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CyDotian: a versatile toolkit for identification of intragenic repeat sequences. CyDotian:用于识别基因内重复序列的多功能工具包。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-10-09 DOI: 10.1186/s43897-024-00113-3
Huilong Chen, Gang Xu, Weina Ge, Shuyan Feng, Yanli Lin, Changqing Guo, Qianyi Jing, Xuekai Wang, Luiz Gustavo Nussio, Xiyin Wang, Fuyu Yang
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引用次数: 0
Functions of membrane proteins in regulating fruit ripening and stress responses of horticultural crops. 膜蛋白在调节园艺作物果实成熟和应激反应中的功能。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-09-24 DOI: 10.1186/s43897-024-00111-5
Daoguo Chen, Yuhan Liu, Yong Chen, Boqiang Li, Tong Chen, Shiping Tian

Fruit ripening is accompanied by the development of fruit quality traits; however, this process also increases the fruit's susceptibility to various environmental stresses, including pathogen attacks and other stress factors. Therefore, modulating the fruit ripening process and defense responses is crucial for maintaining fruit quality and extending shelf life. Membrane proteins play intricate roles in mediating signal transduction, ion transport, and many other important biological processes, thus attracting extensive research interest. This review mainly focuses on the functions of membrane proteins in regulating fruit ripening and defense responses against biotic and abiotic factors, addresses their potential as targets for improving fruit quality and resistance to environmental challenges, and further highlights some open questions to be addressed.

果实成熟伴随着果实品质特征的发展,但这一过程也增加了果实对各种环境胁迫的易感性,包括病原体侵袭和其他胁迫因素。因此,调节果实成熟过程和防御反应对于保持果实品质和延长货架期至关重要。膜蛋白在介导信号转导、离子转运和许多其他重要的生物过程中发挥着复杂的作用,因此引起了广泛的研究兴趣。本综述主要关注膜蛋白在调控果实成熟以及对生物和非生物因素的防御反应中的功能,探讨膜蛋白作为改善果实品质和抵抗环境挑战的靶标的潜力,并进一步强调一些有待解决的开放性问题。
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引用次数: 0
Loss-of-function mutation in anthocyanidin reductase activates the anthocyanin synthesis pathway in strawberry. 花青素还原酶功能缺失突变激活草莓花青素合成途径
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-09-14 DOI: 10.1186/s43897-024-00106-2
Pengbo Xu, Maobai Li, Chao Ma, Xinyu Li, Peng Bai, Anqi Lin, Chong Wang, Liqing Zhang, Huiyun Kuang, Hongli Lian

Fruit color substantially affects consumer preferences, with darker red strawberries being economically more valuable due to their higher anthocyanin content. However, the molecular basis for the dark red coloration remains unclear. Through screening of an ethyl methanesulfonate mutant library, we identified a rg418 mutant, that demonstrated anthocyanin accumulation during early fruit development stages. Furthermore, the ripening fruits of this mutant had higher anthocyanin content than wild-type (WT) fruits. An analysis of flavonoid content in WT and rg418 mutant fruits revealed substantial changes in metabolic fluxes, with the mutant exhibiting increased levels of anthocyanins and flavonols and decreased levels of proanthocyanidins. Bulked sergeant analysis sequencing indicated that the mutant gene was anthocyanidin reductase (ANR), a key gene in the proanthocyanidin synthesis pathway. Furthermore, transcriptome sequencing revealed the increased expression of MYB105 during the early development stage of mutant fruits, which promoted the expression of UFGT (UDP-glucose flavonoid 3-O-glucosyltransferase), a key gene involved in anthocyanin synthesis, thus substantially enhancing the anthocyanin content in the mutant fruits. Additionally, mutating ANR in a white-fruited strawberry variant (myb10 mutant) resulted in appealing pink-colored fruits, suggesting the diverse roles of ANR in fruit color regulation. Our study provides valuable theoretical insights for improving strawberry fruit color.

