Quantitative trait loci identification and meta-analysis for rice panicle-related traits

Wu, Yejun; Huang, Ming; Tao, Xingxing; Guo, Tao; Chen, Zhiqiang; Xiao, Wuming

doi:10.1007/s00438-016-1227-7

Cited by 49 publications

(63 citation statements)

References 49 publications

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“…A meta‐analysis that could narrow down the CIs to refine and confirm the integration of QTLs by using mathematical models was widely applied in evolution and genetics researches (Goffinet & Gerber, ). Many researches have conducted the meta‐analysis method in QTL analysis, such as flowering time in maize (Chardon et al., ), panicle‐related traits in rice (Wu et al., ), fusarium head blight resistance in wheat (Liu, Hall, Griffey, & McKendry, ). However, few researches on meta‐analyses have been performed for QTL location in soybean.…”

Section: Introductionmentioning

confidence: 99%

Soybean plant height QTL mapping and meta‐analysis for mining candidate genes

Yin

Chen

et al. 2017

Plant Breeding

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Plant height is closely related to seed yield of soybean. The goal of this study was to identify important loci affecting soybean plant height using meta‐analysis based on a reference physical map. Plant height related to QTLs was mapped across eight years with a RIL population by WinQTLCart v2.5. 182 QTLs related to plant height of soybean from database and our research were collected, and each QTL was projected onto the soybean physical map by software BioMercator v2.1. The confidence interval of meta‐QTL ranged from 0.09 to 5.07 Mb, and the mean phenotypic variance ranged from 4.9% to 73.0%. Furthermore, 4,259 candidate genes were located in these consensus QTLs, and 40 of them were involved in the plant growth and stem elongation and annotated as plant hormone signal transduction (pathway ID ko04075) in KEGG pathway. These results would lay a foundation for fine mapping of QTLs/genes related to plant height and marker‐assisted selection for breeding in soybean.

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Section: Introductionmentioning

confidence: 99%

Soybean plant height QTL mapping and meta‐analysis for mining candidate genes

Yin

Chen

et al. 2017

Plant Breeding

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“…To investigate germplasm resources for crop utilization and improvement programs, it is essential to describe and evaluate the morphological characteristics of existing germplasm resources to effectively identify and differentiate each cultivar (Smith et al 1991;Kumbhar et al 2015;Ahmed et al 2016). The panicle traits are the most intuitive and representative rice plant part that is utilized in determining its identity and genetic diversity, as well as in estimating rice yield and quality (Chen et al 2001;Ma et al 2006;Wu et al 2016). Therefore, the characterization of rice panicle traits in relation to agricultural production and genetic diversity has long been an important research topic (Zhou et al 2003;Wang et al 2007;Zhou et al 2014;Zhao et al 2016;Adriani et al 2016).…”

Section: Introductionmentioning

confidence: 99%

Morphological diversity of panicle traits in Kam fragrant glutinous rice (Oryza sativa)

Lei

Zhou

Zhang

et al. 2017

Genet Resour Crop Evol

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Panicle traits are the most intuitive and representative features of rice germplasm resources that have been utilized in the determination of its identity, genetic diversity, yield, and quality. Based on the approaches of ethnobotany, cultural anthropology and plant morphology, we analyzed the panicle traits of 95 traditional Kam fragrant glutinous rice landraces according to folk classification in Qiandongnan Prefecture of Guizhou Province in the past 10 years. A total of 95 Kam fragrant glutinous rice landraces were tested, of which 91% consisted of those with awns, and landraces with awn lengths of 2-6 cm comprised 62%. The coefficient of variation (CV) of awn color, husk color and Grain color was more than 50%, thereby indicating extensive morphological variations among the traditional Kam fragrant glutinous rice landraces. The average Shannon-Wiener value (diversity index, H 0 ) for panicle qualitative traits was 0.50, which was significantly higher than that of quantitative traits (0.22), thereby indicating a relatively higher degree of genetic diversity among qualitative traits. Cluster analysis of panicle morphological traits showed that 95 Kam fragrant glutinous rice landraces could be divided into five categories, using the Euclidean distance of 0.68 as threshold. Each cultivar manifested unique panicle traits. The present study on the morphological diversity of Kam fragrant glutinous rice landraces provided basic information that may be utilized for the conservation and sustainable use of Kam fragrant glutinous rice landraces.

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“…Additionally, the interaction of genotype by genotype (G × G) and genotype by environment (G × E) contributed to the trait variation (Cho et al, ; Hittalmani et al, ; Zhang et al, ). Correlation analysis also revealed the strong relationship between PL and other agronomic traits, including panicle culm length, plant height, heading stage, secondary branch number and spikelet number per panicle, and these correlated traits are usually mapped synchronously (Dang et al, ; Guo & Hong, ; Huang et al, ; Jang et al, ; Liang, Shang, Lin, Lou, & Zhang, ; Lu et al, ; Miura et al, ; Sun et al, ; Wu et al, ; Yan et al, ; Zhang, Luo, Xu, Zhang, & Xing, ), Genetic dissection for rice plant architecture showed that the PL QTL is co‐localised with either culm length, tiller number or both (Kobayashi et al, ) and finely mapped with the same locus for spikelet number per panicle (Guo & Hong, ; Xie et al, ). However, whether the loci are in tight linkage or genes are in pleiotropy is unclear.…”

Section: Introductionmentioning

confidence: 99%

Identification and application of major quantitative trait loci for panicle length in rice (Oryza sativa) through single‐segment substitution lines

et al. 2019

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Panicle length (PL), an important yield‐related trait, strongly affects yield components, such as grain number, grain density and rice quality. More than 200 panicle length quantitative trait loci (PL QTLs) are identified, but only a small number are applied in rice breeding. In this study, we performed QTL analysis for PL using 42 single‐segment substitution lines (SSSLs) derived from nine donors in the genetic background of HJX74. Fourteen QTLs and five heterosis QTLs (HQTLs) for PL were recognised. Three QTLs and four HQTLs acted positively, and the other eleven QTLs and one HQTL acted negatively. By scanning the single heterozygous background region of the F2 population with large‐genetic‐effect SSSLs, we mapped PL loci qPL6‐2 and qPL7‐1 to different locations on chromosomes 6 and 7, respectively, in three consecutive years of independent trials. The genetic effects of these QTLs were further assessed. qPL6‐2 demonstrated the most positive additive effect (QTL), whereas qPL7‐1 achieved the most positive dominant effect (HQTL) for PL. These results indicated that the pyramiding of PL QTLs might increase grain yield and facilitate the application of the beneficial allele in hybrid rice breeding.

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Quantitative trait loci identification and meta-analysis for rice panicle-related traits

Cited by 49 publications

References 49 publications

Soybean plant height QTL mapping and meta‐analysis for mining candidate genes

Soybean plant height QTL mapping and meta‐analysis for mining candidate genes

Morphological diversity of panicle traits in Kam fragrant glutinous rice (Oryza sativa)

Identification and application of major quantitative trait loci for panicle length in rice (Oryza sativa) through single‐segment substitution lines

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