Horticulture Research最新文献

{"title":"Metabolites-mediated responses of phyllosphere microbiota to powdery mildew infection in resistant and susceptible black currant cultivars","authors":"Xueying Zhao, Along Chen, Xiaonan Gong, Peng Zhang, Kaojia Cui, Shuxian Li, Weixia Zhang, Chenqiao Zhu, Huixin Gang, Junwei Huo, Fuchun Xie, Dong Qin","doi":"10.1093/hr/uhaf092","DOIUrl":"https://doi.org/10.1093/hr/uhaf092","url":null,"abstract":"Plant-metabolite-microbe interactions play essential roles in disease suppression. Most studies focus on the root exudates and rhizosphere microbiota to fight soil-borne pathogens, but it is poorly understood whether the changes in phyllosphere metabolites can actively recruit beneficial microbes to enhance disease resistance. In this study, the differences of phyllosphere microbial communities and key leaf metabolites were systematically explored in resistant and susceptible black currant cultivars related to powdery mildew (PM) by integrating microbiome and metabolomic analyses. The results showed that the diversity and composition of microbiome changed, as highlighted by a reduction in microbial alpha-diversity and beta-diversity of susceptible cultivars. An increasing fungal network complexity and a decreasing bacterial network complexity occurred in resistant cultivar. Bacillus, Burkholderia (bacteria), and Penicillium (fungi) were identified as keystone microorganisms and resistance effectors in resistant cultivar. Metabolites such as salicylic acid, trans-zeatin, and griseofulvin were more abundant in resistant cultivar, which had a positive regulatory effect on the abundance of bacterial and fungal keystones. These findings unravel that resistant cultivar can enrich beneficial microorganisms by adjusting leaf metabolites, thus showing the external disease-resistant response. Moreover, the reduced stomatal number and increased tissue thickness were observed in resistant cultivar, suggesting inherent physical structure also provides a basic defense against PM pathogens. Therefore, resistant black currant cultivar displayed multi-level defense responses of physical structures, metabolites and microorganisms to PM pathogens. Collectively, our study highlights the potential for utilizing phyllosphere microbiome dynamics and metabolomic adjustments in agricultural practices, plant breeding, and microbiome engineering to develop disease-resistant crops.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"34 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143733958","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A single base mutation in promoter of CsTPR enhances the negative regulation on mechanical related leaves droopiness in tea plant","authors":"Haoran Liu, Lingxiao Duan, Chaqin Tang, Jianqiang Ma, Ji-Qiang Jin, Jiedan Chen, Weizhong He, Mingzhe Yao, Liang Chen","doi":"10.1093/hr/uhaf098","DOIUrl":"https://doi.org/10.1093/hr/uhaf098","url":null,"abstract":"Mechanical harvesting in the tea industry has become increasingly essential due to its advantages in increasing productivity and reducing labor costs. Leaves droopiness caused a high rate of broken leaves, hindering the mechanized harvesting quality. However, the underlying mechanisms remain unclear. We herein identified a quantitative trait loci, designated as q10.3, along with three lead SNPs located near a TPR gene (TETRATRICOPEPTIDE REPEAT), named CsTPR, through performing a genome-wide association study (GWAS) on 130 tea accessions. Integrated analysis of RNA-seq and ATAC-seq confirmed CsTPR as a droopiness-associated candidate gene at the transcriptional level. CsTPR was then proved to negatively regulate brassinosteroid -induced droopiness by using the CsTPR-silencing tea plant. The whole genome sequencing (WGS) and genome walking cloning further indicated that a single base mutation (T to A) in the promoter of CsTPR. ChIP-seq revealed that this mutation occurred within the binding site, E-box, of CsBES1.2 on the CsTPR promoter. Notably, CsBES1.2 bound the E-box of CsTPR promoter to repress the expression of CsTPR, as demonstrated by ChIP-qPCR, electrophoretic mobility shift assays (EMSA), and transient assays. The single base mutation strengthened the inhibitory effect of CsBES1.2 on the expression of CsTPR via enhancing the binding affinity to the E-box. Altogether, our findings suggest that CsTPR negatively regulates droopiness in tea plants under the transcriptional repression of CsBES1.2 and that a single base mutation within E-box amplifies the suppression of CsBES1.2 on the expression of CsTPR.