Molecular Breeding最新文献

{"title":"A cooking and eating quality evaluating system for whole grain black rice.","authors":"Hangxue Tian, Yanhua Li, Yunrui Lu, Qinglu Zhang, Zhengji Wang, Shanshan Li, Yuqiong Zhou, Qifa Zhang, Jinghua Xiao","doi":"10.1007/s11032-024-01535-z","DOIUrl":"10.1007/s11032-024-01535-z","url":null,"abstract":"<p><p>Black rice has a long history of cultivation in Asia especially China. As a whole grain, black rice is rich in diverse nutrients including proteins, vitamins, amino acids, minerals, unsaturated fatty acids, dietary fibers, alkaloids, carotenes, phenolic compounds, and anthocyanins, in addition to starch. Many studies have demonstrated a range of health-promoting effects by black rice, which has greatly attracted the attention of consumers. However, the production and consumption of black rice has been low mostly because of its poor cooking and eating quality. To address this problem, the first is a need for technology to evaluate the cooking and eating quality of black rice. In this study, we investigated the feasibility of using Rice Taste Evaluation System (RTES) as a proxy approach to eating and cooking quality evaluation of whole grain black rice (WGBR). Totally, 775 black rice samples obtained from 363 accessions harvested from field planting were evaluated both with sensory evaluation by panelists and with RTES consisting of a cooked rice taste analyzer and a hardness and stickiness meter, which produced 8 characteristic parameters. We obtained highly significant correlation (<i>R</i> ^<i>2</i>  = 0.867, <i>P</i> < 2.2 × 10^-16) between sensory test scores and RTES values by multiple linear regression equation based on the selected variables, which was validated with just as high correlation, indicating that the RTES can provide equivalent results the sensory test. With the efficiency of this equipment, the RTES can provide a convenient and accurate tool for high throughput evaluation of cooking and eating quality of WGBR for breeding and other usages.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01535-z.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"7"},"PeriodicalIF":2.6,"publicationDate":"2024-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11685361/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142914870","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of inheritance and genetic loci responsible for wrinkled fruit surface phenotype in chili pepper (<i>Capsicum annuum</i>) by quantitative trait locus analysis.","authors":"Nahed Ahmed, Kenichi Matsushima, Kazuhiro Nemoto, Fumiya Kondo","doi":"10.1007/s11032-024-01528-y","DOIUrl":"10.1007/s11032-024-01528-y","url":null,"abstract":"<p><p>The phenotypes of chili pepper (<i>Capsicum annuum</i>) fruit are sometimes characterized by having either smooth or wrinkled surfaces, both of which are commercially important. However, as the inheritance patterns and responsible loci have not yet been identified, it is difficult to control fruit surface traits in conventional chili pepper breeding. To obtain new insights into these aspects, we attempted to clarify the genetic regulation mechanisms responsible for the wrinkled surface of fruit from the Japanese chili pepper 'Shishito' (<i>C</i>. <i>annuum</i>). First, we investigated the segregation patterns of fruit-surface wrinkling in F₂ progeny obtained from crosses between the <i>C</i>. <i>annuum</i> cultivars 'Shishito' and 'Takanotsume', the latter of which has a smooth fruit surface. The F₂ progeny exhibited a continuous variation in the level of wrinkling, indicating that the wrinkled surface in 'Shishito' was a quantitative trait. To identify the responsible loci, we performed quantitative trait locus (QTL) analysis of the F₂ progeny using restriction site-associated DNA sequencing data obtained in our previous study. The results showed that two significant QTLs (<i>Wr11</i> and <i>Wr12</i>) were newly detected on chromosome 11 and 12, which explained 17.5 and 66.0% of the genetic variance, respectively. We then investigated the genetic effects of these QTLs using molecular markers. The findings showed that the levels of wrinkling in the F₂ progeny could mostly be explained by the independent additive effects of the 'Shishito' allele in <i>Wr12</i>. This locus was therefore considered to be a useful genomic region for controlling fruit surface traits in the chili pepper.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01528-y.