scholarly journals WAPO-A1 is the causal gene of the 7AL QTL for spikelet number per spike in wheat

PLoS Genetics ◽  
2022 ◽  
Vol 18 (1) ◽  
pp. e1009747
Author(s):  
Saarah Kuzay ◽  
Huiqiong Lin ◽  
Chengxia Li ◽  
Shisheng Chen ◽  
Daniel P. Woods ◽  
...  
Keyword(s):  
Grain Yield ◽  
Apical Region ◽  
Genome Wide Association Studies ◽  
Causal Gene ◽  
Spikelet Number ◽  
Wheat Varieties ◽  
Grain Number Per Spike ◽  
A Genome ◽  
Wide Range ◽  
Spikelet Number Per Spike

Improving our understanding of the genes regulating grain yield can contribute to the development of more productive wheat varieties. Previously, a highly significant QTL affecting spikelet number per spike (SNS), grain number per spike (GNS) and grain yield was detected on chromosome arm 7AL in multiple genome-wide association studies. Using a high-resolution genetic map, we established that the A-genome homeolog of WHEAT ORTHOLOG OF APO1 (WAPO-A1) was a leading candidate gene for this QTL. Using mutants and transgenic plants, we demonstrate in this study that WAPO-A1 is the causal gene underpinning this QTL. Loss-of-function mutants wapo-A1 and wapo-B1 showed reduced SNS in tetraploid wheat, and the effect was exacerbated in wapo1 combining both mutations. By contrast, spikes of transgenic wheat plants carrying extra copies of WAPO-A1 driven by its native promoter had higher SNS, a more compact spike apical region and a smaller terminal spikelet than the wild type. Taken together, these results indicate that WAPO1 affects SNS by regulating the timing of terminal spikelet formation. Both transgenic and wapo1 mutant plants showed a wide range of floral abnormalities, indicating additional roles of WAPO1 on wheat floral development. Previously, we found three widespread haplotypes in the QTL region (H1, H2 and H3), each associated with particular WAPO-A1 alleles. Results from this and our previous study, show that the WAPO-A1 allele in the H1 haplotype (115-bp deletion in the promoter) is expressed at significantly lower levels in the developing spikes than the alleles in the H2 and H3 haplotypes, resulting in reduced SNS. Field experiments also showed that the H2 haplotype is associated with the strongest effects in increasing SNS and GNS (H2>H3>H1). The H2 haplotype is already present in most modern common wheat varieties but is rare in durum wheat, where it might be particularly useful to improve grain yield.

scholarly journals WAPO-A1 is the causal gene of the 7AL QTL for spikelet number per spike in wheat

2021 ◽  
Author(s):  
Saarah Kuzay ◽  
Huiqiong Lin ◽  
Chengxia Li ◽  
Shisheng Chen ◽  
Daniel Woods ◽  
...  
Keyword(s):  
Grain Yield ◽  
Field Experiments ◽  
Apical Region ◽  
Genome Wide Association Studies ◽  
Causal Gene ◽  
Spikelet Number ◽  
Grain Number Per Spike ◽  
A Genome ◽  
Wide Range ◽  
Spikelet Number Per Spike

Improving our understanding of the genes regulating grain yield can contribute to the development of more productive wheat varieties. Previously, a highly significant QTL affecting spikelet number per spike (SNS), grain number per spike (GNS) and grain yield was detected on chromosome arm 7AL in multiple genome-wide association studies. Using a high?resolution genetic map, we established that the A-genome homeolog of WHEAT ORTHOLOG OF APO1 ( WAPO-A1 ) was a leading candidate gene for this QTL. Using mutants and transgenic plants, we demonstrate in this study that WAPO-A1 is the causal gene underpinning this QTL. Loss-of-function mutants wapo-A1 and wapo-B1 showed reduced SNS in tetraploid wheat, and the effect was exacerbated in wapo1 combining both mutations. By contrast, spikes of transgenic wheat plants carrying extra copies of WAPO-A1 driven by its native promoter had higher SNS, a more compact spike apical region and a smaller terminal spikelet than the wild type. Taken together, these results indicate that WAPO1 affects SNS by regulating the timing of terminal spikelet formation. Both transgenic and wapo1 mutant plants showed a wide range of floral abnormalities, indicating additional roles of WAPO1 on wheat floral development. Previously, we found three widespread haplotypes in the QTL region (H1, H2 and H3), each associated with particular WAPO-A1 alleles. Integrating results from this study and previous findings, we show that the WAPO-A1 allele in the H1 haplotype (115-bp deletion in the promoter) is expressed at significantly lower levels in the developing spikes than the alleles in the H2 and H3 haplotypes, resulting in reduced SNS. Field experiments also showed that the H2 haplotype is associated with the strongest effects in increasing SNS and GNS (H2>H3>H1). The H2 haplotype is already present in most modern common wheats, so it might be particularly useful in durum wheat where H2 is rare.

