Horticulture Research最新文献_第6页

Genome-wide association analysis of flowering date in a collection of cultivated olive tree 栽培橄榄树花期的全基因组关联分析

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-28 DOI: 10.1093/hr/uhae265

Laila Aqbouch, Omar Abou-Saaid, Gautier Sarah, Lison Zunino, Vincent Segura, Pierre Mournet, Florelle Bonal, Hayat Zaher, Ahmed El Bakkali, Philippe Cubry, Evelyne Costes, Bouchaib Khadari

{"title":"Genome-wide association analysis of flowering date in a collection of cultivated olive tree","authors":"Laila Aqbouch, Omar Abou-Saaid, Gautier Sarah, Lison Zunino, Vincent Segura, Pierre Mournet, Florelle Bonal, Hayat Zaher, Ahmed El Bakkali, Philippe Cubry, Evelyne Costes, Bouchaib Khadari","doi":"10.1093/hr/uhae265","DOIUrl":"https://doi.org/10.1093/hr/uhae265","url":null,"abstract":"Flowering date in perennial fruit trees is an important trait for fruit production. Depending on the winter and spring temperatures, flowering of olive may be advanced, delayed, or even suppressed. Deciphering the genetic control of flowering date is thus key to help selecting cultivars better adapted to the current climate context. Here, we investigated the genetic determinism of full flowering date stage in cultivated olive based on capture sequencing data of 318 genotypes from the worldwide olive germplasm bank of Marrakech, Morocco. The genetic structure of this collection was organized in three clusters that were broadly attributed to eastern, central, and western Mediterranean regions, based on the presumed origin of genotypes. Flowering dates, collected over seven years, were used to estimate the genotypic best linear unbiased predictors, which were then analyzed in a genome-wide association study. Loci with small effects were significantly associated with the studied trait, by either a single- or a multi-locus approach. The three most robust loci were located on chromosomes 01 and 04, and on a scaffold, and explained 7.1%, 6.2%, and 6.5% of the trait variance, respectively. A significantly higher accuracy in the best linear unbiased predictors of flowering date prediction was reported with Ridge- compared to LASSO-based genomic prediction model. Along with genomic association results, this suggests a complex polygenic determinism of flowering date, as seen in many other fruit perennials. These results and the screening of associated regions for candidate genes open perspectives for further studies and breeding programs targeting flowering date.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"1 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142329228","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}

引用次数: 0

Grapevine cell response to carbon deficiency requires transcriptome and methylome reprogramming 葡萄细胞对碳缺乏的反应需要转录组和甲基组的重编程

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-28 DOI: 10.1093/hr/uhae277

Margot M J Berger, Virginie Garcia, Nathalie Lacrampe, Bernadette Rubio, Guillaume Decros, Pierre Pétriacq, Amélie Flandin, Cédric Cassan, Ghislaine Hilbert-Masson, Sophie Colombié, Rossitza Atanassova, Philippe Gallusci

{"title":"Grapevine cell response to carbon deficiency requires transcriptome and methylome reprogramming","authors":"Margot M J Berger, Virginie Garcia, Nathalie Lacrampe, Bernadette Rubio, Guillaume Decros, Pierre Pétriacq, Amélie Flandin, Cédric Cassan, Ghislaine Hilbert-Masson, Sophie Colombié, Rossitza Atanassova, Philippe Gallusci","doi":"10.1093/hr/uhae277","DOIUrl":"https://doi.org/10.1093/hr/uhae277","url":null,"abstract":"Sugar limitation has dramatic consequences on plant cells, which include cell metabolism and transcriptional reprogramming, and the recycling of cellular components to maintain fundamental cell functions. There is however no description of the contribution of epigenetic regulations to the adaptation of plant cells to limited carbon availability. We investigated this question using non-photosynthetic grapevine cells (Vitis vinifera, cv Cabernet Sauvignon) cultured in vitro with contrasted glucose concentrations. Sugar depletion in the culture medium led to a rapid cell growth arrest and a major metabolic shift that include the depletion in soluble sugar and total amino acids and modulation of the cell redox status. Consistently, flux modeling showed a dramatic slowdown of many pathways required for biomass accumulation such as cell wall and protein synthesis. Sugar depletion also resulted in a major transcriptional reprogramming, characterized by the induction of genes involved in photosynthesis, and the repression of those related to sucrose mobilization or cell cycle control. Similarly, the epigenetic landscape was deeply modified. Glucose-depleted cells showed a higher global DNA methylation level than those grown with glucose. Changes in DNA methylation mainly occurred at transposable elements, and at genes including some of those differentially expressed, consistent with an important role for methylation to the adaptation of cells to limited sugar availability. In addition, genes encoding histone modifiers were differentially expressed suggesting that additional epigenetic mechanisms may be at work in plant cells under carbon shortage.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"8 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142329185","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}

