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Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence.
Proc Natl Acad Sci U S A. 2019 09 10; 116(37):18479-18487.PN

Abstract

Tetep is a rice cultivar known for broad-spectrum resistance to blast, a devastating fungal disease. The molecular basis for its broad-spectrum resistance is still poorly understood. Is it because Tetep has many more NLR genes than other cultivars? Or does Tetep possess multiple major NLR genes that can individually confer broad-spectrum resistance to blast? Moreover, are there many interacting NLR pairs in the Tetep genome? We sequenced its genome, obtained a high-quality assembly, and annotated 455 nucleotide-binding site leucine-rich repeat (NLR) genes. We cloned and tested 219 NLR genes as transgenes in 2 susceptible cultivars using 5 to 12 diversified pathogen strains; in many cases, fewer than 12 strains were successfully cultured for testing. Ninety cloned NLRs showed resistance to 1 or more pathogen strains and each strain was recognized by multiple NLRs. However, few NLRs showed resistance to >6 strains, so multiple NLRs are apparently required for Tetep's broad-spectrum resistance to blast. This was further supported by the pedigree analyses, which suggested a correlation between resistance and the number of Tetep-derived NLRs. In developing a method to identify NLR pairs each of which functions as a unit, we found that >20% of the NLRs in the Tetep and 3 other rice genomes are paired. Finally, we designed an extensive set of molecular markers for rapidly introducing clustered and paired NLRs in the Tetep genome for breeding new resistant cultivars. This study increased our understanding of the genetic basis of broad-spectrum blast resistance in rice.

Authors+Show Affiliations

State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.Institute of Food Crops, Jiangsu Academy of Agricultural Sciences, 210014 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China. State Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, 210095 Nanjing, China.Biodiversity Research Center, Academia Sinica, 115 Taipei, Taiwan; wli@uchicago.edu sihaiyang@nju.edu.cn. Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637.State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, 210023 Nanjing, China; wli@uchicago.edu sihaiyang@nju.edu.cn. State Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, 210095 Nanjing, China.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

31451649

Citation

Wang, Long, et al. "Large-scale Identification and Functional Analysis of NLR Genes in Blast Resistance in the Tetep Rice Genome Sequence." Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 37, 2019, pp. 18479-18487.
Wang L, Zhao L, Zhang X, et al. Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence. Proc Natl Acad Sci U S A. 2019;116(37):18479-18487.
Wang, L., Zhao, L., Zhang, X., Zhang, Q., Jia, Y., Wang, G., Li, S., Tian, D., Li, W. H., & Yang, S. (2019). Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence. Proceedings of the National Academy of Sciences of the United States of America, 116(37), 18479-18487. https://doi.org/10.1073/pnas.1910229116
Wang L, et al. Large-scale Identification and Functional Analysis of NLR Genes in Blast Resistance in the Tetep Rice Genome Sequence. Proc Natl Acad Sci U S A. 2019 09 10;116(37):18479-18487. PubMed PMID: 31451649.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence. AU - Wang,Long, AU - Zhao,Lina, AU - Zhang,Xiaohui, AU - Zhang,Qijun, AU - Jia,Yanxiao, AU - Wang,Guan, AU - Li,Simin, AU - Tian,Dacheng, AU - Li,Wen-Hsiung, AU - Yang,Sihai, Y1 - 2019/08/26/ PY - 2019/8/28/pubmed PY - 2020/4/9/medline PY - 2019/8/28/entrez KW - NBS-LRR gene KW - NLR network KW - Oryza sativa KW - R-gene cloning KW - blast resistance SP - 18479 EP - 18487 JF - Proceedings of the National Academy of Sciences of the United States of America JO - Proc Natl Acad Sci U S A VL - 116 IS - 37 N2 - Tetep is a rice cultivar known for broad-spectrum resistance to blast, a devastating fungal disease. The molecular basis for its broad-spectrum resistance is still poorly understood. Is it because Tetep has many more NLR genes than other cultivars? Or does Tetep possess multiple major NLR genes that can individually confer broad-spectrum resistance to blast? Moreover, are there many interacting NLR pairs in the Tetep genome? We sequenced its genome, obtained a high-quality assembly, and annotated 455 nucleotide-binding site leucine-rich repeat (NLR) genes. We cloned and tested 219 NLR genes as transgenes in 2 susceptible cultivars using 5 to 12 diversified pathogen strains; in many cases, fewer than 12 strains were successfully cultured for testing. Ninety cloned NLRs showed resistance to 1 or more pathogen strains and each strain was recognized by multiple NLRs. However, few NLRs showed resistance to >6 strains, so multiple NLRs are apparently required for Tetep's broad-spectrum resistance to blast. This was further supported by the pedigree analyses, which suggested a correlation between resistance and the number of Tetep-derived NLRs. In developing a method to identify NLR pairs each of which functions as a unit, we found that >20% of the NLRs in the Tetep and 3 other rice genomes are paired. Finally, we designed an extensive set of molecular markers for rapidly introducing clustered and paired NLRs in the Tetep genome for breeding new resistant cultivars. This study increased our understanding of the genetic basis of broad-spectrum blast resistance in rice. SN - 1091-6490 UR - https://www.unboundmedicine.com/medline/citation/31451649/Large_scale_identification_and_functional_analysis_of_NLR_genes_in_blast_resistance_in_the_Tetep_rice_genome_sequence_ L2 - http://www.pnas.org/cgi/pmidlookup?view=long&pmid=31451649 DB - PRIME DP - Unbound Medicine ER -