水果的颜色对消费者的喜好有很大影响,深红色草莓由于花青素含量较高,经济价值更高。然而,深红色的分子基础仍不清楚。通过筛选甲磺酸乙酯突变体文库,我们发现了一个 rg418 突变体,该突变体在果实早期发育阶段表现出花青素积累。此外,该突变体成熟果实的花青素含量高于野生型果实。对WT和rg418突变体果实中类黄酮含量的分析表明,代谢通量发生了很大变化,突变体的花青素和黄酮醇含量增加,原花青素含量减少。大块军士分析测序表明,突变基因是花青素还原酶(ANR),它是原花青素合成途径中的一个关键基因。此外,转录组测序发现,在突变体果实的早期发育阶段,MYB105的表达量增加,促进了参与花青素合成的关键基因UFGT(UDP-葡萄糖类黄酮3-O-葡萄糖基转移酶)的表达,从而大幅提高了突变体果实中的花青素含量。此外,在白果草莓变体(myb10突变体)中突变ANR,可获得诱人的粉红色果实,这表明ANR在果实颜色调节中发挥着多种作用。我们的研究为改善草莓果实颜色提供了宝贵的理论依据。
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引用次数: 0
Molecular and biochemical components associated with chilling tolerance in tomato: comparison of different developmental stages. 与番茄耐寒性相关的分子和生化成分:不同发育阶段的比较。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-09-05 DOI: 10.1186/s43897-024-00108-0
Maria Dolores Camalle, Elena Levin, Sivan David, Adi Faigenboim, Majid R Foolad, Amnon Lers

The cultivated tomato, Solanum lycopersicum, is highly sensitive to cold stress (CS), resulting in significant losses during cultivation and postharvest fruit storage. Previously, we demonstrated the presence of substantial genetic variation in fruit chilling tolerance in a tomato recombinant inbred line (RIL) population derived from a cross between a chilling-sensitive tomato line and a chilling-tolerant accession of the wild species S. pimpinellifolium. Here, we investigated molecular and biochemical components associated with chilling tolerance in fruit and leaves, using contrasting groups of "chilling tolerant" and "chilling sensitive" RI lines. Transcriptomic analyses were conducted on fruit exposed to CS, and gene expressions and biochemical components were measured in fruit and leaves. The analyses revealed core responding genes specific to either the cold-tolerant or cold-sensitive RI lines, which were differentially regulated in similar fashion in both leaves and fruit within each group. These genes may be used as markers to determine tomato germplasm cold tolerance or sensitivity. This study demonstrated that tomato response to CS in different developmental stages, including seedling and postharvest fruit, might be mediated by common biological/genetic factors. Therefore, genetic selection for cold tolerance during early stages of plant development may lead to lines with greater postharvest fruit chilling tolerance.

栽培番茄(Solanum lycopersicum)对冷胁迫(CS)高度敏感,导致其在栽培和采后果实贮藏期间损失惨重。在此之前,我们证明了番茄重组近交系(RIL)群体在果实耐寒性方面存在巨大的遗传变异,该群体由对寒冷敏感的番茄品系和耐寒的野生种 S. pimpinellifolium 杂交而来。在这里,我们利用 "耐寒 "和 "对寒冷敏感 "的 RI 株系,研究了与果实和叶片耐寒性相关的分子和生化成分。对暴露于 CS 的果实进行了转录组分析,并测定了果实和叶片中的基因表达和生化成分。分析发现了耐寒或对寒冷敏感的 RI 品系特有的核心反应基因,这些基因在每组中的叶片和果实中都受到类似的不同调控。这些基因可用作确定番茄种质耐寒性或敏感性的标记。这项研究表明,番茄在不同发育阶段(包括幼苗和采后果实)对 CS 的反应可能是由共同的生物/遗传因素介导的。因此,在植物发育早期对耐寒性进行遗传选择,可能会培育出采后果实耐寒性更强的品系。
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引用次数: 0
6-Methyl-5-hepten-2-one promotes programmed cell death during superficial scald development in pear. 6-甲基-5-庚烯-2-酮能促进梨表皮烫伤过程中的程序性细胞死亡。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-08-27 DOI: 10.1186/s43897-024-00107-1
Junpeng Niu, Mingzhen Xu, Xu Zhang, Luqi Li, Weiqi Luo, Meng Ma, Lin Zhu, Decai Tian, Shaoling Zhang, Bing Xie, Guodong Wang, Libin Wang, Wei Hui