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"211 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143733959","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The SmWRKY32-SmbHLH65/SmbHLH85 regulatory module mediates tanshinone biosynthesis in Salvia miltiorrhiza","authors":"Xiumin Nie, Xueying Li, Bingbing Lv, Shuai Shao, Bin Zhang, Juane Dong","doi":"10.1093/hr/uhaf096","DOIUrl":"https://doi.org/10.1093/hr/uhaf096","url":null,"abstract":"Tanshinones are valuable compounds found in Salvia miltiorrhiza, and gaining a deeper understanding of their transcriptional regulation mechanisms is a key strategy for increasing their content. Previous research revealed that SmWRKY32 acts as a repressor of tanshinone synthesis. This study identified the SmbHLH65 transcription factor, whose expression was significantly reduced in the SmWRKY32 overexpression transcriptome. Overexpression of SmbHLH65 stimulated tanshinone accumulation, while its silencing resulted in a decrease in tanshinone content. However, SmbHLH65 does not directly target the key enzyme genes involved in tanshinone synthesis. Subsequently, we discovered the SmbHLH65-interacting protein SmbHLH85. SmbHLH85 facilitates tanshinone biosynthesis by directly upregulating SmDXS2 and SmCPS1. Further investigation demonstrated that SmbHLH65 not only promotes the expression of SmbHLH85 but also enhances its binding to the promoters of SmDXS2 and SmCPS1, thereby amplifying the activation of these biosynthetic genes. Additionally, SmWRKY32 directly binds to the SmbHLH65 promoter to suppress its activity. In summary, these findings reveal that the regulatory module SmWRKY32-SmbHLH65/SmbHLH85 controls tanshinone synthesis in S. miltiorrhiza. This study uncovers a novel transcriptional regulatory mechanism, offering fresh insights into the complex network controlling tanshinone biosynthesis.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"74 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143733960","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic prediction and association analyses for breeding parthenocarpic blueberries","authors":"Juliana Cromie, Ryan P Cullen, Camila Ferreira Azevedo, Luis Felipe V Ferrão, Felix Enciso-Rodriguez, Juliana Benevenuto, Patricio R Muñoz","doi":"10.1093/hr/uhaf086","DOIUrl":"https://doi.org/10.1093/hr/uhaf086","url":null,"abstract":"Parthenocarpy is a desirable trait that enables fruit set in the absence of fertilization. While blueberries typically depend on pollination for optimal yield, certain genotypes can produce seedless fruits through facultative parthenocarpy, eliminating the need for pollination. However, the development of parthenocarpic cultivars has remained limited by the challenge of evaluating large breeding populations. Thus, establishing molecular breeding tools can greatly accelerate genetic gain for this trait. In the present study, we evaluated two blueberry breeding populations for parthenocarpic fruit set and performed genome-wide association studies (GWAS) to identify markers and candidate genes associated with parthenocarpy. We also compared the predictive ability (PA) of three molecular breeding approaches, including i) genomic selection (GS); ii) GS de novo GWAS (GSdnGWAS), which incorporates significant GWAS markers into the GS model as prior information; and iii) in-silico marker-assisted selection (MAS), where markers from GWAS were fitted as fixed effects with no addition marker information. GWAS analyses identified 55 marker-trait associations, revealing candidate genes related to phytohormones, cell cycle regulation, and seed development. Predictive analysis showed that GSdnGWAS consistently outperformed GS and MAS, with PAs ranging from 0.21 to 0.36 depending on the population of study and the specific markers utilized. MAS showed PAs comparable to GS in some cases, suggesting it could be a cost-effective alternative to genome-wide sequencing. Together, these findings demonstrate that molecular breeding techniques can be used to improve facultative parthenocarpy, offering new avenues to develop high-yielding blueberry varieties that are less reliant on pollination.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"3 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143675170","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"VaMIEL1-Mediated Ubiquitination of VaMYB4a Orchestrates Cold Tolerance through Integrated Transcriptional and Oxidative Stress Pathways in Grapevine","authors":"Yaping Xie, Kai Lv, Qinhan Yu, Jieping Wu, Junxia Zhang, Huixian Zhao, Junduo Li, Ningbo Zhang, Weirong Xu","doi":"10.1093/hr/uhaf093","DOIUrl":"https://doi.org/10.1093/hr/uhaf093","url":null,"abstract":"Cold stress poses a significant threat to viticulture, particularly under the increasing pressures of climate change. In this study, we identified VaMIEL1, a RING-type E3 ubiquitin ligase from Vitis amurensis, as a negative regulator of cold tolerance. Under normal temperature conditions, VaMIEL1 facilitates the ubiquitination and subsequent proteasomal degradation of the cold-responsive transcription factor VaMYB4a, thereby attenuating its regulatory role in the CBF-COR signaling cascade. However, under cold stress, VaMIEL1 expression is downregulated, leading to the stabilization of VaMYB4a and the activation of CBF-COR signaling.Through a combination of biochemical assays and functional analysis in Arabidopsis thaliana and grapevine calli, we demonstrate that VaMIEL1 overexpression reduces cold tolerance, as evidenced by increased oxidative stress, excessive ROS accumulation, and downregulated expression of cold-responsive genes. Conversely, silencing of VaMIEL1 enhances cold tolerance by stabilizing VaMYB4a and boosting antioxidant defenses. These findings uncover a previously unrecognized regulatory mechanism by which VaMIEL1 modulates cold tolerance through transcriptional and oxidative stress pathways, offering potential targets for the development of climate-resilient grapevine cultivars and other crops.