Consensus genomic regions associated with multiple abiotic stress tolerance in wheat and implications for wheat breeding

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

Published: Aug. 11, 2022

In wheat, a meta-analysis was performed using previously identified QTLs associated with drought stress (DS), heat (HS), salinity (SS), water-logging (WS), pre-harvest sprouting (PHS), and aluminium (AS) which predicted total of 134 meta-QTLs (MQTLs) that involved at least 28 consistent stable MQTLs conferring tolerance to five or all six abiotic stresses under study. Seventy-six out the 132 physically anchored were also verified genome-wide association studies. Around 43% had genetic physical confidence intervals less than 1 cM 5 Mb, respectively. Consequently, 539 genes in some selected providing 6 stresses. Comparative analysis underlying four RNA-seq based transcriptomic datasets unravelled 189 differentially expressed included 11 most promising candidate common among different datasets. The promoter showed promoters these include many responsiveness cis-regulatory elements, such as ARE, MBS, TC-rich repeats, As-1 element, STRE, LTR, WRE3, WUN-motif others. Further, overlapped 34 known genes. addition, numerous ortho-MQTLs maize, rice genomes discovered. These findings could help fine mapping gene cloning, well marker-assisted breeding for multiple tolerances wheat.

Language: Английский

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Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat

BMC Genomics, Journal Year: 2023, Volume and Issue: 24(1)

Published: May 12, 2023

Yellow or stripe rust, caused by the fungus Puccinia striiformis f. sp. tritici (Pst) is an important disease of wheat that threatens production. Since developing resistant cultivars offers a viable solution for management, it essential to understand genetic basis rust resistance. In recent years, meta-QTL analysis identified QTLs has gained popularity as way dissect architecture underpinning quantitative traits, including resistance.Systematic involving 505 from 101 linkage-based interval mapping studies was conducted resistance in wheat. For this purpose, publicly available high-quality maps were used create consensus linkage map 138,574 markers. This project and conduct analysis. A total 67 meta-QTLs (MQTLs) which refined 29 high-confidence MQTLs. The confidence (CI) MQTLs ranged 0 11.68 cM with mean 1.97 cM. physical CI 24.01 Mb, ranging 0.0749 216.23 Mb per MQTL. As many 44 colocalized marker-trait associations SNP peaks associated Some also included following major genes- Yr5, Yr7, Yr16, Yr26, Yr30, Yr43, Yr44, Yr64, YrCH52, YrH52. Candidate gene mining 1,562 models. Examining these models differential expressions yielded 123 differentially expressed genes, 59 most promising CGs. We studied how genes tissues at different phases development.The study may facilitate marker-assisted breeding Information on markers flanking can be utilized genomic selection increase prediction accuracy candidate enhancing against after vivo confirmation/validation using one more methods: cloning, reverse methods, omics approaches.

Language: Английский

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Modern omics toolbox for producing combined and multifactorial abiotic stress tolerant plants

Plant Stress, Journal Year: 2023, Volume and Issue: 11, P. 100301 - 100301

Published: Nov. 21, 2023

Plants being sessile organisms, face environmental challenges and climate change scenarios, that often occur simultaneously (as dual or multifactorial) rather than as a single stress factor. Combined stresses may exert additive impacts on plant growth yields. The prime challenge to safely feed the burgeoning population, in light of issues, demands precise agriculture systems. Though traditional breeding methods have been utilised but with limited success owing time, cost, infrastructure constraints. Modern biotechnological tools, especially high-throughput omics including genomics, transcriptomics, miRNAomics, metabolomics, lipidomics beside others are advocated revolutionize science biology develop stress-smart crops. Omics databases, pipelines coupled machine learning, artificial intelligence, mathematical modelling proving highly effective not only deciphering mechanistic insights responses also enhancing stress-tolerance. This review presents current knowledge updates recent developments abiotic adaptive strategies against combined sequential stresses. Latest toolbox how they explored via genetic genomic engineering, RNA-interference, microRNAs target mimicry discussed detail. Recent deployment biotechnological/omics technologies modern practices for producing multi-abiotic tolerant crops, key questions futuristic trends discussed.

Language: Английский

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Omics: A new, promising technologies for boosting crop yield and stress resilience in African agriculture

Plant Stress, Journal Year: 2024, Volume and Issue: 11, P. 100366 - 100366

Published: Jan. 17, 2024

African agricultural systems are now in crucial need to assure food for the overgrowing population. To meet this challenges, we better way identify and modify key proteins genes involved yield potential, nutrient value, stress tolerance crops like maize, sorghum, soybeans, cassava, rice, etc. The deep understanding of metabolomics, transcriptomics, proteomics, genomics has proven be a useful tool increasing crop resilience Africa. However, there is very little information available regarding recent use omics technology increase yields This review provided advances plants molecular profiling techniques enhance our breeding strategies grown study will plant technologies inform strategies.

