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. 2019 Jun 17;20(1):499.
doi: 10.1186/s12864-019-5897-5.

Whole-genome mapping identified novel "QTL hotspots regions" for seed storability in soybean (Glycine max L.)

Xi Zhang  1 , Aiman Hina  1 , Shiyu Song  1 , Jiejie Kong  1 , Javaid Akhter Bhat  2 , Tuanjie Zhao  3
Affiliations

Whole-genome mapping identified novel "QTL hotspots regions" for seed storability in soybean (Glycine max L.)

Xi Zhang et al. BMC Genomics. .

Abstract

Background: Seed aging in soybean is a serious challenge for agronomic production and germplasm preservation. However, its genetic basis remains largely unclear in soybean. Unraveling the genetic mechanism involved in seed aging, and enhancing seed storability is an imperative goal for soybean breeding. The aim of this study is to identify quantitative trait loci (QTLs) using high-density genetic linkage maps of soybean for seed storability. In this regard, two recombinant inbred line (RIL) populations derived from Zhengyanghuangdou × Meng 8206 (ZM6) and Linhefenqingdou × Meng 8206 (LM6) crosses were evaluated for three seed-germination related traits viz., germination rate (GR), normal seedling length (SL) and normal seedling fresh weight (FW) under natural and artificial aging conditions to map QTLs for seed storability.

Results: A total of 34 QTLs, including 13 QTLs for GR, 11 QTLs for SL and 10 QTLs for FW, were identified on 11 chromosomes with the phenotypic variation ranged from 7.30 to 23.16% under both aging conditions. All these QTLs were novel, and 21 of these QTLs were clustered in five QTL-rich regions on four different chromosomes viz., Chr3, Chr5, Chr17 &Chr18, among them the highest concentration of seven and six QTLs were found in "QTL hotspot A" (Chr17) and "QTL hotspot B" (Chr5), respectively. Furthermore, QTLs within all the five QTL clusters are linked to at least two studied traits, which is also supported by highly significant correlation between the three germination-related traits. QTLs for seed-germination related traits in "QTL hotspot B" were found in both RIL populations and aging conditions, and also QTLs underlying "QTL hotspot A" are identified in both RIL populations under artificial aging condition. These are the stable genomic regions governing the inheritance of seed storability in soybean, and will be the main focus for soybean breeders.

Conclusion: This study uncovers the genetic basis of seed storability in soybean. The newly identified QTLs provides valuable information, and will be main targets for fine mapping, candidate gene identification and marker-assisted breeding. Hence, the present study is the first report for the comprehensive and detailed investigation of genetic architecture of seed storability in soybean.

Keywords: High-density linkage map; QTL; Seed aging; Seed storability; Soybean.

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Conflict of interest statement

The authors declared that they have no competing interests.

Figures

Fig. 1
Fig. 1
Diagram showing the performance of three parents viz., Meng8206, Zhengyanghuangdou and Linhefenqingdou of RIL populations for three traits such as germination rate (GR), normal seedling rate (NSR) and normal seedling fresh weight (FW) that are used to evaluate seed storability of soybean under artificial aging treatment. (A) Germination rate/GR; (B) Normal seedling rate/NSR; (C) Normal seedling fresh weight
Fig. 2
Fig. 2
Diagram showing the location of five QTL clusters/hot regions (cluster-03, cluster-05, cluster-17.1, cluster-17.2 and cluster-18) on four different chromosomes viz., Chr3, Chr5, Chr17 and Chr18 identified in LM6 and ZM6 RIL populations under natural and artificial aging conditions
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