Association mapping reveals gene action and interactions in the determination of flowering time in barley

Stracke, Silke; Haseneyer, Grit; Veyrieras, Jean‐Baptiste; Geiger, H. H.; Sauer, Sascha; Graner, Andreas; Piepho, Hans‐Peter

doi:10.1007/s00122-008-0896-y

Cited by 95 publications

(75 citation statements)

References 76 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Most association studies in barley were carried out on panels of spring accessions or mixed panels of winter and spring accessions (Rostoks et al, 2006;Cockram et al, 2008;Stracke et al, 2009;Pasam et al, 2012;Tondelli et al, 2013). In this study, we used an autumn-sown panel of winter cultivars where tworowed and six-rowed types were equally represented, as reflected by the analysis of population structure.…”

Section: Discussionmentioning

confidence: 99%

Photoperiod-H1 (Ppd-H1) Controls Leaf Size

et al. 2016

View full text Add to dashboard Cite

Section: Discussionmentioning

confidence: 99%

Photoperiod-H1 (Ppd-H1) Controls Leaf Size

et al. 2016

View full text Add to dashboard Cite

“…3) was sequenced from 80 diverse barley lines comprising the genotypes described in above, plus a collection of 76 barley accessions originating from Europe, East Asia, West Asia, North Africa, and America (Table S3). These lines are a subset of a core collection (24) capturing the widest range of diversity for European areas, with a focus on genotypes from short growing seasons. Sequences were aligned by the ClustalW method using MEGA5 (25) and phylogenetic analysis was performed using the neighbor-joining method (26) within the MEGA5 package with bootstrap values from 10,000 trials (Fig.…”

Section: Eam8 Mutations Are Found In Different Clades Of Accessionsmentioning

confidence: 99%

Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley ( Hordeum vulgare ) to short growing seasons

Faure

Turner

Gruszka

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

245

350

View full text Add to dashboard Cite

The circadian clock is an autonomous oscillator that produces endogenous biological rhythms with a period of about 24 h. This clock allows organisms to coordinate their metabolism and development with predicted daily and seasonal changes of the environment. In plants, circadian rhythms contribute to both evolutionary fitness and agricultural productivity. Nevertheless, we show that commercial barley varieties bred for short growing seasons by use of early maturity 8 (eam8) mutations, also termed mat-a, are severely compromised in clock gene expression and clock outputs. We identified EAM8 as a barley ortholog of the Arabidopsis thaliana circadian clock regulator EARLY FLOWERING3 (ELF3) and demonstrate that eam8 accelerates the transition from vegetative to reproductive growth and inflorescence development. We propose that eam8 was selected as barley cultivation moved to high-latitude short-season environments in Europe because it allowed rapid flowering in genetic backgrounds that contained a previously selected late-flowering mutation of the photoperiod response gene Ppd-H1. We show that eam8 mutants have increased expression of the floral activator HvFT1, which is independent of allelic variation at Ppd-H1. The selection of independent eam8 mutations shows that this strategy facilitates short growth-season adaptation and expansion of the geographic range of barley, despite the pronounced clock defect.T he timing of flowering during the year is an important adaptive trait that strongly influences reproductive fitness. Many plants use the environmental cue of day length (photoperiod) to regulate flowering and this response can vary within species along a latitudinal cline (1-3). Photoperiod response has been extensively studied in Arabidopsis, where daily light oscillations entrain the circadian clock (4), which is the internal timepiece by which photoperiod is measured. In Arabidopsis, the circadian clock is composed of several feedback loops that interlock to provide robustness (5, 6). The related Myb transcription factors CIRCADIAN CLOCK ASSOCIATED1 (CCA1) and LATE ELONGATED HYPOCOTYL (LHY) have expression peaks in the morning and act antagonistically to the pseudoresponse regulator (PRR) TIMING OF CAB EXPRESSION1 (TOC1), which peaks in the evening. CCA1 and LHY promote the expression of PRR7 and PRR9, which themselves repress CCA1 and LHY, forming a morning feedback loop (5-7). This loop also involves EARLY FLOWERING3, EARLY FLOWERING4, and LUX ARHYTHMO (ELF3, ELF4, LUX), which repress PRR7 and PRR9 (8-10). An additional evening feedback loop involves GIGANTEA (GI), which promotes TOC1, which in turn represses GI (5). ELF3 also affects the evening loop by regulating GI protein turnover (11). Clock circuitry thus functions continuously during the day and this provides capacity for timed physiological outputs in response to the time of day.The clock is important for providing diurnal and seasonal control of flowering. In Arabidopsis, transcriptional outputs from the clock regulate CONSTANS (CO) expression so t...

show abstract

“…However, with very few exceptions (for example, Manicacci et al, 2009;Stracke et al, 2009;Li et al, 2010), all earlier association mapping studies have neglected the presence of epistasis. This might be because of the high computational burden of mixed-model association mapping approaches, which to our knowledge are the state of the art for performing association analyses in structured populations (Yu et al, 2006).…”

Section: Introductionmentioning

confidence: 99%

Detection of epistatic interactions in association mapping populations: an example from tetraploid potato

Stich

Gebhardt

2011

Heredity

View full text Add to dashboard Cite

Epistatic interactions among loci are expected to contribute substantially to variation of quantitative traits. The objectives of our research were to (i) compare a classical mixed-model approach with a combined mixed-model and analysis of variance approach for detecting epistatic interactions; (ii) examine using computer simulations the statistical power to detect additiveadditive, additive-dominance and dominance-dominance epistatic interactions and (iii) detect epistatic interactions between candidate genes for resistance to leaf blight in a set of tetraploid potato clones. Our study was based on the genotypic and phenotypic data of 184 tetraploid potato cultivars as well as computer simulations. The number of significant (a * ¼ 1 Â 10 À6 ) epistatic interactions ranged for the three examined traits from 3 to 32. Our findings suggested that the combined mixedmodel and analysis of variance approach leads in comparison with the classical mixed-model approach not to an increased rate of false-positives. The results of the computer simulations suggested that, if molecular markers are available that are in high LD (D 0 40.9) with the trait-coding loci, the statistical power to detect epistatic interactions, which explain 5-10% of the phenotypic variance, was of a size that seems promising for their detection.

show abstract

Association mapping reveals gene action and interactions in the determination of flowering time in barley

Cited by 95 publications

References 76 publications

Photoperiod-H1 (Ppd-H1) Controls Leaf Size

Photoperiod-H1 (Ppd-H1) Controls Leaf Size

Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley ( Hordeum vulgare ) to short growing seasons

Detection of epistatic interactions in association mapping populations: an example from tetraploid potato

Contact Info

Product

Resources

About