Language: Английский

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Overexpression of Wild Soybean Expansin Gene GsEXLB14 Enhanced the Tolerance of Transgenic Soybean Hairy Roots to Salt and Drought Stresses

Plants, Journal Year: 2024, Volume and Issue: 13(12), P. 1656 - 1656

Published: June 14, 2024

As a type of cell-wall-relaxing protein that is widely present in plants, expansins have been shown to actively participate the regulation plant growth and responses environmental stress. Wild soybeans long existed wild environment possess abundant resistance gene resources, which hold significant value for improvement cultivated soybean germplasm. In our previous study, we found expansin GsEXLB14 specifically transcribed roots, its transcription level significantly increases under salt drought To further identify function GsEXLB14, this cloned CDS sequence gene. The pattern roots stress was analyzed by qRT-PCR. Using an Agrobacterium rhizogenes-mediated genetic transformation, obtained hairy overexpressing GsEXLB14. Under 150 mM NaCl- 100 mannitol-simulated stress, relative values number, length, weight transgenic were higher than those control group. We transcriptomes wild-type normal conditions through RNA sequencing. A transcriptomic analysis showed genes encoding (EXPB family), peroxidase, H+-transporting ATPase, other upregulated (EXPB/LB family) increased roots. addition, peroxidases, calcium/calmodulin-dependent kinases, dehydration-responsive proteins significantly. results qRT-PCR also confirmed above consistent with transcriptome. differences transcript levels may be potential reason strong tolerance conclusion, can used as valuable candidate molecular breeding soybeans.

Language: Английский

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Integrated transcriptomics and metabolomics revealed the role of the flavonoid pathway in the resistance of Zanthoxylum bungeanum against leaf rust

Scientia Horticulturae, Journal Year: 2025, Volume and Issue: 341, P. 113990 - 113990

Published: Feb. 1, 2025

Language: Английский

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The members of zinc finger-homeodomain (ZF-HD) transcription factors are associated with abiotic stresses in soybean: insights from genomics and expression analysis

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: Jan. 14, 2025

Zinc finger homeodomain (ZF-HD) belongs to the plant-specific transcription factor (TF) family and is widely involved in plant growth, development stress responses. Despite their importance, a comprehensive identification analysis of ZF-HD genes soybean (Glycine max) genome possible roles under abiotic remain unexplored. In this study, 51 were identified that unevenly distributed on 17 chromosomes. All GmZF-HD contained conserved ZF-HD_dimer domain had diverse physicochemical features. Furthermore, gene structures exhibited 3 10 motifs, most them showed intronless structures. Phylogenetic categorized into eight major groups with highest closeness dicots including Brassica rapa Malus domestica. The cis-element recognized growth (10%), phytohormones (31%) stress-responsive (59%) elements. Synteny 73 segmental 1 tandem duplicated underwent purifying selection. collinearity revealed higher homology dicot species, indicating common ancestors close evolutionary relationships. A total 94 gma-miRNAs from 41 miRNA families identified, targeting 40 genes, GmZF-HD6 being targeted by 7 miRNAs, gma-miR4993 emerging as dominant family. Different TFs ERF, LBD, BBR-BPC MYB, etc., predicted all upstream regions visualized network. Expression profiling through RNA-Seq expressions different tissues seeds, roots, shoots leaves conditions. Further, qRT-PCR demonstrated tested significantly induced leaves, mainly GmZF-HD5/6/13/39 GmZF-HD45 upregulated (2.5 8.8 folds) treatments compared control, highlighting potential response stresses soybean. Overall, study reveals insights soybeans provides valuable contribution towards functional studies for improvement

Language: Английский

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Integrative Approaches to Soybean Resilience, Productivity, and Utility: A Review of Genomics, Computational Modeling, and Economic Viability

Plants, Journal Year: 2025, Volume and Issue: 14(5), P. 671 - 671

Published: Feb. 21, 2025

Soybean is a vital crop globally and key source of food, feed, biofuel. With advancements in high-throughput technologies, soybeans have become target for genetic improvement. This comprehensive review explores advances multi-omics, artificial intelligence, economic sustainability to enhance soybean resilience productivity. Genomics revolution, including marker-assisted selection (MAS), genomic (GS), genome-wide association studies (GWAS), QTL mapping, GBS, CRISPR-Cas9, metagenomics, metabolomics boosted the growth development by creating stress-resilient varieties. The intelligence (AI) machine learning approaches are improving trait discovery associated with nutritional quality, stresses, adaptation soybeans. Additionally, AI-driven technologies like IoT-based disease detection deep revolutionizing monitoring, early identification, yield prediction, prevention, precision farming. viability environmental soybean-derived biofuels critically evaluated, focusing on trade-offs policy implications. Finally, potential impact climate change productivity explored through predictive modeling adaptive strategies. Thus, this study highlights transformative multidisciplinary advancing global utility.

Language: Английский

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Genetic Engineering for Enhancing Resistance to Biotic and Abiotic Stresses in Crop Plants in Omics Era

Published: Jan. 1, 2025

Language: Английский

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Potential and prospects of novel molecular breeding techniques for yield improvment in soybean (Glycine max)

Crop and Pasture Science, Journal Year: 2025, Volume and Issue: 76(4)

Published: April 10, 2025

Soybean (Glycine max) is one of the most prominent legume crops, primarily being cultivated as a substitute for high-protein meat and source vegetable oil. has always been in demand worldwide due to its nutritional economic value. similar higher market-value products are used either directly or component various soy-based items. Conventional breeding techniques have increased soybean yields past few years but not able meet demands world’s rapidly growing population. Therefore, new genomic required overcome those challenges. The role novel molecular such speed breeding, modifications genome editing, genome-wide association studies, selection, ‘breeding by design’, RNA-directed DNA methylation summarised this review highlighting their future potential improvement. These opened up opportunities introduce greater genetic diversity into germplasm. Different yield, quality, other agricultural traits including abiotic biotic stresses improved using these research underway revolutionize field.

Language: Английский

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