Plants possess the ability to induce programmed cell death (PCD) in response to abiotic and biotic stresses; nevertheless, the evidence on PCD initiation during pear scald development and the involvement of the scald trigger 6-methyl-5-hepten-2-one (MHO) in this process is rudimentary. Pyrus bretschneideri Rehd. cv. 'Dangshansuli' pear was used to validate such hypothesis. The results showed that superficial scald occurred after 120-d chilling exposure, which accompanied by typical PCD-associated morphological alterations, such as plasmolysis, cell shrinkage, cytosolic and nuclear condensation, vacuolar collapse, tonoplast disruption, subcellular organelle swelling, and DNA fragmentation. These symptoms were aggravated after MHO fumigation but alleviated by diphenylamine (DPA) dipping. Through transcriptome assay, 24 out of 146 PCD-related genes, which were transcribed during cold storage, were identified as the key candidate members responsible for these cellular biological alternations upon scald development. Among these, PbrCNGC1, PbrGnai1, PbrACD6, and PbrSOBIR1 were implicated in the MHO signaling pathway. Additionally, PbrWRKY2, 34 and 39 could bind to the W-box element in the promoter of PbrGnai1 or PbrSOBIR1 and activate their transcription, as confirmed by dual-luciferase, yeast one-hybrid, and transient overexpression assays. Hence, our study confirms the PCD initiation during scald development and explores the critical role of MHO in this process.

植物具有诱导程序性细胞死亡(PCD)的能力,以应对非生物和生物胁迫;然而,关于梨烫伤发育过程中PCD的启动以及烫伤触发因子6-甲基-5-庚烯-2-酮(MHO)参与这一过程的证据尚不充分。研究人员利用 Pyrus bretschneideri Rehd.结果表明,冷藏 120 天后会出现表皮烫伤,并伴有典型的 PCD 相关形态学改变,如浆解、细胞萎缩、细胞膜和细胞核缩合、液泡崩解、调质体破坏、亚细胞器肿胀和 DNA 断裂。这些症状在 MHO 熏蒸后加重,但在浸泡二苯胺(DPA)后减轻。通过转录组分析,在冷藏期间转录的 146 个 PCD 相关基因中,有 24 个被确定为在烫伤发生时导致这些细胞生物学变化的关键候选成员。其中,PbrCNGC1、PbrGnai1、PbrACD6 和 PbrSOBIR1 与 MHO 信号通路有关。此外,PbrWRKY2、34和39能与PbrGnai1或PbrSOBIR1启动子中的W-box元件结合并激活它们的转录,这已被双荧光素酶、酵母单杂交和瞬时过表达实验所证实。因此,我们的研究证实了烫伤发育过程中 PCD 的启动,并探讨了 MHO 在这一过程中的关键作用。
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引用次数: 0
PbrMYB186 activation of PbrF3H increased flavonol biosynthesis and promoted pollen tube growth in Pyrus. PbrMYB186 对 PbrF3H 的激活增加了黄酮醇的生物合成,促进了黄刺玫花粉管的生长。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-08-20 DOI: 10.1186/s43897-024-00110-6
Xueying Liu, Hao Zhang, Zhuqin Liu, Chao Tang, Shouzheng Lv, Ming Qian, Ningyi Zhang, Shaoling Zhang, Juyou Wu, Peng Wang
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引用次数: 0
Potato: from functional genomics to genetic improvement. 马铃薯:从功能基因组学到遗传改良。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-08-19 DOI: 10.1186/s43897-024-00105-3
Li Qu, Xueqing Huang, Xin Su, Guoqing Zhu, Lingli Zheng, Jing Lin, Jiawen Wang, Hongwei Xue

