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Cucumber malate decarboxylase, CsNADP-ME2, functions in the balance of carbon and amino acid metabolism in fruit 黄瓜苹果酸脱羧酶CsNADP-ME2在水果中的碳和氨基酸代谢平衡中发挥作用
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-10-25 DOI: 10.1093/hr/uhad216
Nan Shan, Youjun Zhang, Yicong Guo, Wenna Zhang, Jing Nie, Alisdair R Fernie, Xiaolei Sui
{"title":"Cucumber malate decarboxylase, CsNADP-ME2, functions in the balance of carbon and amino acid metabolism in fruit","authors":"Nan Shan, Youjun Zhang, Yicong Guo, Wenna Zhang, Jing Nie, Alisdair R Fernie, Xiaolei Sui","doi":"10.1093/hr/uhad216","DOIUrl":"https://doi.org/10.1093/hr/uhad216","url":null,"abstract":"Central metabolism produces carbohydrates and amino acids that are tightly correlated to plant growth and thereby crop productivity. Malate is reported to link mitochondrial respiratory metabolism with cytosolic biosynthetic pathways. Although the function of malate metabolism-related enzymes in providing carbon has been characterized in some plants, evidence conferring this role in the fleshy fruit of cucumber is lacking. Here, radiolabeled bicarbonate fed into the xylem stream from the cucumber roots was incorporated into amino acids, soluble sugars, and organic acids in the exocarp and vasculature of fruits. The activities of decarboxylases, especially the decarboxylation from NADP-dependent malic enzyme (NADP-ME) were higher in cucumber fruit than in the leaf lamina. Histochemical localization revealed that CsNADP-ME2 was mainly located in the exocarp and vascular bundle system of fruit. Radiotracer and gas-exchange analysis indicated that overexpression (OE) of CsNADP-ME2 could promote the carbon flux into soluble sugars and starch in fruits. Further studies combined with metabolic profiling revealed that the down-regulation of CsNADP-ME2 in RNA interference (RNAi) lines caused the accumulation of its substrate malate in the exocarp. In addition to the inhibition of the glycolysis-related genes' expression and the reduction of the activities of the corresponding enzymes, increased amino acid synthesis and decreased sugar abundance were also observed in these lines. The opposite effect was found in CsNADP-ME2-OE lines, suggesting that there may be a continuous bottom-up feedback regulation of glycolysis in cucumber fruits. Overall, our studies indicate that CsNADP-ME2 may play potential roles both in central carbon reactions and amino acid metabolism in cucumber fruits.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"12 2","pages":""},"PeriodicalIF":8.7,"publicationDate":"2023-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71508833","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
Genome assembly of the snow lotus species Saussurea involucrata provides insights into acacetin and rutin biosynthesis and tolerance to an alpine environment 雪莲物种雪莲(Saussurea involucrata)的基因组组装提供了对阿卡乙苷和芦丁的生物合成和对高山环境的耐受性的见解
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-05 DOI: 10.1093/hr/uhad180
Yanxia Sun, Aidi Zhang, Jacob B Landis, Wei Shi, Xiujun Zhang, Hang Sun, Hengchang Wang
{"title":"Genome assembly of the snow lotus species Saussurea involucrata provides insights into acacetin and rutin biosynthesis and tolerance to an alpine environment","authors":"Yanxia Sun, Aidi Zhang, Jacob B Landis, Wei Shi, Xiujun Zhang, Hang Sun, Hengchang Wang","doi":"10.1093/hr/uhad180","DOIUrl":"https://doi.org/10.1093/hr/uhad180","url":null,"abstract":"","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"1 1","pages":""},"PeriodicalIF":8.7,"publicationDate":"2023-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41895534","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
An endolysin gene from Candidatus Liberibacter asiaticus confers dual resistance to huanglongbing and citrus canker. 从亚洲解放候选菌中分离的一种内毒素基因对黄龙冰和柑橘溃疡病具有双重抗性。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad159
Lanzhen Xu, Kaiqing Mo, Danlu Ran, Juanjuan Ma, Lehuan Zhang, Yijia Sun, Qin Long, Guojin Jiang, Xiaochun Zhao, Xiuping Zou