引用次数: 0

The molecular pathways leading to GABA and lactic acid accumulation in florets of organic broccoli rabe (Brassica rapa subsp. sylvestris) stored as fresh or as minimally processed product 导致有机西兰花（Brassica rapa subsp. sylvestris）小花中 GABA 和乳酸积累的分子途径

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-28 DOI: 10.1093/hr/uhae274

Giulio Testone, Anatoly Petrovich Sobolev, Maya Dimova Lambreva, Zeineb Aturki, Giovanni Mele, Michele Lamprillo, Francesco Magnanimi, Giovanna Serino, Giuseppe Arnesi, Donato Giannino

{"title":"The molecular pathways leading to GABA and lactic acid accumulation in florets of organic broccoli rabe (Brassica rapa subsp. sylvestris) stored as fresh or as minimally processed product","authors":"Giulio Testone, Anatoly Petrovich Sobolev, Maya Dimova Lambreva, Zeineb Aturki, Giovanni Mele, Michele Lamprillo, Francesco Magnanimi, Giovanna Serino, Giuseppe Arnesi, Donato Giannino","doi":"10.1093/hr/uhae274","DOIUrl":"https://doi.org/10.1093/hr/uhae274","url":null,"abstract":"In the context of organic farming, the introduction of a local product to wider markets and an evaluation of storage effects, metabolic and transcriptomic variations in two broccoli rabe genotypes from production cycles of two different years were studied by comparing florets of stored fresh (SF) and packaged (P) for 4 days with those harvested fresh from the field (H). Twenty-five hydrosoluble compounds, including amino acids, carbohydrates, and organic acids, were quantified by untargeted NMR. PCA produced a neat separation among the three commodity statuses with P being the most divergent and SF closer to H. In the packaged florets, carbohydrate levels dropped significantly (over -52%), while the levels of amino acids and organic acids varied. There was an increase in stress-responsive phenylalanine and valine (over 30%) and succinic and α-ketoglutaric acids (over 75%). Compound correlation analyses indicated a carbohydrate sink towards γ-aminobutyric acid (GABA) and lactic acid (LA) metabolism under hypoxic conditions in packaged florets. RNA-seq analysis revealed that over 4000 genes were differentially expressed in SF vs H and 8000 in P vs H. Several CAR and AA pathways were significantly enriched in S and even more significantly in P, when compared to H. A map of gene expression (175 genes) and metabolite contents (14 compounds) was constructed to elucidate the gene routes that lead to accumulation of GABA and LA, known for healthy properties, in P. WGCNA and promoter binding site analyses enabled the identification of transcription factors (bZIP, WRKY, ERF types), interactions, and targeted genes encoding key enzymes in GABA and LA accumulation.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"54 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142329214","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}

引用次数: 0

Two leucine-rich repeat receptor-like kinases initiate herbivory defense responses in tea plants 两种富亮氨酸重复受体样激酶启动茶树的草食性防御反应

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-27 DOI: 10.1093/hr/uhae281

Qi Jiang, Changqing Ding, Lingjia Feng, Zhenwei Wu, Yujie Liu, Lintong He, Chuande Liu, Lu Wang, Jianming Zeng, Jianyan Huang, Meng Ye

