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Alternative splicing of the PECTINESTERASE gene encoding a cell wall-degrading enzyme affects postharvest softening in grape

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Journal of Integrative Agriculture 2024年第3期23卷 863-875页

作者： Hainan Liu Maosong Pei Charles Ampomah-Dwamena Yaxin Shang Yihe Yu Tonglu Wei Qiaofang Shi Dalong Guo College of Horticulture and Plant Protection Henan University of Science and TechnologyLuoyang 471000China Henan Engineering Technology Research Center of Quality Regulation and Control of Horticultural Plants Luoyang 471000China The New Zealand Institute for Plant&Food Research Limited(PFR) Auckland 1010New Zealand

The firmness of table grape berries is a crucial quality parameter. Despite extensive research on postharvest fruit softening, its precise molecular mechanisms remain elusive. To enhance our comprehension of the underlying molecular factors, we initially identified differentially expressed genes(DEGs) by comparing the transcriptomes of folic acid(FA)-treated and water-treated(CK) berries at different time points. We then analyzed the sequences to detect alternatively spliced(AS) genes associated with postharvest softening. A total of 2,559 DEGs were identified and categorized into four subclusters based on their expression patterns, with subcluster-4 genes exhibiting higher expression in the CK group compared with the FA treatment group. There were 1,045 AS-associated genes specific to FA-treated berries and 1,042 in the CK-treated berries, respectively. Gene Ontology(GO) annotation indicated that the AS-associated genes in CK-treated berries were predominantly enriched in cell wall metabolic processes,particularly cell wall degradation processes. Through a comparison between treatment-associated AS genes and subcluster-4 DEGs, we identified eight genes, including Pectinesterase 2(VvPE2, Vitvi15g00704), which encodes a cell wall-degrading enzyme and was predicted to undergo an A3SS event. The reverse transcription polymerase chain reaction further confirmed the presence of a truncated transcript variant of VvPE2 in the FA-treated *** study provides a comprehensive analysis of AS events in postharvest grape berries using transcriptome sequencing and underscores the pivotal role of VvPE2 during the postharvest storage of grape berries.

关键词： grape postharvest softening folic acid alternative splicing Pectinesterase 2 alternative 3'splice site(A3SS)

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Identification,characterization,and verification of miR399 target gene in grape

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Horticultural Plant Journal 2024年第1期10卷 91-102页

作者： Maosong Pei Hainan Liu Tonglu Wei Huiying Jin Yihe Yu Mengting Ma Xiaomeng Song Rundong Dai Dalong Guo Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants College of Horticulture and Plant ProtectionHenan University of Science and TechnologyLuoyangHenan 471023China

The microRNA miR399 plays an important role in phosphorus signal transduction pathways in ***,miR399 was shown to be closely associated with berry ripening in grape(Vitis vinifera).The objective of the present study was to elucidate the evolutionary characteristics of the miR399 gene family in grape and to verify the cleavage effect on the target *** miR399s were identified by miRNA sequencing and retrieval from the miRBase *** mature sequences and precursor sequences were subjected to phylogenetic analysis to reconstruct evolutionary trees,as well as secondary structure analysis of the precursor sequence,and prediction of target *** cisacting elements in the miR399 promoter were predicted and the cleavage effect of grape miR399b on its target genes was *** grape miR399 family comprised nine precursor sequences and nine mature *** precursor sequences formed a typical and stable stem—loop *** minimum folding free energy ranged from-55.70 kcal·mol^(-1)to-37.40 kcal·mol^(-1).Multiple sequence alignment revealed that the miR399 family was highly *** grape miR399 family was phylogenetically closely related to peach,apple,and citrus *** miR399s were predicted to target inorganic phosphate transporter 1—3,phospholipase D delta-like,and *** cleavage effect of grape miR399b on the target genes was verified by means of a dual-luciferase assay and 5’*** GUS staining showed that the promoter activity of miR399b was promoted by GA3treatment.

