Evaluation of newly developed SSR markers and identification of quantitative trait loci for bast fibre cellulose in white jute (Corchorus capsularis)

Abstract

Cellulose is one of the main chemical component of bast fibre in jute. However, quantitative trait loci (QTL) for bast fibre cellulose content remains elusive. In this study, we identified 846 new SSR markers from 70,792 unigenes in the NCBI and validated them in a panel of 24 diverse jute accessions. Of 846 SSRs, 748 (88.41%) were successfully amplified, and 585 (69.14%) showed polymorphisms, implying that these are high‐quality SSRs. Furthermore, 585 SSRs along with 5,074 polymorphic SLAF (specific locus amplified fragment) and 173 InDel markers were used to reconstruct a high‐dense linkage map in a recombinant inbred population with 104 F8 lines. Totally, 835 markers were successfully mapped to a whole length of 604.5 cM with a mean distance of 2.84 cM between adjacent markers. Furthermore, five QTLs for bast fibre cellulose were identified. One major QTL (qBFC1‐1) was stable in 2 years and explained average phenotypic variance with 14.34%. These results may be useful for developing enhanced bast fibre quality in white jute through marker‐assisted selection (MAS) breeding.

Cloning and functional mechanism of the dwarf gene gba affecting stem elongation and cellulose biosynthesis in jute (Corchorus olitorius)

“…Traditional genetic maps are generally constructed from traditional molecular markers, such as SRAP, SSR, ISSR, etc. (Chen, Zhang, et al., 2014; Das, Banerjee, Dhariwal, et al., 2012; Das, Banerjee, Topdar, et al., 2012; Haque et al., 2008; Niyitanga et al., 2019; Tao et al., 2017; Topdar et al., 2013). Resequencing is the technical basis for constructing high‐density genetic maps after the releasing of the reference genome.…”

Genome‐wide association study for lignocellulosic compounds and fermentable sugar in rice straw

“…Rice straw GWAS have so far focused on biomass digestibility (Norton et al., 2018), lignin, and saccharification (Nguyen et al., 2020), whereas no such report has been presented for cellulose content. A small number of studies from other plants have shown that genes other than members of the CesA family and quantitative trait loci (QTLs) are involved in cellulose content (Houston et al., 2015; Kaur et al., 2017; K. Li et al., 2016; Miao et al., 2019; Niyitanga et al., 2019; Shiringani & Friedt, 2011; Thumma et al., 2010; Xu et al., 2017). For example, a barley ( Hordeum vulgare L.) GWAS identified members of the glycosyltransferase (GTs) and glycosyl hydrolase (GHs) families as candidate genes associated with cellulose content (Houston et al., 2015).…”