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"220 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143675236","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The ZjMYB44-ZjPOD51 module enhances jujube defence response against phytoplasma by upregulating lignin biosynthesis","authors":"Liman Zhang, Hongtai Li, Ximeng Wei, Yuanyuan Li, Zhiguo Liu, Mengjun Liu, Weijie Huang, Huibin Wang, Jin Zhao","doi":"10.1093/hr/uhaf083","DOIUrl":"https://doi.org/10.1093/hr/uhaf083","url":null,"abstract":"Lignin is a major component of the plant cell wall and has a conserved basic defence function in higher plants, helping the plants cope with pathogen infection. However, the regulatory mechanism of lignin biosynthesis in plants under phytoplasma stress remains unclear. In this study, we reported that peroxidase 51 (ZjPOD51), which is involved in lignin monomer polymerization, was induced by phytoplasma infection and that overexpression of ZjPOD51 in phytoplasma-infected jujube seedlings and Arabidopsis plants significantly increased their defence response against phytoplasma. Yeast one-hybrid (Y1H) and luciferase (LUC) assays showed that ZjPOD51 transcription was directly upregulated by ZjMYB44. Genetic validation demonstrated that ZjMYB44 expression was also induced by phytoplasma infection and contributed to lignin accumulation, which consequently enhanced phytoplasma defence in a ZjPOD51-dependent manner. These results demonstrated that the ZjMYB44-ZjPOD51 module enhanced the jujube defence response against phytoplasma by upregulating lignin biosynthesis. Overall, our study first elucidates how plants regulate lignin to enhance their defence response against phytoplasma and provides clues for jujube resistance breeding.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"16 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143653341","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Panomics-Driven Framework for the Improvement of Major Food Legume Crops: Advances, Challenges, and Future Prospects","authors":"Hongliang Hu, Xingxing Yuan, Dinesh Kumar Saini, Tao Yang, Xinyi Wu, Ranran Wu, Zehao Liu, Farkhandah Jan, Reyazul Rouf Mir, Liu Liu, Jiashun Miao, Na Liu, Pei Xu","doi":"10.1093/hr/uhaf091","DOIUrl":"https://doi.org/10.1093/hr/uhaf091","url":null,"abstract":"Food legume crops, including common bean, faba bean, mungbean, cowpea, chickpea, and pea, have long served as vital sources of energy, protein, and minerals worldwide, both as grains and vegetables. Advancements in high-throughput phenotyping, next-generation sequencing, transcriptomics, proteomics, and metabolomics have significantly expanded genomic resources for food legumes, ushering research into the panomics era. Despite their nutritional and agronomic importance, food legumes still face constraints in yield potential and genetic improvement due to limited genomic resources, complex inheritance patterns, and insufficient exploration of key traits such as quality and stress resistance. This highlights the need for continued efforts to comprehensively dissect the phenome, genome, and regulome of these crops. This review summarizes recent advances in technological innovations and multi-omics applications in food legumes research and improvement. Given the critical role of germplasm resources and the challenges in applying phenomics to food legumes—such as complex trait architecture and limited standardized methodologies—we first address these foundational areas. We then discuss recent gene discoveries associated with yield stability, seed composition, and stress tolerance and their potential as breeding targets. Considering the growing role of genetic engineering, we provide an update on gene-editing applications in legumes, particularly CRISPR-based approaches for trait enhancement. We advocate for integrating chemical and biochemical signatures of cells ('molecular phenomics') with genetic mapping to accelerate gene discovery. We anticipate that combining panomics approaches with advanced breeding technologies will accelerate genetic gains in food legumes, enhancing their productivity, resilience, and contribution to sustainable global food security.