QTL mapping of forage yield and forage yield component traits in Sorghum bicolor x S. sudanense

Liu, Y L; Wang, L H; Li, J Q; Zhan, Qiuwen; Li, J F; Fan, Fengfeng

doi:10.4238/2015.april.22.14

Cited by 9 publications

(8 citation statements)

References 25 publications

(20 reference statements)

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“…Similarly, QTLs for plant height in sweet sorghum have been reported from previous studies on chromosome 1 (Guan et al 2011;Liu et al 2015;Ritter et al 2008;Shiringani et al 2010), chromosome 6 (Felderhoff et al 2012;Murray et al 2008b;Ritter et al 2008;Shiringani et al 2010), and chromosome 7 (Felderhoff et al 2012;Guan et al 2011;Murray et al 2008b;Shehzad and Okuno 2015;Shiringani et al 2010). The QTLs for plant height reported from previous studies and this study were located in nearby regions on chromosomes 1 (Liu et al 2015), 6 (Ritter et al 2008;Shiringani et al 2010), and 7 (Felderhoff et al 2012;Murray et al 2008b;Shiringani et al 2010). The QTL on chromosome 6 (PH6, S6_41974107-42311647, 6.89-8.56 cM) located at 41.97-42.31 Mb co-localizes with the QTL for temperate plant height (41-43 Mb) identified by Higgins et al (2014).…”

Section: Qtls For Plant Height Associated With Dw2 and Dw3supporting

confidence: 86%

Genotyping by sequencing for identification and mapping of QTLs for bioenergy-related traits in sweet sorghum

Teingtham

2020

Preprint

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Sweet sorghum (Sorghum bicolor L. Moench) is a promising bioenergy crop. To increase the productivity of this crop, marker-assisted breeding will be important to advance genetic improvement of sweet sorghum. The objective of the present study was to identify quantitative trait loci (QTLs) associated with bioenergy-related traits in sweet sorghum. We used 188 F 7 recombinant inbred lines (RILs) derived from a cross between sweet sorghum (Wray) and grain sorghum (Macia). The RILs and their parental lines were grown at two locations in 2012 and 2013.Genotyping-by-sequencing analysis of the RILs allowed the construction of a map with 979 single nucleotide polymorphisms. Using the inclusive composite interval mapping of additive QTLs, major QTLs for flowering time and head moisture content were detected on chromosome 6, and explained 29.45% and 20.65% of the phenotypic variances (PVE), respectively. Major QTLs for plant height (29.51% PVE) and total biomass yield (16.46% PVE) were detected on chromosome 7, and QTLs for stem diameter (9.43% PVE) and 100 seed weight (22.97% PVE) were detected on chromosome 1. A major QTL for brix (39.92% PVE) and grain yield (49.14%) PVE co-localized on chromosome 3, was detected consistently across four environments, and is closely associated with a SWEET sugar transporter gene. Additionally, several other QTLs for brix identified in this study or reported previously were found to be associated with sugar transporter genes. The identified QTLs in this study will help to further understand the underlying genes associated with bioenergy-related traits and could be used for development of molecular markers for marker-assisted selection.

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Section: Qtls For Plant Height Associated With Dw2 and Dw3supporting

confidence: 86%

Genotyping by sequencing for identification and mapping of QTLs for bioenergy-related traits in sweet sorghum

Teingtham

2020

Preprint

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“…However, a positive correlation between HT and PL was found in biparental quantitative trait loci (QTL) mapping population [31,66] and accessions including sweet sorghum, grain sorghum, forage sorghum, mutant populations, and B-and R-lines [67]. We identified a positive correlation between HT and TN, which was also shown in a segregating population derived from a cross between S. bicolor and S. sudanense [68], but not in a RIL population derived from a cross between grain sorghum and sweet sorghum [63]. HT was negatively correlated with SD, which was consistent with the previous result [63], but did not support the correlations noted in another study [54].…”