{"title":"Two leucine-rich repeat receptor-like kinases initiate herbivory defense responses in tea plants","authors":"Qi Jiang, Changqing Ding, Lingjia Feng, Zhenwei Wu, Yujie Liu, Lintong He, Chuande Liu, Lu Wang, Jianming Zeng, Jianyan Huang, Meng Ye","doi":"10.1093/hr/uhae281","DOIUrl":"https://doi.org/10.1093/hr/uhae281","url":null,"abstract":"Leucine-rich repeat receptor-like kinases (LRR-RLKs) have emerged as key regulators of herbivory perception and subsequent defense initiation. While their functions in grass plants have been gradually elucidated, the roles of herbivory-related LRR-RLKs in woody plants remain largely unknown. In this study, we mined the genomic and transcriptomic data of tea plants (Camellia sinensis) and identified a total of 307 CsLRR-RLK members. Phylogenetic analysis grouped these CsLRR-RLKs into 14 subgroups along with their Arabidopsis homologs. Gene structure and conserved domain analyses revealed notable similarities among subgroup members. Among the identified CsLRR-RLKs, we focused on two plasma membrane-localized LRR-RLKs, CsLRR-RLK44 and CsLRR-RLK239, which do not form homodimers or heterodimers with each other. Both respond strongly to herbivory, and their expression patterns significantly correlate with herbivore resistance phenotypes across different tea accessions. CsLRR-RLK44 and CsLRR-RLK239 act upstream of mitogen-activated protein kinase (MPK) cascades and modulate the expression of defense-related MPKs and WRKY transcription factors. Additionally, silencing CsLRR-RLK44 or CsLRR-RLK239 reduced the levels of herbivory-induced jasmonates, thereby weakening the plant resistance to tea geometrid larvae (Ectropis obliqua). Our work is the first to demonstrate that in woody plants, LRR-RLKs are essential for enhancing herbivore resistance through the activation of the canonical signaling, including MPKs, WRKYs and jasmonates. Furthermore, our study extends mechanistic insights into how LRR-RLKs initiate plant defenses from grasses to economically important tree species.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"76 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142362869","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}

引用次数: 0

Targeted mutation of BnaMS1/BnaMS2 combined with the RUBY reporter enables an efficient two-line system for hybrid seed production in Brassica napus BnaMS1/BnaMS2 的靶向突变与 RUBY 报告器相结合，实现了甘蓝型油菜杂交种子生产的高效双线系统

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-26 DOI: 10.1093/hr/uhae270

Xiaoxiao Shen, Qing Dong, Xiang Zhao, Limin Hu, Sukanta Bala, Songyue Deng, Yanyan Zhao, Qun Duan, Zilong Liu, Hanzi He, Chuchuan Fan

{"title":"Targeted mutation of BnaMS1/BnaMS2 combined with the RUBY reporter enables an efficient two-line system for hybrid seed production in Brassica napus","authors":"Xiaoxiao Shen, Qing Dong, Xiang Zhao, Limin Hu, Sukanta Bala, Songyue Deng, Yanyan Zhao, Qun Duan, Zilong Liu, Hanzi He, Chuchuan Fan","doi":"10.1093/hr/uhae270","DOIUrl":"https://doi.org/10.1093/hr/uhae270","url":null,"abstract":"The recessive genic male sterility (RGMS) method has several benefits in hybrid seed production; yet, it is seldom employed in industrial hybrid seed production owing to the difficulties of producing an ample number of pure male sterile seeds. In this study, we present an efficient methodology for developing a two-line strategy to produce hybrid seed through targeted mutation of BnaMS1 and BnaMS2 in conjunction with the RUBY reporter in Brassica napus. In this method, male sterile lines were successfully created directly from different elite rapeseed breeding lines through CRISPR/Cas9-mediated mutagenesis and enhanced Agrobacterium-mediated transformation. To establish an efficient transgenic maintainer, three SPT vectors carrying a functional BnaMS1 gene linked to different reporters (DsRed, BnaA07.PAP2, and RUBY) were tested and compared in rapeseed. The results indicated that the PMR-based reporter possesses advantages such as phenotypic stability and ease of identification at early stages, making it an ideal tool for rapid and efficient screening. Subsequently, ideal transgenic maintainer lines with a single hemizygous copy of the SPT cassette were successfully developed in the context of Bnams1Bnams2 double mutants. The progeny from crossing the maintainer line with its male-sterile counterpart exhibited a 1:1 segregation pattern of nontransgenic male-sterile and male-fertile maintainer plants, distinguishable by seedling color. This biotechnological approach to male sterility offers promising prospects for improving the propagation of recessive genic male-sterile plants and the development of hybrid seeds in rapeseed. Furthermore, it is simple to adapt this technique to more Brassica crops.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"5 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142325571","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}

