A roadmap for gene functional characterisation in crops with large genomes: Lessons from polyploid wheat

scientific article published on 24 March 2020

A roadmap for gene functional characterisation in crops with large genomes: Lessons from polyploid wheat is …
instance of (P31):
scholarly articleQ13442814
review articleQ7318358

External links are
P356DOI10.7554/ELIFE.55646
P932PMC publication ID7093151
P698PubMed publication ID32208137

P50authorPhilippa BorrillQ21264529
Sophie A HarringtonQ60369312
Carolina Paola SansaloniQ60962663
James CockramQ83201774
Clémence MarchalQ89144394
Sadiye HaytaQ90621745
Keywan Hassani-PakQ47195048
Luigi CattivelliQ56953743
Jemima BrintonQ57027883
Brande WulffQ57082716
Nikolai M AdamskiQ57528655
Luzie WingenQ58338595
Wendy HarwoodQ58506133
Ricardo Ramirez-GonzalezQ38155165
Kostya KanyukaQ39065962
Bruno Contreras-MoreiraQ42562046
Cristobal UauyQ46744336
P2093author name stringJulie King
Alison R Bentley
Ben Trevaskis
William D Bovill
Curtis J Pozniak
Brett Ford
Guy Naamati
Lee T Hickey
Sreya Ghosh
Marco Maccaferrri
P2860cites workAnalysis of the bread wheat genome using whole-genome shotgun sequencingQ22122152
EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebratesQ24644266
The Plant Heat Stress Transcription Factors (HSFs): Structure, Regulation, and Function in Response to Abiotic StressesQ26767478
Barley stripe mosaic virus-mediated tools for investigating gene function in cereal plants and their pathogens: virus-induced gene silencing, host-mediated gene silencing, and virus-mediated overexpression of heterologous proteinQ26827430
Developing integrated crop knowledge networks to advance candidate gene discoveryQ28586227
SIFT: Predicting amino acid changes that affect protein functionQ29547211
Systematic localization of common disease-associated variation in regulatory DNAQ29614895
expVIP: a Customizable RNA-seq Data Analysis and Visualization Platform.Q30488940
CerealsDB 3.0: expansion of resources and data integrationQ30489502
Virus induced gene silencing (VIGS) for functional analysis of wheat genes involved in Zymoseptoria tritici susceptibility and resistanceQ30658480
Genomics as the key to unlocking the polyploid potential of wheatQ30976585
The Triticeae Toolbox: Combining Phenotype and Genotype Data to Advance Small-Grains BreedingQ31145418
Wheat Landrace Genome DiversityQ31163248
An "Electronic Fluorescent Pictograph" browser for exploring and analyzing large-scale biological data setsQ33293530
Generation of marker-free transgenic hexaploid wheat via an Agrobacterium-mediated co-transformation strategy in commercial Chinese wheat varietiesQ33586038
An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocationsQ33622625
Inferring regulatory networks from expression data using tree-based methodsQ33711877
Transcript-specific, single-nucleotide polymorphism discovery and linkage analysis in hexaploid bread wheat (Triticum aestivum L.).Q33917352
Establishing the A. E. Watkins landrace cultivar collection as a resource for systematic gene discovery in bread wheatQ33947673
An eight-parent multiparent advanced generation inter-cross population for winter-sown wheat: creation, properties, and validation.Q34213380
Virus-induced gene-silencing in wheat spikes and grains and its application in functional analysis of HMW-GS-encoding genesQ34375632
Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew.Q34429769
Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism arrayQ34693524
Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ).Q34984020
Triticeae resources in Ensembl PlantsQ34994742
Sequence-based analysis of translocations and inversions in bread wheat (Triticum aestivum L.).Q35048343
A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genomeQ35216239
Transcriptomic analysis of wheat near-isogenic lines identifies PM19-A1 and A2 as candidates for a major dormancy QTL.Q35645592
The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transitionQ35819450
WheatExp: an RNA-seq expression database for polyploid wheat.Q35878612
DHPLC technology for high-throughput detection of mutations in a durum wheat TILLING populationQ35925552
A large-scale pedigree resource of wheat reveals evidence for adaptation and selection by breedersQ64091673
