The wheat stem rust resistance gene Sr43 encodes an unusual protein kinase.
Journal
Nature genetics
ISSN: 1546-1718
Titre abrégé: Nat Genet
Pays: United States
ID NLM: 9216904
Informations de publication
Date de publication:
06 2023
06 2023
Historique:
received:
03
07
2022
accepted:
18
04
2023
medline:
14
6
2023
pubmed:
23
5
2023
entrez:
22
5
2023
Statut:
ppublish
Résumé
To safeguard bread wheat against pests and diseases, breeders have introduced over 200 resistance genes into its genome, thus nearly doubling the number of designated resistance genes in the wheat gene pool
Identifiants
pubmed: 37217714
doi: 10.1038/s41588-023-01402-1
pii: 10.1038/s41588-023-01402-1
pmc: PMC10260397
doi:
Types de publication
Letter
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
921-926Subventions
Organisme : Biotechnology and Biological Sciences Research Council
ID : BBS/E/J/000PR9780
Pays : United Kingdom
Commentaires et corrections
Type : CommentIn
Informations de copyright
© 2023. The Author(s).
Références
Hafeez, A. N. et al. Creation and judicious application of a wheat resistance gene atlas. Mol. Plant 14, 1053–1070 (2021).
pubmed: 33991673
Knott, D. R. et al. Transfer to wheat and homoeology of an Agropyron elongatum chromosome carrying resistance to stem rust. Can. J. Genet. Cytol. 19, 75–79 (1977).
Kibiridge-Sebunya, I. & Knott, D. R. Transfer of stem rust resistance to wheat from an Agropyron chromosome having a gametocidal effect. Can. J. Genet. Cytol. 25, 215–221 (1983).
Savary, S. et al. The global burden of pathogens and pests on major food crops. Nat. Ecol. Evol. 3, 430–439 (2019).
pubmed: 30718852
van Esse, P. et al. Genetic modification to improve disease resistance in crops. New Phytol. 225, 70–86 (2020).
pubmed: 31135961
McDonald, B. A. & Linde, C. Pathogen population genetics, evolutionary potential and durable resistance. Annu. Rev. Phytopathol. 40, 349–379 (2002).
pubmed: 12147764
Luo, M. et al. A five-transgene cassette confers broad-spectrum resistance to a fungal rust pathogen in wheat. Nat. Biotechnol. 39, 561–566 (2021).
pubmed: 33398152
Kourelis, J. & van der Hoorn, R. A. L. Defended to the nines: 25 years of resistance gene cloning identifies nine mechanisms for R protein function. Plant Cell 30, 285–299 (2018).
pubmed: 29382771
pmcid: 5868693
Brueggeman, R. et al. The barley stem rust-resistance gene Rpg1 is a novel disease-resistance gene with homology to receptor kinases. Proc. Natl Acad. Sci. USA 99, 9328–9333 (2002).
pubmed: 12077318
pmcid: 123140
Klymiuk, V. et al. Cloning of the wheat Yr15 resistance gene sheds light on the plant tandem kinase-pseudokinase family. Nat. Commun. 9, 3735 (2018).
pubmed: 30282993
pmcid: 6170490
Chen, S. et al. Wheat gene Sr60 encodes a protein with two putative kinase domains that confers resistance to stem rust. New Phytol. 225, 948–959 (2020).
pubmed: 31487050
Yu, G. et al. Aegilops sharonensis genome-assisted identification of stem rust resistance gene Sr62. Nat. Commun. 13, 1607 (2022).
pubmed: 35338132
pmcid: 8956640
Lu, P. et al. A rare gain of function mutation in a wheat tandem kinase confers resistance to powdery mildew. Nat. Commun. 11, 680 (2020).
pubmed: 32015344
pmcid: 6997164
Gaurav, K. et al. Population genomic analysis of Aegilops tauschiii identifies targets for bread wheat improvement. Nat. Biotechnol. 40, 422–431 (2022).
pubmed: 34725503
Arora, S. et al. A wheat kinase and immune receptor form host-specificity barriers against the blast fungus. Nat. Plants 9, 385–392 (2023).
pubmed: 36797350
pmcid: 10027608
Fu, D. et al. A Kinase-START gene confers temperature-dependent resistance to wheat stripe rust. Science 323, 1357–1360 (2009).
pubmed: 19228999
pmcid: 4737487
Sánchez-Martín, J. et al. Wheat Pm4 resistance to powdery mildew is controlled by alternative splice variants encoding chimeric proteins. Nat. Plants 7, 327–341 (2021).