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"5"},"PeriodicalIF":2.6,"publicationDate":"2024-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11671457/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142903409","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genetic diversity and population structure of sweet corn in China as revealed by mSNP.","authors":"Quannv Yang, Zifeng Guo, Yunbi Xu, Yunbo Wang","doi":"10.1007/s11032-024-01533-1","DOIUrl":"10.1007/s11032-024-01533-1","url":null,"abstract":"<p><p>Corn is a widely grown cereal crop that serves as a model plant for genetic and evolutionary studies. However, the heterosis pattern of sweet corn remains unclear. Here, we analysed the genetic diversity and population structure of 514 sweet corn inbred lines and 181 field corn inbred lines. The population structure study enabled the classification of sweet corn into four groups: temperate sweet corns 1 and 2, tropical sweet corn, and subtropical sweet corn, in addition to the temperate and tropical field corn groups. Temperate sweet corn groups 1 and 2 were merged into the temperate sweet corn cluster in the phylogenetic trees. Principal component analysis divided sweet corn into four groups: temperate groups 1 and 2, tropical, and subtropical. Sweet corn exhibited lower levels of genetic diversity, polymorphism information content, and minor allele frequency than field corn. The average genetic distances and differentiation coefficients between inbreds within each sweet corn group were lower than those within field corn groups, indicating a relatively narrow genetic base in sweet corn. Taken together, the 514 sweet corn inbred lines can be divided into four groups: temperate 1, temperate 2, tropical, and subtropical. The classification of sweet corn groups in this study provides a reference for the breeding of sweet corn.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01533-1.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"6"},"PeriodicalIF":2.6,"publicationDate":"2024-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11671667/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142903406","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic identification of the <i>NF-Y</i> gene family in apple and functional analysis of <i>MdNF-YB18</i> involved in flowering transition.","authors":"Cai Gao, Pengyan Wei, Zushu Xie, Pan Zhang, Muhammad Mobeen Tahir, Turgunbayev Kubanychbek Toktonazarovich, Yawen Shen, Xiya Zuo, Jiangping Mao, Dong Zhang, Yanrong Lv, Xiaoyun Zhang","doi":"10.1007/s11032-024-01524-2","DOIUrl":"10.1007/s11032-024-01524-2","url":null,"abstract":"<p><p>Apple is a crucial economic product extensively cultivated worldwide. Its production and quality are closely related to the floral transition, which is regulated by intricate molecular and environmental factors. <i>Nuclear factor Y</i> (<i>NF-Y</i>) is a transcription factor that is involved in regulating plant growth and development, with certain <i>NF-Ys</i> play significant roles in regulating flowering. However, there is little information available regarding <i>NF-Ys</i> and their role in apple flowering development. In the present study, 51 NF-Y proteins were identified and classified into three subfamilies, including 11 MdNF-YAs, 26 MdNF-YBs, and 14 MdNF-YCs, according to their structural and phylogenetic features. Further functional analysis focused on <i>MdNF-YB18.</i> Overexpression of <i>MdNF-YB18</i> in <i>Arabidopsis</i> resulted in earlier flowering compared to the wild-type plants. Subcellular localization confirmed <i>MdNF-YB18</i> was located in the nuclear. Interaction between MdNFY-B18 and MdNF-YC3/7 was demonstrated through yeast two-hybrid (Y2H) and bimolecular fluorescence complementation (BiFC) assays. Yeast one-hybrid (Y1H) and the dual-luciferase reporter assays showed MdNF-YB18 could bind the promoter of <i>MdFT1</i> and activate its expression. Moreover, this activation was enhanced with the addition of MdNF-YC3 and MdNF-YC7. Additionally, MdNF-YB18 also could interact with <i>MdCOLs</i> (<i>CONSTANS Like</i>). This study lays the foundation for exploring the functional traits of MdNF-Y proteins, highlighting the crucial role of <i>MdNF-YB18</i> in activating <i>MdFT1</i> in <i>Malus</i>.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01524-2.