A Collinearity-Incorporating Homology Inference Strategy for Connecting Emerging Assemblies in the Triticeae Tribe as a Pilot Practice in the Plant Pangenomic Era

Molecular Plant, Год журнала: 2020, Номер 13(12), С. 1694 - 1708

Опубликована: Сен. 23, 2020

Язык: Английский

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High-Resolution Genome-wide Association Study Identifies Genomic Regions and Candidate Genes for Important Agronomic Traits in Wheat

Molecular Plant, Год журнала: 2020, Номер 13(9), С. 1311 - 1327

Опубликована: Июль 20, 2020

Язык: Английский

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

PLoS Genetics, Год журнала: 2022, Номер 18(1), С. e1009747 - e1009747

Опубликована: Янв. 13, 2022

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

Язык: Английский

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Updated guidelines for gene nomenclature in wheat

Theoretical and Applied Genetics, Год журнала: 2023, Номер 136(4)

Опубликована: Март 23, 2023

Abstract Key message Here, we provide an updated set of guidelines for naming genes in wheat that has been endorsed by the research community. The last decade seen a proliferation genomic resources wheat, including reference- and pan-genome assemblies with gene annotations, which new opportunities to detect, characterise, describe influence traits interest. expansion genetic information supported growth community catalysed strong interest control agronomically important traits, such as yield, pathogen resistance, grain quality, abiotic stress tolerance. To accommodate these developments, present nomenclature wheat. These can be used loci identified based on morphological or phenotypic features name sequence information, similarity characterised other species biochemical properties encoded protein. flexible system is not overly prescriptive but provides structure common framework may extended related cereal species. We propose henceforth facilitate integration data from independent studies allow broader more efficient use text mining approaches, will ultimately help further accelerate breeding.

Язык: Английский

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Genomics of Evolutionary Novelty in Hybrids and Polyploids

Frontiers in Genetics, Год журнала: 2020, Номер 11

Опубликована: Июль 28, 2020

It has long been recognized that hybridization and polyploidy are prominent processes in plant evolution. Although classically as significant speciation adaptation, recognition of the importance interspecific gene flow dramatically increased during genomics era, concomitant with an unending flood empirical examples, or without genome doubling. Interspecific is thus increasingly thought to lead evolutionary innovation diversification, via adaptive introgression, homoploid hybrid allopolyploid speciation. Less well understood, however, suite genetic genomic mechanisms set motion by merger differentiated genomes, temporal scale over which recombinational complexity mediated might be expressed exposed natural selection. We focus on these issues here, considering types molecular saltational event between two diverged species, either doubling, how various can contribute novel phenotypes. Genetic include infusion new alleles genesis structural variation including translocations inversions, homoeologous exchanges, transposable element mobilization insertional effects, presence-absence copy number variation. Polyploidy generates massive transcriptomic regulatory alteration, presumably disrupted stoichiometries factors, small RNAs other interactions cascade from single-gene expression change up through entire networks transformed modules. highlight both combinatorial possibilities range scales such generated, selection drift.

Язык: Английский

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Interactions between SQUAMOSA and SHORT VEGETATIVE PHASE MADS-box proteins regulate meristem transitions during wheat spike development

The Plant Cell, Год журнала: 2021, Номер 33(12), С. 3621 - 3644

Опубликована: Окт. 1, 2021

Abstract Inflorescence architecture is an important determinant of crop productivity. The number spikelets produced by the wheat inflorescence meristem (IM) before its transition to a terminal spikelet (TS) influences maximum grains per spike. Wheat MADS-box genes VERNALIZATION 1 (VRN1) and FRUITFULL 2 (FUL2) (in SQUAMOSA-clade) are essential promote from IM TS for development. Here we show that SQUAMOSA contribute identity repressing VEGETATIVE TO REPRODUCTIVE TRANSITION (VRT2), SHORT PHASE (SVP1), SVP3 in SVP clade. Constitutive expression VRT2 resulted leafy glumes lemmas, reversion spikes, downregulation involved floret development, whereas vrt2 mutant reduced vegetative characteristics squamosa mutants. Interestingly, svp1 showed similar phenotypes mutants regarding heading time, plant height, spike, but it exhibited unusual axillary inflorescences elongating stem. We propose SQUAMOSA–SVP interactions heading, formation TS, stem elongation during early reproductive phase, then necessary normal floral Manipulating can engineering spike architectures with improved