关键词： grape miR399 Phosphorus metabolism Early ripening

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Genome-Wide Exploration of the grape GLR Gene Family and Differential Responses of VvGLR3.1 and VvGLR3.2 to Low Temperature and Salt Stress

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Phyton-International Journal of Experimental Botany 2024年第3期93卷 533-549页

作者： Honghui Sun Ruichao Liu Yueting Qi Hongsheng Gao Xueting Wang Ning Jiang Xiaotong Guo Hongxia Zhang Chunyan Yu The Engineering Research Institute of Agriculture and Forestry Ludong UniversityYantai264025China College of Agriculture Ludong UniversityYantai264025China

grapes,one of the oldest tree species globally,are rich in ***,environmental conditions such as low temperature and soil salinization signiﬁcantly affect grape yield and *** glutamate receptor(GLR)family,comprising highly conserved ligand-gated ion channels,regulates plant growth and development in response to *** this study,11 members of the VvGLR gene family in grapes were identiﬁed using whole-genome sequence *** methods were employed to analyze the basic physical and chemical properties,phylogenetic trees,conserved domains,motifs,expression patterns,and evolutionary *** and collinear analyses revealed that the VvGLRs were divided into three subgroups,showing the high conservation of the grape GLR *** members exhibited 2 glutamate receptor binding regions(GABAb and GluR)and 3-4 transmembrane regions(M1,M2,M3,and M4).Real-time quantitative PCR analysis demonstrated the sensitivity of all VvGLRs to low temperature and salt *** localization studies in Nicotiana tabacum veriﬁed that VvGLR3.1 and VvGLR3.2 proteins were located on the cell membrane and cell ***,yeast transformation experiments conﬁrmed the functionality of VvGLR3.1 and VvGLR3.2 in response to low temperature and salt ***ﬁndings highlight the signiﬁcant role of the GLR family,a highly conserved group of ion channels,in enhancing grape stress *** study offers new insights into the grape GLR gene family,providing fundamental knowledge for further functional analysis and breeding of stress-resistant grapevines.

关键词： Genome-wide identiﬁcation glutamate receptor(GLR)family low temperature stress salt stress grape

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Simultaneous detection of 22 mycotoxins in grape by QuEChERS and ultra-high-performance liquid chromatography coupled with quadrupole/orbitrap high-resolution mass spectrometry

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Journal of Future Foods 2024年第4期4卷 369-375页

作者： Meirong Cao Jing Wang Mengtian Wang Xiaoxuan Yuan Xu Zhang Junzhan Ma Yan Zhang Qiang Li Hebei Food Safety Key Laboratory Key Laboratory of Special Food Supervision Technology for State Market RegulationHebei Engineering Research Center for Special Food Safety and HealthHebei Food Inspection and Research InstituteShijiazhuang 050227China Hebei Key Laboratory of Forensic Medicine College of Forensic MedicineHebei Medical UniversityShijiazhuang 050017China

To effectively assess the extent of the mycotoxin contamination of grapes,a method was developed to analyze 22 mycotoxins by ultra-high-performance liquid chromatography coupled with quadrupole/orbitrap high-resolution mass spectrometry(UPLC-Q-Orbitrap HRMS).Samples were extracted and purified using the QuEChERS(quick,easy,cheap,effective,rugged,and safe)*** extracts were separated on a BEH Shield C18 column(100 mm×2.1 mm,1.7μm),using methanol and water with 0.1%formic acid solution and 2 mmol/L ammonium acetate as the mobile *** quantification was performed according to a matrix-matched external standard *** was a good linear relationship within the respective mass concentration ranges of 22 mycotoxins;the correlation coefficients were not less than *** limit of quantification was 0.3-10.0μg/*** recovery ranged from 68.6%to 109.0%,with a relative standard deviation of 1.28%-12.80%.The method is simple,rapid,highly sensitive,and accurate,making it useful for screening grapes for common and emerging mycotoxins.

