1
|
Wang R, Lin Y', Zhang C, Wu H, Jin Q, Guo J, Cao H, Tan D, Wu T. Fine mapping and analysis of a candidate gene controlling Phytophthora blight resistance in cucumber. PLANT BIOLOGY (STUTTGART, GERMANY) 2024; 26:583-591. [PMID: 38607927 DOI: 10.1111/plb.13648] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Accepted: 03/25/2024] [Indexed: 04/14/2024]
Abstract
Cucumber blight is a destructive disease. The best way to control this disease is resistance breeding. This study focuses on disease resistance gene mapping and molecular marker development. We used the resistant cucumber, JSH, and susceptible cucumber, B80, as parents to construct F2 populations. Bulked segregant analysis (BSA) combined with specific length amplified fragment sequencing (SLAF-seq) were used, from which we developed cleaved amplified polymorphic sequence (CAPs) markers to map the resistance gene. Resistance in F2 individuals showed a segregation ratio of resistance:susceptibility close to 3:1. The gene in JSH resistant cucumber was mapped to an interval of 9.25 kb, and sequencing results for the three genes in the mapped region revealed three mutations at base sites 225, 302, and 591 in the coding region of Csa5G139130 between JSH and B80, but no mutations in coding regions of Csa5G139140 and Csa5G139150. The mutations caused changes in amino acids 75 and 101 of the protein encoded by Csa5G139130, suggesting that Csa5G139130 is the most likely resistance candidate gene. We developed a molecular marker, CAPs-4, as a closely linked marker for the cucumber blight resistance gene. This is the first report on mapping of a cucumber blight resistance gene and will provideg a useful marker for molecular breeding of cucumber resistance to Phytophthora blight.
Collapse
Affiliation(s)
- R Wang
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - Y 'e Lin
- Vegetable Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory for New Technology Research of Vegetables, Guangzhou, China
| | - C Zhang
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - H Wu
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - Q Jin
- Vegetable Research Institute, Guangdong Academy of Agricultural Sciences/Guangdong Key Laboratory for New Technology Research of Vegetables, Guangzhou, China
| | - J Guo
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - H Cao
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - D Tan
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| | - T Wu
- Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences (IFA, GDAAS), Guangzhou, China
| |
Collapse
|
2
|
Seblani R, Keinath AP, Munkvold G. Gummy stem blight: One disease, three pathogens. MOLECULAR PLANT PATHOLOGY 2023; 24:825-837. [PMID: 37129449 PMCID: PMC10346371 DOI: 10.1111/mpp.13339] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Revised: 02/28/2023] [Accepted: 03/06/2023] [Indexed: 05/03/2023]
Abstract
Gummy stem blight (GSB) is a major disease of cucurbits worldwide. It is caused by three fungal species that are morphologically identical and have overlapping geographic and host ranges. Controlling GSB is challenging due to the lack of resistant cultivars and the pathogens' significant ability to develop resistance to systemic fungicides. The causal agent of GSB is recognized as a complex of three phylogenetically distinct species belonging to domain Eukaryota, kingdom Fungi, phylum Ascomycota, subphylum Pezizomycotina, class Dothideomycetes, subclass Pleosporomycetida, order Pleosporales, family Didymellaceae, genus Stagonosporopsis, species cucurbitacearum, citrulli, and caricae. Pycnidia are tan with dark rings of cells around the ostiole measuring 120-180 μm in diameter. Conidia are 6-13 μm long, hyaline, cylindrical with round ends, and non- or monoseptate. Pseudothecia are black and globose in shape and have a diameter of 125-213 μm. Ascospores are 14-18 × 4-6 μm long, hyaline, ellipsoidal with round ends, and monoseptate with a distinct constriction at the septum. Eight ascospores are found per ascus. The upper end of the apical cell is pointed, whereas the lower end of the bottom cell is blunt. Species-specific PCR primers that can be used in a multiplex conventional PCR assay are available. The GSB species complex is pathogenic to 37 species of cucurbits from 21 different genera. S. cucurbitacearum and S. citrulli are specific to cucurbits, while S. caricae is also pathogenic to papaya and babaco-mirim (Vasconcellea monoica), a related fruit. Under favourable environmental conditions, symptoms can appear 3-12 days after spore germination. Leaf spots often start at the leaf margin or extend to the margins. Spots expand and coalesce, resulting in leaf blighting. Active lesions are typically water-soaked. Cankers are observed on crowns, main stems, and vines. Red to amber gummy exudates are often seen on the stems after cankers develop on cortical tissue.
