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Genome-wide identification and co-expression analysis of GDSL genes related to suberin formation during fruit russeting in pear

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Horticultural Plant Journal 2022年第2期8卷 153-170页

作者： Pujuan Zhang Hong Zhang Jianke Du yushan qiao Laboratory of Fruit Crop Biotechnology College of HorticultureNanjing Agricultural UniversityNanjing 210095China

Glycine-aspartic acid–serine-leucine(GDSL)type lipases/esterases genes play critical roles in plant development and are related to the responses to abiotic and biotic ***,little is known about the GDSL family in pear(Pyrus spp.).Studies have shown GDSL-domain proteins play key roles in suberin *** deposition in the fruit epidermis,also called russeting,is an important defect that negatively affects consumer's appeal in some fruit species,such as pear,apple and *** russeting is mainly associated with cuticle microcracking and suberin accumulation in the inner part of the epidermal cell *** gain insight into the role of the GDSL gene family in suberin deposition and russet development in pear,we performed a genome-wide characterization of the GDSL family,including their identification,chromosomal localization,phylogenetic relationships,and expression patterns,in different tissues/organs in *** hundred and thirteen GDSL-type lipases/esterases genes were identified in the pear genome,and a phylogenetic analysis revealed that GDSL family can be classified into four distinct *** GDSL genes were co-expressed with five homolog pear genes of three well-known suberin biosynthesis Arabidopsis genes(AtGPAT5,AtASFT,and AtCYP86B1)in the transcriptional co-expression network during pear fruit *** the 30 co-expressed GDSL genes,twelve genes were further analyzed by quantitative Real-time PCR,and the results showed the expression levels of the 12 genes were different between the russet exocarp and green exocarp of sand pear at different fruit development *** study provides a detailed overview of the GDSL gene family and lays the foundation for future functional characterization of GDSL genes in ***.

关键词： Pear Gene identification GDSL-type lipases/esterases Pyrus bretschneideri Russeting

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Molecular characteristics of S-RNase alleles as the determ inant of self-i ncompatibility in the style of Fragaria viridi

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Horticulture Research 2021年第1期8卷 2456-2473页

作者： Jianke Du Chunfeng Ge Tingting Li Sanhong Wang Zhihong Gao Hidenori Sassa yushan qiao Laboratory of Fruit Crop Biotechnology College of HorticultureNanjing Agricultural UniversityNanjing 210095 JiangsuChina Laboratory of Genetics and Plant Breeding Graduate School of HorticultureChiba UniversityMatsudo 271-8510 ChibaJapan Present address:Institute of Botany Jiangsu Province and Chinese Academy of SciencesNanjing 210014 JiangsuChina

Strawberry(Fragaria spp.)is a member of the Rosoideae subfamily in the family *** self-incompatibility(SI)of some diploid species is a key agronomic trait that acts as a basic pollination barrier;however,the genetic mechanism underlying SI control in strawberry remains *** candidate S-RNases(S a-and S^-RNase)identi fi ed in the transcriptome of the styles of the self-incompatible Fragaria viridis 42 were con fi rmed to be SI determinants at the S locus following genotype identi fi cation and intraspeci fi c hybridization using sel fi ng ***-genome collinearity and RNase T2 family analysis revealed that only an S locus exists in Fragaria;however,none of the compatible species contained *** the results of interspeci fi c hybridization experiments showed that ***(SI)styles could accept pollen from ***(self-compatible),the reciprocal cross was incompatible.S a and S b-RNase contain large introns,and their noncoding sequences(promotors and introns)can be transcribed into long noncoding RNAs(lncRNAs).Overall,the genus Fragaria exhibits S-RNase-based gametophytic SI,and S-RNase loss occurs at the S locus of compatible *** addition,a type of SI-independent unilateral incompatibility exists between compatible and incompatible Fragaria ***,the large introns and neighboring lncRNAs in S-RNase in Fragaria could offer clues about S-RNase expression strategies.

关键词： Fragaria spp alleles

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Interval mapping for red/green skin color in Asian pears using a modified QTL-seq method

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Horticulture Research 2017年第1期4卷 112-121页

作者： Huabai Xue Ting Shi Fangfang Wang Huangkai Zhou Jian Yang Long Wang Suke Wang Yanli Su Zhen Zhang yushan qiao Xiugen Li College of Horticulture Nanjing Agricultural UniversityNanjing210095China Zhengzhou Fruit Research Institute Chinese Academy of Agricultural Sciences(CAAS)Key Laboratory of Fruit Breeding Technology of Ministry of AgricultureZhengzhou450009China Guangzhou Gene Denovo Biotechnology Co.Ltd Guangzhou510006China