pubmed: 33707738
pmcid: 7610370
Zhang, Z. et al. A protein kinase–major sperm protein gene hijacked by a necrotrophic fungal pathogen triggers disease susceptibility in wheat. Plant J. 106, 720–732 (2021).
pubmed: 33576059
Faris, J. D. et al. A unique wheat disease resistance-like gene governs effector-triggered susceptibility to necrotrophic pathogens. Proc. Natl Acad. Sci. USA 107, 13544–13549 (2010).
pubmed: 20624958
pmcid: 2922177
Arora, D. et al. Allele characterization of genes required for rpg4-mediated wheat stem rust resistance identifies Rpg5 as the R gene. Phytopathology 103, 1153–1161 (2013).
pubmed: 23841622
Walkowiak, S. et al. Multiple wheat genomes reveal global variation in modern breeding. Nature 588, 277–283 (2020).
pubmed: 33239791
pmcid: 7759465
Wang, Y. et al. An unusual tandem kinase fusion protein confers leaf rust resistance in wheat. (2022); https://doi.org/10.1038/s41588-023-01401-2
Chalupska, D. et al. Acc homoeoloci and the evolution of wheat genomes. Proc. Natl Acad. Sci. USA 105, 9691–9696 (2008).
pubmed: 18599450
pmcid: 2474508
International Wheat Genome Sequencing Consortium (IWGSC). A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science 345, 6194 (2014).
Stührwohldt, N. et al. The PSI family of nuclear proteins is required for growth in Arabidopsis. Plant Mol. Biol. 86, 289–302 (2014).
pubmed: 25062973
Jumper, J. et al. Highly accurate protein structure prediction with AlphaFold. Nature 596, 583–589 (2021).
pubmed: 34265844
pmcid: 8371605
Holm, L. & Rosenström, P. Dali server: conservation mapping in 3D. Nucleic Acids Res. 38, W545–W549 (2010).
pubmed: 20457744
pmcid: 2896194
van Zundert, G. C. P. et al. The HADDOCK2.2 web server: user-friendly integrative modelling of biomolecular complexes. J. Mol. Biol. 428, 720–725 (2016).
pubmed: 26410586
Niu, Z. et al. Development and characterization of wheat lines carrying stem rust resistance gene Sr43 derived from Thinopyrum ponticum. Theor. Appl. Genet. 127, 969–980 (2014).
pubmed: 24504553
Krattinger, S. G. et al. A putative ABC transporter confers durable resistance to multiple fungal pathogens in wheat. Science 323, 1360–1363 (2009).
pubmed: 19229000
Moore, J. W. et al. A recently evolved hexose transporter variant confers resistance to multiple pathogens in wheat. Nat. Genet. 47, 1494–1498 (2015).
pubmed: 26551671
Jones, J. & Dangl, J. The plant immune system. Nature 444, 323–329 (2006).
pubmed: 17108957
van der Hoorn, R. A. & Kamoun, S. From guard to decoy: a new model for perception of plant pathogen effectors. Plant Cell 20, 2009–2017 (2008).
pubmed: 18723576
pmcid: 2553620
Cesari, S. et al. A novel conserved mechanism for plant NLR protein pairs: the ‘integrated decoy’ hypothesis. Front. Plant Sci. 5, 606 (2014).
pubmed: 25506347
pmcid: 4246468
Sánchez-Martín, J. & Keller, B. NLR immune receptors and diverse types of non-NLR proteins control race-specific resistance in Triticeae. Curr. Opin. Plant Biol. 62, 102053 (2021).
pubmed: 34052730
Klymiuk, V. et al. Tandem protein kinases emerge as new regulators of plant immunity. Mol. Plant–Microbe Interact. 34, 1094–1102 (2021).
pubmed: 34096764
pmcid: 8761531
Kangara, N. et al. Mutagenesis of Puccinia graminis f. sp. tritici and selection of gain-of-virulence mutants. Front. Plant Sci. 11, 570180 (2020).
pubmed: 33072145
pmcid: 7533539
Poland, J. A. & Rife, T. W. Genotyping-by-sequencing for plant breeding and genetics. Plant Genome 5, 92–102 (2012).
International Wheat Genome Sequencing Consortium (IWGSC) Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361, eaar7191 (2018).
Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows–Wheeler transform. Bioinformatics 25, 1754–1760 (2009).
pubmed: 19451168
pmcid: 2705234
Li, H. et al. 1000 Genome Project Data Processing Subgroup, The Sequence alignment/map (SAM) format and SAMtools. Bioinformatics 25, 2078–2079 (2009).
pubmed: 19505943
pmcid: 2723002
Yu, G. et al. Reference genome-assisted identification of stem rust resistance gene Sr62 encoding a tandem kinase. Nat. Commun. 13, 1607 (2022).
Vrána, J. et al. Flow sorting of mitotic chromosomes in common wheat (Triticum aestivum L.). Genetics 156, 2033–2041 (2000).
pubmed: 11102393
pmcid: 1461381
Kubaláková, M. et al. Flow karyotyping and chromosome sorting in bread wheat (Triticum aestivum L.). Theor. Appl. Genet. 104, 1362–1372 (2002).
pubmed: 12582592
Doležel, J. et al. Analysis of nuclear DNA content in plant cells by flow cytometry. Biol. Plant. 31, 113–120 (1989).
Giorgi, D. et al. FISHIS: fluorescence in situ hybridization in suspension and chromosome flow sorting made easy. PLoS ONE 8, e57994 (2013).
pubmed: 23469124
pmcid: 3585268
Kubaláková, M. et al. Mapping of repeated DNA sequences in plant chromosomes by PRINS and C-PRINS. Theor. Appl. Genet. 94, 758–763 (1997).
Molnár, I. et al. Dissecting the U, M, S and C genomes of wild relatives of bread wheat (Aegilops spp.) into chromosomes and exploring their synteny with wheat. Plant J. 88, 452–467 (2016).
pubmed: 27402341
Gaál, E. et al. Identification of COS markers specific for Thinopyrum elongatum chromosomes preliminary revealed high level of macrosyntenic relationship between the wheat and Th. elongatum genomes. PLoS ONE 13, 12 (2018).
Šimková, H. et al. Coupling amplified DNA from flow-sorted chromosomes to high-density SNP mapping in barley. BMC Genomics 9, 294 (2008).
pubmed: 18565235
pmcid: 2453526
Bolger, A. M. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114–2120 (2014).
pubmed: 24695404
pmcid: 4103590
Chapman, J. A. et al. A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome. Genome Biol. 16, 26 (2015).
pubmed: 25637298
pmcid: 4373400
Sánchez-Martín, J. et al. Rapid gene isolation in barley and wheat by mutant chromosome sequencing. Genome Biol. 17, 221 (2016).
pubmed: 27795210
pmcid: 5087116
Kim, D. et al. Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. Nat. Biotechnol. 37, 907–915 (2019).
pubmed: 31375807
pmcid: 7605509
Hayta, S. et al. An efficient and reproducible Agrobacterium-mediated transformation method for hexaploid wheat (Triticum aestivum L.). Plant Methods 15, 121 (2019).
pubmed: 31673278
pmcid: 6815027
Bartlett, J. G. et al. High-throughput Agrobacterium-mediated barley transformation. Plant Methods 4, 22 (2008).
pubmed: 18822125
pmcid: 2562381
Sato, K. et al. Chromosome-scale genome assembly of the transformation-amenable common wheat cultivar ‘Fielder’. DNA Res. 28, dsab008 (2021).
pubmed: 34254113
pmcid: 8320877
Stakman E. C. et al. Identification of Physiologic Races of Puccinia graminis var. tritici (USDA, 1962).
Blum, M. et al. The InterPro protein families and domains database: 20 years on. Nucleic Acids Res. 49, D344–D354 (2020).
pmcid: 7778928
Bologna, G. et al. N-terminal myristoylation predictions by ensembles of neural networks. Proteomics 4, 1626–1632 (2004).
pubmed: 15174132
Kosugi, S. et al. Systematic identification of yeast cell cycle-dependent nucleocytoplasmic shuttling proteins by prediction of composite motifs. Proc. Natl Acad. Sci. USA 106, 10171–10176 (2009).
pubmed: 19520826
pmcid: 2695404
Aljedaani, F. et al. A semi-in vivo transcriptional assay to dissect plant defense regulatory modules. Methods Mol. Biol. 2328, 203–214 (2021).
pubmed: 34251628
Binder, A. et al. A modular plasmid assembly kit for multigene expression, gene silencing and silencing rescue in plants. PLoS ONE 9, e88218 (2014).
pubmed: 24551083
pmcid: 3923767
Saur, I. M. L. et al. A cell death assay in barley and wheat protoplasts for identification and validation of matching pathogen AVR effector and plant NLR immune receptors. Plant Methods 15, 118 (2019).
pubmed: 31666804
pmcid: 6813131