Collapse
Affiliation(s)
- Rewa Seblani
- Plant Pathology, Entomology, and MicrobiologyIowa State UniversityAmesIowaUSA
| | | | - Gary Munkvold
- Plant Pathology, Entomology, and MicrobiologyIowa State UniversityAmesIowaUSA
| |
Collapse
|
3
|
QTL associated with resistance to Stagonosporopsis citrulli in Citrullus amarus. Sci Rep 2022; 12:19628. [PMID: 36380003 PMCID: PMC9666438 DOI: 10.1038/s41598-022-23704-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2022] [Accepted: 11/03/2022] [Indexed: 11/16/2022] Open
Abstract
Gummy stem blight (GSB) is a fungal disease affecting cucurbit crops, including watermelon (Citrullus lanatus), leading to significant yield losses. The disease is caused by three Stagonosporopsis species, of which Stagonosporopsis citrulli is the most common in the southeastern United States. Currently no gummy stem blight-resistant watermelon cultivars are available to growers. In this study, QTL-seq in an interspecific population developed from Sugar Baby × PI 189225 (Citrullus amarus) identified QTL on chromosomes 2, 5, 9 and 11. A novel QTL on chromosome 5 (Qgsb5.2) associated with resistance to S. citrulli (PVE = 13.3%) was confirmed by genetic mapping. KASP marker assays were developed for selection of Qgsb5.2 to allow breeders to track the allele contributing resistance to GSB, reducing the need for laborious phenotyping. Pyramiding different GSB resistance QTL could be a useful strategy to develop GSB resistant watermelon cultivars.
Collapse
|
4
|
Hong JE, Hossain MR, Jung HJ, Nou IS. QTL associated with Gummy Stem Blight (GSB) resistance in watermelon. BMC Genomics 2022; 23:632. [PMID: 36057546 PMCID: PMC9441027 DOI: 10.1186/s12864-022-08849-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Accepted: 08/16/2022] [Indexed: 12/03/2022] Open
Abstract
Background Gummy stem blight (GSB), caused by Didymella bryoniae (syn. Stagonosporopsis cucurbitacearum), produces devastating symptoms on whole plants of watermelon (Citrullus lanatus) and other cucurbits, significantly reducing yield and quality. Identification of genetic determinants and sources of resistance to this devastating GSB disease in watermelon is essential for developing resistant varieties. Results In this study, we aimed at identifying quantitative trait loci (QTLs) linked to GSB resistance in melon. We identified the genome-wide single nucleotide polymorphisms (SNPs) by genotyping by sequencing (GBS) of an F2 population developed from C. lanatus lines, ‘PI 279461’ (resistant) ✕ ‘PI 223764’ (susceptible). Inheritance analysis indicated that resistance to GSB is a multi-genic trait in this population. Three QTLs namely, ClGSB1.1, ClGSB10.1, and ClGSB11.1 associated with GSB resistance, explaining approximately 10% of the phenotypic variation, were identified. Among these, the QTL ClGSB1.1 on chromosome 1 is identified as a major QTL harboring five candidate genes associated with GSB resistance including two RLKs (ClC01G014900 and ClC01G015010), two WRKY transcription factors (ClC01G014910 and ClC01G014990), and one AvrRpt-cleavage domain protein (ClC01G015130). Conclusion Two high resolution melting (HRM) markers, WmGSB1.1–2 and WmGSB1.1–7 having a high positive correlation with the phenotypic variations, were developed. Five potential candidate genes were predicted to be associated with GSB resistance. These findings will help breeders to develop watermelon cultivars resistant to GSB. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-022-08849-2.