scholarly journals Identification and Validation of a Novel Locus Controlling Spikelet Number in Bread Wheat (Triticum aestivum L.)

2021 ◽  
Vol 12 ◽  
Author(s):  
Tao Li ◽  
Guangbing Deng ◽  
Yanyan Tang ◽  
Yan Su ◽  
Jinhui Wang ◽  
...  
Keyword(s):  
Grain Yield ◽  
Genetic Map ◽  
Molecular Mechanisms ◽  
Limit Of Detection ◽  
Expression Patterns ◽  
Snp Array ◽  
Phenotypic Variance ◽  
Spikelet Number ◽  
Grain Number Per Spike ◽  
Spikelet Number Per Spike

Spikelet number is an important target trait for wheat yield improvement. Thus, the identification and verification of novel quantitative trait locus (QTL)/genes controlling spikelet number are essential for dissecting the underlying molecular mechanisms and hence for improving grain yield. In the present study, we constructed a high-density genetic map for the Kechengmai1/Chuanmai42 doubled haploid (DH) population using 13,068 single-nucleotide polymorphism (SNP) markers from the Wheat 55K SNP array. A comparison between the genetic and physical maps indicated high consistence of the marker orders. Based on this genetic map, a total of 27 QTLs associated with total spikelet number per spike (TSN) and fertile spikelet number per spike (FSN) were detected on chromosomes 1B, 1D, 2B, 2D, 3D, 4A, 4D, 5A, 5B, 5D, 6A, 6B, and 7D in five environments. Among them, five QTLs on chromosome 2D, 3D, 5A, and 7D were detected in multiple environments and combined QTL analysis, explaining the phenotypic variance ranging from 3.64% to 23.28%. Particularly, QTsn/Fsn.cib-3D for TSN and FSN [phenotypic variation explained (PVE) = 5.97–23.28%, limit of detection (LOD) = 3.73–18.51] is probably a novel locus and located in a 4.5-cM interval on chromosome arm 3DL flanking by the markers AX-110914105 and AX-109429351. This QTL was further validated in other two populations with different genetic backgrounds using the closely linked Kompetitive Allele-Specific PCR (KASP) marker KASP_AX-110914105. The results indicated that QTsn/Fsn.cib-3D significantly increased the TSN (5.56–7.96%) and FSN (5.13–9.35%), which were significantly correlated with grain number per spike (GNS). We also preliminary analyzed the candidate genes within this locus by sequence similarity, spatial expression patterns, and collinearity analysis. These results provide solid foundation for future fine mapping and cloning of QTsn/Fsn.cib-3D. The developed and validated KASP markers could be utilized in molecular breeding aiming to increase the grain yield in wheat.

scholarly journals TaAPO-A1, an ortholog of rice ABERRANT PANICLE ORGANIZATION 1, is associated with total spikelet number per spike in elite European hexaploid winter wheat (Triticum aestivum L.) varieties

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Quddoos H. Muqaddasi ◽  
Jonathan Brassac ◽  
Ravi Koppolu ◽  
Jörg Plieske ◽  
Martin W. Ganal ◽  
...  
Keyword(s):  
Winter Wheat ◽  
Association Studies ◽  
Physical Region ◽  
Triticum Aestivum L ◽  
Snp Markers ◽  
Genome Wide Association Studies ◽  
Terrestrial Plants ◽  
Spikelet Number ◽  
Wheat Varieties ◽  
Wide Range