Язык: Английский

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R2R3-MYB transcription factor family in tea plant (Camellia sinensis): Genome-wide characterization, phylogeny, chromosome location, structure and expression patterns

Genomics, Год журнала: 2021, Номер 113(3), С. 1565 - 1578

Опубликована: Апрель 2, 2021

Язык: Английский

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The wheat AGL6‐like MADS‐box gene is a master regulator for floral organ identity and a target for spikelet meristem development manipulation

Plant Biotechnology Journal, Год журнала: 2021, Номер 20(1), С. 75 - 88

Опубликована: Сен. 6, 2021

Summary The AGAMOUS‐LIKE6 ( AGL6 )‐like genes are ancient MADS‐box and functionally studied in a few model plants. knowledge of these wheat remains limited. Here, by studying ‘double homoeolog mutant’ the gene tetraploid wheat, we showed that was required for development all four whorls floral organs with dosage‐dependent effect on floret fertility. Yeast two‐hybrid analyses detected interactions classes proteins ABCDE organ development. found to interact several additional proteins, including G protein β γ (DEP1) subunits. Analysis DEP1‐B mutant significant reduction spikelet number per spike while overexpression common increased hence grain spike. RNA‐seq analysis identified regulation meristem activity AGL6, such as FUL2 TaMADS55 . Our work therefore extensively updated proposed an alternative approach improve yield manipulating gene.

Язык: Английский

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Deciphering the Transcriptional Regulatory Network Governing Starch and Storage Protein Biosynthesis in Wheat for Breeding Improvement

Advanced Science, Год журнала: 2024, Номер 11(33)

Опубликована: Июнь 28, 2024

Starch and seed storage protein (SSP) composition profoundly impact wheat grain yield quality. To unveil regulatory mechanisms governing their biosynthesis, transcriptome, epigenome profiling is conducted across key endosperm developmental stages, revealing that chromatin accessibility, H3K27ac, H3K27me3 collectively regulate SSP starch genes with varying impact. Population transcriptome phenotype analyses highlight accessible promoter regions' crucial role as a genetic variation resource, influencing quality in core collection of accessions. Integration time-serial RNA-seq ATAC-seq enables the construction hierarchical transcriptional network identifying 42 high-confidence novel candidates. These candidates exhibit overlap regions associated size traits, functional significance validated through expression-phenotype association analysis among accessions loss-of-function mutants. Functional abscisic acid insensitive 3-A1 (TaABI3-A1) genome editing knock-out lines demonstrates its promoting accumulation while repressing biosynthesis regulation. Excellent TaABI3-A1

Язык: Английский

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MADS1-regulated lemma and awn development benefits barley yield

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Янв. 5, 2024

Abstract Floral organ shape and size in cereal crops can affect grain yield, so genes that regulate their development are promising breeding targets. The lemma, which protects inner floral organs, physically constrain growth; while the awn, a needle-like extension of creates photosynthate to developing grain. Although several modules controlling awn/lemma growth rice have been characterized, these processes, relationships between them, not well understood for barley wheat. Here, we demonstrate E-class gene HvMADS1 positively regulates awn length lemma width, affecting weight. Cytological data indicates promotes by promoting cell proliferation, multi-omics reveals target associated with cycle, phytohormone signaling, developmental processes. We define two potential targets regulation, HvSHI HvDL , whose knockout mutants mimic and/or phenotypes mads1 mutants. Additionally, interacts APETALA2 (A-class) synergistically activate downstream barley. Notably, find MADS1 function remains conserved wheat, proliferation increase length. These findings extend our understanding provide insights Triticeae crop improvement strategies.

Язык: Английский

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