Collapse
Affiliation(s)
- Jeong-Eui Hong
- Department of Horticulture, Sunchon National University, 255 Jungang-ro, Suncheon, Jeonnam, 57922, Korea
| | - Mohammad Rashed Hossain
- Department of Genetics and Plant Breeding, Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh
| | - Hee-Jeong Jung
- Department of Horticulture, Sunchon National University, 255 Jungang-ro, Suncheon, Jeonnam, 57922, Korea
| | - Ill-Sup Nou
- Department of Horticulture, Sunchon National University, 255 Jungang-ro, Suncheon, Jeonnam, 57922, Korea.
| |
Collapse
|
5
|
Han J, Dong S, Shi Y, Miao H, Liu X, Beckles DM, Gu X, Zhang S. Fine mapping and candidate gene analysis of gummy stem blight resistance in cucumber stem. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:3117-3125. [PMID: 35869997 DOI: 10.1007/s00122-022-04172-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 07/05/2022] [Indexed: 06/15/2023]
Abstract
Two candidate genes (Csa6G046210 and Csa6G046240) were identified by fine-mapping gsb-s6.2 for gummy stem blight resistance in cucumber stem. Gummy stem blight (GSB) is a serious fungal disease caused by Didymella bryoniae, that affects cucumber yield and quality worldwide. However, no GSB-resistant genes have been identified in cucumber cultivars. In this study, the wild cucumber accession 'PI 183967' was used as a source of resistance to GSB in adult stems. An F2 population was mapped using resistant line 'LM189' and susceptible line 'LM6' derived from a cross between 'PI 183967' and '931'. By developing InDel and SNP markers, the gsb-s6.2 QTL on Chr. 6 was fine-mapped to a 34 kb interval harboring six genes. Gene Expression analysis after inoculation showed that two candidate genes (Csa6G046210 and Csa6G046240) were induced and differentially expressed between the resistant and susceptible parents, and may be involved in disease defense. Sequence alignment showed that Csa6G046210 encodes a multiple myeloma tumor-associated protein, and it harbored two nonsynonymous SNPs and one InDel in the third and the fourth exons, and two InDels in the TATA-box of the basal promoter region. Csa6G046240 encodes a MYB transcription factor with six variants in the AP2/ERF and MYB motifs in the promoter. These two candidate genes lay the foundation for revealing the mechanism of GSB resistance and may be useful for marker-assisted selection in cucumber disease-resistant breeding.
Collapse
Affiliation(s)
- Jianan Han
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Shaoyun Dong
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yanxia Shi
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Han Miao
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Xiaoping Liu
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Diane M Beckles
- Department of Plant Sciences, University of California, Davis, One Shield Avenue, Davis, CA, 95616, USA
| | - Xingfang Gu
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Shengping Zhang
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| |
Collapse
|
6
|
Graph-based pan-genome reveals structural and sequence variations related to agronomic traits and domestication in cucumber. Nat Commun 2022; 13:682. [PMID: 35115520 PMCID: PMC8813957 DOI: 10.1038/s41467-022-28362-0] [Citation(s) in RCA: 52] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Accepted: 01/19/2022] [Indexed: 12/21/2022] Open
Abstract
Structural variants (SVs) represent a major source of genetic diversity and are related to numerous agronomic traits and evolutionary events; however, their comprehensive identification and characterization in cucumber (Cucumis sativus L.) have been hindered by the lack of a high-quality pan-genome. Here, we report a graph-based cucumber pan-genome by analyzing twelve chromosome-scale genome assemblies. Genotyping of seven large chromosomal rearrangements based on the pan-genome provides useful information for use of wild accessions in breeding and genetic studies. A total of ~4.3 million genetic variants including 56,214 SVs are identified leveraging the chromosome-level assemblies. The pan-genome graph integrating both variant information and reference genome sequences aids the identification of SVs associated with agronomic traits, including warty fruits, flowering times and root growth, and enhances the understanding of cucumber trait evolution. The graph-based cucumber pan-genome and the identified genetic variants provide rich resources for future biological research and genomics-assisted breeding. Increasing studies have suggested that single reference genome is insufficient to capture all variations in the genome. Here, the authors report a graph-based cucumber pan-genome by analyzing 12 chromosome-scale assemblies and reveal variations associated with agronomic traits and domestication.
