[1]张曼,王莹莹,刘金秋,等.基于BSA-seq技术定位调控西瓜红色果肉形成基因[J].江苏农业学报,2025,(05):952-959.[doi:doi:10.3969/j.issn.1000-4440.2025.05.014]
 ZHANG Man,WANG Yingying,LIU Jinqiu,et al.Identification of genes regulating the formation of red flesh in watermelon based on BSA-seq technology[J].,2025,(05):952-959.[doi:doi:10.3969/j.issn.1000-4440.2025.05.014]
点击复制

基于BSA-seq技术定位调控西瓜红色果肉形成基因()
分享到:

江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2025年05期
页码:
952-959
栏目:
园艺
出版日期:
2025-05-31

文章信息/Info

Title:
Identification of genes regulating the formation of red flesh in watermelon based on BSA-seq technology
作者:
张曼王莹莹刘金秋娄丽娜徐建羊杏平徐锦华
(江苏省农业科学院蔬菜研究所/江苏省高效园艺作物遗传改良重点实验室,江苏南京210014)
Author(s):
ZHANG ManWANG YingyingLIU JinqiuLOU LinaXU JianYANG XingpingXU Jinhua
(Institute of Vegetable Grops, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014, China)
关键词:
西瓜果肉颜色基因定位
Keywords:
watermelonflesh colorgene mapping
分类号:
S642.9
DOI:
doi:10.3969/j.issn.1000-4440.2025.05.014
文献标志码:
A
摘要:
果肉颜色是决定西瓜果实品质的重要性状。本研究以粉色果肉西瓜MW119和红色果肉西瓜MW120为亲本构建F2分离群体,从分离群体中选取红色果肉表型个体和粉色果肉表型个体分别构建子代混池,采用BSA-seq技术对亲本池和子代池进行覆盖深度为30×的全基因组重测序。通过△(SNP-index)法,在2号、4号、5号、6号、7号、9号和10号染色体上鉴定得到12个与红色果肉性状显著关联的区间,区间总长度为56.66 Mb。进一步对显著关联区间内116个携带非同义突变SNP和InDel移码突变的基因进行功能注释和表达分析,最终筛选出5个关键候选基因:WRKY转录因子基因Cla97C02G028430、邻甲基转移酶基因Cla97C02G028680、F-box蛋白基因Cla97C02G048400和Cla97C06G122530,以及三角状五肽重复蛋白基因Cla97C06G122120。这些基因在调控西瓜红色果肉形成中发挥重要作用。本研究结果进一步完善了西瓜红色果肉形成的分子机制,并为分子标记辅助育种提供了理论依据。
Abstract:
Flesh color is an important trait that determines the quality of watermelon fruit. In this study, we used the pink-fleshed watermelon MW119 and the red-fleshed watermelon MW120 as parents to construct an F2 segregating population. From this population, we selected individuals with red flesh and pink flesh phenotypes to create progeny bulks. We then performed whole-genome resequencing with a coverage depth of 30× on both the parental and progeny bulks using BSA-seq technology. By using the △(SNP-index) method, we identified 12 intervals significantly associated with the red flesh trait on chromosomes 2, 4, 5, 6, 7, 9, and 10, with a total length of 56.66 Mb. Further functional annotation and expression analysis were conducted on 116 genes within the significantly associated intervals that carried non-synonymous SNP and InDel frameshift mutations, ultimately leading to the selection of five key candidate genes: the WRKY transcription factor gene Cla97C02G028430, the O-methyltransferase gene Cla97C02G028680, the F-box protein genes Cla97C02G048400 and Cla97C06G122530, and the pentatricopeptide repeat protein gene Cla97C06G122120. These genes play a significant role in regulating the formation of red flesh in watermelon. The results of this study further refine the molecular mechanisms underlying the formation of red flesh in watermelon and provide a theoretical basis for marker-assisted breeding.

