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AcMYB266, a key regulator of the red coloration in pineapple peel: a case of subfunctionalization in tandem duplicated genes Hortic. Res. (IF 8.7) Pub Date : 2024-04-25 Wei Zhang, Jing Wu, Chaoyang Liu, Wen Yi, Jingyao Xie, Ya Wu, Tao Xie, Jun Ma, Ziqin Zhong, Mingzhe Yang, Junhu He, Chengjie Chen, Aiping Luan, Yehua He
Red fruit peel is an attractive target for pineapple breeding. Various pineapple accessions with distinct red coloration patterns exist, however, the precise molecular mechanism accounting for these differences remains unknown, which hinders the pineapple breeding process from combining high fruit quality with red peel. In this study, we characterized a transcription factor, AcMYB266, which is preferentially
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Four novel Cit7GlcTs functional in flavonoid 7-O-glucoside biosynthesis are vital to flavonoid biosynthesis shunting in citrus Hortic. Res. (IF 8.7) Pub Date : 2024-04-25 Ziyu Yuan, Gu Li, Huixian Zhang, Zhaoxin Peng, Wenyu Ding, Huan Wen, Hanxin Zhou, Jiwu Zeng, Jiajing Chen, Juan Xu
Citrus fruits have abundant flavonoid glycosides (FGs), an important class of natural functional and flavor components. However, there have been few reports about the modification of UDP-glycosyltransferases (UGTs) on flavonoids in citrus. Notably, in flavonoid biosynthesis, 7-O-glucosylation is the initial and essential step of glycosylation prior to the synthesis of flavanone disaccharides, the most
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De novo assembling a high-quality genome sequence of Amur grape (Vitis amurensis Rupr.) gives insight into Vitis divergence and sex determination Hortic. Res. (IF 8.7) Pub Date : 2024-04-23 Pengfei Wang, Fanbo Meng, Yiming Yang, Tingting Ding, Huiping Liu, Fengxia Wang, Ao Li, Qingtian Zhang, Ke Li, Shutian Fan, Bo Li, Zhiyao Ma, Tianhao Zhang, Yongfeng Zhou, Hongjun Zhao, Xiyin Wang
To date, there has been no high-quality sequence for genomes of the East Asian grape species, hindering biological and breeding efforts to improve grape cultivars. This study presents a ~522 Mb of the Vitis amurensis (Va) genome sequence containing 27,635 coding genes. Phylogenetic analysis indicated that V. riparia (Vr) may firstly split from the other two species, Va, V. Vinifera (Vv). Divergent
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New citizen science initiative enhances flowering onset predictions for fruit trees in Great Britain Hortic. Res. (IF 8.7) Pub Date : 2024-04-23 Chris Wyver, Simon G Potts, Richard Pitts, Mike Riley, Gerard Janetzko, Deepa Senapathi
Accurately predicting flowering phenology in fruit tree orchards is crucial for timely pest and pathogen treatments and for the introduction of managed pollinators. Making predictions requires large datasets of flowering dates, which are often limited to single locations. Consequently, resulting phenology predictions are not representative across larger geographic areas. Citizen science may offer a
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Haplotype-resolved Chromosomal-Level Genome Assembly Reveals Regulatory Variations in Mulberry Fruit Anthocyanin Content Hortic. Res. (IF 8.7) Pub Date : 2024-04-23 Zhongqiang Xia, Wei Fan, Duanyang Liu, Yuane Chen, Jing Lv, Mengxia Xu, Meirong Zhang, Zuzhao Ren, Xuefei Chen, Xiujuan Wang, Liang Li, Panpan Zhu, Changying Liu, Zhiguang Song, Chuanshu Huang, Xiling Wang, Shuchang Wang, Aichun Zhao
Understanding the intricate regulatory mechanisms underlying the anthocyanin content (AC) in fruits and vegetables is crucial for advanced biotechnological customization. In this study, we generated high-quality haplotype-resolved genome assemblies for two mulberry cultivars: the high-AC 'Zhongsang5801' (ZS5801) and the low-AC 'Zhenzhubai' (ZZB). Additionally, we conducted a comprehensive analysis
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Plants attacked above-ground by leaf-mining flies change below-ground microbiota to enhance plant defense Hortic. Res. (IF 8.7) Pub Date : 2024-04-22 Yang Gao, Qiong Yang, Qiulin Chen, Yunchuan He, Wei He, Jiamei Geng, Yunzeng Zhang, Ying Zhou, Zeng-Rong Zhu
Root-associated microbiomes play a crucial role in plant responses to biotic and abiotic stresses. Plants can recruit beneficial microbes to increase their stress-relieving ability. Above-ground insect herbivory is among the most detrimental stresses for plants, especially to crop production. However, few studies have explored how root-associated microbiomes respond to herbivores and influence plant-defense
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Chromosome-level genome assembly and population genomics reveals crucial selection for subgynoecy development in chieh-qua Hortic. Res. (IF 8.7) Pub Date : 2024-04-22 Min Wang, Zhenqiang Cao, Biao Jiang, Kejian Wang, Dasen Xie, Lin Chen, Shaoqi Shi, Songguang Yang, Hongwei Lu, Qingwu Peng
Chieh-qua is an important cucurbit crop and well popular in South China and Southeast Asia. Despite its significance, its genetic basis and domestication history are unclear. In this study, we have successfully generated a chromosome-level reference genome assembly for the chieh-qua ‘A36’ using a hybrid assembly strategy that combines PacBio long reads and Illumina short reads. The assembled genome
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A telomere-to-telomere gap-free reference genome assembly of avocado provides useful resources for identifying genes related to fatty acid biosynthesis and disease resistance Hortic. Res. (IF 8.7) Pub Date : 2024-04-22 Tianyu Yang, Yifan Cai, Tianping Huang, Danni Yang, Xingyu Yang, Xin Yin, Chengjun Zhang, Yunqiang Yang, Yongping Yang
