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12. VvBBX44 and VvMYBA1 form a regulatory feedback loop to balance anthocyanin biosynthesis in grape

Author

Liu, Wenwen, primary, Mu, Huayuan, additional, Yuan, Ling, additional, Li, Yang, additional, Li, Yuting, additional, Li, Shenchang, additional, Ren, Chong, additional, Duan, Wei, additional, Fan, Peige, additional, Dai, Zhanwu, additional, Zhou, Yongfeng, additional, Liang, Zhenchang, additional, Li, Shaohua, additional, and Wang, Lijun, additional

Published
2023
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16. Author Correction: Whole-genome resequencing of 472 Vitis accessions for grapevine diversity and demographic history analyses

Author

Liang, Zhenchang, Duan, Shengchang, Sheng, Jun, Zhu, Shusheng, Ni, Xuemei, Shao, Jianhui, Liu, Chonghuai, Nick, Peter, Du, Fei, Fan, Peige, Mao, Ruzhi, Zhu, Yifan, Deng, Weiping, Yang, Min, Huang, Huichuan, Liu, Yixiang, Ding, Yiqing, Liu, Xianju, Jiang, Jianfu, Zhu, Youyong, Li, Shaohua, He, Xiahong, Chen, Wei, and Dong, Yang

Published
2020
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18. The Genome of Vitis zhejiang-adstricta Strengthens the Protection and Utilization of the Endangered Ancient Grape Endemic to China.

Author

Li, Huayang, Liu, Yongbo, Fan, Peige, Dai, Zhanwu, Hao, Jiachen, Duan, Wei, Liang, Zhenchang, and Wang, Yi

Subjects
VITIS vinifera, GENOMES, GENE families, NATURAL immunity, METABOLISM, ENDANGERED plants
Abstract

Vitis zhejiang-adstricta (V. zhejiang-adstricta) is one of the most important and endangered wild grapes. It is a national key protected wild, rare and endangered ancient grape endemic to China and used as a candidate material for resistance breeding owing to its excellent significant disease resistance. Here, we present a high-quality chromosome-level assembly of V. zhejiang-adstricta (IB-VB-01), comprising 506.66 Mb assembled into 19 pseudo-chromosomes. The contig N50 length is 3.91 Mb with 31,196 annotated protein-coding genes. Comparative genome and evolutionary analyses illustrated that V. zhejiang-adstricta has a specific position in the evolution of East Asian Vitis and shared a common ancestor with Vitis vinifera during the divergence of the two species about 10.42 (between 9.34 and 11.12) Mya. The expanded gene families compared with those in plants were related to disease resistance, and constructed gene families were related to plant growth and primary metabolism. With the analysis of gene family expansion and contraction, the evolution of environmental adaptability and especially the NBS-LRR gene family of V. zhejiang-adstricta was elucidated based on the pathways of resistance genes (R genes), unique genes and structural variations. The near-complete and accurate diploid V. zhejiang-adstricta reference genome obtained herein serves as an important complement to wild grape genomes and will provide valuable genomic resources for investigating the genomic architecture of V. zhejiang-adstricta as well as for improving disease resistance breeding strategies in grape. [ABSTRACT FROM AUTHOR]

Published
2024
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21. Genome-wide profiling of histone H3 lysine 27 trimethylation and its modification in response to chilling stress in grapevine leaves

Author

Zhu, Zhenfei, primary, Li, Qingyun, additional, Gichuki, Duncan Kiragu, additional, Hou, Yujun, additional, Liu, Yuanshuang, additional, Zhou, Huimin, additional, Xu, Chen, additional, Fang, Linchuan, additional, Gong, Linzhong, additional, Zheng, Beibei, additional, Duan, Wei, additional, Fan, Peige, additional, Wang, Qingfeng, additional, and Xin, Haiping, additional

Published
2023
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27. Viticultural Suitability Analysis Based on Multi-Source Data Highlights Climate-Change-Induced Decrease in Potential Suitable Areas: A Case Analysis in Ningxia, China