Collapse
|
7
|
Han J, Dong S, Liu X, Shi Y, Beckles DM, Gu X, Miao H, Zhang S. Fine mapping a quantitative trait locus underlying seedling resistance to gummy stem blight using a residual heterozygous lines-derived strategy in cucumber. FRONTIERS IN PLANT SCIENCE 2022; 13:968811. [PMID: 36119620 PMCID: PMC9480501 DOI: 10.3389/fpls.2022.968811] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Accepted: 08/12/2022] [Indexed: 05/20/2023]
Abstract
Gummy stem blight (GSB), caused by Didymella bryoniae, is one of the most devastating diseases that severely reduces cucumber production. Developing resistant varieties would be an effective strategy to control GSB. Although several GSB-resistant QTLs have been reported, causal genes for GSB resistance have not yet been identified in cucumber. A novel loci gsb3.1 for seedling GSB resistance from the "PI 183967" genotype was previously identified in a 1.7-Mb interval on chromosome 3. In this study, we developed a residual heterozygous line-derived strategy from Recombinant Inbred Lines to perform fine mapping, and with this approach, the gsb3.1 locus was narrowed to a 38 kb interval. There were six predicted genes at the gsb3.1 locus, four of which differed in expression in the GSB-resistant compared to the susceptible lines after fungal inoculation. These candidate genes (Csa3G020050, Csa3G020060, Csa3G020090, and Csa3G020590) within the gsb3.1 locus could be helpful for the genetic study of GSB resistance and marker-assisted selection in cucumber. Phylogenetic analyses indicated that the resistant gsb3.1 allele may uniquely exist in the wild species present in the Indian group, and that nucleotide diversity was significantly reduced in cultivated accessions. Therefore, the gsb3.1 allele could be introgressed into existing commercial cultivars and combined with other resistance QTLs to provide broad-spectrum and robust GSB resistance in cucumber.
Collapse
Affiliation(s)
- Jianan Han
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Shaoyun Dong
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xiaoping Liu
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Yanxia Shi
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Diane M. Beckles
- Department of Plant Sciences, University of California, Davis, Davis, CA, United States
| | - Xingfang Gu
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
- *Correspondence: Xingfang Gu,
| | - Han Miao
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
- Han Miao,
| | - Shengping Zhang
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, China
- Shengping Zhang,
| |
Collapse
|
8
|
Grumet R, McCreight JD, McGregor C, Weng Y, Mazourek M, Reitsma K, Labate J, Davis A, Fei Z. Genetic Resources and Vulnerabilities of Major Cucurbit Crops. Genes (Basel) 2021; 12:1222. [PMID: 34440396 PMCID: PMC8392200 DOI: 10.3390/genes12081222] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Revised: 07/27/2021] [Accepted: 08/05/2021] [Indexed: 11/16/2022] Open
Abstract
The Cucurbitaceae family provides numerous important crops including watermelons (Citrullus lanatus), melons (Cucumis melo), cucumbers (Cucumis sativus), and pumpkins and squashes (Cucurbita spp.). Centers of domestication in Africa, Asia, and the Americas were followed by distribution throughout the world and the evolution of secondary centers of diversity. Each of these crops is challenged by multiple fungal, oomycete, bacterial, and viral diseases and insects that vector disease and cause feeding damage. Cultivated varieties are constrained by market demands, the necessity for climatic adaptations, domestication bottlenecks, and in most cases, limited capacity for interspecific hybridization, creating narrow genetic bases for crop improvement. This analysis of crop vulnerabilities examines the four major cucurbit crops, their uses, challenges, and genetic resources. ex situ germplasm banks, the primary strategy to preserve genetic diversity, have been extensively utilized by cucurbit breeders, especially for resistances to biotic and abiotic stresses. Recent genomic efforts have documented genetic diversity, population structure, and genetic relationships among accessions within collections. Collection size and accessibility are impacted by historical collections, current ability to collect, and ability to store and maintain collections. The biology of cucurbits, with insect-pollinated, outcrossing plants, and large, spreading vines, pose additional challenges for regeneration and maintenance. Our ability to address ongoing and future cucurbit crop vulnerabilities will require a combination of investment, agricultural, and conservation policies, and technological advances to facilitate collection, preservation, and access to critical Cucurbitaceae diversity.