Origin of wheat B-genome chromosomes inferred from RNA sequencing analysis of leaf transcripts from section Sitopsis species of AegilopsQ64233293
GrainGenes: centralized small grain resources and digital platform for geneticists and breeders.Q64904111
Genetic Transformation of Wheat Mediated by Agrobacterium tumefaciensQ74770868
Fluorescence in situ hybridization to localize transgenes in plant chromosomesQ80450387
The analysis of QTL by simultaneous use of the full linkage mapQ81477527
Arabidopsis HsfB1 and HsfB2b act as repressors of the expression of heat-inducible Hsfs but positively regulate the acquired thermotoleranceQ84932497
Structural evolution of wheat chromosomes 4A, 5A, and 7B and its impact on recombinationQ86608034
Genetic transformation of wheat via Agrobacterium-mediated DNA deliveryQ86763765
TEOSINTE BRANCHED1 Regulates Inflorescence Architecture and Development in Bread Wheat (Triticum aestivum)Q87789566
Genetic Mapping Populations for Conducting High-Resolution Trait Mapping in PlantsQ87849921
Enabling reusability of plant phenomic datasets with MIAPPE 1.1.Q90323183
Blurring the boundaries between cereal crops and model plantsQ90393404
Ensembl Genomes 2020-enabling non-vertebrate genomic researchQ90622073
Adaptive selection of founder segments and epistatic control of plant height in the MAGIC winter wheat population WM-800Q90667346
An efficient and reproducible Agrobacterium-mediated transformation method for hexaploid wheat (Triticum aestivum L.).Q91046435
Resistance gene cloning from a wild crop relative by sequence capture and association geneticsQ91341451
Exome sequencing highlights the role of wild-relative introgression in shaping the adaptive landscape of the wheat genomeQ91677345
Tracing the ancestry of modern bread wheatsQ91677361
The bread wheat epigenomic map reveals distinct chromatin architectural and evolutionary features of functional genetic elementsQ91895462
RNA-seq, de novo transcriptome assembly and flavonoid gene analysis in 13 wild and cultivated berry fruit species with high content of phenolicsQ92127886
Efficient TALEN-mediated gene editing in wheatQ92270918
Eight high-quality genomes reveal pan-genome architecture and ecotype differentiation of Brassica napusQ92610383
Durum wheat genome highlights past domestication signatures and future improvement targetsQ92955794
Rapid identification of homozygosity and site of wild relative introgressions in wheat through chromosome-specific KASP genotyping assaysQ92983619
Speed breeding in growth chambers and glasshouses for crop breeding and model plant researchQ93184588
Genome sequence of the progenitor of the wheat D genome Aegilops tauschiiQ46752390
Engineering Quantitative Trait Variation for Crop Improvement by Genome EditingQ47665981
Speed breeding is a powerful tool to accelerate crop research and breedingQ47756683
Ubiquitin-related genes are differentially expressed in isogenic lines contrasting for pericarp cell size and grain weight in hexaploid wheatQ48164547
A multiparent advanced generation inter-cross population for genetic analysis in wheat.Q49179085
Introgression of Aegilops speltoides segments in Triticum aestivum and the effect of the gametocidal genes.Q50027553
Genome editing in rice and wheat using the CRISPR/Cas system.Q50633917
A mosaic monoploid reference sequence for the highly complex genome of sugarcane.Q55509911
Shifting the limits in wheat research and breeding using a fully annotated reference genomeQ56342182
TILLING mutants of durum wheat result in a high amylose phenotype and provide information on alternative splicing mechanismsQ56970667
Efficient generation of stable, heritable gene edits in wheat using CRISPR/Cas9Q57034515
The transcriptional landscape of polyploid wheatQ57696061
Applying the latest advances in genomics and phenomics for trait discovery in polyploid wheatQ58587911
Detection of Introgressions in Wheat and Development of a Panel of Interspecific Introgression LinesQ58694826
Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic dataQ58771930
Hidden variation in polyploid wheat drives local adaptationQ58776567
Genome sequence of the progenitor of wheat A subgenome Triticum urartuQ59055532
DNA methylation dynamics during the interaction of wheat progenitor Aegilops tauschii with the obligate biotrophic fungus Blumeria graminis f. sp. triticiQ59351898