Author

Bai, Huiqing, primary, Sun, Zhongxiang, additional, Yao, Xuenan, additional, Kong, Junhua, additional, Wang, Yongjian, additional, Zhang, Xiaoyu, additional, Chen, Weiping, additional, Fan, Peige, additional, Li, Shaohua, additional, Liang, Zhenchang, additional, and Dai, Zhanwu, additional

Published
2022
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28. A chromosome‐level genome of Syringa oblata provides new insights into chromosome formation in Oleaceae and evolutionary history of lilacs

Author

Wang, Yi, primary, Lu, Limin, additional, Li, Jingrui, additional, Li, Huayang, additional, You, Yichen, additional, Zang, Shuying, additional, Zhang, Yongqing, additional, Ye, Jianfei, additional, Lv, Zemin, additional, Zhang, Zhaoyu, additional, Qin, Yongsheng, additional, Zhang, Hongling, additional, Xia, Fei, additional, Li, Hui, additional, Zhang, Huijin, additional, Fan, Peige, additional, Shi, Lei, additional, Liang, Zhenchang, additional, and Cui, Hongxia, additional

Published
2022
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31. Comparative Metabolomics Analysis of Dormancy Buds During Cold Accumulation between Cold-Sensitive Grapevine (Vitis Vinifera) and Cold-Hardy Grapevine (Vitis Amurensis)

Author

Xin, Haiping, primary, Li, Qingyun, additional, Zhou, Huimin, additional, Chai, Fengmei, additional, Wang, Zemin, additional, Fang, Linchuan, additional, Duan, Wei, additional, Fan, Peige, additional, Liang, Zhenchang, additional, Li, Shaohua, additional, and Wang, Qingfeng, additional

Published
2022
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32. Natural variations of HSFA2 enhance thermotolerance in grapevine.

Author

Liu, Xinna, Chen, Haiyang, Li, Shenchang, Lecourieux, David, Duan, Wei, Fan, Peige, Liang, Zhenchang, and Wang, Lijun

Subjects
GRAPES, GENETIC variation, CROP development, VITIS vinifera, CROP growth, TRANSCRIPTION factors
Abstract

Heat stress limits growth and development of crops including grapevine which is a popular fruit in the world. Genetic variability in crops thermotolerance is not well understood. We identified and characterized heat stress transcription factor HSFA2 in heat sensitive Vitis vinifera 'Jingxiu' (named as VvHSFA2) and heat tolerant Vitis davidii 'Tangwei' (named as VdHSFA2). The transcriptional activation activities of VdHSFA2 are higher than VvHSFA2, the variation of single amino acid (Thr315Ile) in AHA1 motif leads to the difference of transcription activities between VdHSFA2 and VvHSFA2. Based on 41 Vitis germplasms, we found that HSFA2 is differentiated at coding region among heat sensitive V. vinifera, and heat tolerant Vitis davidii and Vitis quinquangularis. Genetic evidence demonstrates VdHSFA2 and VvHSFA2 are positive regulators in grape thermotolerance, and the former can confer higher thermotolerance than the latter. Moreover, VdHSFA2 can regulate more target genes than VvHSFA2. As a target gene of both VdHSFA2 and VvHSFA2, overexpression of MBF1c enhanced the grape thermotolerance whereas dysfunction of MBF1c resulted in thermosensitive phenotype. Together, our results revealed that VdHSFA2 confers higher thermotolerance than VvHSFA2, and MBF1c acts as their target gene to induce thermotolerance. The VdHSFA2 may be adopted for molecular breeding in grape thermotolerance. [ABSTRACT FROM AUTHOR]

Published
2023
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35. Batf3+ CD103+ intestinal dendritic cells are critical players in the innate immune control of Cryptosporidium parvum infection