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"4"},"PeriodicalIF":2.6,"publicationDate":"2024-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11668704/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142895713","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of superior haplotypes and candidate gene for seed size-related traits in soybean (<i>Glycine max</i> L.).","authors":"Ye Zhang, Xinjing Yang, Javaid Akhter Bhat, Yaohua Zhang, Moran Bu, Beifang Zhao, Suxin Yang","doi":"10.1007/s11032-024-01525-1","DOIUrl":"10.1007/s11032-024-01525-1","url":null,"abstract":"<p><p>Seed size is an economically important trait that directly determines the seed yield in soybean. In the current investigation, we used an integrated strategy of linkage mapping, association mapping, haplotype analysis and candidate gene analysis to determine the genetic makeup of four seed size-related traits viz., 100-seed weight (HSW), seed area (SA), seed length (SL), and seed width (SW) in soybean. Linkage mapping identified a total of 23 quantitative trait loci (QTL) associated with four seed size-related traits in the F₂ population; among them, 17 were detected as novel QTLs, whereas the remaining six viz., <i>qHSW3-1</i>, <i>qHSW4-1</i>, <i>qHSW18-1</i>, <i>qHSW19-1</i>, <i>qSL4-1</i> and <i>qSW6-1</i> have been previously identified. Six out of 23 QTLs were major possessing phenotypic variation explained (PVE) ≥ 10%. Besides, the four QTL Clusters/QTL Hotspots harboring multiple QTLs for different seed size-related traits were identified on Chr.04, Chr.16, Chr.19 and Chr.20. Genome-wide association study (GWAS) identified a total of 62 SNPs significantly associated with the four seed size-related traits. Interestingly, the QTL viz., <i>qHSW18-1</i> was identified by both linkage mapping and GWAS, and was regarded as the most stable loci regulating HSW in soybean. <i>In-silico</i>, sequencing and qRT-PCR analysis identified the <i>Glyma.18G242400</i> as the most potential candidate gene underlying the <i>qHSW18-1</i> for regulating HSW. Moreover, three haplotype blocks viz., Hap2, Hap6A and Hap6B were identified for the SW trait, and one haplotype was identified within the <i>Glyma.18G242400</i> for the HSW. These four haplotypes harbor three to seven haplotype alleles across the association mapping panel of 350 soybean accessions, regulating the seed size from lowest to highest through intermediate phenotypes. Hence, the outcome of the current investigation can be utilized as a potential genetic and genomic resource for breeding the improved seed size in soybean.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01525-1.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"3"},"PeriodicalIF":2.6,"publicationDate":"2024-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11663835/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142882463","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The pan-NLRome analysis based on 23 genomes reveals the diversity of NLRs in <i>Brassica napus</i>.","authors":"Weidong Ning, Wenzheng Wang, Zijian Liu, Weibo Xie, Hanchen Chen, Dengfeng Hong, Qing-Yong Yang, Shifeng Cheng, Liang Guo","doi":"10.1007/s11032-024-01522-4","DOIUrl":"10.1007/s11032-024-01522-4","url":null,"abstract":"<p><p><i>Brassica napus</i>, a globally significant oilseed crop, exhibits a wide distribution across diverse climatic zones. <i>B. napus</i> is being increasingly susceptible to distinct diseases, such as blackleg, clubroot and sclerotinia stem rot, leading to substantial reductions in yield. Nucleotide-binding site leucine-rich repeat genes (<i>NLRs</i>), the most pivotal family of resistance genes, can be effectively harnessed by identifying and uncovering their diversity to acquire premium disease-resistant gene resources. Here, we collected the genomes of 23 accessions and established the first comprehensive pan-NLRome in <i>B. napus</i> by leveraging multiple genomic resources. We observe significant variation in the number of <i>NLR</i> genes across different <i>B. napus</i> accessions, ranging from 189 to 474. Notably, <i>TNL</i> (TIR-NBS-LRR) genes constitute approximately half of the total count, indicating their predominant presence in <i>B. napus</i>. The number of <i>NLRs</i> in the C subgenome is significantly higher than that in the A subgenome, and chromosome C09 exhibits the highest density of <i>NLR</i> genes with featuring multiple <i>NLR</i> clusters. Domain analysis reveals that the integrated domains significantly