Section: Trait Variations and Correlationsmentioning

confidence: 61%

Genome-Wide Association Study for Plant Architecture and Bioenergy Traits in Diverse Sorghum and Sudangrass Germplasm

et al. 2020

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Sorghum is an important grain, forage, and bioenergy crop. The objective of this study was to identify genetic signals associated with plant architecture and bioenergy traits in sorghum and sudangrass germplasm through a genome-wide association study (GWAS). Plant height (HT), tiller number (TN), internode number (IN), stem diameter (SD), panicle length (PL), panicle weight (PW), reducing sugar (RS) content, Brix, and protein (PRO) content were assessed in 300 germplasm consisting of grain sorghum, sweet sorghum, sudangrass, sweet sorghum-sweet sorghum recombinant inbred lines (RILs) and sudangrass-sudangrass RILs grown in three different environments over two years. Large variations of phenotypic traits were observed in the population panel. The heritability of traits were all higher than 0.5, ranging from 0.52 (PRO) to 0.92 (HT) with an average of 0.76. The population exhibited three population structures (Q) and minor relative kinship (K), assessed by using 7982 single-nucleotide polymorphisms (SNPs). After controlling Q and K, GWAS identified 24 SNPs that were significantly associated with traits, including three SNPs with HT, four with TN, four with PL, three with Brix, and ten with RS. Of them, seven SNPs were novel signals that were not identified previously, including one for HT, one for TN, one for Brix, and four for RS. The putative candidate genes involved in brassinosteroid regulatory pathway, auxin biosynthesis, carbohydrate metabolism, and sugar transport were identified underlying the significant SNPs. Identification of SNP signals and related candidate genes would enrich the current genomic resource for further molecular breeding aimed at improvement of food, feed, and biofuel productions of sorghum.

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“…The polymorphism of SSR markers developed from the sorghum genome was low (19.48%) between sorghum and sudangrass [ 21 ]. Therefore, it is important to develop high diversity markers for genetic research on sudangrass and hybrids of sorghum and sudangrass.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Characterization and Functional Marker Development in Sorghum Sudanense

Wang

Zhan

et al. 2016

PLoS ONE

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Sudangrass, Sorghum sudanense, is an important forage in warm regions. But little is known about its genome. In this study, the transcriptomes of sudangrass S722 and sorghum Tx623B were sequenced by Illumina sequencing. More than 4Gb bases were sequenced for each library. For Tx623B and S722, 88.79% and 83.88% reads, respectively were matched to the Sorghum bicolor genome. A total of 2,397 differentially expressed genes (DEGs) were detected by RNA-Seq between the two libraries, including 849 up-regulated genes and 1,548 down-regulated genes. These DEGs could be divided into three groups by annotation analysis. A total of 44,495 single nucleotide polymorphisms (SNPs) were discovered by aligning S722 reads to the sorghum reference genome. Of these SNPs, 61.37% were transition, and this value did not differ much between different chromosomes. In addition, 16,928 insertion and deletion (indel) loci were identified between the two genomes. A total of 5,344 indel markers were designed, 15 of which were selected to construct the genetic map derived from the cross of Tx623A and Sa. It was indicated that the indel markers were useful and versatile between sorghum and sudangrass. Comparison of synonymous base substitutions (Ks) and non-synonymous base substitutions (Ka) between the two libraries showed that 95% orthologous pairs exhibited Ka/Ks<1.0, indicating that these genes were influenced by purifying selection. The results from this study provide important information for molecular genetic research and a rich resource for marker development in sudangrass and other Sorghum species.

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QTL mapping of forage yield and forage yield component traits in Sorghum bicolor x S. sudanense

Cited by 9 publications

References 25 publications

Genotyping by sequencing for identification and mapping of QTLs for bioenergy-related traits in sweet sorghum

Genotyping by sequencing for identification and mapping of QTLs for bioenergy-related traits in sweet sorghum

Genome-Wide Association Study for Plant Architecture and Bioenergy Traits in Diverse Sorghum and Sudangrass Germplasm

Transcriptome Characterization and Functional Marker Development in Sorghum Sudanense

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