Large-scale integration of meta-QTL and genome-wide association study discovers the genomic regions and candidate genes for yield and yield-related traits in bread wheat

Theoretical and Applied Genetics, Journal Year: 2021, Volume and Issue: 134(9), P. 3083 - 3109

Published: June 17, 2021

Language: Английский

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Allelic variation of TaWD40-4B.1 contributes to drought tolerance by modulating catalase activity in wheat

Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)

Published: March 2, 2023

Abstract Drought drastically restricts wheat production, so to dissect allelic variations of drought tolerant genes without imposing trade-offs between tolerance and yield is essential cope with the circumstance. Here, we identify a WD40 protein encoding gene TaWD40-4B.1 via genome-wide association study. The full-length allele C but not truncated T possessing nonsense nucleotide variation enhances grain under drought. interacts canonical catalases, promotes their oligomerization activities, reduces H 2 O levels knock-down catalase erases role in tolerance. proportion accessions negatively correlative annual rainfall, suggesting this may be selected during breeding. introgression cultivar harboring . Therefore, could useful for molecular breeding wheat.

Language: Английский

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Meta-QTLs, ortho-MQTLs, and candidate genes for thermotolerance in wheat (Triticum aestivum L.)

Molecular Breeding, Journal Year: 2021, Volume and Issue: 41(11)

Published: Nov. 1, 2021

Language: Английский

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Major Genomic Regions for Wheat Grain Weight as Revealed by QTL Linkage Mapping and Meta-Analysis

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 13

Published: Feb. 10, 2022

Grain weight is a key determinant for grain yield potential in wheat, which highly governed by type of quantitative genetic basis. The identification major trait locus (QTL) and functional genes are urgently required molecular improvements wheat yield. In this study, genomic regions putative candidate thousand (TGW) were revealed integrative approaches with QTL linkage mapping, meta-analysis transcriptome evaluation. Forty-five TGW QTLs detected using set recombinant inbred lines, explaining 1.76-12.87% the phenotypic variation. Of these, ten stable identified across more than four environments. Meta-QTL (MQTL) analysis performed on 394 initial available from previous studies present where 274 loci finally refined into 67 MQTLs. average confidence interval these MQTLs was 3.73-fold less that QTLs. A total 134 mined within MQTL combined transcriptomic omics data. Some similar to those reported early development formation further discussed. This finding will provide better understanding determinants be useful marker-assisted selection high breeding.

Language: Английский

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Meta-QTL analysis and candidate genes for quality traits, mineral content, and abiotic-related traits in wild emmer

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: March 14, 2024

Wild emmer ( Triticum turgidum ssp. dicoccoides ) genotypes were studied for their high-nutritional value and good tolerance to various types of stress; this reason, several QTL (quantitative trait loci) studies have been conducted find favorable alleles be introgressed into modern wheat cultivars. Given the complexity nature, interaction with environment, other QTLs, a small number used in breeding programs. Meta-QTL (MQTL) analysis helps simplify existing information, identifying stable genomic regions possible candidate genes further allele introgression. The study aimed identify across different environmental conditions genetic backgrounds using information past 14 years traits wild based upon 17 independent studies. A total 41 classified as quality (16), mineral composition (11), abiotic-related (13), disease-related (1). revealed 852 QTLs distributed all chromosomes emmer, an average 61 per chromosome. Quality had highest (35%), followed by content (33%), (28%), (4%). Grain protein (GPC) thousand kernel weight (TKW) associated most detected. 43 MQTLs identified, simplifying reducing confidence interval (CI) from 22.6 4.78 cM. These multiple categories. Nine identified MQTLs, potentially contributing such quality, content, abiotic stress resistance. play essential roles plant processes, carbohydrate metabolism, nitrogen assimilation, cell wall biogenesis, extensibility. Overall, underscores importance considering MQTL programs, it identifies traits, offering potential solutions improving varieties under diverse conditions.