Abstract We dissected the genetic basis of total spikelet number (TSN) along with other traits, viz. spike length (SL) and flowering time (FT) in a panel of 518 elite European winter wheat varieties. Genome-wide association studies (GWAS) based on 39,908 SNP markers revealed highly significant quantitative trait loci (QTL) for TSN on chromosomes 2D, 7A, and 7B, for SL on 5A, and FT on 2D, with 2D-QTL being the functional marker for the gene Ppd-D1. The physical region of the 7A-QTL for TSN revealed the presence of a wheat ortholog (TaAPO-A1) to APO1–a rice gene that positively controls the spikelet number on the panicles. Interspecific analyses of the TaAPO-A1 orthologs showed that it is a highly conserved gene important for floral development and present in a wide range of terrestrial plants. Intraspecific studies of the TaAPO-A1 across wheat genotypes revealed a polymorphism in the conserved F-box domain, defining two haplotypes. A KASP marker developed on the polymorphic site showed a highly significant association of TaAPO-A1 with TSN, explaining 23.2% of the total genotypic variance. Also, the TaAPO-A1 alleles showed weak but significant differences for SL and grain yield. Our results demonstrate the importance of wheat sequence resources to identify candidate genes for important traits based on genetic analyses.

scholarly journals TaAPO-A1, an ortholog of riceABERRANT PANICLE ORGANIZATION 1, is associated with total spikelet number per spike in elite hexaploid winter wheat varieties (Triticum aestivumL.)

2019 ◽  
Author(s):  
Quddoos H. Muqaddasi ◽  
Jonathan Brassac ◽  
Ravi Koppolu ◽  
Jörg Plieske ◽  
Martin W. Ganal ◽  
...  
Keyword(s):  
Winter Wheat ◽  
Association Studies ◽  
Physical Region ◽  
Snp Markers ◽  
Genome Wide Association Studies ◽  
Terrestrial Plants ◽  
Spikelet Number ◽  
Wheat Varieties ◽  
Wide Range ◽  
Winter Wheat Varieties

AbstractWe dissected the genetic basis of total spikelet number (TSN) along with other traits, namely spike length (SL) and flowering time (FT) in a panel of 518 elite European winter wheat varieties. Genome-wide association studies based on 39,908 SNP markers revealed highly significant quantitative trait loci (QTL) for TSN on chromosomes 2D, 7A, and 7B, for SL on 5A, and FT on 2D, with 2D-QTL being the functional marker for the genePpd-D1. The physical region of the 7A-QTL for TSN revealed the presence of an ortholog toAPO1– a rice gene that positively controls spikelet number on panicles. Interspecific analyses ofTaAPO-A1orthologs showed that it is a highly conserved gene important for floral development, and present in a wide range of terrestrial plants. Intraspecific studies of the wheat orthologTaAPO-A1across wheat genotypes revealed a polymorphism in the highly conserved F-box domain, defining two haplotypes. A KASP maker developed on the polymorphic site showed a highly significant association ofTaAPO-A1with TSN, explaining 23.2% of the genotypic variance. Also, theTaAPO-A1alleles showed weak but significant differences for SL and grain yield. Our results demonstrate the importance of wheat sequence resources to identify candidate genes for important traits based on genetic analyses.

scholarly journals Linkage mapping identifies a non-synonymous mutation in FLOWERING LOCUS T (FT-B1) increasing spikelet number per spike

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Jonathan Brassac ◽  
Quddoos H. Muqaddasi ◽  
Jörg Plieske ◽  
Martin W. Ganal ◽  
Marion S. Röder
Keyword(s):  
Flowering Time ◽  
Aspartic Acid ◽  
Synonymous Substitution ◽  
Minor Effect ◽  
Phenotypic Variance ◽  
Spikelet Number ◽  
Wheat Varieties ◽  
Trait Locus ◽  
A Minor ◽  
Spikelet Number Per Spike

AbstractTotal spikelet number per spike (TSN) is a major component of spike architecture in wheat (Triticumaestivum L.). A major and consistent quantitative trait locus (QTL) was discovered for TSN in a doubled haploid spring wheat population grown in the field over 4 years. The QTL on chromosome 7B explained up to 20.5% of phenotypic variance. In its physical interval (7B: 6.37–21.67 Mb), the gene FLOWERINGLOCUST (FT-B1) emerged as candidate for the observed effect. In one of the parental lines, FT-B1 carried a non-synonymous substitution on position 19 of the coding sequence. This mutation modifying an aspartic acid (D) into a histidine (H) occurred in a highly conserved position. The mutation was observed with a frequency of ca. 68% in a set of 135 hexaploid wheat varieties and landraces, while it was not found in other plant species. FT-B1 only showed a minor effect on heading and flowering time (FT) which were dominated by a major QTL on chromosome 5A caused by segregation of the vernalization gene VRN-A1. Individuals carrying the FT-B1 allele with amino acid histidine had, on average, a higher number of spikelets (15.1) than individuals with the aspartic acid allele (14.3) independent of their VRN-A1 allele. We show that the effect of TSN is not mainly related to flowering time; however, the duration of pre-anthesis phases may play a major role.