Avocado (Persea americana Mill.) is an economically valuable plant because of the high fatty acid content and unique flavor of its fruits. Its fatty acid content, especially the relatively high unsaturated fatty acid content, provides significant health benefits. We herein present a telomere-to-telomere gapless genome assembly (841.6 Mb) of West Indian avocado. The genome contains 40,629 predicted
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Identification of allelic relationship and translocation region among chromosomal translocation lines that leads to less-seed watermelon Hortic. Res. (IF 8.7) Pub Date : 2024-04-22 Di Jiao, Hong Zhao, Honghe Sun, Jie Zhang, Haiying Zhang, Guoyi Gong, Muhammad Anees, Hongju Zhu, Wenge Liu, Yong Xu
Less-seed and seedless traits are desirable characteristics in watermelon (Citrullus lanatus). Hybridization between watermelon chromosomal translocated lines and wild lines significantly reduced seed counts in the hybrid fruits, approaching even seedless. However, the allelic relationships and the chromosomal translocation breakpoints from different sources are unclear, which limits their utility
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Heterotrimeric Gα-subunit functions in flower and fruit development via CLAVATA signaling pathway in cucumber Hortic. Res. (IF 8.7) Pub Date : 2024-04-16 Lijie Han, Yafei Huang, Chuang Li, Di Tian, Daixi She, Min Li, Zhongyi Wang, Jiacai Chen, Liu Liu, Shaoyun Wang, Weiyuan Song, Liming Wang, Chaoheng Gu, Tao Wu, Jianyu Zhao, Zhaoyang Zhou, Xiaolan Zhang
Flowers and fruits are the reproductive organs in plants that play essential role in nature beauty and human diet. CLAVATA signaling has been well characterized to regulate floral organ development through modulating shoot apical meristem (SAM) size, however, the signaling molecules downstream of CLV pathway remain largely unknown in crops. Here, we found that functional disruption of CsCLV3 peptide
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Enhancing Tomato Fruit Antioxidant Potential Through Hydrogen Nanobubble Irrigation Hortic. Res. (IF 8.7) Pub Date : 2024-04-16 Jing He, Yunpeng Zhou, Christoph-Martin Geilfus, Jiankang Cao, Daqi Fu, Shahar Baram, Yanzheng Liu, Yunkai Li
Eating fruits and vegetables loaded with natural antioxidants can boost human health considerably and help fight off diseases linked to oxidative stress. Hydrogen has unique antioxidant effects. However, its low-solubility and fast-diffusion has limited its applications in agriculture. Integration of hydrogen with nanobubble technology could address such problems. However, the physiological adaptation
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Comparative population genomics reveals convergent and divergent selection in the Apricot-Peach-Plum-Mei Complex Hortic. Res. (IF 8.7) Pub Date : 2024-04-16 Xuanwen Yang, Ying Su, Siyang Huang, Qiandong Hou, Pengcheng Wei, Yani Hao, Jiaqi Huang, Hua Xiao, Zhiyao Ma, Xiaodong Xu, Xu Wang, Shuo Cao, Xuejing Cao, Mengyan Zhang, Xiaopeng Wen, Yuhua Ma, Yanling Peng, Yongfeng Zhou, Ke Cao, Guang Qiao
The economically significant genus Prunus includes fruit and nut crops that have been domesticated for shared and specific agronomic traits, however, the genomic signals of convergent and divergent selection have not been elucidated. In this study, we aim to detect genomic signatures of convergent and divergent selection by conducting comparative population genomic analyses of the Apricot-Peach-Plum-Mei
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Integrative analysis of the methylome and transcriptome of tomato fruit (Solanum lycopersicum L.) induced by postharvest handling Hortic. Res. (IF 8.7) Pub Date : 2024-04-11 Jiaqi Zhou, Sitian Zhou, Bixuan Chen, Kamonwan Sangsoy, Kietsuda Luengwilai, Karin Albornoz, Diane M Beckles
Tomato fruit ripening is triggered by the demethylation of key genes, which alters their transcriptional levels thereby initiating and propagating a cascade of physiological events. What is unknown, is how these processes are altered when fruit are ripened using postharvest practices to extend shelf-life, as these practices often reduce fruit quality. To address this, postharvest handling-induced changes
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Efficient purging of deleterious mutations contributes to the survival of a rare conifer Hortic. Res. (IF 8.7) Pub Date : 2024-04-11 Yi Wang, Yongzhi Yang, Zhitong Han, Jialiang Li, Jian Luo, Heng Yang, Jingge Kuang, Dayu Wu, Shiyang Wang, Sonam Tso, Tsam Ju, Jianquan Liu, Susanne S Renner, Kangshang Mao
Cupressaceae is a conifer family rich in plants of horticultural importance, including Cupressus, Chamaecyparis, Juniperus and Thuja, yet genomic surveys are lacking for this family. Cupressus gigantea, one of the many rare conifers that are threatened by climate change and anthropogenic habitat fragmentation, plays an ever-increasing role in ecotourism in Tibet. To infer how past climate change has
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A phased genome of the highly heterozygous 'Texas' almond uncovers patterns of allele-specific expression linked to heterozygous structural variants Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Raúl Castanera, Carlos de Tomás, Valentino Ruggieri, Carlos Vicient, Iban Eduardo, Maria José Aranzana, Pere Arús, Josep M Casacuberta