关键词： Mycotoxins Ultra-high-performance liquid chromatography-quadrupole/orbitrap high-resolution mass spectrometry grape

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The Use of Secondary grape Biomass in Beef Cattle Nutrition on Carcass Characteristics, Quality and Shelf Life of Meat

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Food and Nutrition Sciences 2024年第6期15卷 447-469页

作者： Vitor L. Molosse Guilherme L. Deolindo Rafael V. P. Lago Bruna Klein Claiton A. Zotti Marcelo Vedovato Marcylene V. da Silveira Priscila M. Copetti Maria R. C. Schetinger Juscivete F. Favero Eliana L. Fiorentin Aleksandro S. da Silva Universidade do Estado de Santa Catarina (UDESC) Chapec Brazil Department of Animal Science UDESC Chapec Brazil Department of Animal Science Universidade do Oeste de Santa Catarina Xanxere Brazil Dean Lee Research and Extension Center Louisiana State University Alexandria LA USA Department of Biochemistry Universidade Federal de Santa Maria Santa Maria Brazil Department of Medicina Veterinria UNOCHAPEC Chapec Brasil

We determined whether the inclusion of 100 g/kg dry matter of grape pomace silage (GPS) and grape pomace bran (GPB) as substitutes for other traditional fiber sources in the diet of steers (Charolais x Nellore) would improve carcass characteristics, meat quality and composition, and shelf life. Twenty-four animals (248 ± 19.32 kg of initial body weight) were fed a high concentrate diet for 121 days. Carcass characteristics were measured, and the longissimus dorsi muscle was analyzed for fatty acid (FA) profile and composition. The meat was sliced and stored in air-permeable packages for 10 days. On each sampling day (d 1, 3, 7, and 10), oxidative stability, bacterial load, lipid and protein oxidation, and staining were analyzed. The experimental diets influenced the pH of cold carcasses only. The GPS group had a higher pH than the control. The GPS and GPB groups showed improved oxidant status (i.e., lower lipid peroxidation and concentrations of reactive oxygen species were in the meat of both groups than in control). On the first day of storage, the antioxidant enzyme glutathione S-transferase activity was more significant in the meat of the GPS and GPB groups than in the control. The bacterial loads in the meat were attenuated by GPS inclusion;there were lower total coliform counts and a trend toward lower counts for enterobacteria in the control group. The diets altered the FA profile of the meat;i.e., the GPB diet allowed for a more significant amount of the n-6 omegas in the meat, while the GPS diet showed a tendency for a more significant amount of n-6 and 9 omegas. Both diets (GPS and GPB) increased the amounts of long-chain FAs. The GPS diet decreased saturated FA levels. We conclude that the dietary treatments GPS and GPB are a promising alternative to maintain meat quality standards throughout in real-world retail conditions. These treatments gave rise to an improvement in the nutritional value of the meat due to the more significant amounts of FAs that im

关键词： Animal Nutrition Antioxidant Biomass grape Meat Quality Microbiology Residue

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Semi-supervised Counting of grape Berries in the Field Based on Density Mutual Exclusion

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Plant Phenomics 2023年第4期5卷 825-835页

作者： Yanan Li Yuling Tang Yifei Liu Dingrun Zheng School of Computer Science and Engineering School of Artificial IntelligenceWuhan Institute of TechnologyWuhan 430205China Hubei Key Laboratory of Intelligent Robot Wuhan Institute of TechnologyWuhan 430073China

Automated counting of grape berries has become one of the most important tasks in grape yield ***,dense distribution of berries and the severe occlusion between berries bring great challenges to counting algorithm based on deep *** collection of data required for model training is also a tedious and expensive *** address these issues and cost-effectively count grape berries,a semi-supervised counting of grape berries in the field based on density mutual exclusion(CDMENet)is *** algorithm uses VGG16 as the backbone to extract image *** tasks based on density mutual exclusion are *** tasks exploit the spatial distribution pattern of grape berries in density levels to make full use of unlabeled *** addition,a density difference loss is *** feature representation is enhanced by amplifying the difference of features between different density *** experimental results on the field grape berry dataset show that CDMENet achieves less counting *** with the state of the arts,coefficient of determination(R^(2))is improved by 6.10%,and mean absolute error and root mean square error are reduced by 49.36%and 54.08%,*** code is available at.

