scholarly journals Construction of ddRADseq-Based High-Density Genetic Map and Identification of Quantitative Trait Loci for Trans-resveratrol Content in Peanut Seeds

2021 ◽  
Vol 12 ◽  
Author(s):  
Huaiyong Luo ◽  
Jianbin Guo ◽  
Bolun Yu ◽  
Weigang Chen ◽  
Huan Zhang ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Genetic Map ◽  
Quantitative Trait ◽  
High Performance ◽  
Interval Mapping ◽  
Hplc Method ◽  
High Density ◽  
Nucleotide Polymorphisms ◽  
Ril Population ◽  
Trait Loci

Resveratrol (trans-3,4′,5-trihydroxystilbene) is a natural stilbene phytoalexin which is also found to be good for human health. Cultivated peanut (Arachis hypogaea L.), a worldwide important legume crop, is one of the few sources of human's dietary intake of resveratrol. Although the variations of resveratrol contents among peanut varieties were observed, the variations across environments and its underlying genetic basis were poorly investigated. In this study, the resveratrol content in seeds of a recombination inbred line (RIL) population (Zhonghua 6 × Xuhua 13, 186 progenies) were quantified by high performance liquid chromatography (HPLC) method across four environments. Genotypes, environments and genotype × environment interactions significantly influenced the resveratrol contents in the RIL population. A total of 8,114 high-quality single nucleotide polymorphisms (SNPs) were identified based on double-digest restriction-site-associated DNA sequencing (ddRADseq) reads. These SNPs were clustered into bins using a reference-based method, which facilitated the construction of high-density genetic map (2,183 loci with a total length of 2,063.55 cM) and the discovery of several chromosome translocations. Through composite interval mapping (CIM), nine additive quantitative trait loci (QTL) for resveratrol contents were identified on chromosomes A01, A07, A08, B04, B05, B06, B07, and B10 with 5.07–8.19% phenotypic variations explained (PVE). Putative genes within their confidential intervals might play roles in diverse primary and secondary metabolic processes. These results laid a foundation for the further genetic dissection of resveratrol content as well as the breeding and production of high-resveratrol peanuts.

Quantitative trait loci mapping of yield and related traits using a high-density genetic map of maize

2016 ◽  
Vol 36 (9) ◽  
Author(s):  
Lin Chen ◽  
Chunhui Li ◽  
Yongxiang Li ◽  
Yanchun Song ◽  
Dengfeng Zhang ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Genetic Map ◽  
Quantitative Trait ◽  
High Density ◽  
Quantitative Trait Loci Mapping ◽  
Trait Loci

scholarly journals Genetic Analysis of Recombinant Inbred Lines for Sorghum bicolor × Sorghum propinquum

2013 ◽  
Vol 3 (1) ◽  
pp. 101-108 ◽  
Author(s):  
Wenqian Kong ◽  
Huizhe Jin ◽  
Cleve D Franks ◽  
Changsoo Kim ◽  
Rajib Bandopadhyay ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Sorghum Bicolor ◽  
Genetic Map ◽  
Quantitative Trait ◽  
Recombinant Inbred ◽  
Growth And Development ◽  
Recombinant Inbred Lines ◽  
Sorghum Propinquum ◽  
Ril Population ◽  
Trait Loci

Abstract We describe a recombinant inbred line (RIL) population of 161 F5 genotypes for the widest euploid cross that can be made to cultivated sorghum (Sorghum bicolor) using conventional techniques, S. bicolor × Sorghum propinquum, that segregates for many traits related to plant architecture, growth and development, reproduction, and life history. The genetic map of the S. bicolor × S. propinquum RILs contains 141 loci on 10 linkage groups collectively spanning 773.1 cM. Although the genetic map has DNA marker density well-suited to quantitative trait loci mapping and samples most of the genome, our previous observations that sorghum pericentromeric heterochromatin is recalcitrant to recombination is highlighted by the finding that the vast majority of recombination in sorghum is concentrated in small regions of euchromatin that are distal to most chromosomes. The advancement of the RIL population in an environment to which the S. bicolor parent was well adapted (indeed bred for) but the S. propinquum parent was not largely eliminated an allele for short-day flowering that confounded many other traits, for example, permitting us to map new quantitative trait loci for flowering that previously eluded detection. Additional recombination that has accrued in the development of this RIL population also may have improved resolution of apices of heterozygote excess, accounting for their greater abundance in the F5 than the F2 generation. The S. bicolor × S. propinquum RIL population offers advantages over early-generation populations that will shed new light on genetic, environmental, and physiological/biochemical factors that regulate plant growth and development.

scholarly journals Detection of the quantitative trait loci for α-amylase activity on a high-density genetic map of rye and comparison of their localization to loci controlling preharvest sprouting and earliness

2011 ◽  
Vol 30 (1) ◽  
pp. 367-376 ◽  
Author(s):  
Beata Myśków ◽  
Stefan Stojałowski ◽  
Anna Łań ◽  
Hanna Bolibok-Brągoszewska ◽  
Monika Rakoczy-Trojanowska ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Genetic Map ◽  
Quantitative Trait ◽  
Amylase Activity ◽  
High Density ◽  
Preharvest Sprouting ◽  
Trait Loci

scholarly journals Construction of a high-density genetic map and identification of quantitative trait loci for nitrite tolerance in the Pacific white shrimp (Litopenaeus vannamei)

2019 ◽  
Author(s):  
Digang Zeng ◽  
Xiuli Chen ◽  
Weilin Zhu ◽  
Min Peng ◽  
Chunling Yang ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Genetic Map ◽  
Quantitative Trait ◽  
Molecular Mechanisms ◽  
Average Distance ◽  
Pacific White Shrimp ◽  
High Density ◽  
White Shrimp ◽  
Phenotypic Variance ◽  
Trait Loci

Abstract BackgroundNitrite is a major environmental toxin in aquaculture systems disrupting multiple physiological functions in aquatic animals. Although nitrite tolerance in shrimp is closely related to successful industrial production, few genetic studies of this trait are available. ResultsIn this study, we constructed a high-density genetic map of L. vannamei with 17,242 single nucleotide polymorphism markers spanning 6,828.06 centimorgans (cM) and an average distance of 0.4 cM between adjacent markers on 44 linkage groups (LGs). Using this genetic map, we identified 2 quantitative trait loci (QTLs) involved in nitrite tolerance on two LGs explaining 8.42–10.31% of the phenotypic variance. We then sequenced the transcriptomes of the most nitrite-tolerant and the most nitrite-sensitive individuals from each of four genetically distinct L. vannamei families and found 2,002, 1,983, 1,954, and 1,867 differentially expressed genes in the four families, respectively. By integrating QTL and transcriptomics analyses, we identified a candidate gene associated with nitrite tolerance. This gene was annotated as solute carrier family 26 member 6 (SLC26A6). RNA interference (RNAi) analysis demonstrated that SLC26A6 was critical for nitrite tolerance in L. vannamei. ConclusionsThe present study increases our understanding of the molecular mechanisms underlying nitrite tolerance in shrimp, and provides a basis for molecular-marker-assisted shrimp breeding.

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