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"61 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143653340","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A SlRBP1-SlFBA7/SlGPIMT module regulates fruit size in tomato","authors":"Ke Cheng, Duo Lin, Liqun Ma, Yao Lu, Jinyan Li, Guoning Zhu, Tao Lin, Guiqin Qu, Benzhong Zhu, Daqi Fu, Yunbo Luo, Hongliang Zhu","doi":"10.1093/hr/uhaf089","DOIUrl":"https://doi.org/10.1093/hr/uhaf089","url":null,"abstract":"Fleshy fruits are vital to the human diet, providing essential nutrients such as sugars, organic acids, and dietary fibers. RNA-binding proteins play critical functions in plant development and environment adaption, but their specific contributions to fruit development remain largely unexplored. In this study, we centered on the function of SlRBP1 in tomato fruit and reported an unexpected finding that SlRBP1 controls fruit size by regulating its targets SlFBA7 and SlGPIMT. Here, the fruit-specific silencing of SlRBP1 was achieved by artificial miRNA which subsequently led to a marked reduction of fruit size. Cytological analysis suggested that SlRBP1 silencing decreased cell division and expansion of fruit pericarp. Those key genes involved in cell development were significantly repressed in SlRBP1 knock-down mutants. Furthermore, native RNA immunoprecipitation sequencing deciphered 83 SlRBP1-binding target RNAs in fruit, including two targets that are highly expressed in fruit: SlFBA7 and SlGPIMT, which are involved in developing fruit. Indeed, silencing either SlFBA7 or SlGPIMT resulted in fruit size reduction identical to that seen with SlRBP1 silencing. These results suggest that SlRBP1 modulates fruit size through its targets SlFBA7 and SlGPIMT. Our findings provide novel perspectives on the molecular mechanisms though which RNA-binding proteins control fruit size.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"13 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143653338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"BrRCO promotes leaf lobe formation by repressing BrACP5 expression in Brassica rapa","authors":"Yunxia Sun, Limin Hu, Junrey C Amas, William J W Thomas, Lihui Wang, Xian Wang, Wei Wang, Gaoyang Qu, Xiaoxiao Shen, Ruiqin Ji, Jacqueline Batley, Chuchuan Fan, Yugang Wang","doi":"10.1093/hr/uhaf084","DOIUrl":"https://doi.org/10.1093/hr/uhaf084","url":null,"abstract":"Lobed leaves are advantageous for gas exchange, canopy architecture and high-density planting, however, the genetic mechanisms of leaf lobe formation in Brassica crops remains poorly understood. Here, lob10.1, our previously identified major QTL controlling the presence/absence of leaf lobes in B. rapa (AA), was fine-mapped to a confidence interval of 69.8 kb. REDUCED COMPLEXITY ORGAN (BrRCO, BraA10g032440.3c), a homeodomain leucine zipper class I (HD ZIP I) transcription factor, was predicted to be the most likely candidate gene underlying lob10.1. Null mutations of BrRCO by CRISPR/Cas9 in the lobed-leaf parent RcBr and over-expression in the counter-part near isogenic lines (NILRcBr) leads to entire and lobed leaves, respectively. Analysis of the gene evolution revealed that A10. RCO functions as a core gene and was generally negatively selected in B. rapa. Moreover, BrRCO function as a negative regulator by directly binding to promoters of BrACP5 and repressing its expression. The function of ACID PHOSPHATASE TYPE 5 (BrACP5) was subsequently confirmed as VIGS-BrACP5 produced entire leaves in RcBr. This study identified the core gene BrRCO to be involved in the development of leaf lobes in B. rapa and elucidated a new pathway for leaf lobe formation by the BrRCO-BrACP5 module. These findings provide a theoretical basis for the formation of leaf lobes in Brassica crops.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"49 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143607991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Salicylic acid and jasmonic acid in plant immunity","authors":"Pingyu Zhang, Edan Jackson, Xin Li, Yuelin Zhang","doi":"10.1093/hr/uhaf082","DOIUrl":"https://doi.org/10.1093/hr/uhaf082","url":null,"abstract":"Salicylic acid (SA) and jasmonic acid (JA) are the two most important phytohormones in plant immunity. While SA plays pivotal roles in local and systemic acquired resistance (SAR) against biotrophic pathogens. JA, on the other hand, contributes to defense against necrotrophic pathogens, herbivores, and induced systemic resistance (ISR). Over the past 30 years, extensive research has elucidated the biosynthesis, metabolism, physiological functions, and signaling of both SA and JA. Here, we present an overview of signaling pathways of SA and JA and how they interact with each other to fine-tune plant defense responses.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2025-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143599888","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}