Collapse
Affiliation(s)
- Rebecca Grumet
- Department of Horticulture, Michigan State University, East Lansing, MI 48824, USA
| | - James D. McCreight
- USDA, ARS, Crop Improvement and Protection Research Unit, Salinas, CA 93905, USA;
| | - Cecilia McGregor
- Department of Horticulture and Institute of Plant Breeding, Genetics & Genomics, University of Georgia, Athens, GA 30602, USA;
| | - Yiqun Weng
- USDA-ARS Vegetable Crops Research Unit, Madison, WI 53706, USA;
| | - Michael Mazourek
- School of Integrative Plant Science, Plant Breeding & Genetics Section, Cornell University, Ithaca, NY 14853, USA;
| | - Kathleen Reitsma
- North Central Regional Plant Introduction Station, Iowa State University, Ames, IA 50014, USA;
| | - Joanne Labate
- Plant Genetic Resources Unit, United States Department of Agriculture, Agricultural Research Service, Geneva, NY 14456, USA;
| | - Angela Davis
- Sakata Seed America, Inc., Woodland, CA 95776, USA;
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853, USA;
| |
Collapse
|
9
|
Lee ES, Kim DS, Kim SG, Huh YC, Back CG, Lee YR, Siddique MI, Han K, Lee HE, Lee J. QTL Mapping for Gummy Stem Blight Resistance in Watermelon ( Citrullus spp.). PLANTS (BASEL, SWITZERLAND) 2021; 10:500. [PMID: 33800297 PMCID: PMC7999335 DOI: 10.3390/plants10030500] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 03/03/2021] [Accepted: 03/04/2021] [Indexed: 11/29/2022]
Abstract
Watermelon (Citrulluslanatus) is an economically important fruit crop worldwide. Gummy stem blight (GSB) is one of the most damaging diseases encountered during watermelon cultivation. In the present study, we identified quantitative trait loci (QTLs) associated with GSB resistance in an F2 population derived from a cross between maternal-susceptible line '920533' (C. lanatus) and the paternal-resistant line 'PI 189225' (C. amarus). The resistance of 178 F2 plants was assessed by two different evaluation methods, including leaf lesion (LL) and stem blight (SB). To analyze the QTLs associated with GSB resistance, a linkage map was constructed covering a total genetic distance of 1070.2 cM. QTL analysis detected three QTLs associated with GSB resistance on chromosome 8 and 6. Among them, two QTLs, qLL8.1 and qSB8.1 on chromosome 8 identified as major QTLs, explaining 10.5 and 10.0% of the phenotypic variations localizing at same area and sharing the same top markers for both LL and SB traits, respectively. A minor QTL, qSB6.1, explains 9.7% of phenotypic variations detected on chromosome 6 only for the SB trait. High-throughput markers were developed and validated for the selection of resistant QTLs using watermelon accessions, and commercial cultivars. Four potential candidate genes were predicted associated with GSB resistance based on the physical location of flanking markers on chromosome 8. These findings will be helpful for the development of watermelon cultivars resistant to GSB.