参考文献/References:

[1]GUO S G, ZHAO S J, SUN H H, et al. Resequencing of 414 cultivated and wild watermelon accessions identifies selection for fruit quality traits[J]. Nature Genetics,2019,5:1616-1623.
[2]李艳杰,康保珊,赵文恩,等. 西瓜中类胡萝卜素的高效液相色谱法分析[J]. 中国瓜菜,2005(4):12-15.
[3]王楠,刘识,朱子成,等. 红色和橙黄色果肉西瓜番茄红素和β-胡萝卜素代谢基因的表达分析[J]. 园艺学报,2016,43(5):918-926.
[4]BRANHAM S, VEXLER L, MEIR A, et al. Genetic mapping of a major codominant QTL associated with β-carotene accumulation in watermelon[J]. Molecular Breeding,2017,37(12):146.
[5]FANG X F, LI S L, ZHU Z C, et al. Clorf encodes carotenoid isomerase and regulates orange flesh color in watermelon (Citrullus lanatus L.)[J]. Journal of Agricultural and Food Chemistry,2023,71(42):15445-15455.
[6]KANG B S, ZHAO W E, HOU Y B, et al. Expression of carotenogenic genes during the development and ripening of watermelon fruit[J]. Scientia Horticulturae,2010,124:368-375.
[7]GRASSI S, PIRO G, LEE J M, et al. Comparative genomics reveals candidate carotenoid pathway regulators of ripening watermelon fruit[J]. BMC Genomics,2013,14:781.
[8]顾卫红,张燕,郑洪建. 西瓜的瓤色遗传及其环境调控作用[J]. 上海农业学报,2002,18(3):43-46.
[9]MARAGAL S, RAL E S, REDDY D C L. Genetic mapping and meta-analysis identifies several candidate genes for watermelon (Citrullus lanatus) fruit quality traits[J]. Scientia Horticulturae,2023,308:111545.
[10]刁卫楠,袁平丽,龚成胜,等. 西瓜果肉柠檬黄色的遗传分析和基因定位[J]. 中国农业科学,2021,54(18):3945-3958.
[11]LIU S, GAO Z Q, WANG X Z, et al. Nucleotide variation in the phytoene synthase (ClPsy1) gene contributes to golden flesh in watermelon (Citrullus lanatus L.)[J]. Theoretical and Applied Genetics,2022,135(1):185-200.
[12]LIU S, LIU M Q, CAO Y, et al. Identification of chromosome region and candidate genes for canary-yellow flesh (Cyf) locus in watermelon (Citrullus lanatus)[J]. Plant Science,2023,329:111594.
[13]PARK G, SHAHWAR D, JANG G, et al. Identification of a novel locus C2 controlling canary yellow flesh color in watermelons[J]. Frontiers in Genetics,2023,14:1256627.
[14]YI L C, ZHOU W, ZHANG Y, et al. Genetic mapping of a single nuclear locus determines the white flesh color in watermelon (Citrullus lanatus L.)[J]. Frontiers in Plant Science,2023,14:1090009.
[15]LIU S, GAO P, WANG X Z, et al. Mapping of quantitative trait loci for lycopene content and fruit traits in Citrullus lanatus[J]. Euphytica,2015,202(3):411-426.
[16]LIU S, GAO P, ZHU Q L, et al. Development of cleaved amplified polymorphic sequence markers and a CAPS-based genetic linkage map in watermelon (Citrullus lanatus (Thunb.) Matsum. and Nakai) constructed using whole-genome re-sequencing data[J]. Breeding Science,2016,66(2):244-259.
[17]FALL L A, PERKINS-VEAZIE P, MA G Y. QTLs associated with flesh quality traits in an elite_elite watermelon population[J]. Euphytica,2019,215:30.
[18]NIE H L, KIM M, LEE S, et al. High-quality genome assembly and genetic mapping reveal a gene regulating flesh color in watermelon (Citrullus lanatus)[J]. Frontiers in Plant Science,2023,14:1142856.
[19]SUN Y, KOU D R, LI Y, et al. Pan-genome of Citrullus genus highlights the extent of presence/absence variation during domestication and selection[J]. BMC Genomics,2023,24:332.