scholarly journals Identification and characterization of a natural polymorphism in FT-A2 associated with increased number of grains per spike in wheat

2021 ◽  
Author(s):  
Priscilla Glenn ◽  
Junli Zhang ◽  
Gina Brown-Guedira ◽  
Noah DeWitt ◽  
Jason P. Cook ◽  
...  
Keyword(s):  
Grain Yield ◽  
Durum Wheat ◽  
Tetraploid Wheat ◽  
Low Frequency ◽  
Yield Component ◽  
Loss Of Function ◽  
Grain Number ◽  
Wheat Varieties ◽  
Positive Effects ◽  
Grain Number Per Spike

Abstract Key message We discovered a natural FT-A2 allele that increases grain number per spike in both pasta and bread wheat with limited effect on heading time. Abstract Increases in wheat grain yield are necessary to meet future global food demands. A previous study showed that loss-of-function mutations in FLOWERING LOCUS T2 (FT2) increase spikelet number per spike (SNS), an important grain yield component. However, these mutations were also associated with reduced fertility, offsetting the beneficial effect of the increases in SNS on grain number. Here, we report a natural mutation resulting in an aspartic acid to alanine change at position 10 (D10A) associated with significant increases in SNS and no negative effects on fertility. Using a high-density genetic map, we delimited the SNS candidate region to a 5.2-Mb region on chromosome 3AS including 28 genes. Among them, only FT-A2 showed a non-synonymous polymorphism (D10A) present in two different populations segregating for the SNS QTL on chromosome arm 3AS. These results, together with the known effect of the ft-A2 mutations on SNS, suggest that variation in FT-A2 is the most likely cause of the observed differences in SNS. We validated the positive effects of the A10 allele on SNS, grain number, and grain yield per spike in near-isogenic tetraploid wheat lines and in an hexaploid winter wheat population. The A10 allele is present at very low frequency in durum wheat and at much higher frequency in hexaploid wheat, particularly in winter and fall-planted spring varieties. These results suggest that the FT-A2 A10 allele may be particularly useful for improving grain yield in durum wheat and fall-planted common wheat varieties.

scholarly journals Effect of environmental and genetic factors on the correlation and stability of grain yield components in wheat

Genetika ◽  
2011 ◽  
Vol 43 (1) ◽  
pp. 141-152 ◽  
Author(s):  
Nikola Hristov ◽  
Novica Mladenov ◽  
Ankica Kondic-Spika ◽  
Ana Marjanovic-Jeromela ◽  
Bojan Jockovic ◽  
...  
Keyword(s):  
Grain Yield ◽  
Yield Components ◽  
High Performance ◽  
Grain Number ◽  
Stability Parameters ◽  
Wheat Varieties ◽  
Grain Number Per Spike ◽  
Analysis Of Stability ◽  
Complex Relationships ◽  
The Stability

More effective breeding and development of new wheat genotypes depend on an intricate analysis of the complex relationships among many different traits. The objective of this paper was to determine the interrelationship, direct and indirect effects, and stability of different yield components in wheat. Forty divergent genotypes were analyzed in a three- year study (2005-2007). Highly significant correlations were found between grain yield per plant and all the other traits analyzed except spike length, with the only negative correlation being that with plant height. Path analysis revealed highly significant direct effects of grain number per spike, grain mass per spike and 1000 grain weight on grain yield per plant. Analysis of stability parameters showed that the stability of grain yield per plant depended for the most part on the stability of grain number per spike, grain mass per spike and harvest index. Cluster analysis identified genotypes with a high performance for grain yield per plant and good stability parameters, indicating the possibility of developing wheat varieties with a high potential and high stability for a particular trait.