{"title":"An endolysin gene from <i>Candidatus</i> Liberibacter asiaticus confers dual resistance to huanglongbing and citrus canker.","authors":"Lanzhen Xu,&nbsp;Kaiqing Mo,&nbsp;Danlu Ran,&nbsp;Juanjuan Ma,&nbsp;Lehuan Zhang,&nbsp;Yijia Sun,&nbsp;Qin Long,&nbsp;Guojin Jiang,&nbsp;Xiaochun Zhao,&nbsp;Xiuping Zou","doi":"10.1093/hr/uhad159","DOIUrl":"https://doi.org/10.1093/hr/uhad159","url":null,"abstract":"<p><p>The most damaging citrus diseases are Huanglongbing (HLB) and citrus canker, which are caused by <i>Candidatus</i> Liberibacter asiaticus (<i>Ca</i>Las) and <i>Xanthomonas citri</i> pv. <i>citri</i> (<i>Xcc</i>), respectively. Endolysins from bacteriophages are a possible option for disease resistance in plant breeding. Here, we report improvement of citrus resistance to HLB and citrus canker using the LasLYS1 and LasLYS2 endolysins from <i>Ca</i>Las. LasLYS2 demonstrated bactericidal efficacy against several Rhizobiaceae bacteria and <i>Xcc</i>, according to inhibition zone analyses. The two genes, driven by a strong promoter from <i>Cauliflower mosaic virus</i>, 35S, were integrated into Carrizo citrange via <i>Agrobacterium</i>-mediated transformation. More than 2 years of greenhouse testing indicated that <i>LasLYS2</i> provided substantial and long-lasting resistance to HLB, allowing transgenic plants to retain low <i>Ca</i>Las titers and no obvious symptoms while also clearing <i>Ca</i>Las from infected plants in the long term. <i>LasLYS2</i> transgenic plants with improved HLB resistance also showed resistance to <i>Xcc</i>, indicating that LasLYS2 had dual resistance to HLB and citrus canker. A microbiome study of transgenic plants revealed that the endolysins repressed Xanthomonadaceae and Rhizobiaceae populations in roots while increasing Burkholderiaceae and Rhodanobacteraceae populations, which might boost the citrus defense response, according to transcriptome analysis. We also found that Lyz domain 2 is the key bactericidal motif of LasLYS1 and LasLYS2. Four endolysins with potential resistance to HLB and citrus canker were found based on the structures of LasLYS1 and LasLYS2. Overall, the work shed light on the mechanisms of resistance of <i>Ca</i>Las-derived endolysins, providing insights for designing endolysins to develop broad-spectrum disease resistance in citrus.</p>","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad159"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500150/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10359882","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Volatile compound-mediated plant-plant interactions under stress with the tea plant as a model. 胁迫下挥发性化合物介导的植物-植物相互作用以茶树为模型。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad143
Jieyang Jin, Mingyue Zhao, Tingting Jing, Mengting Zhang, Mengqian Lu, Guomeng Yu, Jingming Wang, Danyang Guo, Yuting Pan, Timothy D Hoffmann, Wilfried Schwab, Chuankui Song
{"title":"Volatile compound-mediated plant-plant interactions under stress with the tea plant as a model.","authors":"Jieyang Jin,&nbsp;Mingyue Zhao,&nbsp;Tingting Jing,&nbsp;Mengting Zhang,&nbsp;Mengqian Lu,&nbsp;Guomeng Yu,&nbsp;Jingming Wang,&nbsp;Danyang Guo,&nbsp;Yuting Pan,&nbsp;Timothy D Hoffmann,&nbsp;Wilfried Schwab,&nbsp;Chuankui Song","doi":"10.1093/hr/uhad143","DOIUrl":"https://doi.org/10.1093/hr/uhad143","url":null,"abstract":"Abstract Plants respond to environmental stimuli via the release of volatile organic compounds (VOCs), and neighboring plants constantly monitor and respond to these VOCs with great sensitivity and discrimination. This sensing can trigger increased plant fitness and reduce future plant damage through the priming of their own defenses. The defense mechanism in neighboring plants can either be induced by activation of the regulatory or transcriptional machinery, or it can be delayed by the absorption and storage of VOCs for the generation of an appropriate response later. Despite much research, many key questions remain on the role of VOCs in interplant communication and plant fitness. Here we review recent research on the VOCs induced by biotic (i.e. insects and pathogens) and abiotic (i.e. cold, drought, and salt) stresses, and elucidate the biosynthesis of stress-induced VOCs in tea plants. Our focus is on the role of stress-induced VOCs in complex ecological environments. Particularly, the roles of VOCs under abiotic stress are highlighted. Finally, we discuss pertinent questions and future research directions for advancing our understanding of plant interactions via VOCs.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad143"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10483893/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10569887","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Basic leucine zipper gene VvbZIP61 is expressed at a quantitative trait locus for high monoterpene content in grape berries. 碱性亮氨酸拉链基因VvbZIP61在葡萄果实单萜含量高的数量性状位点上表达。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad151