[20]JIN B K, JANG G, PARK G, et al. Development of a gene-based marker set for orange-colored watermelon flesh with a high β-carotene content[J]. International Journal of Molecular Sciences,2024,25:210.
[21]WANG C N, QIAO A H, FANG X F, et al. Fine mapping of lycopene content and flesh color related gene and development of molecular marker-assisted selection for flesh color in watermelon (Citrullus lanatus)[J]. Frontiers in Plant Science,2019,10:1240.
[22]LI N, SHANG J L, WANG J M, et al. Discovery of the genomic region and candidate genes of the scarlet red flesh color (Yscr) locus in watermelon (Citrullus Lanatus L.)[J]. Frontiers in Plant Science,2020,11:116.
[23]LIVAK K J, SCHMITTGEN T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2-△△Ct method[J]. Methods,2001,25(4):402-408.
[24]ZHANG W C, JI Z Q, HU G Q, et al. Clpf encodes pentatricopeptide repeat protein (PPR5) and regulates pink flesh color in watermelon (Citrullus lanatus L.)[J]. Theoretical and Applied Genetics,2024,137:126.
[25]FANG X F, LIU S, GAO P, et al. Expression of CLPAP and CLPSY1 in watermelon correlates with chromoplast differentiation,carotenoid accumulation,and flesh color formation[J]. Scientia Horticulturae,2020,270:10943.
[26]ZHANG J, SUN H H, GUO S G, et al. ClZISO mutation leads to photosensitive flesh in watermelon[J]. Theoretical and Applied Genetics,2022,135(5):1565-1578.
[27]LIU Y D, XIAO W, LIAO L, et al. A PpEIL2/3-PpNAC1-PpWRKY14 module regulates fruit ripening by modulating ethylene production in peach[J]. Journal of Integrative Plant Biology,2024,66(11):2470-2489.
[28]CAO Y, FANG X F, LIU S, et al. Isolation and activity analysis of phytoene synthase(ClPsy1) gene promoter of canary-yellow and golden flesh-color watermelon[J]. Agronomy,2023,13(4):1080.
[29]ZHANG J, GUO S G, REN Y, et al. High-level expression of a novel chromoplast phosphate transporter CLPHT4;2 is required for flesh color development in watermelon[J]. New Phytologist,2017,213:1208-1221.
[30]CHEN H Y, JI H Y, HUANG W K, et al. Transcription factor CrWRKY42 coregulates chlorophyll degradation and carotenoid biosynthesis in citrus[J]. Plant Physiology,2024,195(1):728-744.
[31]ZHAO W H, LI Y H, FAN S Z, et al. The transcription factor WRKY32 affects tomato fruit colour by regulating YELLOW FRUITED-TOMATO 1, a core component of ethylene signal transduction[J]. Journal of Experimental Botany,2021,72(12):4269-4282.
[32]苏玲,杨阳,王鹏飞,等. 葡萄中调控果皮颜色相关基因的研究进展[J]. 安徽农业科学,2018,46(2):19-22,26.
[33]张宝玺,郭家珍,杨佳梅,等. 辣椒绿熟期果色及主要色素含量的遗传[J]. 园艺学报,1996,23(1):94-96.
[34]HONG M J, KIM D Y, CHOI H, et al. Isolation and characterization of kelch repeat-containing F-box proteins from colored wheat[J]. Molecular Biology Reports,2020,47:1129-1141.
[35]金威恒,MUMTAZ M A,何成尧,等. 基于加权关联网络分析的辣椒(Capsicum annuum L.)果实颜色转变相关基因的鉴定(英文)[J]. 热带作物学报,2022,43(6):1129-1143.
[36]FEDER A, BURGER J, GAO S, et al. A kelch domain-containing F-box coding gene negatively regulates flavonoid accumulation in muskmelon[J]. Plant Physiology,2015,169(3):1714-1726.