The vast majority of traditional almond varieties are self-incompatible and the level of variability of the species is very high, resulting in a highly heterozygosity genome. Therefore, information on the different haplotypes is particularly relevant to understand the genetic basis of trait variability in this species. However, although reference genomes for several almond varieties exist, none of
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Regulatory role of Prunus mume DAM6 on lipid body accumulation and phytohormone metabolism in the dormant vegetative meristem Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Tzu-Fan Hsiang, Hisayo Yamane, Mei Gao-Takai, Ryutaro Tao
Bud dormancy is a crucial process in the annual growth cycle of woody perennials. In Rosaceae fruit tree species, DORMANCY-ASSOCIATED MADS-box (DAM) transcription factor genes regulating bud dormancy have been identified, but their molecular roles in meristematic tissues have not been thoroughly characterized. In this study, molecular and physiological analyses of transgenic apple plants overexpressing
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BoaBZR1.1 mediates brassinosteroid-induced carotenoid biosynthesis in Chinese kale Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Chenlu Zhang, Qiannan Liang, Yilin Wang, Sha Liang, Zhi Huang, Huanxiu Li, Victor Hugo Escalona, Xingwei Yao, Wenjuan Cheng, Zhifeng Chen, Fen Zhang, Qiaomei Wang, Yi Tang, Bo Sun
Brassinazole resistant 1 (BZR1), a brassinosteroid (BR) signaling component, plays a pivotal role in regulating numerous specific developmental processes. Our study demonstrated that exogenous treatment with 2,4-epibrassinolide (EBR) significantly enhanced the accumulation of carotenoids and chlorophylls in Chinese kale (Brassica oleracea var. alboglabra). The underlying mechanisms was deciphered through
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Roles of the APETALA3-3 ortholog in the petal identity specification and morphological differentiation in Delphinium anthriscifolium flowers Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Peng Zhang, Yanru Xie, Wenjie Xie, Li Li, Hanghang Zhang, Xiaoshan Duan, Rui Zhang, Liping Guo
The genus Delphinium (Ranunculaceae) with its unique and highly complex floral structure is an ideal system to address some key questions in terms of morphological and evolutionary studies in flowers. In D. anthriscifolium, for example, the original eight petal primordia differentiate into three types at maturity (i.e., two dorsal spurred, two lateral flat, and four ventral reduced petals). The mechanisms
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Telomere-to-telomere reference genome for Panax ginseng highlights the evolution of saponin biosynthesis Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Yiting Song, Yating Zhang, Xu Wang, Xikai Yu, Yi Liao, Hao Zhang, Linfeng Li, Yingping Wang, Bao Liu, Wei Li
Ginseng (Panax ginseng) is a representative of Chinese traditional medicine, also used worldwide, while the triterpene saponin ginsenoside is the most important effective compound within it. Ginseng is an allotetraploid, with complex genetic background, making the study of its metabolic evolution challenging. In this study, we assembled a telomere-to-telomere ginseng reference genome, constructed of
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Genomic, transcriptomic, and metabolomic analyses provide insights into the evolution and development of a medicinal plant Saposhnikovia divaricata (Apiaceae) Hortic. Res. (IF 8.7) Pub Date : 2024-04-09 Zhen-Hui Wang, Xiao Liu, Yi Cui, Yun-He Wang, Ze-Liang Lv, Lin Cheng, Bao Liu, Hui Liu, Xin-Yang Liu, Michael K Deyholos, Zhong-Ming Han, Li-Min Yang, Ai-Sheng Xiong, Jian Zhang
Saposhnikovia divaricata, 2n = 2x = 16, as a perennial species, is widely distributed in China, Mongolia, Russia, etc. It is a traditional Chinese herb used to treat tetanus, rubella pruritus, rheumatic arthralgia and other diseases. Here, we assembled a 2.07 Gb and N50 scaffold length of 227.67 Mb high-quality chromosome-level genome of S. divaricata based on the PacBio Sequel II sequencing platform
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Haplotype-resolved genome of Prunus zhengheensis provides insight into its evolution and low temperature adaptation in apricot Hortic. Res. (IF 8.7) Pub Date : 2024-04-08 Wei Tan, Pengyu Zhou, Xiao Huang, Ruyu Liao, Xiaoan Wang, Yaoyao Wu, Zhaojun Ni, Ting Shi, Xiaqing Yu, Huiqin Zhang, Chengdong Ma, Feng Gao, Yufan Ma, Yang Bai, Faisal Hayat, Ouma Kenneth Omondi, Daouda Coulibaly, Zhihong Gao
Prunus zhengheensis, an extremely rare population of apricots, originated in warm South-East China, is an excellent material for genetic breeding. However, most apricots and their two related species (P. sibirica, P. mandshurica) are found in the cold northern regions in China and the mechanism of their distribution is still unclear. In addition, the classification status of P. zhengheensis is controversial
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HortGenome Search Engine, a universal genomic search engine for horticultural crops Hortic. Res. (IF 8.7) Pub Date : 2024-04-08 Sen Wang, Shangxiao Wei, Yuling Deng, Shaoyuan Wu, Haixu Peng, You Qing, Xuyang Zhai, Shijie Zhou, Jinrong Li, Hua Li, Yijian Feng, Yating Yi, Rui Li, Hui Zhang, Yiding Wang, Renlong Zhang, Lu Ning, Yuncong Yao, Zhangjun Fei, Yi Zheng
Horticultural crops comprising fruit, vegetable, ornamental, beverage, medicinal and aromatic plants play essential roles in food security and human health, as well as landscaping. With the advances of sequencing technologies, genomes for hundreds of horticultural crops have been deciphered in recent years, providing a basis for understanding gene functions and regulatory networks and for the improvement
