Cy-1, a major QTL for tomato leaf curl New Delhi virus resistance, harbors a gene encoding a DFDGD-Class RNA-dependent RNA polymerase in cucumber (Cucumis sativus)

被引:1
作者
Koeda, Sota [1 ,2 ]
Yamamoto, Chihiro [1 ]
Yamamoto, Hiroto [1 ]
Fujishiro, Kohei [2 ]
Mori, Ryoma [2 ]
Okamoto, Momoka [2 ]
Nagano, Atsushi J. [3 ,4 ]
Mashiko, Takaaki [5 ]
机构
[1] Kindai Univ, Grad Sch Agr, Nara, Nara 6318505, Japan
[2] Kindai Univ, Fac Agr, Nara, Nara 6318505, Japan
[3] Ryukoku Univ, Fac Agr, Otsu, Shiga 5202914, Japan
[4] Keio Univ, Inst Adv Biosci, Tsuruoka, Yamagata 9970017, Japan
[5] Takii & Co Ltd, Konan, Shiga 5203231, Japan
基金
日本学术振兴会;
关键词
Begomovirus; Cucurbit; Geminivirus; Genetic mapping; Marker-assisted breeding; Resistance gene; RDR; ToLCNDV; Virus-induced gene silencing (VIGS); 1ST REPORT; INFECTING CUCUMBER; PLANTS; MANAGEMENT; ZUCCHINI; CROPS; AGROINOCULATION; SEQUENCE; DISEASE; ISOLATE;
D O I
10.1186/s12870-024-05591-7
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
Background Tomato leaf curl New Delhi virus (ToLCNDV) (family Geminiviridae, genus Begomovirus) is a significant threat to cucumber (Cucumis sativus) production in many regions. Previous studies have reported the genetic mapping of loci related to ToLCNDV resistance, but no resistance genes have been identified. Results We conducted map-based cloning of the ToLCNDV resistance gene in cucumber accession No.44. Agroinfiltration and graft-inoculation analyses confirmed the resistance of No.44 to ToLCNDV isolates from the Mediterranean and Asian countries. Initial mapping involving two rounds of phenotyping with two independent F2 populations generated by crossing the begomovirus-susceptible cultivar SHF and No.44 consistently detected major quantitative trait loci (QTLs) on chromosomes 1 and 2 that confer resistance to ToLCNDV. Fine-mapping of Cy-1, the dominant QTL on chromosome 1, using F3 populations narrowed the candidate region to a 209-kb genomic segment harboring 24 predicted genes. Among these genes, DFDGD-class RNA-dependent RNA polymerase (CsRDR3), an ortholog of Ty-1/Ty-3 of tomato and Pepy-2 of capsicum, was found to be a strong candidate conferring ToLCNDV resistance. The CsRDR3 sequence of No.44 contained multiple amino acid substitutions; the promoter region of CsRDR3 in No.44 had a large deletion; and the CsRDR3 transcript levels were greater in No.44 than in SHF. Virus-induced gene silencing (VIGS) of CsRDR3 using two chromosome segment substitution lines harboring chromosome 1 segments derived from No.44 compromised resistance to ToLCNDV. Conclusions Forward and reverse genetic approaches identified CsRDR3, which encodes a DFDGD-class RNA-dependent RNA polymerase, as the gene responsible for ToLCNDV resistance at the major QTL Cy-1 on chromosome 1 in cucumber. Marker-assisted breeding of ToLCNDV resistance in cucumber will be expedited by using No.44 and the DNA markers developed in this study.
引用
收藏
页数:19
相关论文
共 67 条
[1]   Primary and Secondary siRNAs in Geminivirus-induced Gene Silencing [J].
Aregger, Michael ;
Borah, Basanta K. ;
Seguin, Jonathan ;
Rajeswaran, Rajendran ;
Gubaeva, Ekaterina G. ;
Zvereva, Anna S. ;
Windels, David ;
Vazquez, Franck ;
Blevins, Todd ;
Farinelli, Laurent ;
Pooggin, Mikhail M. .
PLOS PATHOGENS, 2012, 8 (09)
[2]  
Bracuto V, 2021, Begomovirus resistance related genes, Patent No. [WO2021064118, 2021064118]
[3]   R/qtl: QTL mapping in experimental crosses [J].
Broman, KW ;
Wu, H ;
Sen, S ;
Churchill, GA .
BIOINFORMATICS, 2003, 19 (07) :889-890
[4]   Tomato yellow leaf curl virus resistance by Ty-1 involves increased cytosine methylation of viral genomes and is compromised by cucumber mosaic virus infection [J].
Butterbach, Patrick ;
Verlaan, Maarten G. ;
Dullemans, Annette ;
Lohuis, Dick ;
Visser, Richard G. F. ;
Bai, Yuling ;
Kormelink, Richard .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2014, 111 (35) :12942-12947
[5]   Assessing the genetic variation of Ty-1 and Ty-3 alleles conferring resistance to tomato yellow leaf curl virus in a broad tomato germplasm [J].
Caro, Myluska ;
Verlaan, Maarten G. ;
Julian, Olga ;
Finkers, Richard ;
Wolters, Anne-Marie A. ;
Hutton, Samuel F. ;
Scott, John W. ;
Kormelink, Richard ;
Visser, Richard G. F. ;
Diez, Maria J. ;
Perez-de-Castro, Ana ;
Bai, Yuling .
MOLECULAR BREEDING, 2015, 35 (06)
[6]   Identification and characterization of a mechanical transmissible begomovirus causing leaf curl on oriental melon [J].
Chang, Ho-Hsiung ;
Ku, Hsin-Mei ;
Tsai, Wen-Shi ;
Chien, Rui-Che ;
Jan, Fuh-Jyh .
EUROPEAN JOURNAL OF PLANT PATHOLOGY, 2010, 127 (02) :219-228
[7]   Molecular basis of cucumber fruit domestication [J].
Che, Gen ;
Zhang, Xiaolan .
CURRENT OPINION IN PLANT BIOLOGY, 2019, 47 :38-46
[8]   An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: The basic concepts [J].
Collard, BCY ;
Jahufer, MZZ ;
Brouwer, JB ;
Pang, ECK .
EUPHYTICA, 2005, 142 (1-2) :169-196
[9]   MUSCLE: multiple sequence alignment with high accuracy and high throughput [J].
Edgar, RC .
NUCLEIC ACIDS RESEARCH, 2004, 32 (05) :1792-1797
[10]  
European and Mediterranean Plant Protection Organization (EPPO), 2022, about us