引用次数: 0

Expansion and functional divergence of terpene synthase genes in angiosperms: a driving force of terpene diversity 被子植物中萜烯合成酶基因的扩增和功能分化：萜烯多样性的驱动力

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-26 DOI: 10.1093/hr/uhae272

Qi Wang, Jie Jiang, Yuwei Liang, Shanshan Li, Yiping Xia, Liangsheng Zhang, Xiuyun Wang

{"title":"Expansion and functional divergence of terpene synthase genes in angiosperms: a driving force of terpene diversity","authors":"Qi Wang, Jie Jiang, Yuwei Liang, Shanshan Li, Yiping Xia, Liangsheng Zhang, Xiuyun Wang","doi":"10.1093/hr/uhae272","DOIUrl":"https://doi.org/10.1093/hr/uhae272","url":null,"abstract":"Angiosperms are prolific producers of structurally diverse terpenes, which are essential for plant defense responses, as well as the formation of floral scents, fruit flavors, and medicinal constituents. Terpene synthase genes (TPSs) play crucial roles in the biosynthesis of terpenes. This study specifically focuses on the catalytic products of 222 functionally characterized TPSs in 24 angiosperms, which mainly comprise monoterpenes, sesquiterpenes, diterpenes, and sesterterpene. Our systematic analysis of these TPSs uncovered a significant expansion of the angiosperm-specific TPS-a, b, and g subfamilies in comparison to the TPS-e/f and c subfamilies. The expanded subfamilies can be further partitioned into distinct branches, within which considerable functional innovation and diversification have been observed. Numerous TPSs exhibit bifunctional or even trifunctional activities in vitro, yet they exhibit only a single activity in vivo, which may be largely determined by their inherent properties, subcellular localization, and the availabilities of endogenous substrates. Additionally, we explored the biological functions of terpenes in various organs and tissues of angiosperms. We propose that the expansion and functional divergence of TPSs contribute to the adaptability and diversity of angiosperms, facilitating the production of a broad spectrum of terpenes that enable diverse interactions with the environment and other organisms. Our findings provide a foundation for comprehending the correlation between the evolutionary features of TPSs and the diversity of terpenes in angiosperms, which is significant for terpene biosynthesis research.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"55 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142325580","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}

引用次数: 0

Genomes and integrative genomic insights into the genetic architecture of main agronomic traits in the edible cherries 食用樱桃主要农艺性状遗传结构的基因组和综合基因组见解

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-24 DOI: 10.1093/hr/uhae269

Zhenshan Liu, Anthony Bernard, Yan Wang, Elisabeth Dirlewanger, Xiaorong Wang

{"title":"Genomes and integrative genomic insights into the genetic architecture of main agronomic traits in the edible cherries","authors":"Zhenshan Liu, Anthony Bernard, Yan Wang, Elisabeth Dirlewanger, Xiaorong Wang","doi":"10.1093/hr/uhae269","DOIUrl":"https://doi.org/10.1093/hr/uhae269","url":null,"abstract":"Cherries are one of the economically important fruit crops in the Rosaceae family, Prunus genus. As the first fruits of the spring season in the northern hemisphere, their attractive appearance, intensely desirable tastes, high nutrients content and consumer-friendly size captivate consumers worldwide. In the past 30 years, although cherry geneticists and breeders have greatly progressed in understanding the genetic and molecular basis underlying fruit quality, adaptation to climate change, and biotic and abiotic stress resistance, the utilization of cherry genomic data in genetics and molecular breeding has remained limited to date. Here, we thoroughly investigated recent discoveries in constructing genetic linkage maps, identifying quantitative trait loci (QTLs), genome-wide association studies (GWAS), and validating functional genes of edible cherries based on available de novo genomes and genome resequencing data of edible cherries. We further comprehensively demonstrated the genetic architecture of the main agronomic traits of edible cherries by methodically integrating QTLs, GWAS loci, and functional genes into the identical reference genome with improved annotations. These collective endeavors will offer new perspectives on the availability of sequence data and the construction of an interspecific pangenome of edible cherries, ultimately guiding cherry breeding strategies and genetic improvement programs, and facilitating the exploration of similar traits and breeding innovations across Prunus species.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"149 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142313757","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}