Collapse
Affiliation(s)
- Eun Su Lee
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Do-Sun Kim
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Sang Gyu Kim
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Yun-Chan Huh
- Herbal Crop Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Eumseong 27709, Korea;
| | - Chang-Gi Back
- Horticultural and Herbal Crop Environment Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea;
| | - Ye-Rin Lee
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Muhammad Irfan Siddique
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Koeun Han
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Hye-Eun Lee
- Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju 55365, Korea; (E.S.L.); (D.-S.K.); (S.G.K.); (Y.-R.L.); (M.I.S.); (K.H.)
| | - Jundae Lee
- Department of Horticulture, Institute of Agricultural Science & Technology, Jeonbuk National University, Jeonju 54896, Korea
| |
Collapse
|
10
|
Gimode W, Bao K, Fei Z, McGregor C. QTL associated with gummy stem blight resistance in watermelon. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:573-584. [PMID: 33135096 PMCID: PMC7843542 DOI: 10.1007/s00122-020-03715-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Accepted: 10/23/2020] [Indexed: 05/20/2023]
Abstract
We identified QTLs associated with gummy stem blight resistance in an interspecific F2:3 Citrullus population and developed marker assays for selection of the loci in watermelon. Gummy stem blight (GSB), caused by three Stagonosporopsis spp., is a devastating fungal disease of watermelon (Citrullus lanatus) and other cucurbits that can lead to severe yield losses. Currently, no commercial cultivars with genetic resistance to GSB in the field have been reported. Utilizing GSB-resistant cultivars would reduce yield losses, decrease the high cost of disease control, and diminish hazards resulting from frequent fungicide application. The objective of this study was to identify quantitative trait loci (QTLs) associated with GSB resistance in an F2:3 interspecific Citrullus mapping population (N = 178), derived from a cross between Crimson Sweet (C. lanatus) and GSB-resistant PI 482276 (C. amarus). The population was phenotyped by inoculating seedlings with Stagonosporopsis citrulli 12178A in the greenhouse in two separate experiments, each with three replications. We identified three QTLs (ClGSB3.1, ClGSB5.1 and ClGSB7.1) associated with GSB resistance, explaining between 6.4 and 21.1% of the phenotypic variation. The genes underlying ClGSB5.1 includes an NBS-LRR gene (ClCG05G019540) previously identified as a candidate gene for GSB resistance in watermelon. Locus ClGSB7.1 accounted for the highest phenotypic variation and harbors twenty-two candidate genes associated with disease resistance. Among them is ClCG07G013230, encoding an Avr9/Cf-9 rapidly elicited disease resistance protein, which contains a non-synonymous point mutation in the DUF761 domain that was significantly associated with GSB resistance. High throughput markers were developed for selection of ClGSB5.1 and ClGSB7.1. Our findings will facilitate the use of molecular markers for efficient introgression of the resistance loci and development of GSB-resistant watermelon cultivars.
Collapse
Affiliation(s)
- Winnie Gimode
- Institute for Plant Breeding, Genetics & Genomics, University of Georgia, 1111 Plant Sciences Bldg, Athens, GA, 30602, USA
| | - Kan Bao
- Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY, 14853, USA
| | - Zhangjun Fei
- Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY, 14853, USA
| | - Cecilia McGregor
- Department of Horticulture and Institute for Plant Breeding, Genetics & Genomics, University of Georgia, 1111 Plant Sciences Bldg, Athens, GA, 30602, USA.
