Genetic mapping and development of molecular markers for a candidate gene locus controlling rind color in watermelon

Li, Bingbing; Zhao, Shengjie; Dou, Junling; Ali, Aslam; Gebremeskel, Haileslassie; Gao, Lei; He, Nan; Lu, Xingrong; Liu, Wenge

doi:10.1007/s00122-019-03384-3

Cited by 39 publications

(41 citation statements)

References 58 publications

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“…However, the 1.5-LOD interval of qrc8.1 was from 24,074,857 to 24,644,537 (Table 4). Thus our QTL detected in this study seem not in the same region as reported by Li et al (2019) [25]. Further evidence is needed to prove this.…”

Section: Genetic Basis Of Fruit Rind Color and Stripe Pattern In Watementioning

confidence: 41%

“…Several previous studies have shown that watermelon rind color is controlled by a single gene on Chr8 with dark green being dominant to light green [13,22,29]. More recently, Li et al (2019) identi ed a candidate gene (ClCG08G017810 or ClCGMenG) for this locus that encodes 2-phytyl-1,4-beta-naphthoquinone methyltransferase [25]. In our study, we consistently detected a major-effect QTL, qrc8.1 on Chr8 (PVẼ 15%) in both years (Table 4; Fig.…”

Section: Genetic Basis Of Fruit Rind Color and Stripe Pattern In Watementioning

confidence: 99%

“…For example, the yellow skin phenotype in watermelon was found to be controlled by genes on chromosome 4 including the same locus of Dgo [22], yellow skin [23], Clyr [24]. The green skin was proposed to be controlled by genes on chromosome 8 by the D [22], or qrc-c8-1 [13] loci, and ClCGMenG has been identi ed as candidate gene for D/rc-c81 [25].…”

Section: Introductionmentioning

confidence: 99%

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QTL Mapping of Fruit and Seed-related Traits in Watermelon Using Genotyping-by-Sequencing-based High-density Linkage Mapping

Gao

Liang

Liu³

et al. 2020

Preprint

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BackgroundWatermelon is an important vegetable crop with dual use of both fruit and seeds. Understanding the genetic basis of fruit quality and seed size-related traits is important for efficient marker-assisted breeding in watermelon. Linkage mapping in watermelon segregating populations using genotyping-by-sequencing (GBS) provides insights into genetic control of fruit- and seed-related traits and genome collinearity in commercial watermelon cultivars. ResultsIn the present study, we conducted QTL mapping of 12 horticulturally important traits on external and internal fruit quality and seed size/weight using segregating populations derived a cross between two commercial varieties. A high-density genetic map was developed with GBS which contained more than 6,000 SNP loci in 1,004 bins with a total map length of 1261.1 cM and average marker interval of 1.26 cM or 329 kb. Phenotypic data of fruit rind color (RC), rind stripe pattern (RSP), flesh color (FFC), fruit diameter (FD), fruit length (FL), fruit shape index (FSI), fruit weight (FW), Brix content central (BCC), Brix content edge (BCE), seed length (SL), width (SW), and weight (20SWT) were collected from two locations in two years. QTL analysis identified 47 QTL for the 12 traits, of which 24 had moderate- or major-effects, and 34 were novel QTL not identified in previous studies. The QTL for RSP were identified overlapped with previous reports, and mapped the QTL to a small interval on chromosome 6. From the detected novel QTL, we identify FD (qfd2.1), FL (qfl2.1) co-located with FSI (qfsi2.1) QTL on chromosome 2, and the minor QTL qfw3.2 co-located with previously reported fruit shape QTL (qfd3.1, qfl3.1, qfsi3.1), and SW (qsw10.1) co-located with 20SWT QTL (q20swt10.1) on chromosome 10, and 5 minor QTL (qbcc2.1, qbcc5.1, qbce2.1, qbce2.2, qbce5.1) were found to be likely new locus for Brix content.ConclusionWe conducted GBS consisting of 120 F2 individuals and developed a high-density linkage map with more than 6,000 SNP loci in 1004 bins in watermelon. We identified 47 QTL for 12 fruit and seed related traits including 34 novel QTL. Our work expands the molecular breeding toolbox for watermelon to improve the yield and fruit quality.

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Section: Genetic Basis Of Fruit Rind Color and Stripe Pattern In Watementioning

confidence: 41%

Section: Genetic Basis Of Fruit Rind Color and Stripe Pattern In Watementioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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QTL Mapping of Fruit and Seed-related Traits in Watermelon Using Genotyping-by-Sequencing-based High-density Linkage Mapping

Gao

Liang

Liu³

et al. 2020

Preprint

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“…The F-box gene numbered MELO3C011980 in melon was also speculated to negatively regulates flavonoid accumulation (Feder et al, 2015). In watermelon, a gene numbered ClCG08G017810 that encodes a 2phytyl-1,4-beta-naphthoquinone methyltransferase protein was speculated to be associated with formation of dark green rind color (Li et al, 2019). But according to another study, the transcription factor CmAPRR2 was identified as causative for the qualitative difference between dark and light green rind both in melon and watermelon (Oren et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

“…The rind colors of yellow and dark green in watermelon also follow the monogenic inheritance pattern. The gene named D for dark green is dominant to the d allele for light green rind (Li et al, 2019). One gene named go with single recessive inheritance pattern for yellow rind was first reported in 1956 (Barham, 1956).…”

Section: Introductionmentioning

confidence: 99%

Comparative Transcriptome Analysis Provides Insights Into Yellow Rind Formation and Preliminary Mapping of the Clyr (Yellow Rind) Gene in Watermelon

et al. 2020

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As an important appearance trait, the rind color of watermelon fruit affects the commodity value and further determines consumption choices. In this study, a comparative transcriptome analysis was conducted to elucidate the genes and pathways involved in the formation of yellow rind fruit in watermelon using a yellow rind inbred line WT4 and a green rind inbred line WM102. A total of 2,362 differentially expressed genes (DEGs) between WT4 and WM102 at three different stages (0, 7, and 14 DAP) were identified and 9,770 DEGs were obtained by comparing the expression level at 7 DAP and 14 DAP with the former stages of WT4. The function enrichment of DEGs revealed a number of pathways and terms in biological processes, cellular components, and molecular functions that were related to plant pigment metabolism, suggesting that there may be a group of common core genes regulating rind color formation. In addition, nextgeneration sequencing aided bulked-segregant analysis (BSA-seq) of the yellow rind pool and green rind pool selected from an F 2 population revealed that the yellow rind gene (Clyr) was mapped on the top end of chromosome 4. Based on the BSA-seq analysis result, Clyr was further confined to a region of 91.42 kb by linkage analysis using 1,106 F 2 plants. These results will aid in identifying the key genes and pathways associated with yellow rind formation and elucidating the molecular mechanism of rind color formation in watermelon.

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Genetics and Genomics of Fruit Quality Traits of Watermelon

McGregor,

Rijal,

Josiah

et al. 2023

Compendium of Plant Genomes

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Genetic mapping and development of molecular markers for a candidate gene locus controlling rind color in watermelon

Cited by 39 publications

References 58 publications

QTL Mapping of Fruit and Seed-related Traits in Watermelon Using Genotyping-by-Sequencing-based High-density Linkage Mapping

QTL Mapping of Fruit and Seed-related Traits in Watermelon Using Genotyping-by-Sequencing-based High-density Linkage Mapping

Comparative Transcriptome Analysis Provides Insights Into Yellow Rind Formation and Preliminary Mapping of the Clyr (Yellow Rind) Gene in Watermelon

Genetics and Genomics of Fruit Quality Traits of Watermelon

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