Phenotypic characterization and genetic dissection of nine agronomic traits in Tokachi nagaha and its derived cultivars in soybean (Glycine max (L.) Merr.)

Liu, Zhangxiong; Li, Huihui; Fan, Xuhong; Huang, Weiyuan; Yang, Jiyu; Zhang, Wen; Li, Yinghui; Guan, Rongxia; Guo, Yong; Chang, Ru-Zhen; Wang, Dechun; Chen, Pengyin; Wang, Shuming; Qiu, Li

doi:10.1016/j.plantsci.2016.11.009

Cited by 16 publications

(27 citation statements)

References 63 publications

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“…The likelihood of Δ k values obtained in STRUCTURE analysis showed that k = 2 was the optimal population subdivision, indicating that accessions formed two major clusters, and the results are in accordance with Liu et al. (). There were 64 accessions in subpopulation 1, including “Tokachi nagaha,” and 74 accessions in subpopulation 2.…”

Section: Resultssupporting

confidence: 88%

Selection of soybean elite cultivars based on phenotypic and genomic characters related to lodging tolerance

Liu

Fan

et al. 2017

Plant Breeding

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Soybean lodging can result in serious yield reduction. Detecting the quantitative trait loci (QTL) associated with lodging tolerance for their further application in marker‐assisted selection (MAS) has the potential to enhance soybean breeding efficiency. In this study, a genome‐wide association analysis (GWAS) was performed to identify soybean accessions that could potentially be used to produce lodging‐tolerant varieties, based on the comprehensive evaluation of lodging scores (LS) obtained for the parental cultivar “Tokachi nagaha” and its 137 derived cultivars. Results showed that genotype, environment and genotype × environment interaction significantly influenced LS. Of the 31 significant SNPs identified, 22 were consistently detected in two or more environments and 27 SNPs were located in or close to agronomically important QTL mapped by linkage analysis. Best linear unbiased predictors (BLUPs) of LS tend to decrease with the elite alleles contained by accessions increasing. Some excellent accessions, with lower BLUPs and Di (stability coefficients) values and more elite alleles, were selected. This study contributed to understand the genetic mechanism of lodging, providing genetic and phenotypic information for MAS.

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Section: Resultssupporting

confidence: 88%

Selection of soybean elite cultivars based on phenotypic and genomic characters related to lodging tolerance

Liu

Fan

et al. 2017

Plant Breeding

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“…Liu et al. () indicated the kinase activity could contribute to the pod development. In addition, this gene was a homologous gene with MtDOF 1, which is correlated with early seed growth and development (Kurdyukov et al., ).…”

Section: Resultsmentioning

confidence: 99%

“…Additionally, Glyma.13G259700 is a homologue of GmCYP78A10 , which is associated with NPPP and involved in flower and fruit development (Wang et al., ). Meanwhile, Glyma.13G246000 and Glyma.13G271500 contribute to the kinase activities associated with NPPP (Liu et al., ). Thus, these 12 candidate genes are important and may provide the foundation for efficient marker‐assisted selection by soybean breeders.…”

Section: Discussionmentioning

confidence: 99%

“…Glyma.13G246000 was annotated in the biological process of molecular function of ceramide kinase activity (GO: 0001729). Liu et al (2017) indicated the kinase activity could contribute to the pod development. In addition, this gene was a homologous gene with MtDOF1, which is correlated with early seed growth and development (Kurdyukov et al, 2014).…”

Section: Candidate Gene Mining Involving Consensus Qtlsmentioning

confidence: 99%

“…The number of identified quantitative trait loci (QTLs) for NPS-related traits continues to increase. More than 60 QTLs of NPS-related traits have been identified in soybean (Fernando et al, 2014;Guo et al, 2011;Huang, Zhao, Yu, Chen, & Gai, 2009;Josiane et al, 2016;Liu et al, 2015;Liu et al, 2011Liu et al, , 2017Niu et al, 2013;Sun et al, 2006;Wang, Zhang, Zhou, & Sha, 2007;Yang et al, 2013;Zhang et al, 2010;Zhou et al, 2005). However, only a few were repeatedly detected in different years and even fewer verified QTLs were identified in different genetic backgrounds.…”

