, skin thickness, percentage. crucial for ramie quality. However, there few association studies traits on ramie, lack high-density SNP maps population. Here, panel 112 core germplasms were genotyped by 215,376 consistent single-nucleotide polymorphisms (SNPs) from specific-locus amplified-fragment sequencing (SLAF-seq), used genome-wide study yield. Subsequently, the genetic diversity, linkage disequilibrium (LD), population structure was conducted based SNPs. Population cluster analysis disclosed five subpopulations. Neighbor-joining (NJ) revealed three clusters. No obvious relationships identified between them their geographic origins. LD decayed to r2 = 0.1 ~ 11.75 kbp physical distance. One, seven, one, twenty-seven significant marker associations detected (third season), diameter thickness percentage (second respectively. Two promising candidate genes, whole_GLEAN_10029622 whole_GLEAN_10029638 resided trait-SNP which annotated as cotton fiber-expressed protein an Arabidopsis thaliana homebox ATH1, respectively validated qPCR. loci or genes may provide basis future research marker-assisted selection ramie.