Ashburner M, Ball C A, Blake J A, Botstein D, Butler H, Cherry J M, Davis A P, Dolinski K, Dwight S S, Eppig J T, Harris M A, Hill D P, Issel-Tarver L, Kasarskis A, Lewis S, Matese J C, Richardson J E, Ringwald M, Rubin G M, Sherlock G. 2000. Gene ontology: tool for the unification of biology. Nature Genetics, 25, 25–29.

Borovsky Y, Monsonego N, Mohan V, Shabtai S, Kamara I, Faigenboim A, Hill T, Chen S, Stoffel K, Van Deynze A, Paran I. 2019. The zinc‐finger transcription factor CcLOL1 controls chloroplast development and immature pepper fruit color in Capsicum chinense and its function is conserved in tomato. The Plant Journal, 99, 41–55.

Cao Y, Diao Q, Chen Y, Jin H, Zhang Y, Zhang H. 2021. Development of KASP markers and identification of a QTL underlying powdery mildew resistance in melon (Cucumis melo L.) By bulked segregant analysis and RNA-seq. Frontiers in Plant Science, 11, 593207.

Chang J, Zhang F, Qin H, Liu P, Wang J, Wu S. 2021. Mutation of SlARC6 leads to tissue-specific defects in chloroplast development in tomato. Horticulture Research, 8, 127.

Chen C, Wu Y, Li J, Wang X, Zeng Z, Xu J, Liu Y, Feng J, Chen H, He Y, Xia R. 2023. Tbtools-II, a “one for all, all for one” bioinformatics platform for biological big-data mining. Molecular Plant, 16, 1733–1742.

Du M, Zhou K, Liu Y, Deng L, Zhang X, Lin L, Zhou M, Zhao W, Wen C, Xing J, Li C B, Li C. 2020. A biotechnology‐based male‐sterility system for hybrid seed production in tomato. The Plant Journal, 102, 1090–1100.

Duan X, Yuan Y, Real N, Tang M, Ren J, Wei J, Liu B, Zhang X. 2024. Fine mapping and identification of candidate genes associated with powdery mildew resistance in melon (Cucumis melo L.). Horticulture Research, 11, uhae222.

Feder A, Burger J, Gao S, Lewinsohn E, Katzir N, Schaffer A A, Meir A, Davidovich-Rikanati R, Portnoy V, Gal-On A, Fei Z, Kashi Y, Tadmor Y. 2015. A Kelch domain-containing F-box coding gene negatively regulates flavonoid accumulation in muskmelon. Plant Physiology, 169, 1714–1726.

Fitter D W, Martin D J, Copley M J, Scotland R W, Langdale J A. 2002. GLK gene pairs regulate chloroplast development in diverse plant species. The Plant Journal, 31, 713–727.

Gao P, Ma H, Luan F, Song H. 2012. DNA fingerprinting of chinese melon provides evidentiary support of seed quality appraisal. PLoS ONE, 7, e52431.

Hao Y, Song Q, Chen H, Zou H, Wei W, Kang X, Ma B, Zhang W, Zhang J, Chen S. 2010. Plant NAC-type transcription factor proteins contain a NARD domain for repression of transcriptional activation. Planta, 232, 1033–1043.

Islam M R, Hossain M R, Jesse D M I, Jung H, Kim H, Park J, Nou I. 2020. Development of molecular marker linked with bacterial fruit blotch resistance in melon (Cucumis melo L.). Genes, 11, 220.

Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M. 2004. The KEGG resource for deciphering the genome. Nucleic Acids Research, 32, D277–D280.

Karim K M R, Rafii M Y, Misran A B, Ismail M F B, Harun A R, Khan M M H, Chowdhury M F N. 2021. Current and prospective strategies in the varietal improvement of chilli (Capsicum annuum L.) specially heterosis breeding. Agronomy, 11, 2217.

Kong Q, Gao L, Cao L, Liu Y, Saba H, Huang Y, Bie Z. 2016. Assessment of suitable reference genes for quantitative gene expression studies in melon fruits. Frontiers in Plant Science, 7, 1178.

Li H, Durbin R. 2009. Fast and accurate short read alignment with burrows-wheeler transform. Bioinformatics, 25, 1754–1760.

Li Z, Xu Y. 2022. Bulk segregation analysis in the NGS era, a review of its teenage years. The Plant Journal, 109, 1355–1374.

Liu H, Jiao J, Liang X, Liu J, Meng H, Chen H, Li Y, Cheng Z. 2016. Map-based cloning, identification and characterization of the w gene controlling white immature fruit color in cucumber (Cucumis sativus L.). Theoretical and Applied Genetics, 129, 1247–1256.

Liang X, Wang J, Cao L, Du X, Qiang J, Li W, Wang P, Hou J, Li X, Mao W, Zhu H, Yang L, Li Q, Hu J. 2024. An allelic variation in the promoter of the LRR-RLK gene, qSS6.1, is associated with melon seed size. Journal of Integrative Agriculture, 23, 2095–3119.

Love M I, Huber W, Anders S. 2014. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology,15, 550.

Lv Y, Gao P, Liu S, Fang X, Zhang T, Liu T, Amanullah S, Wang X, Luan F. 2022. Genetic mapping and QTL analysis of stigma color in melon (Cucumis melo L.). Frontiers in Plant Science, 13, 865082.

Mckenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, Daly M, DePristo M A. 2010. The genome analysis toolkit: A mapreduce framework for analyzing next-generation DNA sequencing data. Genome Research, 20, 1297–1303.