Yuyu Zhang, Cuixia Liu, Xianju Liu, Zemin Wang, Yi Wang, Gan-Yuan Zhong, Shaohua Li, Zhanwu Dai, Zhenchang Liang, Peige Fan
{"title":"Basic leucine zipper gene <i>VvbZIP61</i> is expressed at a quantitative trait locus for high monoterpene content in grape berries.","authors":"Yuyu Zhang,&nbsp;Cuixia Liu,&nbsp;Xianju Liu,&nbsp;Zemin Wang,&nbsp;Yi Wang,&nbsp;Gan-Yuan Zhong,&nbsp;Shaohua Li,&nbsp;Zhanwu Dai,&nbsp;Zhenchang Liang,&nbsp;Peige Fan","doi":"10.1093/hr/uhad151","DOIUrl":"https://doi.org/10.1093/hr/uhad151","url":null,"abstract":"<p><p>The widely appreciated muscat flavor of grapes and wine is mainly attributable to the monoterpenes that accumulate in ripe grape berries. To identify quantitative trait loci (QTL) for grape berry monoterpene content, an F<sub>1</sub> mapping population was constructed by a cross between two grapevine genotypes, one with neutral aroma berries (cv. 'Beifeng') and the other with a pronounced muscat aroma (elite <i>Vitis vinifera</i> line '3-34'). A high-density genetic linkage map spanning 1563.7 cM was constructed using 3332 SNP markers that were assigned to 19 linkage groups. Monoterpenes were extracted from the berry of the F<sub>1</sub> progeny, then identified and quantified by gas chromatography-mass spectrometry. Twelve stable QTLs associated with the amounts of 11 monoterpenes in berries were thus identified. In parallel, the levels of RNA in berries from 34 diverse cultivars were estimated by RNA sequencing and compared to the monoterpene content of the berries. The expression of five genes mapping to stable QTLs correlated well with the monoterpene content of berries. These genes, including the basic leucine zipper <i>VvbZIP61</i> gene on chromosome 12, are therefore considered as potentially being involved in monoterpene metabolism. Overexpression of <i>VvbZIP61</i> in <i>Vitis amurensis</i> callus through Agrobacterium-mediated transformation significantly increased the accumulation of several monoterpenes in the callus, including nerol, linalool, geranial, geraniol, β-myrcene, and D-limonene. It is hypothesized that <i>VvbZIP61</i> expression acts to increase muscat flavor in grapes. These results advance our understanding of the genetic control of monoterpene biosynthesis in grapes and provide important information for the marker-assisted selection of aroma compounds in grape breeding.</p>","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad151"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10493639/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10228387","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A constitutive serine protease inhibitor suppresses herbivore performance in tea (Camellia sinensis) 一种组成丝氨酸蛋白酶抑制剂抑制茶(Camellia sinensis)草食性能
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad178
Meng Ye, Chuande Liu, Nana Li, Chenhong Yuan, Miaomiao Liu, Zhaojun Xin, Shu Lei, Xiaoling Sun
{"title":"A constitutive serine protease inhibitor suppresses herbivore performance in tea (Camellia sinensis)","authors":"Meng Ye, Chuande Liu, Nana Li, Chenhong Yuan, Miaomiao Liu, Zhaojun Xin, Shu Lei, Xiaoling Sun","doi":"10.1093/hr/uhad178","DOIUrl":"https://doi.org/10.1093/hr/uhad178","url":null,"abstract":"\u0000 Protease inhibitors promote herbivore resistance in diverse plant species. Although many inducible protease inhibitors have been identified, there are limited reports available on the biological relevance and molecular basis of constitutive protease inhibitors in herbivore resistance. Here, we identified a serine protease inhibitor, CsSERPIN1, from the tea plant (Camellia sinensis). Expression of CsSERPIN1 was not strongly affected by the assessed