enhance the diversity of NLRs, with B3 DNA binding, VQ, and zinc fingers being the most prevalent integrated domains. Pan-genomic analysis reveals that the core type of <i>NLR</i> genes, which is present in most accessions, constitutes approximately 58% of the total <i>NLRs</i>. Furthermore, we conduct a comparative analysis of the diversity of <i>NLR</i> genes across distinct ecotypes, leading to the identification of ecotype-specific NLRs and their integrated domains. In conclusion, our study effectively addresses the limitations of a single reference genome and provides valuable insights into the diversity of <i>NLR</i> genes in <i>B. napus</i>, thereby contributing to disease resistance breeding.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"44 12","pages":"2"},"PeriodicalIF":2.6,"publicationDate":"2024-12-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11655762/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142877395","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Abnormal transition from meiosis I to meiosis II induces male sterility in a seedless artificial hybrid of citrus.","authors":"Zhixiong Rao, Ruotian Sun, Shengjun Liu, Wanqi Ai, Lizhi Song, Xia Wang, Qiang Xu","doi":"10.1007/s11032-024-01521-5","DOIUrl":"10.1007/s11032-024-01521-5","url":null,"abstract":"<p><p>Male sterility is an important trait for breeding and for the seedless fruit production in citrus. We identified one seedling which exhibiting male sterility and seedlessness (named <i>ms1</i> hereafter), from a cross between two fertile parents, with sour orange (<i>Citrus aurantium</i>) as seed parent and Ponkan mandarin (<i>Citrus reticulata</i>) as pollen parent. Analysis using pollen viability staining, scanning electron microscopy (SEM), and transmission electron microscopy (TEM) revealed that the mature pollen of the <i>ms1</i> was aborted, displaying collapse and deformity. Further cytological analysis identified the abnormal formation of monad, dyad, and tetrad instead of the normal tetrad formation, leading to meiotic failure in the seedless hybrid. By comparative transcript profiling of meiotic anther of fertile and sterile hybrids, we observed significant downregulation of <i>CYCA1;2</i> (<i>TAM</i>) and <i>OSD1</i> genes in the hybrid, which known to control the transition from meiosis I to meiosis II in plants. These results indicated abnormal meiosis led to the male sterility of the seedless hybrid and that the decreased activities of kinases and cyclins may associated with the failure of the transition of meiosis I to meiosis II during anthers development.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01521-5.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"45 1","pages":"1"},"PeriodicalIF":2.6,"publicationDate":"2024-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11649890/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142854829","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Utilization of the <i>Dasypyrum</i> genus for genetic improvement of wheat.","authors":"Jie Zhang, Qian Chen, Fan Yang, Ying Wang, Jun Xiao, Hongxia Ding, Qiang Ma, Qian Deng, Yun Jiang","doi":"10.1007/s11032-024-01512-6","DOIUrl":"10.1007/s11032-024-01512-6","url":null,"abstract":"<p><p>The <i>Dasypyrum</i> genus species are found predominantly in the Mediterranean region. They possess an array of agronomically essential traits, such as resistance to biotic and abiotic stresses, high protein content, and better grain quality, and are thus a valuable genetic resources for wheat improvement. In recent decades, there has been significant progress in the development of wheat-<i>Dasypyrum</i> genetic stocks, leading to the successful transfer of beneficial genes from <i>Dasypyrum</i> into cultivated wheat. Notably, the chromosome-scale genome assembly of <i>Dasypyrum villosum</i> was preliminarily completed in 2023, laying the groundwork for functional genomics research and wheat-<i>Dasypyrum</i> introgression breeding. This article aims to provide a concise overview of the relationships between different species belonging to the <i>Dasypyrum</i> genus, the development of wheat-<i>Dasypyrum</i> genetic stocks, the desirable genes derived from <i>Dasypyrum</i>, and the molecular and cytogenetic markers that could be used to identify <i>Dasypyrum</i> chromatins. These insights can assist wheat breeders in utilizing the <i>Dasypyrum</i> genus in future wheat breeding endeavors.