引用次数: 0

OfWRKY17-OfC3H49 module responding to high ambient temperature delays flowering via inhibiting OfSOC1B expression in Osmanthus fragrans 响应高环境温度的 OfWRKY17-OfC3H49 模块通过抑制桂花中 OfSOC1B 的表达延迟开花

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-24 DOI: 10.1093/hr/uhae273

Yong Ye, Xinke Lu, En Kong, Qianqian Wang, Lixiao Shen, Shiwei Zhong, Yiguang Wang, Zheng Xiao, Jinping Deng, Hongbo Zhao, Bin Dong

{"title":"OfWRKY17-OfC3H49 module responding to high ambient temperature delays flowering via inhibiting OfSOC1B expression in Osmanthus fragrans","authors":"Yong Ye, Xinke Lu, En Kong, Qianqian Wang, Lixiao Shen, Shiwei Zhong, Yiguang Wang, Zheng Xiao, Jinping Deng, Hongbo Zhao, Bin Dong","doi":"10.1093/hr/uhae273","DOIUrl":"https://doi.org/10.1093/hr/uhae273","url":null,"abstract":"Ambient temperature is a pivotal factor in the regulation of the flowering process in plants. In this study, we found that high ambient temperature exerts an inhibitory effect on the flowering of Osmanthus fragrans “Sjigui”. However, the underlying molecular mechanisms remain not fully understood. Through transcriptome analysis, a differently expressed C3H gene OfC3H49 was identified, which is induced by high ambient temperature. OfC3H49 was demonstrated to delay the flowering process of Arabidopsis and to downregulate the expression of flowering-related genes in O. fragrans calli. Further investigation indicates that OfC3H49 as a transcriptional repressor, directly suppresses the expression of the OfSOC1B thereby causing a delay in flowering time. Furthermore, a WRKY transcription factor, OfWRKY17, was identified to be responsive to high ambient temperature, directly binding to the OfC3H49 promoter and enhance OfC3H49 expression. Overexpression of OfWRKY17 in Arabidopsis resulted in a significant delay in flowering and induced the expression of OfC3H49 in O. fragrans calli. Collectively, our findings delineate a regulatory module, OfWRKY17-OfC3H49, which is activated by high ambient temperature and functions as a negative regulator of flowering by suppressing the expression of OfSOC1B in O. fragrans. This study provides novel insights into the molecular mechanisms involved in ambient temperature-mediated flowering control and contributes to the development of molecular breeding strategies for O. fragrans.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"35 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142313758","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}

引用次数: 0

Oligo-FISH barcode chromosome identification system provides novel insights into the natural chromosome aberrations propensity in the autotetraploid cultivated alfalfa 寡聚-FISH 条形码染色体识别系统为了解自交系栽培苜蓿的天然染色体畸变倾向提供了新的视角

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-20 DOI: 10.1093/hr/uhae266

Zhuang Meng, Qian Zheng, Wei Wang, Yuanbin Zhu, Yuanhao Li, Fulin Dong, Wenjun Luo, Zhiliang Zhang, Fei Wang, Haitao Shen, Quanliang Xie, Hongbin Li