biotic and abiotic stresses. In vitro and in vivo experiments showed that CsSERPIN1 strongly inhibited the activities of digestive protease activities of trypsin and chymotrypsin. Transient or heterologous expression of CsSERPIN1 significantly reduced herbivory by two destructive herbivores, the tea geometrid and fall armyworm, in tea and Arabidopsis plants, respectively. The expression of CsSERPIN1 in Arabidopsis did not negatively influence the growth of the plants under the measured parameters. Our findings suggest that CsSERPIN1 can inactivate gut digestive proteases and suppress the growth and development of herbivores, making it a promising candidate for pest prevention in agriculture.","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":" ","pages":""},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44326814","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
CmoNAC1 in pumpkin rootstocks improves salt tolerance of grafted cucumbers by binding to the promoters of CmoRBOHD1, CmoNCED6, CmoAKT1;2 and CmoHKT1;1 to regulate H2O2, ABA signaling and K+/Na+ homeostasis. 南瓜砧木中的CmoNAC1通过与CmoRBOHD1、CmoNCED6、CmoAKT1;2和CmoHKT1;1启动子结合,调节H2O2、ABA信号和K+/Na+稳态,提高嫁接黄瓜的耐盐性。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad157
Yuquan Peng, Haishun Cao, Lvjun Cui, Ying Wang, Lanxing Wei, Shouyu Geng, Li Yang, Yuan Huang, Zhilong Bie
{"title":"CmoNAC1 in pumpkin rootstocks improves salt tolerance of grafted cucumbers by binding to the promoters of <i>CmoRBOHD1</i>, <i>CmoNCED6</i>, <i>CmoAKT1;2</i> and <i>CmoHKT1;1</i> to regulate H<sub>2</sub>O<sub>2</sub>, ABA signaling and K<sup>+</sup>/Na<sup>+</sup> homeostasis.","authors":"Yuquan Peng,&nbsp;Haishun Cao,&nbsp;Lvjun Cui,&nbsp;Ying Wang,&nbsp;Lanxing Wei,&nbsp;Shouyu Geng,&nbsp;Li Yang,&nbsp;Yuan Huang,&nbsp;Zhilong Bie","doi":"10.1093/hr/uhad157","DOIUrl":"https://doi.org/10.1093/hr/uhad157","url":null,"abstract":"<p><p>The NAC transcription factor is a type of plant-specific transcription factor that can regulate plant salt tolerance, but the underlying mechanism is unclear in grafted vegetables. H<sub>2</sub>O<sub>2</sub> and ABA in pumpkin rootstocks can be transported to cucumber scion leaves, promoting stomatal closure to improve salt tolerance of grafted cucumbers. Despite these observations, the regulatory mechanism is unknown. Here, our research revealed that CmoNAC1 is a key transcription factor that regulates H<sub>2</sub>O<sub>2</sub> and ABA signaling in pumpkin roots under salt stress. The function of <i>CmoNAC1</i> was analyzed using root transformation and RNA-seq, and we found that pumpkin CmoNAC1 promoted the production of H<sub>2</sub>O<sub>2</sub> and ABA via <i>CmoRBOHD1</i> and <i>CmoNCED6</i>, respectively, and regulated K<sup>+</sup>/Na<sup>+</sup> homeostasis via <i>CmoAKT1;2</i>, <i>CmoHKT1;1</i>, and <i>CmoSOS1</i> to improve salt tolerance of grafted cucumbers. Root knockout of CmoNAC1 resulted in a significant decrease in H<sub>2</sub>O<sub>2</sub> (52.9% and 32.1%) and ABA (21.8% and 42.7%) content and K<sup>+</sup>/Na<sup>+</sup> ratio (81.5% and 56.3%) in leaf and roots of grafted cucumber, respectively, while overexpression showed the opposite effect. The root transformation experiment showed that <i>CmoNCED6</i> could improve salt tolerance of grafted cucumbers by regulating ABA production and K<sup>+</sup>/Na<sup>+</sup> homeostasis under salt stress. Finally, we found that CmoNAC1 bound to the promoters of <i>CmoRBOHD1</i>, <i>CmoNCED6</i>, <i>CmoAKT1;2</i>, and <i>CmoHKT1;1</i> using yeast one-hybrid, luciferase, and electrophoretic mobility shift assays. In conclusion, pumpkin CmoNAC1 not only binds to the promoters of <i>CmoRBOHD1</i> and <i>CmoNCED6</i> to regulate the production of H<sub>2</sub>O<sub>2</sub> and ABA signals in roots, but also binds to the promoters of <i>CmoAKT1;2</i> and <i>CmoHKT1;1</i> to increase the K<sup>+</sup>/Na<sup>+</sup> ratio, thus improving salt tolerance of grafted cucumbers.</p>","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad157"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500151/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10359875","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Combined QTL mapping, GWAS and transcriptomic analysis revealed a candidate gene associated with the timing of spring bud flush in tea plant (Camellia sinensis). 结合QTL定位、GWAS和转录组学分析,揭示了一个与茶树春芽开花时间相关的候选基因。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad149
