Variation in flowering time in sorghum core collection and mapping of QTLs controlling flowering time by association analysis

Mannai, Yousra El; Shehzad, Tariq; Okuno, Kazutoshi

doi:10.1007/s10722-011-9737-y

Cited by 18 publications

(11 citation statements)

References 18 publications

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“…The SSRs Xtxp61, Xtxp75 and Xtxp279 on chromosome 1 are at approximately 8,000-10,000 kb from the associated markers on the BSK1 gene. On chromosome 2, markers for BKI1 are approximately 6,000 kb away from the SSR Xtxp100 (El Mannai et al 2011). All markers with a significant effect on flowering time identified in our study explained a small proportion of the phenotypic variation (R 2 < 0.06) and these results are expected considering that Ma 1 , mapped to chromosome 6, has been reported as a major gene explaining approximately 45 % of the variation (Murphy et al 2011;Li et al 2013).…”

Section: Genetic Diversity In the Panelsupporting

confidence: 66%

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Association mapping of brassinosteroid candidate genes and plant architecture in a diverse panel of Sorghum bicolor

et al. 2014

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This first association analysis between plant architecture and BR candidate genes in sorghum suggests that natural allelic variation has significant and pleiotropic effects on plant architecture phenotypes. Sorghum bicolor (L) Moench is a self-pollinated species traditionally used as a staple crop for human consumption and as a forage crop for livestock feed. Recently, sorghum has received attention as a bioenergy crop due to its water use efficiency and biomass yield potential. Breeding for superior bioenergy-type lines requires knowledge of the genetic mechanisms controlling plant architecture. Brassinosteroids (BRs) are a group of hormones that determine plant growth, development, and architecture. Biochemical and genetic information on BRs are available from model species but the application of that knowledge to crop species has been very limited. A candidate gene association mapping approach and a diverse sorghum collection of 315 accessions were used to assess marker-trait associations between BR biosynthesis and signaling genes and six plant architecture traits. A total of 263 single nucleotide polymorphisms (SNPs) from 26 BR genes were tested, 73 SNPs were significantly associated with the phenotypes of interest and 18 of those were associated with more than one trait. An analysis of the phenotypic variation explained by each BR pathway revealed that the signaling pathway had a larger effect for most phenotypes (R (2) = 0.05-0.23). This study constitutes the first association analysis between plant architecture and BR genes in sorghum and the first LD mapping for leaf angle, stem circumference, panicle exsertion and panicle length. Markers on or close to BKI1 associated with all phenotypes and thus, they are the most important outcomes of this study and will be further validated for their future application in breeding programs.

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Section: Genetic Diversity In the Panelsupporting

confidence: 66%

“…El Mannai et al (2011) reported SSR markers associated with flowering time on chromosomes 1 and 2 that are distant from our associated markers. The SSRs Xtxp61, Xtxp75 and Xtxp279 on chromosome 1 are at approximately 8,000-10,000 kb from the associated markers on the BSK1 gene.…”

Section: Genetic Diversity In the Panelmentioning

confidence: 68%

Association mapping of brassinosteroid candidate genes and plant architecture in a diverse panel of Sorghum bicolor

et al. 2014

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“…Additionally 168 QTL for height were also projected onto the consensus genetic linkage map, and included 101 QTL from 15 studies previously detailed in [22] and an additional 67 QTL from 7 more recent studies [28,67-72] (Additional file 3: Table S9). Similarly, 157 QTL for maturity were projected onto the consensus genetic linkage map, and included 62 QTL from 12 studies previously detailed in [20] and an additional 95 QTL from 8 more recent studies [28,59,67,68,70-73] (Additional file 3: Table S9). The QTL for all three traits identified in the three separate mapping populations in the current study were also projected onto the sorghum consensus map, based on the physical locations of the flanking markers, to facilitate comparisons across populations, studies and traits.…”