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euAP2a, a key gene that regulates flowering time in peach (Prunus persica) by modulating Thermo-responsive transcription programming Hortic. Res. (IF 8.7) Pub Date : 2024-04-08 Jianyang Liu, Dennis Bennett, Mark Demuth, Erik Burchard, Tim Artlip, Chris Dardick, Zongrang Liu
Frequent spring frost damage threatens temperate fruit production, and the breeding of late-flowering cultivars is an effective strategy for preventing such damage, but the lack of specific genes and markers and a lack of understanding of the mechanisms make it difficult. We examined a Late-Flowering Peach (LFP) germplasm and found that its floral buds require a longer chilling period to release from
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The critical roles of three sugar-related proteins (HXK, SnRK1, TOR) in regulating plant growth and stress responses Hortic. Res. (IF 8.7) Pub Date : 2024-04-05 Guangshuo Li, Ying Zhao
Sugar signaling is one of the most critical regulatory signals in plants, and its metabolic network contains multiple regulatory factors. Sugar signal molecules regulate cellular activities and organism development by combining with other intrinsic regulatory factors and environmental inputs. HXK, SnRK1 and TOR are three fundamental proteins that have a pivotal role in the metabolism of sugars in plants
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SlGAD2 is the target of SlTHM27, positively regulates cold tolerance by mediating anthocyanin biosynthesis in tomato Hortic. Res. (IF 8.7) Pub Date : 2024-04-05 Jingrong Wang, Yong Zhang, Junzheng Wang, Abid Khan, Zheng Kang, Yongbo Ma, Jiarui Zhang, Haoran Dang, Tianlai Li, Xiaohui Hu
Cold stress significantly limits the yield and quality of tomato. Deciphering the key genes related to cold tolerance is important for selecting and breeding superior cold-tolerant varieties. γ-aminobutyric acid (GABA) responds to various types of stress by rapidly accumulating in plant. In this study, glutamic acid decarboxylase (GAD2) was a positive regulator to enhance cold stress tolerance of tomato
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Multi-omic dissection of the cold resistance traits of white water lily Hortic. Res. (IF 8.7) Pub Date : 2024-04-05 Penghe Qiu, Tong Liu, Yingchun Xu, Chunxiu Ye, Ran Zhang, Yanjie Wang, Qijiang Jin
The white water lily (Nymphaea candida), exemplifying nature's resilience, thrives in the high-altitude terrains of Xinjiang, China, serving as an ideal model for investigating cold adaptation mechanisms in aquatic plants. This study meticulously elucidates the complex cold adaptation mechanisms of the white water lily through a comprehensive and integrated methodological approach. We discovered that
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Nuclear Factor Y-A3b binds to the SINGLE FLOWER TRUSS promoter and regulates flowering time in tomato Hortic. Res. (IF 8.7) Pub Date : 2024-04-02 Dedi Zhang, Kangna Ji, Jiafa Wang, Xinyu Liu, Zheng Zhou, Rong Huang, Guo Ai, Yan Li, Xin Wang, Taotao Wang, Yongen Lu, Zonglie Hong, Zhibiao Ye, Junhong Zhang
The control of flowering time is essential for reproductive success and has a major effect on seed and fruit yield and other important agricultural traits in crops. Nuclear Factors Y (NF-Ys) are transcription factors that form heterotrimeric protein complexes to regulate gene expression required for diverse biological processes including flowering time control in plants. However, to our knowledge,
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Adaptive regulation of miRNAs/milRNAs in tissue specific interaction between apple and Valsa mali Hortic. Res. (IF 8.7) Pub Date : 2024-04-02 Chengyu Gao, Binsen Zhao, Jian Zhang, Xuan Du, Jie Wang, Yan Guo, Yanting He, Hao Feng, Lili Huang
In plant-pathogen interactions, pathogens display tissue specificity, infecting and causing disease in particular tissues. However, the involvement of microRNAs/microRNA-like RNAs (miRNAs/milRNAs) in tissue-specific regulation during plant-pathogen interactions remains largely unexplored. This study investigates the differential expression of miRNAs/milRNAs, as well as their corresponding target genes
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Genome-wide transcriptome analysis reveals key regulatory networks and genes involved in the determination of seed hardness in vegetable soybean Hortic. Res. (IF 8.7) Pub Date : 2024-04-02 Congcong Wang, Jianyu Lin, Yuanpeng Bu, Ruidong Sun, Yang Lu, JunYi Gai, Han Xing, Na Guo, Jinming Zhao
Seed hardness is an important quality trait of vegetable soybean. To determine the factors underlying seed hardness, two landraces with contrasting seed hardness, Niumaohuang (low seed hardness) and Pixiansilicao (high seed hardness), were selected from 216 soybean accessions originating from 26 provinces in China. The contents of the main components in vegetable soybean seeds such as water, soluble
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The high-quality genome of Grona styracifolia uncover the genomic mechanism of high level of schaftoside, a promising drug candidate for treatment of COVID-19 Hortic. Res. (IF 8.7) Pub Date : 2024-03-30 Shaohua Zeng, Zhiqiang Wang, Dingding Shi, Fangqin Yu, Ting Liu, Ting Peng, Guiqi Bi, Jianbin Yan, Ying Wang
Recent study evidence the traditional Chinese medicinal (TCM) plant-derived schaftoside shows promise as a potential drug candidate for COVID-19 treatment. However, the biosynthetic pathway of schaftoside in TCM plants remains unknown. In this study, the genome of the TCM herb Grona styracifolia (Osbeck) H.Ohashi & K.Ohashi (GSO), which is rich in schaftoside, was sequenced, and a high-quality assembly