Author

Kong, Junhua, Wu, Jing, Guan, Le, Hilbert, Ghislaine, Delrot, Serge, Fan, Peige, LIANG, Zhenchang, Wu, Benhong, Matus, José Tomás, Gomès, Eric, Dai, Zhanwu, Hangzhou Normal University, Ecophysiologie et Génomique Fonctionnelle de la Vigne (UMR EGFV), Université de Bordeaux (UB)-Institut des Sciences de la Vigne et du Vin (ISVV)-Ecole Nationale Supérieure des Sciences Agronomiques de Bordeaux-Aquitaine (Bordeaux Sciences Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Chinese Academy of Sciences (CAS), Beijing Key Laboratory of Grape Science and Enology/CAS Key Laboratory of Plant Resource, Institute of Botany [Beijing] (IB-CAS), Chinese Academy of Sciences [Beijing] (CAS)-Chinese Academy of Sciences [Beijing] (CAS), CSIC-IRTA-UAB-UB, Center for Research in Agricultural Genomics, and Chinese Academy of Sciences [Beijing] (CAS)

Subjects
Cryptosporidium parvum, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, hemic and immune systems, chemical and pharmacologic phenomena, [SDV.IMM.II]Life Sciences [q-bio]/Immunology/Innate immunity
Abstract

National audience; Cryptosporidium parvum infection is a “One Health” threat worldwide that leads to acute diarrhea. The development of cryptosporidiosis is closely related to the immune status of its host, affecting primarily young ruminants, infants and immunocompromised individuals. In recent years, several studies have improved our knowledge on the immune mechanisms responsible for the control of the acute phase of the infection. The functional role of mononuclear phagocytes during cryptosporidiosis has long remained unexplored. We identified CD103+ DCs as a key actor for controlling the acute phase of C. parvum infection in neonatal mice1 while Ly6c+ inflammatory monocytes-macrophages participate to the loss of intestinal integrity2. Recently, CD103- DCs have been described in the intestinal mucosae. To further decipher the role of CD103+ versus CD103- DC subsets, we used mice deficient for the transcription factor Batf3 presenting a large reduction in the number of CD103+ CD11b- DCs in their intestine. This deficiency resulted in an increased susceptibility to C. parvum infection. Batf3-/- neonatal mice express lower level of IFNγ and IDO-1 in the early time of infection3. Repeated administrations of rmIL12 to Batf3-/- neonates previous to C. parvum challenge increased the proportion of CD103+ DCs and resulted in a reduced susceptibility to infection. Analysis of DCs isolated from the intestine of infected WT and Batf3-/- neonatal mice revealed that CD103+ express higher levels of IL12p40 and IL12p35. Altogether, this suggests that CD103+ CD11b- are key cells in the process of protection by favoring IFNγ production in the early time of the infection thank to their ability to produce large amount of functional IL12.

Published
2021
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36. GRAS-domain transcription factor PAT1 regulates jasmonic acid biosynthesis in grape cold stress response

Author

Wang, Zemin, Wong, Darren, Wang, Yi, Guangzhao, Xu, Ren, Chong, Liu, Yanfei, Kuang, Yangfu, Fan, Peige, Li, Shaohua, Xin, Haiping, Liang, Zhenchang, Wang, Zemin, Wong, Darren, Wang, Yi, Guangzhao, Xu, Ren, Chong, Liu, Yanfei, Kuang, Yangfu, Fan, Peige, Li, Shaohua, Xin, Haiping, and Liang, Zhenchang