Pears with red skin are attractive to consumers and provide additional health *** of the gene(s)responsible for skin coloration can benefit cultivar selection and *** use of QTL-seq,a bulked segregant analysis method,can be problematic when heterozygous parents are *** present study modified the QTL-seq method by introducing a|Δ(SNP-index)|parameter to improve the accuracy of mapping the red skin trait in a group of highly heterozygous Asian *** analyses were based on mixed DNA pools composed of 28 red-skinned and 27 green-skinned pear lines derived from a cross between the‘Mantianhong’and‘Hongxiangsu’red-skinned ***‘Dangshansuli’cultivar genome was used as reference for sequence *** average single-nucleotide polymorphism(SNP)index was calculated using a sliding window approach(200-kb windows,20-kb increments).Nine scaffolds within the candidate QTL interval were in the fifth linkage group from 111.9 to 177.1 *** was a significant linkage between the insertions/deletions and simple sequence repeat markers designed from the candidate intervals and the red/green skin(R/G)locus,which was in a 582.5-kb candidate interval that contained 81 predicted protein-coding gene models and was composed of two subintervals at the bottom of the fifth *** ZFRI 130-16,In2130-12 and In2130-16 markers located near the R/G locus could potentially be used to identify the red skin trait in Asian pear *** study provides new insights into the genetics controlling the red skin phenotype in this fruit.

关键词： mapping linkage modified

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Microecological Prevention and Control Technology of Facility Strawberry Continuous Cropping Diseases and Its Application Effects

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Plant Diseases and Pests 2022年第6期13卷 14-16页

作者： Houjun HE Jiexu HUANG Xiaolin WANG yushan qiao Muxiang JI Jurong Heshan Family Farm Co. Ltd.Jurong 212400China Zhenjiang Institute of Agricultural Sciences in Hilly Areas of Jiangsu Jurong 212400China Nanjing Agricultural University Nanjing 212095China

In order to actively develop green ecological strawberry, the authors have studied integrated microecological prevention and control technologies of strawberry continuous cropping diseases, including increasing soil biomass and solar high temperature disinfection during strawberry greenhouse leisure period in summer, biological fertilizer (agent) treatment before colonization, root irrigation treatment with biocontrol agent, as well as appropriate amount of fulvic acid and cytex after colonization, forming a supporting technical system for the microecological prevention and control of soil-borne diseases in facilities. The demonstration application in production shows that the technology has the functions of restoring and enhancing soil biological fertility, enriching beneficial microbial flora, antagonizing harmful bacteria, significantly promoting the growth and development of strawberry, reducing the incidence of soil-borne diseases, reducing the use of chemical fertilizers and pesticides, promoting the early ripening and high yield of strawberry, significantly improving the quality and flavor of strawberry, reducing the risk of pesticide residues, and boosting consumer confidence, which further improves the economic benefit, social benefit and ecological benefit, with good application prospect in production.

关键词： Strawberry Continuous cropping disease Microecology Prevention and control technology

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Application Effect of Functional Microbial Products in the Cultivation of Green Ecological Strawberry

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Asian Agricultural Research 2023年第2期15卷 46-47,54页

作者： Houjun HE Shuwei YAO Defu LI Muxiang JI yushan qiao Jurong Heshan Family Farm Co. Ltd.Jurong 212400China Nanjing Jinse Zhuangyuan Agricultural Products Co. Ltd.Lishui 211211China Zhenjiang Institute of Agricultural Sciences for Jiangsu Hilly Regions Jurong 212400China Nanjing Agricultural University Nanjing 212095China

In order to promote the transformation and high-quality development of strawberry industry and speed up the application of functional microbial products in strawberry,the application technology of functional microbial products in strawberry planting is studied and *** mainly includes:the periods and methods of continuous cropping strawberry soil reduction and disinfection at high temperature,before and after strawberry planting,before plastic film mulching and whole process of plant *** multi-point test and demonstration,the purpose of advancing the season of strawberries,improving the quality,increasing production and increasing efficiency is achieved,and there is no risk of agricultural residue pollution,which meets the needs of people's consumption ***,the application of functional microbial products in green ecological planting is very necessary,and it is worth further speeding up the demonstration and promotion.

关键词： Functional microbial products Strawberry cultivation Application effect

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Resistance to the Strawberry Neopestalotiopsis Crown Rot of Collections from National Germplasm Repository for Strawberry in JAAS

Resistance to the Strawberry Neopestalotiopsis Crown Rot of ...

