Identification of an important QTL for seed oil content in soybean

Li, Bing; Peng, Jingyu; Wu, Yueying; Hu, Quan; Huang, Wenxuan; Yuan, Zhihui; Tang, Xiaofei; Cao, Ding; Xue, Yongbo; L, Xin; Fu, Yongcai; Liu, Xinlei; Sun, Lianjun

doi:10.1007/s11032-023-01384-2

Cited by 4 publications

(1 citation statement)

References 35 publications

(20 reference statements)

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“…Li et al conducted QTL mapping of oil content in the recombinant inbred line (RIL) population, and 5 QTLs related to oil content were identified. A total of 20 candidate genes were screened [22].…”

Section: Introductionmentioning

confidence: 99%

GWAS and WGCNA Analysis Uncover Candidate Genes Associated with Oil Content in Soybean

Zhao,

Zhang,

Wang

et al. 2024

Plants

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Soybean vegetable oil is an important source of the human diet. However, the analysis of the genetic mechanism leading to changes in soybean oil content is still incomplete. In this study, a total of 227 soybean materials were applied and analyzed by a genome-wide association study (GWAS). There are 44 quantitative trait nucleotides (QTNs) that were identified as associated with oil content. A total of six, four, and 34 significant QTN loci were identified in Xiangyang, Hulan, and Acheng, respectively. Of those, 26 QTNs overlapped with or were near the known oil content quantitative trait locus (QTL), and 18 new QTNs related to oil content were identified. A total of 594 genes were located near the peak single nucleotide polymorphism (SNP) from three tested environments. These candidate genes exhibited significant enrichment in tropane, piperidine, and pyridine alkaloid biosynthesiss (ko00960), ABC transporters (ko02010), photosynthesis-antenna proteins (ko00196), and betalain biosynthesis (ko00965). Combined with the GWAS and weighted gene co-expression network analysis (WGCNA), four candidate genes (Glyma.18G300100, Glyma.11G221100, Glyma.13G343300, and Glyma.02G166100) that may regulate oil content were identified. In addition, Glyma.18G300100 was divided into two main haplotypes in the studied accessions. The oil content of haplotype 1 is significantly lower than that of haplotype 2. Our research findings provide a theoretical basis for improving the regulatory mechanism of soybean oil content.

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Section: Introductionmentioning

confidence: 99%

GWAS and WGCNA Analysis Uncover Candidate Genes Associated with Oil Content in Soybean

Zhao,

Zhang,

Wang

et al. 2024

Plants

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Identification and confirmation of novel genetic loci and domestication gene GmGA20ox1 regulating primary root length in soybean seedling stage

Li,

Gu,

Zhao

et al. 2024

Industrial Crops and Products

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Transcriptional regulation of transcription factor genes WRI1 and LAFL during Brassica napus seed development

Han,

Peng,

Yin

et al. 2024

Plant Physiology

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The WRINKLED1 (WRI1) and LAFL [LEAFY COTYLEDON1 (LEC1), ABSCISIC ACID INSENSITIVE3 (ABI3), FUSCA3 (FUS3), and LEC2] transcription factors play essential roles in governing seed development and oil biosynthesis. To gain a comprehensive understanding of the transcriptional regulation of WRI1 and LAFL, we conducted genome-wide association studies for the expression profiles of WRI1 and LAFL in developing seeds at 20 and 40 days after flowering (DAF) using 302 rapeseed (Brassica napus) accessions. We identified a total of 237 expression quantitative trait nucleotides (eQTNs) and 51 expression QTN-by-environment interactions (eQEIs) associated with WRI1 and LAFL. Around these eQTNs and eQEIs, we pinpointed 41 and 8 candidate genes with known transcriptional regulations or protein interactions with their expression traits, respectively. Based on RNA-seq and ATAC-seq data, we employed the XGBoost and Basenji models which predicted 15 candidate genes potentially regulating the expression of WRI1 and LAFL. We further validated the predictions via tissue expression profile, haplotype analysis, and expression correlation analysis, and verified the transcriptional activation activity of BnaC03.MYB56 (R2R3-MYB transcription factor 56) on the expression of BnaA09.LEC1 by dual-luciferase reporter and yeast one-hybrid assays. BnaA10.AGL15 (AGAMOUS-LIKE 15), BnaC04.VAL1 (VIVIPAROUS1/ABSCISIC ACID INSENSITIVE3-LIKE 1), BnaC03.MYB56, and BnaA10.MYB56 were co-expressed with WRI1 and LAFL at 20 DAF in M35, a key module for seed development and oil biosynthesis. We further validated the positive regulation of MYB56 on seed oil accumulation using Arabidopsis (Arabidopsis thaliana) mutants. This study not only delivers a framework for future eQEI identification but also offers insights into the developmental regulation of seed oil accumulation.

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Identification of an important QTL for seed oil content in soybean

Cited by 4 publications

References 35 publications

GWAS and WGCNA Analysis Uncover Candidate Genes Associated with Oil Content in Soybean

GWAS and WGCNA Analysis Uncover Candidate Genes Associated with Oil Content in Soybean

Identification and confirmation of novel genetic loci and domestication gene GmGA20ox1 regulating primary root length in soybean seedling stage

Transcriptional regulation of transcription factor genes WRI1 and LAFL during Brassica napus seed development

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