Language: Английский

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Understanding complex genetic architecture of rice grain weight through QTL-meta analysis and candidate gene identification

Scientific Reports, Journal Year: 2022, Volume and Issue: 12(1)

Published: Aug. 16, 2022

Abstract Quantitative trait loci (QTL) for rice grain weight identified using bi-parental populations in various environments were found inconsistent and have a modest role marker assisted breeding map-based cloning programs. Thus, the identification of consistent consensus QTL region across is critical to deploy aided Using meta-analysis technique, we collated information from numerous studies done diverse find constitutive weight. 114 original meta-analysis, discovered three significant Meta-QTL (MQTL) on chromosome 3. According gene ontology, these MQTL 179 genes, 25 which roles developmental functions. Amino acid sequence BLAST genes indicated their orthologue conservation among core cereals with similar MQTL3.1 includes OsAPX1 , PDIL SAUR OsASN1 are involved development been play key asparagine biosynthesis metabolism, crucial source-sink regulation. Five potential candidate expression analysis early development. The retrieved 3 K genome project revealed deletion six bases coding serine alanine last exon led an interruption synthesis α-helix protein, negatively affected pathway low genotypes. Further, was validated linked RM7197 set genotypes extreme phenotypes. that our study scope MAS programs improving

Language: Английский

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Meta‐QTL analysis and in‐silico transcriptome assessment for controlling chlorophyll traits in common wheat

The Plant Genome, Journal Year: 2023, Volume and Issue: 16(1)

Published: Jan. 13, 2023

Chlorophyll is an important plant molecule for absorbing light and transferring electrons to produce energy photosynthesis, which has a significant impact on crop yield. To identify quantitative trait loci (QTL) controlling chlorophyll traits in wheat (Triticum aestivum L.), comprehensive meta-analysis of 411 original QTLs six was performed, including the evolution soil analysis development (SPAD), content index (CCI), (Chla), b (Chlb), (Chl), ratio (Chla/b), derived from 41 independent experiments conducted over past two decades. Fifty-six consensus meta-QTLs (MQTLs) were detected, unevenly distributed chromosomes 1A, 1B, 2A, 2B, 2D, 3B, 3D, 4B, 4D, 5A, 5D, 6A, 6D, 7B, 7D. The confidence interval (CI) identified MQTLs 0.18 15.07 cM, with average 5.74 3.17-times narrower than that QTLs. A total 30 aligned marker-trait associations (MTAs) reported genome-wide association studies (GWAS) wheat. Based MQTL-flanking marker information homology analyses combined RNA-seq data, 136 putative candidate genes MQTL regions, involved porphyrin metabolism, terpene biosynthesis, glyoxylate dicarboxylate secondary metabolites. results this study contribute understanding genetic basis can be used breeding high photosynthetic efficiency.

Language: Английский

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Consensus genomic regions for grain quality traits in wheat revealed by Meta‐QTL analysis and in silico transcriptome integration

The Plant Genome, Journal Year: 2023, Volume and Issue: 16(2)

Published: May 5, 2023

Abstract Grain quality traits are the key factors that determine economic value of wheat and largely influenced by genetics environment. In this study, using a meta‐analysis quantitative trait loci (QTLs) comprehensive in silico transcriptome assessment, we identified genomic regions putative candidate genes for grain protein content, gluten test weight. A total 508 original QTLs were collected from 41 articles on QTL mapping three published 2003 to 2021. When these projected onto high‐density consensus map consisting 14,548 markers, 313 resulted identification 64 MQTLs distributed across 17 21 chromosomes. Most meta‐QTLs (MQTLs) sub‐genomes B. Compared with QTLs, confidence interval (CI) was smaller, an average CI 4.47 cM, while 11.13 cM (2.49‐fold lower). The corresponding physical length MQTL ranged 0.45 239.01 Mb. Thirty‐one validated at least one genome‐wide association study. addition, five selected designated as core MQTLs. 211 quality‐related rice used identify homologs combination transcriptional omics analyses, 135 regions. findings should contribute better understanding molecular genetic mechanisms underlying improvement breeding.

Language: Английский

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Meta-QTL analysis in wheat: progress, challenges and opportunities

Theoretical and Applied Genetics, Journal Year: 2023, Volume and Issue: 136(12)

Published: Nov. 17, 2023

Language: Английский

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Integrating RTM-GWAS and meta‑QTL data revealed genomic regions and candidate genes associated with the first fruit branch node and its height in upland cotton

Theoretical and Applied Genetics, Journal Year: 2024, Volume and Issue: 137(9)

Published: Aug. 22, 2024

Language: Английский

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