相似文献/References:

[1]王夏雯,余翔,乔俊卿,等.西瓜茬后种植稻麦对土壤微生物数量和西瓜枯萎病发生的影响[J].江苏农业学报,2015,(06):1291.[doi:doi:10.3969/j.issn.1000-4440.2015.06.015]
 WANG Xia-wen,YU Xiang,QIAO Jun-qing,et al.Effect of rice-wheat rotation after watermelon season on the amount of soil microbes and the incidence of Fusarium wilt[J].,2015,(05):1291.[doi:doi:10.3969/j.issn.1000-4440.2015.06.015]
[2]王玮,汪国莲,梁双林,等.叶面喷施氨基多糖硒肥对西瓜生长及产量品质的影响[J].江苏农业学报,2019,(06):1413.[doi:doi:10.3969/j.issn.1000-4440.2019.06.021]
 WANG Wei,WANG Guo-lian,LIANG Shuang-lin,et al.Effects of selenium-aminopolysaccharide fertilizer on growth, yield and quality of watermelon[J].,2019,(05):1413.[doi:doi:10.3969/j.issn.1000-4440.2019.06.021]
[3]徐彦刚,姚协丰,李良俊,等.西瓜品种(品系)对蔓枯病的抗性鉴定与评价[J].江苏农业学报,2021,(01):106.[doi:doi:10.3969/j.issn.1000-4440.2021.01.014]
 XU Yan-gang,YAO Xie-feng,LI Liang-jun,et al.Identification and evaluation of the resistance to gummy stem blight caused by Stagonosporopsis citrulli of some watermelon varieties (strains)[J].,2021,(05):106.[doi:doi:10.3969/j.issn.1000-4440.2021.01.014]
[4]孟佳丽,吴绍军,沈虹,等.不同药剂处理对西瓜连作土壤的影响[J].江苏农业学报,2021,(03):651.[doi:doi:10.3969/j.issn.1000-4440.2021.03.013]
 MENG Jia-li,WU Shao-jun,SHEN Hong,et al.Effects of different chemical treatments on continuous cropping soil of watermelon[J].,2021,(05):651.[doi:doi:10.3969/j.issn.1000-4440.2021.03.013]
[5]刘欣,程瑞,徐兵划,等.基于KASP技术的SNP标记用于西瓜品种指纹图谱构建和种子纯度检测[J].江苏农业学报,2022,38(05):1348.[doi:doi:10.3969/j.issn.1000-4440.2022.05.022]
 LIU Xin,CHENG Rui,XU Bing-hua,et al.Application of SNP markers based on KASP technology in fingerprint construction and seed purity detection of watermelon varieties[J].,2022,38(05):1348.[doi:doi:10.3969/j.issn.1000-4440.2022.05.022]
[6]张朝阳,程瑞,徐兵划,等.BSA联合转录组分析发掘西瓜叶片黄化候选基因[J].江苏农业学报,2024,(01):165.[doi:doi:10.3969/j.issn.1000-4440.2024.01.018]
 ZHANG Chao-yang,CHENG Rui,XU Bing-hua,et al.Identification of candidate genes for watermelon leaf yellowing based on BSA and transcriptome analysis[J].,2024,(05):165.[doi:doi:10.3969/j.issn.1000-4440.2024.01.018]
[7]张高原,魏兵强.西瓜隐性核雄性不育相关基因筛选及定位[J].江苏农业学报,2024,(06):1089.[doi:doi:10.3969/j.issn.1000-4440.2024.06.016]
 ZHANG Gaoyuan,WEI Bingqiang.Screening and mapping of genes related to recessive nuclear male sterility in watermelon[J].,2024,(05):1089.[doi:doi:10.3969/j.issn.1000-4440.2024.06.016]
[8]任元龙,马蓉,王晓卓,等.叶面喷施褪黑素对盐胁迫下西瓜幼苗的影响[J].江苏农业学报,2024,(11):2140.[doi:doi:10.3969/j.issn.1000-4440.2024.11.018]
 REN Yuanlong,MA Rong,WANG Xiaozhuo,et al.Effects of foliar melatonin spray on watermelon seedlings under salt stress[J].,2024,(05):2140.[doi:doi:10.3969/j.issn.1000-4440.2024.11.018]

备注/Memo

备注/Memo:
收稿日期:2024-05-23基金项目:江苏省现代农业重点及面上项目(BE2022339);江苏省种业振兴“揭榜挂帅”项目[JBGS(2021)069]作者简介:张曼(1981-),女,山西运城人,博士,副研究员,研究方向为西瓜分子育种。(E-mail)mzhang@jaas.ac.cn通讯作者:徐锦华,(E-mail)xjhyznj88@163.com
更新日期/Last Update: 2025-06-24