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中国植物病理学会2024年学术年会

作者： WU Ejiao YANG Huijuan PANG Fuhua ZHAO Mizhen qiao yushan Institute of Pomology Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement College of Horticulture Nanjing Agricultural University

In recent years strawberry crown rot caused by Neopestalotiopsis *** occurred in many places in China,leading to an increasing economic *** order to understand the resistance level of strawberry germplasm resources,321 cultivated varieties selected from the demonstration bases and National Germplasm Repository for Strawberry in Jiangsu Academy of Agricultural Sciences were determined for resistance to Neopestalotiopsis crown rot by a detached leaf assay through pathogen plugs and conidia suspension *** lesion growth rate was calculated by the AUDPC(Area Under the Disease Progress Curve) and the number of conidia production was collected by the hemocytometer under optical electron microscopy for five *** results showed that strawberry germplasm resources from different geographical sources was different,strawberry cultivars from Japanese such as ' Benihoppe''Kaorino' generally exhibit higher resistance,whereas cultivars from European and American such as' Sweet Charlie' 'Mara des Bois' tend to display lower *** total AUDPC was ranging from0.00 to 5.73 and 0.00 to 5.78,with the average of 1.10 and 1.19 for the pathogen plugs and conidia suspension inoculation,*** average conidia production was 20.87,with the highest number of 172.25 for 'Mara des Bois',and lowest number of 0.08 for 'jiuxiang'.The immunity(I),high resistance(HR),resistance(R),moderate resistance(MR),susceptibility(S),and high susceptibility(HS) was account for 0.01%,27.10%,11.46%,26.79%,6.23% and26.79%,*** results provide a scientific basis for selection of resistance varieties in practical production and breeding disease-resistant strawberry cultivars in the future.

关键词： Neopestalotiopsis crown rot resistance area under the disease progress curve conidia production

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开放科学背景下开放同行评议模式体系及协同运行机理

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出版科学 2024年第1期32卷 82-98页

作者：曾粤亮乔雨杉郑汉华中师范大学信息管理学院武汉430079 武汉大学信息管理学院武汉430072

结合文献调查、网络调查、案例分析,以主导主体作为首要划分标准,归纳开放同行评议模式,并基于协同理论从开放主体、开放形式、开放流程三方面剖析不同模式协同运行机理。现行开放同行评议模式可归纳为传统学术期刊、预印本平台、开放... 详细信息

结合文献调查、网络调查、案例分析,以主导主体作为首要划分标准,归纳开放同行评议模式,并基于协同理论从开放主体、开放形式、开放流程三方面剖析不同模式协同运行机理。现行开放同行评议模式可归纳为传统学术期刊、预印本平台、开放出版平台、开放评议社区四大类,根据各类别实践特点进一步细分为10种子模式。不同模式涉及不同的主体、形式、流程,其协同机理各异,学术共同体应结合各自需求与发展目标选择合适的评议模式并规范协同运行机制。

关键词：开放科学开放同行评议模式体系协同理论协同运行

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A chromosome-level genome assembly of rugged rose (Rosa rugosa) provides insights into its evolution, ecology, and floral characteristics

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Horticulture Research 2021年第1期8卷 1939-1951页

作者： Fei Chen Liyao Su Shuaiya Hu Jia-Yu Xue Hui Liu Guanhua Liu Yifan Jiang Jianke Du yushan qiao Yannan Fan Huan Liu Qi Yang Wenjie Lu Zhu-Qing Shao Jian Zhang Liangsheng Zhang Feng Chen Zong-Ming(Max)Cheng College of Horticulture Nanjing Agricultural UniversityNanjing 210095China Academy for Advanced Interdisciplinary Studies Nanjing Agricultural UniversityNanjing 210095China BGI-Shenzhen Beishan Industrial ZoneYantian DistrictShenzhen 518083China Department of Biology University of CopenhagenCopenhagenDenmark Grandomics Biosciences Co. LtdWuhanChina School of Life Sciences Nanjing UniversityNanjingChina College of life science Nantong UniversityNantongChina Genomics and Genetic Engineering Laboratory of Ornamental Plants College of Agriculture and BiotechnologyZhejiang UniversityHangzhouChina Department of plant sciences University of TennesseeKnoxvilleTNUSA