| |
Collapse
|
11
|
Ren R, Xu J, Zhang M, Liu G, Yao X, Zhu L, Hou Q. Identification and Molecular Mapping of a Gummy Stem Blight Resistance Gene in Wild Watermelon ( Citrullus amarus) Germplasm PI 189225. PLANT DISEASE 2020; 104:16-24. [PMID: 31730411 DOI: 10.1094/pdis-04-19-0753-re] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Gummy stem blight (GSB), caused by Stagonosporopsis cucurbitacearum (syn. Didymella bryoniae), is a destructive foliar disease of watermelon in areas with hot and humid climates. The wild watermelon germplasm PI 189225 is a known source of resistance to GSB. The identification and use of molecular markers linked to resistance genes in the wild-type germplasm will speed up the introgression of GSB resistance into new watermelon varieties. An F2 segregating population was obtained from a cross between the resistant wild watermelon genotype PI 189225 and the susceptible genotype K3. The F2-derived F3 families were inoculated with a single isolate of S. cucurbitacearum (JS002) from Jiangsu Academy of Agricultural Sciences. The results of the genetic analysis demonstrated that GSB resistance in PI 189225 was controlled by a major quantitative trait locus (QTL), temporarily designated Qgsb8.1. Based on the results of bulk sergeant analysis and sequencing, one associated region spanning 5.7 Mb (10,358,659 to 16,101,517) on chromosome 8 was identified as responsible for the resistance to GSB using the Δ(single-nucleotide polymorphism [SNP]-index) method. The result of a QTL linkage analysis with Kompetitive allele-specific PCR (KASP) SNP markers further mapped the GSB resistance locus between the SNP markers KASP_JS9383 and KASP_JS9168 in a region of 571.27 kb on chromosome 8. According to the watermelon gene annotation database, the region contains approximately 19 annotated genes and, of these 19 genes, 2 are disease resistance gene analogs: Cla001017 (coiled-coil nucleotide-binding site leucine-rich repeat resistance protein) and Cla001019 (pathogenesis related). Reverse-transcription quantitative PCR demonstrated that the expression of the two genes changed following S. cucurbitacearum infection, suggesting that they play important roles in GSB resistance in watermelon. This result will facilitate fine mapping and cloning of the Qgsb8.1 locus, and the linked markers will further provide a useful tool for marker-assisted selection of this locus in watermelon breeding programs.
Collapse
Affiliation(s)
- Runsheng Ren
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Jinhua Xu
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Man Zhang
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Guang Liu
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Xiefeng Yao
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Lingli Zhu
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| | - Qian Hou
- Jiangsu Key Laboratory for Horticultural Crop Genetic, Improvement/Institute of Vegetable, Jiangsu, Academy of Agricultural Sciences, Nanjing, Jiangsu, China
| |
Collapse
|
12
|
Wang X, Bao K, Reddy UK, Bai Y, Hammar SA, Jiao C, Wehner TC, Ramírez-Madera AO, Weng Y, Grumet R, Fei Z. The USDA cucumber ( Cucumis sativus L.) collection: genetic diversity, population structure, genome-wide association studies, and core collection development. HORTICULTURE RESEARCH 2018; 5:64. [PMID: 30302260 PMCID: PMC6165849 DOI: 10.1038/s41438-018-0080-8] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Revised: 08/07/2018] [Accepted: 08/08/2018] [Indexed: 05/19/2023]
Abstract
Germplasm collections are a crucial resource to conserve natural genetic diversity and provide a source of novel traits essential for sustained crop improvement. Optimal collection, preservation and utilization of these materials depends upon knowledge of the genetic variation present within the collection. Here we use the high-throughput genotyping-by-sequencing (GBS) technology to characterize the United States National Plant Germplasm System (NPGS) collection of cucumber (Cucumis sativus L.). The GBS data, derived from 1234 cucumber accessions, provided more than 23 K high-quality single-nucleotide polymorphisms (SNPs) that are well distributed at high density in the genome (~1 SNP/10.6 kb). The SNP markers were used to characterize genetic diversity, population structure, phylogenetic relationships, linkage disequilibrium, and population differentiation of the NPGS cucumber collection. These results, providing detailed genetic analysis of the U.S. cucumber collection, complement NPGS descriptive information regarding geographic origin and phenotypic characterization. We also identified genome regions significantly associated with 13 horticulturally important traits through genome-wide association studies (GWAS). Finally, we developed a molecularly informed, publicly accessible core collection of 395 accessions that represents at least 96% of the genetic variation present in the NPGS. Collectively, the information obtained from the GBS data enabled deep insight into the diversity present and genetic relationships among accessions within the collection, and will provide a valuable resource for genetic analyses, gene discovery, crop improvement, and germplasm preservation.