Wheat Response to Simulated Glyphosate Drift

2007 ◽  
Vol 21 (4) ◽  
pp. 1010-1015 ◽  
Author(s):  
Christopher A. Roider ◽  
James L. Griffin ◽  
Stephen A. Harrison ◽  
Curtis A. Jones
Keyword(s):  
Seed Weight ◽  
Wheat Yield ◽  
Early Flowering ◽  
Growth Stages ◽  
Spikelet Number ◽  
Spike Density ◽  
Wheat Varieties ◽  
Boot Stage ◽  
Glyphosate Drift ◽  
Spikelet Number Per Spike

Glyphosate at simulated drift rates representing 12.5, 6.3, and 1.6% of the usage rate of 1,120 g ai/ha (140, 70, and 18 g/ha, respectively) was applied to wheat at first node, boot stage, or at early flowering. At 14 d after treatment (DAT) wheat injury, expressed as bleaching of leaf foliage and growth inhibition, was 40 to 55% for 70 g/ha applied at first node and for 140 g/ha applied at all growth stages. Wheat height 28 DAT was reduced 47% with glyphosate applied at 140 g/ha at first node and was reduced around 26% for 70 g/ha applied at first node and 140 g/ha applied at boot stage. Wheat height was not reduced with glyphosate at 18 g/ha applied at first node or boot stage and with all rates applied at early flowering. Wheat yield was reduced 72% when glyphosate was applied at 140 g/ha at first node, 45% when applied at boot stage, and 54% when applied at early flowering. For 70 g/ha, wheat yield was reduced 25 to 30% for the three application timings. Wheat yield was not reduced for 18 g/ha glyphosate. In another study, six wheat varieties responded the same to glyphosate applied at 140 and 70 g/ha. Wheat height 28 DAT was reduced an average of 34% for 140 g/ha glyphosate and 17% for 70 g/ha applied at first node, but height was not reduced when applied at early flowering. Yield was reduced an average of 58 and 43% for 140 and 70 g/ha applied at first node and 38 and 19% for 140 and 70 g/ha applied at early flowering. In both studies yield reductions in most cases were reflected in reduced spike density, spikelet number per spike, and seed weight.

scholarly journals Analysis of Genetic Regions Related to Field Grain Number per Spike From Chinese Wheat Founder Parent Linfen 5064

2022 ◽  
Vol 12 ◽  
Author(s):  
Ling Qiao ◽  
Hanlin Li ◽  
Jie Wang ◽  
Jiajia Zhao ◽  
Xingwei Zheng ◽  
...  
Keyword(s):  
Grass Species ◽  
Spikelet Number ◽  
Grain Number ◽  
Dh Population ◽  
Grain Number Per Spike ◽  
Sterile Spikelet ◽  
Chinese Wheat ◽  
Founder Parent ◽  
Spikelet Number Per Spike

Wheat founder parents have been important in the development of new wheat cultivars. Understanding the effects of specific genome regions on yield-related traits in founder variety derivatives can enable more efficient use of these genetic resources through molecular breeding. In this study, the genetic regions related to field grain number per spike (GNS) from the founder parent Linfen 5064 were analyzed using a doubled haploid (DH) population developed from a cross between Linfen 5064 and Nongda 3338. Quantitative trait loci (QTL) for five spike-related traits over nine experimental locations/years were identified, namely, total spikelet number per spike (TSS), base sterile spikelet number per spike (BSSS), top sterile spikelet number per spike (TSSS), fertile spikelet number per spike (FSS), and GNS. A total of 13 stable QTL explaining 3.91–19.51% of the phenotypic variation were found. The effect of six of these QTL, Qtss.saw-2B.1, Qtss.saw-2B.2, Qtss.saw-3B, Qfss.saw-2B.2, Qbsss.saw-5A.1, and Qgns.saw-1A, were verified by another DH population (Linfen 5064/Jinmai 47), which showed extreme significance (P < 0.05) in more than three environments. No homologs of reported grain number-related from grass species were found in the physical regions of Qtss.saw-2B.1 and Qtss.saw-3B, that indicating both of them are novel QTL, or possess novel-related genes. The positive alleles of Qtss.saw-2B.2 from Linfen 5064 have the larger effect on TSS (3.30%, 0.62) and have 66.89% in Chinese cultivars under long-term artificial selection. This study revealed three key regions for GNS in Linfen 5064 and provides insights into molecular marker-assisted breeding.

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