关键词： grape mutual backbone

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Identification of key gene networks controlling monoterpene biosynthesis during grape ripening by integrating transcriptome and metabolite profiling

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Horticultural Plant Journal 2023年第5期9卷 931-946页

作者： Xiangpeng Leng Jiameng Cong Lixia Cheng Haoliang Wan Yuanxia Liu Yongbing Yuan Jinggui Fang Institute of grape Science and Engineering College of HorticultureQingdao Agricultural UniversityQingdaoShandong 266109China Engineering Laboratory of Genetic Improvement of Horticultural Crops of Shandong Province College of HorticultureQingdao Agricultural UniversityQingdaoShandong 266109China Laboratory of Quality&Safety Risk Assessment for Fruit(Qingdao) Ministry of Agriculture and Rural AffairsNational Technology Centre for Whole Process Quality Control of FSEN Horticultural Products(Qingdao)Qingdao Agricultural UniversityQingdaoShandong 266109China

Monoterpenes are typical aroma components of muscat grape cultivars,providing pleasant floral and fruity aromas to grapes and ***,the molecular mechanism of monoterpene biosynthesis between muscat and non-muscat grape remains ***,the muscat grape cultivar‘Jumeigui’and the non-muscat grape cultivar‘Kyoho’were chosen as plant materials for a comprehensive transcriptome and metabolite *** gas chromatography-mass spectrometry(GC-MS)analysis demonstrated that a total of 27 and 23 monoterpene compounds were identified and quantified in the‘Jumeigui’and‘Kyoho’grape,respectively.‘Jumeigui’grape accumulated significantly higher concentrations of monoterpenes than‘Kyoho’***,geraniol,linalool,geranic acid,and β-citronellol might be important odorants contributing to the floral character of the‘Jumeigui’grape due to the high levels odor activity values(OAVs).Transcriptome analysis demonstrated that the expression profiles of VvDXS,***1,Vv TPS-b/g showed a positive correlation with monoterpene accumulation in *** addition,the expression patterns of the genes involved in jasmonic acid(JA)synthesis and signal were also positively correlated with monoterpene *** these results will help guide the functional verification of candidate genes related to monoterpene biosynthesis,as well as identify the master transcriptional and hormonal regulators of this pathway in grapes.

关键词： grape Muscat Monoterpene Transcriptome Monoterpene biosynthesis

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QTL mapping for berry shape based on a high-density genetic map constructed by whole-genome resequencing in grape

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Horticultural Plant Journal 2023年第4期9卷 729-742页

作者： Yandi Wu Yong Wang Xiucai Fan Ying Zhang Jianfu Jiang Lei Sun Qiangwei Luo Feng Sun Chonghuai Liu Zhengzhou Fruit Research Institute Chinese Academy of Agricultural SciencesZhengzhouHenan 450009China Research Institute of grape and Melon of Xinjiang Uyghur Autonomous Region TurpanXinjiang Uygur Autonomous Region 838200China

grape berry shape is an important agricultural *** its genetic basis is significant for cultivating grape varieties that meet market ***,the current study by forward genetics has not achieved in-depth ***,a high-density map was constructed to identify quantitative trait loci(QTLs)for berry shape.A total of 358709 polymorphic SNPs were obtained using whole-genome resequencing(WGS)based on 208 F2 individuals derived from round grape‘E42-6’and oblong grape‘Rizamat’.The 1635.65 cM high-density map was divided into 19 linkage groups with an average distance of 0.37 *** this map,three significant QTLs for fruit shape index(ShI:ratio of berry length to berry width)identified over three years were mapped onto LG4 and LG5,including one stable QTL on Chr5 with the genomic region of 0.47–1.94 *** with gene annotation and expression patterns based on RNA-seq data from two contrasting F2 individuals with round and oblong berry(their average ShI was 1.89 and 1.10,respectively)at four developmental stages,four candidate genes were selected from the above *** were mainly involved in DNA replication,cell wall modification,and phytohormone *** analysis of RNA-seq data revealed that several important phytohormone synthesis and metabolic pathways were enriched based on differentially expressed genes(DEGs),which was consistent with the results of QTL mapping for genes related to plant hormone biosynthesis in the F2 ***,a comparison of plant hormone content showed that there were significant differences in IAA and tZ content between the two contrasting F2 individuals at different developmental *** findings provide molecular insights into the genetic variation in grape berry *** QTLs and their tightly linked markers offer the possibility of marker-assisted selection to accelerate berry shape breeding.