Yujie Liu, Si Chen, Chenkai Jiang, Haoran Liu, Junyu Wang, Weizhong He, Doogyung Moon, Jiedan Chen, Liang Chen, Jianqiang Ma
{"title":"Combined QTL mapping, GWAS and transcriptomic analysis revealed a candidate gene associated with the timing of spring bud flush in tea plant (<i>Camellia sinensis</i>).","authors":"Yujie Liu,&nbsp;Si Chen,&nbsp;Chenkai Jiang,&nbsp;Haoran Liu,&nbsp;Junyu Wang,&nbsp;Weizhong He,&nbsp;Doogyung Moon,&nbsp;Jiedan Chen,&nbsp;Liang Chen,&nbsp;Jianqiang Ma","doi":"10.1093/hr/uhad149","DOIUrl":"https://doi.org/10.1093/hr/uhad149","url":null,"abstract":"The timing of the spring bud flush (TBF) is a crucial agronomic trait for the tea plant, as it strongly influences the yield and economic value of harvested fresh tea leaves. The TBF of tea plant is generally defined as the date when > 30% of the growing tender shoots have reached the stage of one bud with one to three leaves, referred as to the stage of one and","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad149"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10483171/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10275552","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Comprehensive regulatory networks for tomato organ development based on the genome and RNAome of MicroTom tomato. 基于基因组和RNAome的番茄器官发育综合调控网络。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad147
Jia-Yu Xue, Hai-Yun Fan, Zhen Zeng, Yu-Han Zhou, Shuai-Ya Hu, Sai-Xi Li, Ying-Juan Cheng, Xiang-Ru Meng, Fei Chen, Zhu-Qing Shao, Yves Van de Peer
{"title":"Comprehensive regulatory networks for tomato organ development based on the genome and RNAome of MicroTom tomato.","authors":"Jia-Yu Xue,&nbsp;Hai-Yun Fan,&nbsp;Zhen Zeng,&nbsp;Yu-Han Zhou,&nbsp;Shuai-Ya Hu,&nbsp;Sai-Xi Li,&nbsp;Ying-Juan Cheng,&nbsp;Xiang-Ru Meng,&nbsp;Fei Chen,&nbsp;Zhu-Qing Shao,&nbsp;Yves Van de Peer","doi":"10.1093/hr/uhad147","DOIUrl":"https://doi.org/10.1093/hr/uhad147","url":null,"abstract":"<p><p>MicroTom has a short growth cycle and high transformation efficiency, and is a prospective model plant for studying organ development, metabolism, and plant-microbe interactions. Here, with a newly assembled reference genome for this tomato cultivar and abundant RNA-seq data derived from tissues of different organs/developmental stages/treatments, we constructed multiple gene co-expression networks, which will provide valuable clues for the identification of important genes involved in diverse regulatory pathways during plant growth, e.g. arbuscular mycorrhizal symbiosis and fruit development. Additionally, non-coding RNAs, including miRNAs, lncRNAs, and circRNAs were also identified, together with their potential targets. Interacting networks between different types of non-coding RNAs (miRNA-lncRNA), and non-coding RNAs and genes (miRNA-mRNA and lncRNA-mRNA) were constructed as well. Our results and data will provide valuable information for the study of organ differentiation and development of this important fruit. Lastly, we established a database (http://eplant.njau.edu.cn/microTomBase/) with genomic and transcriptomic data, as well as details of gene co-expression and interacting networks on MicroTom, and this database should be of great value to those who want to adopt MicroTom as a model plant for research.</p>","PeriodicalId":13179,"journal":{"name":"Horticulture Research","volume":"10 9","pages":"uhad147"},"PeriodicalIF":8.7,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10483172/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10569888","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Histology, physiology, and transcriptomic and metabolomic profiling reveal the developmental dynamics of annual shoots in tree peonies (Paeonia suffruticosa Andr.). 组织学、生理学、转录组学和代谢组学分析揭示了三株牡丹(Paeonia suffruticosa Andr.)一年生芽的发育动态。
IF 8.7 1区 农林科学
Horticulture Research Pub Date : 2023-09-01 DOI: 10.1093/hr/uhad152
Ningning Tong, Qingyan Shu, Baichen Wang, Liping Peng, Zheng'an Liu
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