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Pyrus betulaefolia ERF3 interacts with HsfC1a to coordinately regulate aquaporin PIP1;4 and NCED4 for drought tolerance Hortic. Res. (IF 8.7) Pub Date : 2024-03-30 Feng Zhang, Zhijian Pan, Chenyang Han, Huizhen Dong, Likun Lin, Qinghai Qiao, Keke Zhao, Juyou Wu, Shutian Tao, Shaoling Zhang, Xiaosan Huang
Summary Environmental disasters like drought reduce agricultural output and plant growth. Redox management significantly affects plant stress responses. An earlier study found that PbPIP1;4 transports H2O2 and promotes H2O2 downstream cascade signaling to restore redox equilibrium. However, this regulatory mechanism requires additional investigation. In this search, the AP2 domain-containing transcription
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Exploring salt tolerance mechanisms using machine learning for transcriptomic insights: case study in Spartina alterniflora Hortic. Res. (IF 8.7) Pub Date : 2024-03-28 Zhangping Huang, Shoukun Chen, Kunhui He, Tingxi Yu, Junjie Fu, Shang Gao, Huihui Li
Salt stress poses a significant threat to global cereal crop production, emphasizing the need for a comprehensive understanding of salt tolerance mechanisms. Accurate functional annotations of differentially expressed genes are crucial for gaining insights into the salt tolerance mechanism. The challenge of predicting gene functions in under-studied species, especially when excluding infrequent GO
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The CsmiR397a-CsLAC17 module regulates lignin biosynthesis to balance the tenderness and gray blight resistance in young tea shoots Hortic. Res. (IF 8.7) Pub Date : 2024-03-28 Hongbin Yang, Xinyue Jia, Tong Gao, Siyu Gong, Linxuan Xia, Peiling Zhang, Yuying Qi, Shuyuan Liu, Youben Yu, Weidong Wang
Lignin accumulation can enhance the disease resistance of young tea shoots (Camellia sinensis). It also greatly reduces their tenderness, which indirectly affects the quality and yield of tea. Therefore, the regulation of lignin biosynthesis appears to be an effective way to balance tenderness and disease resistance in young tea shoots. In this study, we identified a laccase gene, CsLAC17, that is
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Interaction among homeodomain transcription factors mediates ethylene biosynthesis during pear fruit ripening Hortic. Res. (IF 8.7) Pub Date : 2024-03-28 Su-Hao Cao, Zhi-Hua Guo, Hong Liu, Guo-Ming Wang, Kai-Jie Qi, Ze-Wen Wang, Rui-Ping Tian, Shou-Feng Sha, Shao-Ling Zhang, Chao Gu
Fruit ripening is manipulated by the plant phytohormone ethylene in climacteric fruits. While the transcription factors (TFs) involved in ethylene biosynthesis and fruit ripening have been extensively studied in tomato, their identification in pear remains limited. In this study, we identified and characterized a HOMEODOMAIN TF, PbHB.G7.2, through transcriptome analysis. PbHB.G7.2 could directly bind
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VvWRKY5 positively regulates wounding-induced anthocyanin accumulation in grape by interplaying with VvMYBA1 and promoting jasmonic acid biosynthesis Hortic. Res. (IF 8.7) Pub Date : 2024-03-25 Zhen Zhang, Cui Chen, Changyue Jiang, Hong Lin, Yuhui Zhao, Yinshan Guo
Wounding stress induces the biosynthesis of various secondary metabolites in plants, including anthocyanin. However, the underlying molecular mechanism remains elusive. Here, we reported that a transcription factor, VvWRKY5, promotes wounding-induced anthocyanin accumulation in grape (Vitis vinifera). Biochemical and molecular analyses demonstrated that wounding stress significantly increased anthocyanin
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Calmodulin-like protein MdCML15 interacts with MdBT2 to modulate iron homeostasis in apple Hortic. Res. (IF 8.7) Pub Date : 2024-03-25 Xiao-Juan Liu, Xin Liu, Qiang Zhao, Yuan-Hua Dong, Qiangbo Liu, Yuan Xue, Yu-Xin Yao, Chun-Xiang You, Hui Kang, Xiao-Fei Wang
BTB and TAZ domain proteins (BTs) function as specialized adaptors facilitating substrate recognition of the CUL3-RING ubiquitin ligase (CRL3) complex that targets proteins for ubiquitination in reaction to diverse pressures. Nonetheless, knowledge of the molecular mechanisms by which the apple scaffold protein MdBT2 responds to external and internal signals is limited. Here, we demonstrate that a
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Genome-wide variants and optimal allelic combinations for citric acid in tomato Hortic. Res. (IF 8.7) Pub Date : 2024-03-18 Wenxian Gai, Liangdan Yuan, Fan Yang, John Kojo Ahiakpa, Fangman Li, Pingfei Ge, Xingyu Zhang, Jinbao Tao, Fei Wang, Yang Yang, Yuyang Zhang
Citric acid (CA) plays a crucial role as a fruit flavor enhancer and serves as a mediator in multiple metabolic pathways in tomato fruit development. Understanding factors influencing CA metabolism is essential for enhancing fruit flavor and CA-mediated biological processes. The accumulation of CA, however, is influenced by a complex interplay of genetic and environmental factors, leading to challenges
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MdbZIP44–MdCPRF2-like–Mdα-GP2 regulate starch and sugar metabolism in apple under nitrogen supply Hortic. Res. (IF 8.7) Pub Date : 2024-03-15 Xuejing Cao, Zhigang Guo, Ping Wang, Shixiong Lu, Wenfang Li, Zonghuan Ma, Juan Mao, Baihong Chen
