Genetic linkage map construction for kenaf using SRAP, ISSR and RAPD markers

Abstract

Kenaf (Hibiscus cannabinus L.) is one of the most economically important crops for fibre production. Genetic maps have been developed in almost all the agricultural crops. However, genetic information for kenaf, especially, at the molecular level is limited. To better understand the genetic basis of kenaf for the improvement of production and to lay the foundation for molecular breeding efforts, a primary genetic linkage map was constructed using sequence-related amplified polymorphism (SRAP), inter-simple sequence repeat (ISSR) and randomly amplified polymorphic DNA (RAPD). Cultivar ÔAlian kenafÕ and ÔFuhong 992Õ were used as parents to construct an F 2 population consisting of 180 plants. We selected 494 SRAP, 60 ISSR, 120 RAPD and 300 two-primer RAPD mixture primers that amplified 396 polymorphic loci in total. At a logarithm of the odds (LOD) score threshold of 5.0 and at a maximum map distance of 25 cM, these 396 loci were used to construct the genetic linkage map with MAP-MAKER/EXP 3.0, a total of 307 loci were grouped into 26 linkage groups that spanned a total map length of around 4924.8 cM with a mean density of 16.04 cM per locus. These markers were distributed randomly in all linkage groups without any clustering. The construction of the kenaf genetic linkage map will be useful for further genetic studies including mapping both qualitative and quantitative traits, marker-assisted selection program, and comparative genomics analysis.

Morphological characteristics, chemical and genetic diversity of kenaf (Hibiscus cannabinusL.) genotypes

“…In this study, high levels of genetic diversity were found for the various kenaf genotypes. PIC and GD detected in this study for kenaf are higher than those previously observed using other marker (SRAP, ISSR, RAPD and AFLP) systems (Cheng et al 2004;Chen et al 2011;Zhang et al 2013). In additions, these results are higher than the findings of Li et al (2016) in 28 kenaf cultivars using 72 EST-SSR markers.…”

Genetic linkage map construction for white jute (Corchorus capsularis L.) using SRAP, ISSR and RAPD markers

“…The PCR analysis was similar to the analysis of Chen et al. (). All amplified products were segregated on 6% polyacrylamide gels, and after electrophoresis, the gel was stained with AgNO 3 solution.…”

“…To add a large number of DNA markers and thus saturate our map, we utilized combinations of primers rather than a single primer in RAPD reactions, as reported by Chen et al. (). Although we attempted to add the molecular markers, the absence of a large amount of molecular markers made the reduction in the jute LG number impossible at present.…”

“…In total, 494 different SRAP primer combinations were designed by Li and Quiros () and Chen et al. () (Table S1 and S2). Overall, 90 ISSR primers were obtained from the Biotechnology Laboratory at the University of British Columbia (UBC, Vancouver, BC, Canada) (Table S3).…”

“…The DNA amplification was performed as described by Chen et al. (). To identify the possibility of RAPD‐PCR with two 10‐bp primers, 300 two‐primer RAPDs were applied to the analysis.…”