Potato is the most widely grown non-grain crop and ranks as the third most significant global food crop following rice and wheat. Despite its long history of cultivation over vast areas, slow breeding progress and environmental stress have led to a scarcity of high-yielding potato varieties. Enhancing the quality and yield of potato tubers remains the ultimate objective of potato breeding. However, conventional breeding has faced challenges due to tetrasomic inheritance, high genomic heterozygosity, and inbreeding depression. Recent advancements in molecular biology and functional genomic studies of potato have provided valuable insights into the regulatory network of physiological processes and facilitated trait improvement. In this review, we present a summary of identified factors and genes governing potato growth and development, along with progress in potato genomics and the adoption of new breeding technologies for improvement. Additionally, we explore the opportunities and challenges in potato improvement, offering insights into future avenues for potato research.

马铃薯是种植面积最广的非谷类作物,是继水稻和小麦之后全球第三大粮食作物。尽管马铃薯在广大地区的种植历史悠久,但育种进展缓慢和环境压力导致高产马铃薯品种稀缺。提高马铃薯块茎的质量和产量仍然是马铃薯育种的最终目标。然而,由于四体遗传、高基因组杂合度和近亲繁殖抑制,传统育种面临着挑战。马铃薯分子生物学和功能基因组研究的最新进展为了解生理过程的调控网络提供了宝贵的见解,并促进了性状的改良。在本综述中,我们概述了已确定的调控马铃薯生长和发育的因子和基因,以及马铃薯基因组学的进展和采用新育种技术进行改良的情况。此外,我们还探讨了马铃薯改良的机遇和挑战,为马铃薯研究的未来途径提供了见解。
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引用次数: 0
LcMPK3 and LcMPK6 positively regulate fruitlet abscission in litchi. LcMPK3和LcMPK6对荔枝小果脱落有正向调节作用。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-08-06 DOI: 10.1186/s43897-024-00109-z
Fei Wang, Zhijian Liang, Xingshuai Ma, Zidi He, Jianguo Li, Minglei Zhao

Mitogen-activated protein kinase (MAPK) cascades have been discovered to play a fundamental role in regulating organ abscission. However, the identity of protein substrates targeted by MAPK cascades, as well as whether the role of MAPK protein cascades in the abscission process is conserved across different plant species, remain unknown. Here, the role of homologs of MPK3 and MPK6 in regulating fruit abscission were characterized in litchi. Ectopic expression of LcMPK3 or LcMPK6 in Arabidopsis mpk3 mpk6 mutant rescued the deficiency in floral organ abscission, while silencing of LcMPK3 or LcMPK6 in litchi significantly decreased fruitlet abscission. Importantly, a total of 49 proteins interacting with LcMPK3 were identified through yeast two-hybrid screening, including two components of the MAPK signaling cascade, five transcription factors, and two aquaporins. Furthermore, the interaction between LcMPK3/6 with LcBZR1/2, core components in brassinosteroids signaling that suppress litchi fruitlet abscission, was confirmed using in vitro and in vivo assays. Moreover, phos-tag assays demonstrated that LcMPK3/6 could phosphorylate LcBZR1/2, with several phosphorylation residues identified. Together, our findings suggest that LcMPK3 and LcMPK6 play a positive regulatory role in fruitlet abscission in litchi, and offer crucial information for the investigation of mechanisms underlying MPK3/6-mediated organ abscission in plants.