Nitrogen (N) is regarded as an essential macronutrient and is tightly associated with carbon (C) metabolism in plants. The transcriptome data obtained from this study showed that the expression level of the apple basic leucine zipper (bZIP) transcription factor (TF) MdbZIP44 was up-regulated in ‘Oregon Spur Delicious’ (Malus domestica Borkh.) apple fruits under nitrogen supply. MdbZIP44 bound to the
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Diploid genome assembly of the Malbec grapevine cultivar enables haplotype-aware analysis of transcriptomic differences underlying clonal phenotypic variation Hortic. Res. (IF 8.7) Pub Date : 2024-03-14 Luciano Calderón, Pablo Carbonell-Bejerano, Claudio Muñoz, Laura Bree, Cristobal Sola, Daniel Bergamin, Walter Tulle, Sebastian Gomez-Talquenca, Christa Lanz, Carolina Royo, Javier Ibáñez, José Miguel Martinez-Zapater, Detlef Weigel, Diego Lijavetzky
To preserve their varietal attributes, established grapevine cultivars (Vitis vinifera L. ssp. vinifera) must be clonally propagated, due to their highly heterozygous genomes. Malbec is a France-originated cultivar appreciated for producing high-quality wines, and is the offspring of cultivars Prunelard and Magdeleine Noire des Charentes. Here, we have built a diploid genome assembly of Malbec, after
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Extracellular perception of multiple novel core effectors from the broad host-range pear anthracnose pathogen Colletotrichum fructicola in the nonhost Nicotiana benthamiana Hortic. Res. (IF 8.7) Pub Date : 2024-03-14 Mengqing Han, Chunhao Wang, Wenhui Zhu, Yuemin Pan, Lili Huang, Jiajun Nie
Colletotrichum fructicola is emerging as a devastating pathogenic fungus causing anthracnose in a wide range of horticultural crops, particularly fruits. Exploitation of nonhost resistance (NHR) represents a robust strategy for plant disease management. Perception of core effectors from phytopathogens frequently leads to hypersensitive cell death and resistance in nonhost plants, however, such core
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Chromosome-level genome assemblies of Musa ornata and M. velutina provide insights into pericarp dehiscence and anthocyanin biosynthesis in banana Hortic. Res. (IF 8.7) Pub Date : 2024-03-12 Tian-Wen Xiao, Xin Liu, Ning Fu, Tong-Jian Liu, Zheng-Feng Wang, Xue-Jun Ge, Hui-Run Huang
Musa ornata and M. velutina are members of the Musaceae family and are indigenous to the South and Southeast Asia. They are very popular in the horticultural market, but the lack of genomic sequencing data and genetic studies has hampered efforts to improve their ornamental value. In this study, we generated the first chromosome-level genome assemblies for both species by utilizing Oxford Nanopore
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Integrated proteomic, transcriptomic and metabolomic profiling reveals that GA-ABA hub runs the flower development in Chinese orchid Cymbidium sinense Hortic. Res. (IF 8.7) Pub Date : 2024-03-12 Sagheer Ahmad, Chuqiao Lu, Jie Gao, Yonglu Wei, Qi Xie, Jianpeng Jin, Genfa Zhu, Fengxi Yang
The seasonal flowering Chinese Cymbidium produce axillary floral meristem and require a dormancy period during cold conditions for flower development. However, their bud activation mechanism remains elusive. This study evaluates the multi-omics across six stages of flower development, along with functional analysis of core genes to decipher the innate mechanism of floral bud initiation and outgrowth
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MAPK20-mediated ATG6 phosphorylation is critical for pollen development in Solanum lycopersicum L. Hortic. Res. (IF 8.7) Pub Date : 2024-03-06 Yu Wang, Dongling Xie, Xuelian Zheng, Mingyue Guo, Zhenyu Qi, Ping Yang, Jingquan Yu, Jie Zhou
In flowering plants, male gametogenesis is tightly regulated by numerous genes. Mitogen-activated protein kinase (MAPK) plays a critical role in plant development and stress response, while its role in plant reproductive development is largely unclear. The present study demonstrated MAPK20 phosphorylation of ATG6 to mediate pollen development and germination in tomato (Solanum lycopersicum L.). MAPK20
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Two haplotype-resolved T2T reference genomes for Ziziphus jujuba and Z. jujuba var. spinosa provide new insights into the domestication of jujube Hortic. Res. (IF 8.7) Pub Date : 2024-03-04 Kun Li, Ruihong Chen, Ayimaiti Abudoukayoumu, Qian Wei, Zhibo Ma, Zhengyang Wang, Qing Hao, Jian Huang
Chinese jujube (Ziziphus jujuba Mill.) is one of the most important deciduous tree fruits in China, with substantial economic and nutritional value. Jujube was domesticated from its wild progenitor, wild jujube (Z. jujuba var. spinosa), with high medicinal value. Here, we report the 767.81Mb and 759.24 Mb haplotype-resolved assembly of a dry-eating ‘Junzao’ jujube (JZ) and a wild jujube accession (SZ)
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CsEXL3 regulate mechanical harvest-related droopy leaves under the transcriptional activation of CsBES1.2 in tea plant Hortic. Res. (IF 8.7) Pub Date : 2024-03-04 Haoran Liu, Lingxiao Duan, Jianqiang Ma, Jiqiang Jin, Rong Huang, Yujie Liu, Si Chen, Xiaoying Xu, Jiedan Chen, Mingzhe Yao, Liang Chen
Due to a labor shortage, the mechanical harvesting of tea plantations has become a focal point. However, mechanical harvest efficiency was hampered by droopy leaves, leading to a high rate of broken tea shoots and leaves. Here, we dissected the genetic structure of leaf droopiness in tea plants using genome-wide association studies (GWAS) on 146 accessions, combined with transcriptome from 2 accessions
