Construction of a High-Density Genetic Linkage Map and QTL Analysis of Fiber Yield Traits in Kenaf (Hibiscus Cannabinus L.) via SLAF-seq

ABSTRACT

High-density genetic maps are vital for quantitative trait loci (QTL) mapping, genome assembly, and marker-assisted selection (MAS) in plants. Meanwhile, kenaf (Hibiscus cannabinus L.) is an important crop that produces raw fiber to many industries. However, both high-density genetic map construction and QTL identification have been limited in this crop due to insufficient molecular markers. Here, we constructed a high-density genetic linkage map in kenaf via specific-locus amplified fragment sequencing (SLAF-seq). An F_7:8 mapping population of 138 recombinant inbred lines was developed by crossing between Alian and Fuhong 992. In total, 220,484 high-quality SLAFs were detected, among which 52,832 were polymorphic; 4,167 polymorphic markers were then utilized to construct a genetic map. The assembled genetic map contained 18 linkage groups, spanning 1,952.68 cM with a mean distance of 0.47 cM among the adjacent markers. Phenotypic data from 10 fiber yield-related traits were used for QTL analysis, and a total of 85 QTLs were detected for 10 traits. We were able to construct the densest linkage map yet reported in kenaf and our findings will aid in further QTL mapping, genome comparisons, and MAS breeding in kenaf.

摘要

高密度遗传图谱对于植物数量性状位点 (QTL) 定位, 基因组组装和标记辅助选择 (MAS) 至关重要. 同时, 红麻 (Hibiscus cannabinus L.) 是为许多行业提供纤维来源的重要作物. 然而, 由于缺乏足够的分子标记, 该作物的高密度遗传图谱构建和QTL鉴定受到限制. . 本研究利用阿联红麻与福红992杂交, 包含138个重组自交系的F7:8定位群体, 通过特定位点扩增片段测序 (SLAF-seq) 构建了红麻的高密度遗传连锁图. 共检测到220484个高质量SLAFs, 其中52832个具有多态性; 然后利用4167个多态性标记构建遗传图谱. 组装的遗传图谱包含18个连锁群, 总图距为1952.68厘摩, 相邻标记之间的平均距离为0.47厘摩. 结合10个纤维产量相关性状的表型数据进行QTL分析, 共检测到这10个性状的85个QTL. 我们构建了迄今为止红麻中报道的密度最高的连锁图谱, 将有助于进一步的QTL定位, 基因组比较和红麻MAS育种.

KEYWORDS:

• Kenaf
• genetic linkage map
• specific-locus amplified sequencing
• fiber
• yield
• quantitative trait loci

关键词:

• 红麻
• 遗传连锁图谱
• 特异位点扩增测序
• 纤维
• 产量
• 数量性状位点

Highlights

1. This is the first time that SLAF-seq has been applied to the construction of genetic map in kenaf.

2. To our knowledge, the linkage map constructed here is the densest one available to date for kenaf.

3. We detected 85 QTLs in 10 important agronomic traits, which is the largest QTL study in kenaf so far.

Disclosure statement

No potential conflict of interest was reported by the author(s).

Consent to participate

All authors read and approved the final manuscript.

Consent to publication

All authors approved publish manuscript.

Author’s contribution

LZ has designed and supervised experiments. MC and SC helped to prepare the reagents and materials. MC and YX carried out the data analysis and wrote the paper. CZ, HS, TL and JX participated in the editing and revision of the manuscript. JQ and LZ contributed to germplasm and techniques. All authors read and approved the final manuscript.

Supplementary material

Supplemental data for this article can be accessed online at https://doi.org/10.1080/15440478.2022.2103059

Additional information

Funding

This work was supported by the National Natural Science Foundation of China [Grant No. 31501347, 31972968], the Fujian Natural Science Foundation of China [Grant No. 2017J01454], and by the Ningde Normal University [Project No. 2019ZDK04, 2020FZ04].