人们发现,丝裂原活化蛋白激酶(MAPK)级联在调节器官脱落过程中发挥着重要作用。然而,MAPK 级联所靶向的蛋白底物的身份,以及 MAPK 蛋白级联在脱落过程中的作用在不同植物物种中是否一致,仍然是未知的。本文研究了荔枝 MPK3 和 MPK6 的同源物在调控果实脱落过程中的作用。在拟南芥mpk3 mpk6突变体中异位表达LcMPK3或LcMPK6可挽救花器官脱落的缺陷,而在荔枝中沉默LcMPK3或LcMPK6可显著降低小果脱落。重要的是,通过酵母双杂交筛选,共发现了49个与LcMPK3相互作用的蛋白质,包括MAPK信号级联的两个组分、五个转录因子和两个水蒸气蛋白。此外,通过体外和体内试验证实了 LcMPK3/6 与 LcBZR1/2 之间的相互作用,LcBZR1/2 是抑制荔枝小果脱落的黄铜类固醇信号转导的核心成分。此外,phos-tag 分析表明 LcMPK3/6 可以磷酸化 LcBZR1/2,并确定了几个磷酸化残基。总之,我们的研究结果表明,LcMPK3 和 LcMPK6 在荔枝小果脱落过程中发挥着积极的调控作用,并为研究 MPK3/6 介导的植物器官脱落机制提供了重要信息。
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引用次数: 0
Diversification of FT-like genes in the PEBP family contributes to the variation of flowering traits in Sapindaceae species. PEBP 家族中 FT 类基因的多样化有助于无患子科物种开花性状的变异。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-07-16 DOI: 10.1186/s43897-024-00104-4
Xing Huang, Hongsen Liu, Fengqi Wu, Wanchun Wei, Zaohai Zeng, Jing Xu, Chengjie Chen, Yanwei Hao, Rui Xia, Yuanlong Liu

Many species of Sapindaceae, such as lychee, longan, and rambutan, provide nutritious and delicious fruit. Understanding the molecular genetic mechanisms that underlie the regulation of flowering is essential for securing flower and fruit productivity. Most endogenous and exogenous flowering cues are integrated into the florigen encoded by FLOWERING LOCUS T. However, the regulatory mechanisms of flowering remain poorly understood in Sapindaceae. Here, we identified 60 phosphatidylethanolamine-binding protein-coding genes from six Sapindaceae plants. Gene duplication events led to the emergence of two or more paralogs of the FT gene that have evolved antagonistic functions in Sapindaceae. Among them, the FT1-like genes are functionally conserved and promote flowering, while the FT2-like genes likely serve as repressors that delay flowering. Importantly, we show here that the natural variation at nucleotide position - 1437 of the lychee FT1 promoter determined the binding affinity of the SVP protein (LcSVP9), which was a negative regulator of flowering, resulting in the differential expression of LcFT1, which in turn affected flowering time in lychee. This finding provides a potential molecular marker for breeding lychee. Taken together, our results reveal some crucial aspects of FT gene family genetics that underlie the regulation of flowering in Sapindaceae.

无患子科的许多物种,如荔枝、龙眼和红毛丹,都能提供营养丰富的美味水果。了解开花调控的分子遗传机制对于确保花和果实的产量至关重要。大多数内源和外源的开花线索都被整合到了由开花位点 T 编码的花原中。然而,人们对无患子科植物开花的调控机制仍然知之甚少。在此,我们从六种无患子科植物中鉴定了 60 个磷脂酰乙醇胺结合蛋白编码基因。基因复制事件导致无患子科植物中出现了两个或多个具有拮抗功能的 FT 基因旁系。其中,类似 FT1 的基因在功能上是保守的,能促进开花,而类似 FT2 的基因则可能是延迟开花的抑制因子。重要的是,我们在本文中发现,荔枝 FT1 启动子核苷酸位置 - 1437 的自然变异决定了作为开花负调控因子的 SVP 蛋白(LcSVP9)的结合亲和力,从而导致 LcFT1 的差异表达,进而影响荔枝的开花时间。这一发现为荔枝育种提供了潜在的分子标记。综上所述,我们的研究结果揭示了无患子科植物花期调控的 FT 基因家族遗传学的一些重要方面。
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引用次数: 0
Transcription factor NOR and CNR synergistically regulate tomato fruit ripening and carotenoid biosynthesis. 转录因子 NOR 和 CNR 协同调控番茄果实成熟和类胡萝卜素的生物合成。
IF 10.6 Q1 HORTICULTURE Pub Date : 2024-07-08 DOI: 10.1186/s43897-024-00103-5
Mengting Liu, Jing Zeng, Ting Li, Ying Li, Yueming Jiang, Xuewu Duan, Guoxiang Jiang
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引用次数: 0
期刊
Molecular Horticulture
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