Section: Introductionmentioning

confidence: 99%

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Identification and validation of number of pod ‐ and seed ‐ related traits QTLs in soybean

Zou

Jiang

et al. 2018

Plant Breeding

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Traits related to the number of pods and seeds are important yield factors on soybean. The relationships between phenotype and quantitative trait loci (QTLs) of these traits may reveal the mechanisms underlying productivity. Our study objectives were to analyse phenotypic correlations, detect stable QTLs and identify candidate genes useful for marker‐assisted selection. Phenotypic analyses revealed that NThSP (number of three‐seeded pods) was positively correlated with NPPP (number of pods per plant) and SNPP (number of seeds per plant). Seventy‐five QTLs were identified based on the mean phenotypic data for at least 2 years. We detected two to 15 and one to three significant QTLs identified at the same location, respectively. Six consensus QTLs associated with at least two NPS‐related (number of pods and seeds related) traits were identified. Two of these were verified in another population. The QTLs for NPPP, SNPP and NThSP formed a consensus QTL cluster on GM02. Another 27 QTLs also formed clusters in five regions. Fifteen candidate genes were mined and discussed. The results will provide more information to soybean breeding.

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Exploring the QTL–allele constitution of main stem node number and its differentiation among maturity groups in a Northeast China soybean population

Wang

Haixiang

et al. 2020

Crop Science

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Northeast China (NEC) is a major soybean [Glycine max (L.) Merr.] production region in China, where the germplasm of American soybeans are mainly from. The main stem node number (MSN) is a trait related to plant type and yield potential. With the soybeans expanded to higher latitudes in NEC, earlier maturity groups (MG 0, MG 00, and MG 000) formed based on MG I + MG II (MG I+II), and correspondingly the MSN decreased. To explore the MSN quantitative trait locus (QTL)-allele constitution, 306 accessions from NEC were studied using the restricted two-stage multilocus genome-wide association study (RTM-GWAS) procedure. In total, 76 MSN QTLs and 183 alleles were identified, with their genetic contribution about 0.04-9.83% per locus for a total of 65.63% for all loci. With the MSN reduction from MG I+II to MG 0, MG 00, and MG 000 (17.89 to 13.11), the changed alleles accounted for 28.42% of all alleles (6.56% for new allele emergence plus 21.86% for old allele exclusion), whereas the major part of the alleles were those inherited from MG I+II (71.58%).Thus in the evolution of MSN in the NEC soybean population, inheritance is the first genetic motivation, exclusion and selection (positive allele exclusion, 65.00%) is the second, emergence and mutation (negative allele emergence, 95.67%) is the third, and recombination among retained alleles is the fourth. A potential of 2-5 MSN improvement keeping the MG earliness was predicted, and 49 candidate genes were identified.Abbreviations: GWAS, genome-wide association study; MG, maturity group; MSN, main stem node number; NCSP, Northeast China soybean population; NEC, Northeast China; PV, phenotypic variance; QEI, quantitative trait locus × environment interaction; QTL, quantitative trait locus; RIL, recombinant inbred line; RTM, restricted two-stage multilocus; SNP, single nucleotide polymorphism; SNPLDB, single nucleotide polymorphism linkage disequilibrium block.

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Phenotypic characterization and genetic dissection of nine agronomic traits in Tokachi nagaha and its derived cultivars in soybean (Glycine max (L.) Merr.)

Cited by 16 publications

References 63 publications

Selection of soybean elite cultivars based on phenotypic and genomic characters related to lodging tolerance

Selection of soybean elite cultivars based on phenotypic and genomic characters related to lodging tolerance

Identification and validation of number of pod ‐ and seed ‐ related traits QTLs in soybean

Exploring the QTL–allele constitution of main stem node number and its differentiation among maturity groups in a Northeast China soybean population

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