Section: Methodsmentioning

confidence: 99%

Two distinct classes of QTL determine rust resistance in sorghum

Wang

Mace²,

Hunt

et al. 2014

BMC Plant Biol

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BackgroundAgriculture is facing enormous challenges to feed a growing population in the face of rapidly evolving pests and pathogens. The rusts, in particular, are a major pathogen of cereal crops with the potential to cause large reductions in yield. Improving stable disease resistance is an on-going major and challenging focus for many plant breeding programs, due to the rapidly evolving nature of the pathogen. Sorghum is a major summer cereal crop that is also a host for a rust pathogen Puccinia purpurea, which occurs in almost all sorghum growing areas of the world, causing direct and indirect yield losses in sorghum worldwide, however knowledge about its genetic control is still limited. In order to further investigate this issue, QTL and association mapping methods were implemented to study rust resistance in three bi-parental populations and an association mapping set of elite breeding lines in different environments.ResultsIn total, 64 significant or highly significant QTL and 21 suggestive rust resistance QTL were identified representing 55 unique genomic regions. Comparisons across populations within the current study and with rust QTL identified previously in both sorghum and maize revealed a high degree of correspondence in QTL location. Negative phenotypic correlations were observed between rust, maturity and height, indicating a trend for both early maturing and shorter genotypes to be more susceptible to rust.ConclusionsThe significant amount of QTL co-location across traits, in addition to the consistency in the direction of QTL allele effects, has provided evidence to support pleiotropic QTL action across rust, height, maturity and stay-green, supporting the role of carbon stress in susceptibility to rust. Classical rust resistance QTL regions that did not co-locate with height, maturity or stay-green QTL were found to be significantly enriched for the defence-related NBS-encoding gene family, in contrast to the lack of defence-related gene enrichment in multi-trait effect rust resistance QTL. The distinction of disease resistance QTL hot-spots, enriched with defence-related gene families from QTL which impact on development and partitioning, provides plant breeders with knowledge which will allow for fast-tracking varieties with both durable pathogen resistance and appropriate adaptive traits.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-014-0366-4) contains supplementary material, which is available to authorized users.

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“…Sorghum accessions exhibit significant variations in flowering time in response to day-length. One QTL controlling photoperiod sensitivity was detected on chromosome 1 under SD, and one QTL controlling photoperiod insensitivity expression was detected on chromosome 4 under 12 h and natural photoperiod conditions, from the SSR markers Xtxp61 and Xtxp51 respectively [53]. Under LD, a cross between tropical and temperate sorghums (Sorghum propinquum (Kunth) Hitchc.×S.…”

Section: Qtls Analysismentioning

confidence: 99%

Molecular Regulation of Flowering Time in Grasses

Nuñez

Yamada

2017

Agronomy

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Flowering time is a key target trait for extending the vegetative phase to increase biomass in bioenergy crops such as perennial C 4 grasses. Molecular genetic studies allow the identification of genes involved in the control of flowering in different species. Some regulatory factors of the Arabidopsis pathway are conserved in other plant species such as grasses. However, differences in the function of particular genes confer specific responses to flowering. One of the major pathways is photoperiod regulation, based on the interaction of the circadian clock and environmental light signals.Depending on their requirements for day-length plants can be classified as long-day (LD), short-day (SD), and day-neutral. The CONSTANS (CO) and Heading Date 1 (Hd1), orthologos genes, are central regulators in the flowering of Arabidopsis and rice, LD and SD plants, respectively. Additionally, Early heading date 1 (Ehd1) induces the expression of Heading date 3a (Hd3a), conferring SD promotion and controls Rice Flowering Locus T 1 (RFT1) in LD conditions, independently of Hd1. Nevertheless, the mechanisms promoting flowering in perennial bioenergy crops are poorly understood. Recent progress on the regulatory network of important gramineous crops and components involved in flowering control will be discussed.

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Variation in flowering time in sorghum core collection and mapping of QTLs controlling flowering time by association analysis

Cited by 18 publications

References 18 publications

Association mapping of brassinosteroid candidate genes and plant architecture in a diverse panel of Sorghum bicolor

Association mapping of brassinosteroid candidate genes and plant architecture in a diverse panel of Sorghum bicolor

Two distinct classes of QTL determine rust resistance in sorghum

Molecular Regulation of Flowering Time in Grasses

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