{"title":"Oligo-FISH barcode chromosome identification system provides novel insights into the natural chromosome aberrations propensity in the autotetraploid cultivated alfalfa","authors":"Zhuang Meng, Qian Zheng, Wei Wang, Yuanbin Zhu, Yuanhao Li, Fulin Dong, Wenjun Luo, Zhiliang Zhang, Fei Wang, Haitao Shen, Quanliang Xie, Hongbin Li","doi":"10.1093/hr/uhae266","DOIUrl":"https://doi.org/10.1093/hr/uhae266","url":null,"abstract":"Alfalfa is one of the most economically valuable forage crops in the world. However, molecular cytogenetic studies in alfalfa lag far behind other cash crops and have reached a bottleneck. Here, we developed a novel chromosome identification system by designing 21 oligo probes in specific regions of each chromosome, which can be used as a barcode to simultaneously distinguish all chromosomes in a cell. Using this system, we revealed the chromosome karyotype features and evolutionary differences among ten cultivated alfalfa varieties. Interestingly, we also found two chromosomal variation types i.e., aneuploidy and large chromosomal segment deletions in the seeds of three alfalfa varieties. Variation frequency analysis showed that only 7/173 seeds in those three alfalfa varieties had chromosome aberrations, which indicated that the inheritance and meiosis of alfalfa had evolved to a relatively stable state. Remarkably, 4/7 variation seeds were chromosome 2 aberrations, suggesting that chromosome 2 appears to be more susceptible to natural chromosomal aberrations than other chromosomes during inheritance. DNA sequence variation analysis showed that the difference of presence and absence variations (PAVs) among homologous copies of chromosome 2 was larger than that of the other seven chromosomes. We suggest that such large PAV divergence among homologous copies may provide the physical basis for natural chromosome 2 aberrations propensity. Our study provides a valuable and efficient tool for alfalfa’s molecular cytogenetics, and sheds new insights into the propensity for natural chromosome aberrations during autopolyploid inheritance.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"4 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142275662","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}

引用次数: 0

Chromatin accessibility profile and the role of PeAtf1 transcription factor in the postharvest pathogen Penicillium expansum 收获后病原体扩张青霉的染色质可及性概况和 PeAtf1 转录因子的作用

IF 8.7 1区农林科学

Horticulture Research Pub Date : 2024-09-20 DOI: 10.1093/hr/uhae264

Yiran Wang, Kaili Wang, Qiya Yang, Zhaoting Wang, Yingying Su, Xifei Chen, Hongyin Zhang

{"title":"Chromatin accessibility profile and the role of PeAtf1 transcription factor in the postharvest pathogen Penicillium expansum","authors":"Yiran Wang, Kaili Wang, Qiya Yang, Zhaoting Wang, Yingying Su, Xifei Chen, Hongyin Zhang","doi":"10.1093/hr/uhae264","DOIUrl":"https://doi.org/10.1093/hr/uhae264","url":null,"abstract":"Gene transcription is governed by a complex regulatory system involving changes in chromatin structure, action of transcription factors, and activation of cis-regulatory elements. Postharvest fruits are threatened by Penicillium expansum, a leading causal agent of blue mold disease and one of the most economically significant postharvest pathogens worldwide. However, the information on its transcription regulatory mechanism is lagging. Here, we conducted an assay for transposase accessible chromatin sequencing (ATAC-seq) for P. expansum during vegetative growth and infection phase and then studied the function of a bZIP transcription factor PeAtf1. Results highlighted the role of promoter regions in gene transcription and the significant difference in P. expansum between the two phases. Six footprint-supported cis-regulatory elements of active transcription factors were obtained and analyzed. We then identified a homolog of the bZIP regulator Atf1, PeAtf1, and found it positively regulated vegetative growth, reproduction and osmotic stress response in P. expansum. Conversely, PeAtf1 deletion enhanced fungal tolerance to oxidative, cell wall and membrane stresses, which might contribute to the virulence of P. expansum in apple fruits, leading to similar pathogenicity between mutants and the wild type. Overall, this study provides new insights into the transcription regulatory mechanism of P. expansum, aiding in the future development of strategies to control P. expansum.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"8 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2024-09-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142275663","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}

引用次数: 0