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Multi-omics analysis reveals key regulatory defense pathways and genes involved in salt tolerance of rose plants Hortic. Res. (IF 8.7) Pub Date : 2024-03-02 Haoran Ren, Wenjing Yang, Weikun Jing, Muhammad Owais Shahid, Yuming Liu, Xianhan Qiu, Patrick Choisy, Tao Xu, Nan Ma, Junping Gao, Xiaofeng Zhou
Salinity stress causes serious damage to crops worldwide, limiting plant production. However, the metabolic and molecular mechanisms underlying the response to salt stress in rose (Rosa spp.) remain poorly studied. We therefore performed a multi-omics investigation of Rosa hybrida cv. Jardin de Granville (JDG) and Rosa damascena Mill. (DMS) under salt stress to determine the mechanisms underlying rose
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Chromosome-scale genome, together with transcriptome and metabolome, provided insights into the evolution and anthocyanin biosynthesis of Rubus rosaefolius Sm. (Rosaceae) Hortic. Res. (IF 8.7) Pub Date : 2024-03-02 Yunsheng Wang, Jiyuan Guan, Qunying Zhang
Rubus rosaefolius is a kind of red raspberry possessing high nutritional and pharmaceutical value. Here, we present a chromosome-level draft genome of R. rosaefolius. Of the total 131 assembled scaffolds, 70 with a total size of 219.02 Mb, accounting for 99.33% of the estimated genome size, were anchored to seven pseudochromosomes. We traced a whole-genome duplication (WGD) event shared among members
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Harnessing the power of microbes: Enhancing soybean growth in an acidic soil through AMF inoculation rather than P-fertilization Hortic. Res. (IF 8.7) Pub Date : 2024-03-02 Zhongling Wen, Minkai Yang, Aliya Fazal, Hongwei Han, Hongyan Lin, Tongming Yin, Yuelin Zhu, Shouping Yang, Kechang Niu, Shucun Sun, Jinliang Qi, Guihua Lu, Yonghua Yang
The low phosphorus (P) availability of acidic soils severely limits leguminous plant growth and productivity. Improving the soil P nutritional status can be achieved by increasing the P-content through P-fertilization or stimulating the mineralization of organic P via arbuscular mycorrhizal fungi (AMF) application, however, their corresponding impacts on plant and soil microbiome still remain to be
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CaSTH2 disables CaWRKY40 from activating pepper thermotolerance and immunity against Ralstonia solanacearum via physical interaction Hortic. Res. (IF 8.7) Pub Date : 2024-03-02 Xingge Cheng, Meiyun Wan, Yuqiu Song, Qian Liu, Xiaohui Hu, Xiufang Chen, Xujing Zhang, Yapeng Zhang, Ruijie Wu, Qiaoling Lu, Yu Huang, Jingang Lv, WeiWei Cai, Deyi Guan, Sheng Yang, Shuilin He
CaWRKY40 coordinately activates pepper immunity against Ralstonia solanacearum infection (RSI) and high temperature stress (HTS) forms positive feedback loops with other positive regulators and is promoted by CaWRKY27b/CaWRKY28 through physical interactions, however, whether and how it is regulated by negative regulators to function appropriately remain unclear. Herein, we provide evidence that CaWRKY40
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Pumpkin CmoDREB2A enhances salt tolerance of grafted cucumber through interaction with CmoNAC1 to regulate H2O2 and ABA signaling and K+/Na+ homeostasis Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Yuquan Peng, Lvjun Cui, Ying Wang, Lanxing Wei, Shouyu Geng, Hui Chen, Guoyu Chen, Li Yang, Zhilong Bie
Pumpkin CmoNAC1 enhances salt tolerance in grafted cucumbers. However, the potential interactions with other proteins that may co-regulate salt tolerance alongside CmoNAC1 have yet to be explored. In this study, we identified pumpkin CmoDREB2A as a pivotal transcription factor that interacts synergistically with CmoNAC1 in the co-regulation of salt tolerance. Both transcription factors were observed
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Phosphorylation of birch BpNAC90 improves the activation of gene expression to confer drought tolerance Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Zhibo Wang, Zihang He, Caiqiu Gao, Chao Wang, Xingshun Song, Yucheng Wang
The NAC transcription factors (TFs) play important roles in mediating abiotic stress tolerance; however, the mechanism is still not fully known. Here, an NAC gene (BpNAC90) from a gene regulatory network of Betula platyphylla (birch) that responded to drought was characterized. Overexpression and knockout of BpNAC90 displayed increased and reduced drought tolerance, respectively, relative to wild-type
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Dissection of the spatial dynamics of biosynthesis, transport, and turnover of major amino acids in tea plants (Camellia sinensis) Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Shuwei Yu, Mingzhi Zhu, Ping Li, Hao Zuo, Juan Li, Yingying Li, Anqi Peng, Jianan Huang, Alisdair R Fernie, Zhonghua Liu, Jian Zhao
High levels of free amino acids (AAs) in tea leaves are crucial for tea flavor and health function, however, the dynamic AA biosynthesis, transport and turnover in tea plants remain elusive. Here we dissected whole tea plants for these dynamics by assessing AA profiles and transcriptomes of metabolic pathway genes in tea roots, stems, and leaves and revealing their distinctive features with regard
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Ethylene-responsive VviERF003 modulates glycosylated monoterpenoid synthesis by upregulating VviGT14 in grapes Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Ya-Chen Wang, Yi Wei, Xiang-Yi Li, Hui-Min Zhang, Xiao Meng, Chang-Qing Duan, Qiu-Hong Pan
