Barley EST Markers Enhance Map Saturation and QTL Mapping in Diploid Wheat

Hori, Kiyosumi; Takehara, Shota; Nankaku, Nami; Sato, Kazuhiro; Sasakuma, Tetsuo; Takeda, Kazuyoshi

doi:10.1270/jsbbs.57.39

Cited by 27 publications

(24 citation statements)

References 22 publications

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“…Fine mapping and identification of the candidate genes The QTL for heading time was previously found between the k06868 and JIP markers (Hori et al, 2007). The LOD score at the peak of the QTL was 21.5 and the explained phenotypic variance was 68.2%.…”

Section: Resultsmentioning

confidence: 97%

“…The polymorphic markers were integrated into the linkage map (Shindo et al, 2002;Hori et al, 2007). The genetic map was constructed using MAP-MAKER/EXP version 3.0b software (Lander et al, 1987), and map distances were calculated using the Kosambi function (Kosambi, 1944).…”

Section: Methodsmentioning

confidence: 99%

“…The genetic map was constructed using MAP-MAKER/EXP version 3.0b software (Lander et al, 1987), and map distances were calculated using the Kosambi function (Kosambi, 1944). The genotype and heading time data of RILWA1 were published by Hori et al (2007).…”

Section: Methodsmentioning

confidence: 99%

“…QTL analysis using recombinant inbred lines (RILs) derived from a cross between the early mutant and T. boeoticum Boiss. indicated a single major QTL for early heading in field conditions that mapped to the telomeric region of the long arm of chromosome 3A (Shindo et al, 2002;Hori et al, 2007;Gawroński and Schnurbusch, 2012). The QTL for narrow-sense earliness was also mapped to this region by QTL analysis using the same RILs (Shindo et al, 2002).…”

Section: Introductionmentioning

confidence: 99%

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A wheat homologue of <i>PHYTOCLOCK 1</i> is a candidate gene conferring the early heading phenotype to einkorn wheat

et al. 2012

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An X-ray mutant showing an early flowering phenotype has been identified in einkorn wheat (Triticum monococcum L.), for which a major QTL for heading time was previously mapped in the telomeric region on the long arm of chromosome 3A. Recent advances in Triticeae genomics revealed that the gene order in this region is highly conserved between wheat and barley. Thus, we adopted a hypothetical gene order in barley, the so-called GenomeZipper, to develop DNA markers for fine mapping the target gene in wheat. We identified three genes tightly linked to the early heading phenotype. PCR analysis revealed that early-flowering is associated with the deletion of two genes in the mutant. Of the two deleted genes, one is an ortholog of the LUX ARRHYTHMO (LUX)/PHYTOCLOCK 1 (PCL1) gene found in Arabidopsis, which regulates the circadian clock and flowering time. We found distorted expression patterns of two clock genes (TOC1 and LHY) in the einkorn pcl1 deletion mutant as was reported for the Arabidopsis lux mutant. Transcript accumulation levels of photoperiod-response related genes, a photoperiod sensitivity gene (Ppd-1) and two wheat CONSTANS-like genes (WCO1 and TaHd1), were significantly higher in the einkorn wheat mutant. In addition, transcripts of the wheat florigen gene (WFT) accumulated temporally under shortday conditions in the einkorn wheat mutant. These results suggest that deletion of WPCL1 leads to abnormally higher expression of Ppd-1, resulting in the accumulation of WFT transcripts that triggers flowering even under short-day conditions. Our observations from gene mapping, gene deletions, and expression levels of flowering related genes strongly suggest that WPCL1 is the most likely candidate gene for controlling the early flowering phenotype in the einkorn wheat mutant.

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Section: Resultsmentioning

confidence: 97%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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A wheat homologue of <i>PHYTOCLOCK 1</i> is a candidate gene conferring the early heading phenotype to einkorn wheat

et al. 2012

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“…Barley can be a good genetic resource for wheat improvement because the barley genome has high similarity to wheat genomes (LindeLaursen et al, 1997;Hori et al, 2007;Mayer et al, 2011). By crossing Chinese Spring wheat and Betzes barley, Islam et al (1981) produced six wheat-barley disomic addition lines of common wheat for barley chromosomes 2H to 7H.…”

Section: Introductionmentioning

confidence: 99%

Dissection of barley chromosomes 1H and 6H by the gametocidal system

et al. 2014

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We dissected barley chromosomes 1H and 6H added to common wheat by the gametocidal system and identified structural changes of the chromosomes by fluorescence in situ hybridization and genomic in situ hybridization. We found five aberrations of chromosome 1H, all of which lacked the long arm: one small fragment with the subtelomeric HvT01 sequence, one terminal deletion, and three telocentric chromosomes of the short arm. We established 33 dissection lines carrying single aberrant 6H chromosomes, of which 15 were deletions, 16 were translocations and two were isochromosomes. We conducted PCR analysis of the aberrant barley chromosomes using 75 and 81 EST markers specific to chromosomes 1H and 6H, respectively. This enabled us to construct a cytological map of chromosome 6H and to compare it to the previously reported genetic map and also to the physical map, which were released by the International Barley Genome Sequencing Consortium. The marker orders on the three maps were largely in agreement. The cytological map had better resolution in the proximal region of chromosome 6H than the corresponding genetic map. We discuss some of the discrepancies in marker order between the three maps that might be due to intraspecific polymorphism and gene duplication, as well as to technical problems inherent in the physical mapping process.

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