Rosa rugosa,commonly known as rugged rose,is a perennial ornamental *** produces beautiful flowers with a mild fragrance and colorful seed *** many other cultivated roses,*** adapts to a wide range of habitat types and harsh environmental conditions such as salinity,alkaline,shade,drought,high humidity,and frigid ***,we produced and analyzed a high-quality genome sequence for *** to understand its ecology,floral characteristics and *** HiFi reads were initially used to construct the draft genome of ***,and then Hi-C sequencing was applied to assemble the contigs into 7 *** obtained a 382.6Mb genome encoding 39,704 protein-coding *** genome of *** appears to be conserved with no additional whole-genome duplication after the gamma whole-genome triplication(WGT),which occurred~100 million years ago in the ancestor of core *** on a comparative analysis of the high-quality genome assembly of *** and other high-quality Rosaceae genomes,we found a unique large inverted segment in the Chinese rose *** and a retroposition in strawberry caused by post-WGT *** also found that floral development-and stress response signaling-related gene modules were retained after the *** MADS-box genes involved in floral development and the stress-related transcription factors DREB2A-INTERACTING PROTEIN 2(DRIP2)and PEPTIDE TRANSPORTER 3(PTR3)were found to be positively selected in evolution,which may have contributed to the unique ability of this plant to adapt to harsh *** summary,the high-quality genome sequence of *** provides a map for genetic studies and molecular breeding of this plant and enables comparative genomic studies of Rosa in the near future.

关键词： breeding characteristics evolution

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果树叶绿体基因组测序及系统发育研究进展

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核农学报 2018年第1期32卷 58-69页

作者：程慧葛春峰张红乔玉山南京农业大学园艺学院江苏南京210095

叶绿体是植物细胞中进行光合作用的细胞器,含有相对独立的基因组信息,这些遗传信息在揭示物种起源、进化及不同物种间的亲缘关系等方面具有重要价值。同时,叶绿体转基因技术因其定点整合、高效表达及安全性好的优势成为植物基因工程的... 详细信息

叶绿体是植物细胞中进行光合作用的细胞器,含有相对独立的基因组信息,这些遗传信息在揭示物种起源、进化及不同物种间的亲缘关系等方面具有重要价值。同时,叶绿体转基因技术因其定点整合、高效表达及安全性好的优势成为植物基因工程的研究热点之一。本文归纳了果树叶绿体分离、叶绿体DNA提取以及测序的发展历程,基于叶绿体全基因组测序结果探讨了果树叶绿体基因组的组成、结构特点及其与系统发育的关系,旨在进一步了解果树叶绿体基因组的研究现状、发展趋势和应用前景。

关键词：果树叶绿体基因组提取测序系统发育

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湖北海棠类甜蛋白基因MhPR5的克隆与表达特性分析

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植物资源与环境学报 2013年第2期22卷 1-7页

作者：张计育渠慎春乔玉山章镇郭忠仁江苏省.中国科学院植物研究所(南京中山植物园) 江苏南京210014 南京农业大学园艺学院江苏南京210095

从基因组DNA及经水杨酸处理的全长cDNA文库中分别克隆获得湖北海棠〔Malus hupehensis(Pamp.)Rehd.〕类甜蛋白基因MhPR5的全编码区序列,并对其进行生物信息学分析;利用实时荧光定量RT-PCR技术分析了该基因在湖北海棠各组织中的表达特性... 详细信息

从基因组DNA及经水杨酸处理的全长cDNA文库中分别克隆获得湖北海棠〔Malus hupehensis(Pamp.)Rehd.〕类甜蛋白基因MhPR5的全编码区序列,并对其进行生物信息学分析;利用实时荧光定量RT-PCR技术分析了该基因在湖北海棠各组织中的表达特性以及经非生物胁迫(200 mmol.L-1NaCl和4℃低温)和生物胁迫〔苹果轮纹病病原菌(Physalospora piricola Nose)和苹果蚜虫(Aphis citricola van der Goot)〕后MhPR5基因的表达特性。结果表明:克隆获得的MhPR5基因全编码区的cDNA序列长度为741 bp,编码246个氨基酸残基;该基因的基因组DNA序列长度为1 106 bp,包含1个内含子;该基因编码的蛋白质相对分子质量为25 520,等电点为pI 4.72。MhPR5基因的核苷酸序列与苹果(*** Borkh.)、梨〔Pyrus pyrifolia(Burm.f.)Nakai〕和桃〔Prunus persica(Linn.)Batsch.〕PR5基因核苷酸序列的同源性分别为98%、95%和82%,该基因编码的氨基酸序列与苹果、梨和桃PR5基因编码的氨基酸序列的同源性分别为97%、94%和52%。MhPR5基因编码的蛋白质含有16个保守的半胱氨酸残基和5个保守的带负电荷的氨基酸残基,在N端还含有1个由25个氨基酸残基组成的信号肽。MhPR5基因在湖北海棠组培苗的根、茎和叶中均能表达,在根中的相对表达量最高、叶中最低;生物和非生物胁迫均可诱导MhPR5基因的表达,说明MhPR5基因在湖北海棠抵御生物和非生物胁迫过程中可能具有非常重要的作用。

关键词：湖北海棠 MhPR5基因克隆表达特性生物胁迫非生物胁迫

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