Usefulness of a Multiparent Advanced Generation Intercross Population With a Greatly Reduced Mating Design for Genetic Studies in Winter WheatQ60046144
A NAC Gene regulating senescence improves grain protein, zinc, and iron content in wheatQ36533466
Ensembl comparative genomics resourcesQ36599707
PolyMarker: A fast polyploid primer design pipeline.Q36614042
A splice acceptor site mutation in TaGW2-A1 increases thousand grain weight in tetraploid and hexaploid wheat through wider and longer grainsQ36908336
RNA interference for wheat functional gene analysisQ36977719
Open chromatin reveals the functional maize genomeQ36978218
Efficient and transgene-free genome editing in wheat through transient expression of CRISPR/Cas9 DNA or RNAQ37222895
Efficient DNA-free genome editing of bread wheat using CRISPR/Cas9 ribonucleoprotein complexesQ37598495
A step change in the transfer of interspecific variation into wheat from Amblyopyrum muticumQ37601538
Uncovering hidden variation in polyploid wheatQ37640382
Characterization of a Wheat Breeders' Array suitable for high-throughput SNP genotyping of global accessions of hexaploid bread wheat (Triticum aestivum).Q37652124
Vacuum and Co-cultivation Agroinfiltration of (Germinated) Seeds Results in Tobacco Rattle Virus (TRV) Mediated Whole-Plant Virus-Induced Gene Silencing (VIGS) in Wheat and MaizeQ37714411
Transgene expression systems in the Triticeae cerealsQ37782471
Evolution of polyploid triticum wheats under cultivation: the role of domestication, natural hybridization and allopolyploid speciation in their diversificationQ37840878
Advances and remaining challenges in the transformation of barley and wheatQ37964654
MAGIC populations in crops: current status and future prospects.Q38412104
Applying CRISPR/Cas for genome engineering in plants: the best is yet to comeQ38787677
High-density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool.Q38953526
A Causal Gene for Seed Dormancy on Wheat Chromosome 4A Encodes a MAP Kinase KinaseQ39943783
A highly recombined, high-density, eight-founder wheat MAGIC map reveals extensive segregation distortion and genomic locations of introgression segmentsQ40071133
Simultaneous modification of three homoeologs of TaEDR1 by genome editing enhances powdery mildew resistance in wheatQ40202294
A multiparental cross population for mapping QTL for agronomic traits in durum wheat (Triticum turgidum ssp. durum).Q40293064
Direct links between the vernalization response and other key traits of cereal cropsQ41620118
Haplotype Analysis of the Pre-harvest Sprouting Resistance Locus Phs-A1 Reveals a Causal Role of TaMKK3-A in Global GermplasmQ41684572
Development and characterization of a new TILLING population of common bread wheat (Triticum aestivum L.).Q41981058
A genome-wide survey of DNA methylation in hexaploid wheatQ42024618
Whole-genome QTL analysis for MAGIC.Q44471834
The first near-complete assembly of the hexaploid bread wheat genome, Triticum aestivum.Q46003578
Production of a high-efficiency TILLING population through polyploidizationQ46117328
The Aegilops tauschii genome reveals multiple impacts of transposons.Q46257627
Characterisation of Thinopyrum bessarabicum chromosomes through genome-wide introgressions into wheatQ46269130
Combining Traditional Mutagenesis with New High-Throughput Sequencing and Genome Editing to Reveal Hidden Variation in Polyploid Wheat.Q46303304
Wild emmer genome architecture and diversity elucidate wheat evolution and domestication.Q46339562
Morphogenic Regulators Baby boom and Wuschel Improve Monocot Transformation.Q46492898
P921main subjectpolyploidyQ213410
P577publication date2020-03-24
P1433published ineLifeQ2000008
P1476titleA roadmap for gene functional characterisation in crops with large genomes: Lessons from polyploid wheat
P478volume9

Reverse relations

cites work (P2860)
Q96302647Applying genomic resources to accelerate wheat biofortification
Q102389087Multiple wheat genomes reveal global variation in modern breeding
Q99556457Transcriptome profiling at osmotic and ionic phases of salt stress response in bread wheat uncovers trait-specific candidate genes

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