Mo C, Wang H, Wei M, Zeng Q, Zhang X, Fei Z, Zhang Y, Kong Q. 2024. Complete genome assembly provides a high-quality skeleton for pan-NLRome construction in melon. The Plant Journal, 118, 2249–2268.

Nadakuduti S S, Holdsworth W L, Klein C L, Barry C S. 2014. KNOX genes influence a gradient of fruit chloroplast development through regulation of GOLDEN2‐LIKE expression in tomato. The Plant Journal, 78, 1022–1033.

Oren E, Tzuri G, Vexler L, Dafna A, Meir A, Faigenboim A, Kenigswald M, Portnoy V, Schaffer A A, Levi A, Buckler E S, Katzir N, Burger J, Tadmor Y, Gur A. 2019. The multi-allelic APRR2 gene is associated with fruit pigment accumulation in melon and watermelon. Journal of Experimental Botany, 70, 3781–3794.

Paris H S, Hanan A, Baumkoler F. 2013. Another gene affecting fruit and stem color in squash, Cucurbita pepo. Euphytica, 191, 99–107.

Sainz M B, Grotewold E, Chandler V L. 1997. Evidence for direct activation of an anthocyanin promoter by the maize Cl protein and comparison of DNA binding by related Myb domain proteins. The Plant Cell, 9, 611–625.

Tzuri G, Zhou X, Chayut N, Yuan H, Portnoy V, Meir A, Sa’Ar U, Baumkoler F, Mazourek M, Lewinsohn E, Fei Z, Schaffer A A, Li L, Burger J, Katzir N, Tadmor Y. 2015. A ‘golden’ SNP in CmOr governs the fruit flesh color of melon (Cucumis melo). The Plant Journal, 82, 267–279.

Wang J, Dai Y, Pan L, Chen Y, Dai L, Ma Y, Zhou X, Miao W, Hamid M R, Zou X, Liu F, Xiong C. 2025. Fine mapping and identification of CaTTG1, a candidate gene that regulates the hypocotyl anthocyanin accumulation in Capsicum annuum L. Horticultural Plant Journal, 11, 264–274.

Wei M, Huang Y, Mo C, Wang H, Zeng Q, Yang W, Chen J, Zhang X, Kong Q. 2023. Telomere-to-telomere genome assembly of melon (Cucumis melo L. var. inodorus) provides a high-quality reference for meta-QTL analysis of important traits. Horticulture Research, 10, uhad189.

Wu Q, Wu X, Zhang X, Jiang C, Xiao B, Zhang Y, Wang Y, Liu G. 2014. Mapping of two white stem genes in tetraploid common tobacco (Nicotiana tabacum L.). Molecular Breeding, 34,1065–1074.

Yang S, Wang X, Yan W, Zhang Y, Song P, Guo Y, Xie K, Hu J, Hou J, Wu Y, Zhu H, Sun S, Yang L. 2023. Melon yellow-green plant (Cmygp) encodes a Golden2-like transcription factor regulating chlorophyll synthesis and chloroplast development. Theoretical and Applied Genetics, 136, 66.

Ye S, Wang Y, Huang D, Li J, Gong Y, Xu L, Liu L. 2013. Genetic purity testing of F1 hybrid seed with molecular markers in cabbage (Brassica oleracea var. capitata). Scientia Horticulturae, 155, 92–96.

Zhai X, Wu H, Wang Y, Zhang Z, Shan L, Zhao X, Wang R, Liu C, Weng Y, Wang Y, Liu X, Ren H. 2022. The fruit glossiness locus, dull fruit (D), encodes a C2H2-type zinc finger transcription factor, CsDULL, in cucumber (Cucumis sativus L.). Horticulture Research, 9, 146.

Zhang H, Li X, Yu H, Zhang Y, Li M, Wang H, Wang D, Wang H, Fu Q, Liu M, Ji C, Ma L, Tang J, Li S, Miao J, Zheng H, Yi H. 2019. A high-quality melon genome assembly provides insights into genetic basis of fruit trait improvement. iScience, 22, 16–27.

Zhang K, Yuan M, Xia H, He L, Ma J, Wang M, Zhao H, Hou L, Zhao S, Li P, Tian R, Pan J, Li G, Thudi M, Ma C, Wang X, Zhao C. 2022. BSA-seq and genetic mapping reveals AhRt2 as a candidate gene responsible for red testa of peanut. Theoretical and Applied Genetics, 135, 1529–1540.

Zhang L, Huang Z, Wang X, Gao J, Guo Y, Du Y, Hu H. 2016. Fine mapping and molecular marker development of anthocyanin absent, a seedling morphological marker for the selection of male sterile 10 in tomato. Molecular Breeding, 36, 107.

Zhang X, Ling Y, Yang W, Wei M, Wang Z, Li M, Yang Y, Liu B, Yi H, Guo Y, Kong Q. 2023. Fine mapping of a novel QTL DM9.1 conferring downy mildew resistance in melon. Frontiers in Plant Science, 14, 1202775.

Zhao G, Lian Q, Zhang Z, Fu Q, He Y, Ma S, Ruggieri V, Monforte A J, Wang P, Julca I, Wang H, Liu J, Xu Y, Wang R, Ji J, Xu Z, Kong W, Zhong Y, Shang J, Pereira L, et al. 2019. A comprehensive genome variation map of melon identifies multiple domestication events and loci influencing agronomic traits. Nature Genetics, 51, 1607–1615.

Zhu L, Wang Y, Zhang Z, Hu D, Wang Z, Hu J, Ma C, Yang L, Sun S, Li Y. 2022. Chromosomal fragment deletion in APRR2-repeated locus modulates the dark stem color in Cucurbita pepo. Theoretical and Applied Genetics, 135, 4277–4288.