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"44 12","pages":"82"},"PeriodicalIF":2.6,"publicationDate":"2024-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11646256/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142837752","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Map-based cloning and characterization of <i>yg-2</i>, a gene conferring yellow-green leaf in tomato (<i>Solanum lycopersicum</i>).","authors":"Xiaomei Su, Hongjun Lyu, Jing Li, Shumei Liu, Jianchang Gao, Lixia Hou","doi":"10.1007/s11032-024-01519-z","DOIUrl":"10.1007/s11032-024-01519-z","url":null,"abstract":"<p><p>Leaves play a critical role in plant growth and development, directly influencing crop yield through their essential functions in photosynthesis and respiration. This study employed inheritance analysis and gene mapping of an F₂ population derived from a cross between a spontaneous yellow-green leaf tomato mutant and a wild-type tomato line. The findings conclusively demonstrated that the yellow-green leaf trait is controlled by a single recessive gene. Subsequent fine-mapping localized this gene to a 270-kb region on chromosome 12 of the reference Heinz 1706 genome. Annotation and functional characterization of genes within this region indicated <i>Solyc12g009470</i> (<i>yg-2</i>) as the primary candidate gene influencing the yellow-green phenotype trait. Sequencing analysis revealed a 49-bp deletion in the first exon of <i>yg-2</i>, resulting in suppressed <i>yg-2</i> expression. This functional role was further confirmed through <i>Solyc12g009470</i> gene editing in tomatoes. Moreover, comparative analyses of photosynthetic pigments and chloroplast ultrastructure revealed notable differences between the mutant and the wild-type lines. Furthermore, the mutant exhibited reduced photosynthetic rate and yield-related agronomic traits. These findings provide valuable insights into the molecular mechanisms underlying yellow-green leaf formation in tomatoes.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"44 12","pages":"81"},"PeriodicalIF":2.6,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11576695/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142687682","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-Wide Association Study on Cowpea seed coat color using RGB images.","authors":"Liny Lay, Waleed Khan, Hyun Jo, Seong-Hoon Kim, Yoonha Kim","doi":"10.1007/s11032-024-01516-2","DOIUrl":"10.1007/s11032-024-01516-2","url":null,"abstract":"<p><p>This study delves into the genetic mechanisms underlying seed coat color variation in cowpeas <i>(Vigna unguiculata</i> [L.] Walp.), a trait with significant implications for nutritional value, consumer preference, and adaptation to environmental stresses. Through a genome-wide association study (GWAS) involving cowpea accessions exhibiting red, green, and blue seed coats, we identified 16 significant single nucleotide polymorphisms (SNPs) distributed across chromosomes 3, 4, 5, 9, 10, and 11. Our analysis highlighted the polygenic nature of seed coat color, emphasizing the shared SNP loci across different colors, suggesting integrated genetic influence or linked inheritance patterns, especially on chromosomes 9 and 10. We highlighted candidate genes, including Pentatricopeptide repeat family (PPR), Lupus La-related protein/La-related protein 1, and Udp-glycosyltransferase 71b2-related genes on chromosome 9, and MYB-like DNA-binding (MYB) genes on chromosome 10, all of which are implicated in pigment biosynthesis and regulatory pathways crucial to seed coat coloration and plant physiological processes. Our results corroborate previous findings linking seed coat color to the anthocyanin biosynthesis pathway and reveal the complex genetic architecture and phenotypic plasticity inherent in cowpeas. The overlap in quantitative trait loci (QTL) regions across different seed coat colors points to a shared genetic basis, potentially enabling the manipulation of seed coat color to enhance the nutritional profile and marketability of cowpeas.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s11032-024-01516-2.</p>","PeriodicalId":18769,"journal":{"name":"Molecular Breeding","volume":"44 12","pages":"80"},"PeriodicalIF":2.6,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11576706/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142687681","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}