Abstract

Cultivated grapevine (Vitis) is a highly valued horticultural crop, and cold stress affects its growth and productivity. Wild Amur grape (Vitis amurensis) PAT1 (Phytochrome A signal transduction 1, VaPAT1) is induced by low temperature, and ectopic expression of VaPAT1 enhances cold tolerance in Arabidopsis (Arabidopsis thaliana). However, little is known about the molecular mechanism of VaPAT1 during the cold stress response in grapevine. Here, we confirmed the overexpression of VaPAT1 in transformed grape calli enhanced cold tolerance. Yeast two-hybrid and bimolecular fluorescence complementation assays highlighted an interaction between VaPAT1 with INDETERMINATE-DOMAIN 3 (VaIDD3). A role of VaIDD3 in cold tolerance was also indicated. Transcriptome analysis revealed VaPAT1 and VaIDD3 overexpression and cold treatment coordinately modulate the expression of stress-related genes including lipoxygenase 3 (LOX3), a gene encoding a key jasmonate biosynthesis enzyme. Co-expression network analysis indicated LOX3 might be a downstream target of VaPAT1. Both electrophoretic mobility shift and dual luciferase reporter assays showed the VaPAT1-IDD3 complex binds to the IDD-box (AGACAAA) in the VaLOX3 promoter to activate its expression. Overexpression of both VaPAT1 and VaIDD3 increased the transcription of VaLOX3 and JA levels in transgenic grape calli. Conversely, VaPAT1-SRDX (dominant repression) and CRISPR/Cas9-mediated mutagenesis of PAT1-ED causing the loss of the C-terminus in grape calli dramatically prohibited the accumulation of VaLOX3 and JA levels during cold treatment. Together, these findings point to a pivotal role of VaPAT1 in the cold stress response in grape by regulating JA biosynthesis.

Published
2021

37. Metabolite analysis reveals distinct spatio-temporal accumulation of anthocyanins in two teinturier variants of cv. ‘Gamay’ grapevines (Vitis vinifera L.)

Author

National Key Research and Development Program (China), Kong, Junhua, Wu, Jing, Guan, Le, Hilbert, Ghislaine, Delrot, Serge, Fan, Peige, Liang, Zhenchang, Wu, Benhong, Matus, José Tomás, Gomès, Eric, Dai, Zhanwu, National Key Research and Development Program (China), Kong, Junhua, Wu, Jing, Guan, Le, Hilbert, Ghislaine, Delrot, Serge, Fan, Peige, Liang, Zhenchang, Wu, Benhong, Matus, José Tomás, Gomès, Eric, and Dai, Zhanwu

Abstract

In most red grape cultivars, anthocyanins accumulate exclusively in the berry skin, while ‘teinturier’ cultivars also accumulate anthocyanins in the pulp. Here, we investigated the teinturier cvs. ‘Gamay de Bouze’ and ‘Gamay Fréaux’ (two somatic variants of the white-fleshed cv. ‘Gamay’) through metabolic and transcript analysis to clarify whether these two somatic variants have the same anthocyanin accumulation pattern in the skin and pulp, and whether primary metabolites are also affected. The skin of the three cultivars and the pulp of ‘Gamay de Bouze’ begun to accumulate anthocyanins at the onset of berry ripening. However, the pulp of ‘Gamay Fréaux’ exhibited a distinct anthocyanin accumulation pattern, starting as early as fruit set with very low level of sugars. The highest level of anthocyanins was found in ‘Gamay Fréaux’ skin, followed by ‘Gamay de Bouze’ and ‘Gamay’. Consistently, the transcript abundance of genes involved in anthocyanin biosynthesis were in line with the anthocyanin levels in the three cultivars. Despite no evident differences in pulp sugar content, the concentration of glucose and fructose in the skin of ‘Gamay Fréaux’ was only half of those in the skin of ‘Gamay’ and ‘Gamay de Bouze’ throughout all berry ripening, suggesting an uncoupled accumulation of sugars and anthocyanins in ‘Gamay Fréaux’. The study provides a comprehensive view of metabolic consequences in grape somatic variants and the three almost isogenic genotypes can serve as ideal reagents to further uncover the mechanisms underlying the linkage between sugar and anthocyanin accumulation.

Published
2021

49. Basic leucine zipper gene VvbZIP61is expressed at a quantitative trait locus for high monoterpene content in grape berries

Author

Zhang, Yuyu, Liu, Cuixia, Liu, Xianju, Wang, Zemin, Wang, Yi, Zhong, Gan-yuan, Li, Shaohua, Dai, Zhanwu, Liang, Zhenchang, and Fan, Peige

Abstract

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 F1mapping 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 Vitis viniferaline ‘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 F1progeny, 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 VvbZIP61gene on chromosome 12, are therefore considered as potentially being involved in monoterpene metabolism. Overexpression of VvbZIP61in Vitis amurensiscallus 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 VvbZIP61expression 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.

Published
2023
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