Terpenoids are important contributors to the aroma of grapes and wines. Grapes contain terpenoids in both volatile free form and non-volatile glycosidic form, with the latter being more abundant. Glycosylated terpenoids are deemed as latent aromatic potentials for their essential role in adding to the flowery and fruity bouquet of wines. However, transcriptional regulatory mechanism underlying glycosylated
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Transcriptomic analyses to summarize gene expression patterns that occur during leaf initiation of Chinese cabbage Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 XiaoXue Sun, Zihan Liu, Rui Liu, Johan Bucher, Jianjun Zhao, Richard G F Visser, Guusje Bonnema
In Chinese cabbage, rosette leaves expose their adaxial side to the light converting light energy into chemical energy, acting as a source for the growth of the leafy head. In the leafy head, the outer heading leaves expose their abaxial side to the light while the inner leaves are shielded from the light and have become a sink organ of the growing Chinese cabbage plant. Interestingly, variation in
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RNA sequencing analysis reveals PgbHLH28 as the key regulator in response to methyl jasmonate-induced saponin accumulation in Platycodon grandiflorus Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Wuhua Zhang, Jinzhu Zhang, Yingdong Fan, Jie Dong, Peng Gao, Wanzheng Jiang, Tao Yang, Daidi Che
Platycodon grandiflorus (Jacq.) A. DC, known for its saponin content, can potentially prevent and treat cerebrovascular diseases and COVID-19. Triterpenoid saponin biosynthesis in plants is enhanced by methyl jasmonate (MeJA) application. However, the underlying molecular mechanisms of MeJA-induced saponin biosynthesis remain unknown in P. grandiflorus. In the current study, exogenous application of
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Chromosome-scale reference genome of broccoli (Brassica oleracea var. italica Plenck) provides insights into glucosinolate biosynthesis Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Qiuyun Wu, Shuxiang Mao, Huiping Huang, Juan Liu, Xuan Chen, Linghui Hou, Yuxiao Tian, Jiahui Zhang, Junwei Wang, Yunsheng Wang, Ke Huang
Broccoli (Brassica oleracea var. italica Plenck) is an important vegetable crop, as it is rich in health-beneficial glucosinolates (GSLs). However, the genetic basis of the GSL diversity in Brassicaceae remains unclear. Here, we report a chromosome-level genome assembly of broccoli generated using PacBio HiFi reads and Hi-C technology. The final genome assembly is 613.79 Mb in size, with a contig N50
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RNA-seq-based comparative transcriptome analysis reveals the role of CsPrx73 in waterlogging triggered adventitious root formation in cucumber Hortic. Res. (IF 8.7) Pub Date : 2024-02-29 Jiawei Pan, Jia Song, Hamza Sohail, Rahat Sharif, Wenjing Yan, Qiming Hu, Xiaohua Qi, Xiaodong Yang, Xuewen Xu, Xuehao Chen
Abiotic stressors like waterlogging are detrimental to cucumber development and growth. However, comprehension of the highly complex molecular mechanism underlying waterlogging can provide an opportunity to enhance cucumber tolerance under waterlogging stress. We examined the hypocotyl and stage-specific transcriptomes of the waterlogging-tolerant YZ026A and the waterlogging-sensitive YZ106A, which
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Diversity of flavour characteristics of table grapes and their contributing volatile compounds analysed by the solvent-assisted flavour evaporation method Hortic. Res. (IF 8.7) Pub Date : 2024-02-26 Kazuki Moriyama, Atsushi Kono, Ryusuke Matsuzaki, Akifumi Azuma, Noriyuki Onoue, Yoshihiko Sekozawa, Akihiko Sato, Sumiko Sugaya
To identify the compounds that contribute to the diverse flavours of table grapes, the flavours and volatile compounds of 38 grape cultivars harvested over three years are evaluated through sensory analysis and solvent-assisted flavour evaporation (SAFE). The cultivars are characterised and grouped into seven clusters by hierarchical cluster analysis (HCA) using sensory evaluation data with a flavour
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MdARF3 switches the lateral root elongation to regulate dwarfing in apple plants Hortic. Res. (IF 8.7) Pub Date : 2024-02-23 Jiahong Lv, Yi Feng, Longmei Zhai, Lizhong Jiang, Yue Wu, Yimei Huang, Runqi Yu, Ting Wu, Xinzhong Zhang, Yi Wang, Zhenhai Han
Apple rootstock dwarfing and dense planting are common practices in apple farming. However, the dwarfing mechanisms are not understood. In this study, the expression of MdARF3 in the root system of dwarfing rootstock 'M9' was lower than in the vigorous rootstock from Malus micromalus due to the deletion of the WUSATAg element in the promoter of the 'M9' genotype. Notably, this deletion variation was
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Defensive alteration of root exudate composition by grafting Prunus sp. onto resistant rootstock contributes to reducing crown gall disease Hortic. Res. (IF 8.7) Pub Date : 2024-02-23 Lin Chen, Lusen Bian, Qinghua Ma, Ying Li, Xinghong Wang, Yunpeng Liu
Grafting is a traditional and significant strategy to suppress soilborne diseases, such as the crown gall disease caused by tumorigenic Agrobacterium and Rhizobium. Root exudates and the rhizosphere microbiome play critical roles in controlling crown gall disease, but their role in suppressing crown gall disease by grafted plants remains unclear. Here, disease-susceptible cherry rootstock “Gisela 6”