关键词： grape Berry shape Whole-genome resequencing High-density genetic map QTL

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Sodium dehydroacetate treatment prolongs the shelf-life of'Kyoho'grape by regulating oxidative stress and DNA methylation

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Journal of Integrative Agriculture 2022年第5期21卷 1525-1533页

作者： GUO Da-long LIU Hai-nan WANG Zhen-guang GUO Li-li ZHANG Guo-hai College of Horticulture and Plant Protection Henan University of Science and TechnologyLuoyang 471023P.R.China Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants Luoyang 471023P.R.China

In this study,we tested the ability of sodium dehydroacetate(SD)to extend the shelf-life of‘Kyoho’*** the different concentrations of SD tested(0,0.01,0.1 and 1.0 mmol L^(-1)),0.01 mmol L^(-1) SD was the most effective in prolonging the shelf-life of‘Kyoho’*** with the control,the weight loss rate,browning index and hydrogen peroxide(H_(2)O_(2))and malonaldehyde contents were significantly lower in the 0.01 mmol L^(-1) SD treatment,whereas the healthy berry rate,berry firmness,total soluble solids(TSS)content,ascorbic acid content and superoxide dismutase(SOD)activity were significantly *** addition,an analysis of‘Kyoho’grape DNA using methylation sensitive amplification polymorphism(MSAP)markers showed that the average DNA methylation level was significantly higher in the 0.01 mmol L^(-1) SD treatment than in the ***,these results indicate that 0.01 mmol L^(-1) SD could be used to extend the shelf-life of‘Kyoho’***,a strong connection between reactive oxygen species(ROS)metabolism and DNA methylation change during storage was revealed.

关键词： grape sodium dehydroacetate DNA methylation MSAP shelf-life

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Establishment and application of an SNP molecular identification system for grape cultivars

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Journal of Integrative Agriculture 2022年第4期21卷 1044-1057页

作者： WANG Fu-qiang FAN Xiu-cai ZHANG Ying SUN Lei LIU Chong-huai JIANG Jian-fu Zhengzhou Fruit Research Institute Chinese Academy of Agricultural SciencesZhengzhou 450009P.R.China

We aimed to develop a set of single nucleotide polymorphism(SNP) markers that can be used to distinguish the main cultivated grape(Vitis L.) cultivars in China and provide technical support for domestic grape cultivar protection, cultivar registration, and market rights protection. A total of 517 high-quality loci were screened from 4 241 729 SNPs obtained by sequencing 304 grape accessions using specific locus amplified fragment sequencing, of which 442 were successfully designed as Kompetitive Allele Specific PCR(KASP) markers. A set of 27 markers that completely distinguishes 304 sequenced grape accessions was determined by using the program, and 26 effective markers were screened based on 23 representative grape cultivars. Finally, a total of 46 out of 48 KASP markers, including 22 markers selected by the research group in the early stage, were re-screened based on 348 grape accessions. Population structure, principal component, and cluster analyses all showed that the 348 grape accessions were best divided into two populations. In addition, cluster analysis subdivided them into six subpopulations. According to genetic distance, V. labrusca, V. davidii, V. heyneana, and V. amurensis were far from V. vinifera, while V. vinifera×V. labrusca and V. amurensis×V. vinifera were somewhere in between these two groups. Furthermore, a core set of 25 KASP markers could distinguish 95.69% of the 348 grape accessions, and the other 21 markers were used as extended markers. Therefore, SNP molecular markers based on KASP typing technology provide a new way for mapping DNA fingerprints in grape cultivars. With high efficiency and accuracy and low cost, this technology is more competitive than other current identification methods. It also has excellent application prospects in the grape distinctness, uniformity, and stability(DUS) test, as well as in promoting market rights protection in the near future.

关键词： grape KASP marker variety identification fingerprint genetic diversity analysis

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