Collapse
Affiliation(s)
- Xin Wang
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853 USA
| | - Kan Bao
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853 USA
| | - Umesh K. Reddy
- Gus R. Douglass Institute and Department of Biology, West Virginia State University, Institute, Virginia, WV 25112 USA
| | - Yang Bai
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853 USA
| | - Sue A. Hammar
- Department of Horticulture, Michigan State University, East Lansing, MI 48824 USA
| | - Chen Jiao
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853 USA
| | - Todd C. Wehner
- Horticultural Science Department, North Carolina State University, Raleigh, NC 27695 USA
| | | | - Yiqun Weng
- Horticulture Department, University of Wisconsin, Madison, WI 53706 USA
- USDA-ARS Vegetable Crops Research Unit, Madison, WI 53706 USA
| | - Rebecca Grumet
- Department of Horticulture, Michigan State University, East Lansing, MI 48824 USA
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, NY 14853 USA
- USDA-ARS Robert W. Holley Center for Agriculture and Health, Ithaca, NY 14853 USA
| |
Collapse
|
13
|
Słomnicka R, Olczak-Woltman H, Korzeniewska A, Gozdowski D, Niemirowicz-Szczytt K, Bartoszewski G. Genetic mapping of psl locus and quantitative trait loci for angular leaf spot resistance in cucumber ( Cucumis sativus L.). MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2018; 38:111. [PMID: 30174539 PMCID: PMC6105252 DOI: 10.1007/s11032-018-0866-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Accepted: 08/06/2018] [Indexed: 05/16/2023]
Abstract
One of the most important cucumber diseases is bacterial angular leaf spot (ALS), whose increased occurrence in open-field production has been observed over the last years. To map ALS resistance genes, a recombinant inbred line (RIL) mapping population was developed from a narrow cross of cucumber line Gy14 carrying psl resistance gene and susceptible B10 line. Parental lines and RILs were tested under growth chamber conditions as well as in the field for angular leaf spot symptoms. Based on simple sequence repeat and DArTseq, genotyping a genetic map was constructed, which contained 717 loci in seven linkage groups, spanning 599.7 cM with 0.84 cM on average between markers. Monogenic inheritance of the lack of chlorotic halo around the lesions, which is typical for ALS resistance and related with the presence of recessive psl resistance gene, was confirmed. The psl locus was mapped on cucumber chromosome 5. Two major quantitative trait loci (QTL) psl5.1 and psl5.2 related to disease severity were found and located next to each other on chromosome 5; moreover, psl5.1 was co-located with psl locus. Identified QTL were validated in the field experiment. Constructed genetic map and markers linked to ALS resistance loci are novel resources that can contribute to cucumber breeding programs.
Collapse
Affiliation(s)
- Renata Słomnicka
- Department of Plant Genetics Breeding and Biotechnology, Faculty of Horticulture Biotechnology and Landscape Architecture, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| | - Helena Olczak-Woltman
- Department of Plant Genetics Breeding and Biotechnology, Faculty of Horticulture Biotechnology and Landscape Architecture, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| | - Aleksandra Korzeniewska
- Department of Plant Genetics Breeding and Biotechnology, Faculty of Horticulture Biotechnology and Landscape Architecture, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| | - Dariusz Gozdowski
- Department of Experimental Design and Bioinformatics, Faculty of Agriculture and Biology, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| | - Katarzyna Niemirowicz-Szczytt
- Department of Plant Genetics Breeding and Biotechnology, Faculty of Horticulture Biotechnology and Landscape Architecture, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| | - Grzegorz Bartoszewski
- Department of Plant Genetics Breeding and Biotechnology, Faculty of Horticulture Biotechnology and Landscape Architecture, Warsaw University of Life Sciences–SGGW, Warsaw, Poland
| |
Collapse
|