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Telomere-to-telomere genome assembly of melon(Cucumis melo L.var.inodorus)provides a high-quality reference for meta-QTL analysis of important traits

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Horticulture Research 2023年第10期10卷 202-214页

作者： Minghua Wei Ying Huang Changjuan Mo Haiyan Wang Qingguo Zeng Wenli Yang Jihao Chen Xuejun Zhang qiusheng kong National Key Laboratory for Germplasm Innovation&Utilization of Horticultural Crops College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhan 430070China Hami-melon Research Center Xinjiang Academy of Agricultural SciencesUrumqi 830091China Hainan Sanya Experimental Center for Crop Breeding Xinjiang Academy of Agricultural SciencesSanya 572014China

Melon is an important horticultural crop with extensive diversity in many horticultural groups.To explore its genomic diversity,it is necessary to assemble more high-quality complete genomes from different melon accessions.Meanwhile,a large number of QTLs have been mapped in several studies.Integration of the published QTLs onto a complete genome can provide more accurate information for candidate gene cloning.To address these problems,a telomere-to-telomere(T2T)genome of the elite melon landrace Kuizilikjiz(Cucumis melo L.var.inodorus)was de novo assembled and all the published QTLs were projected onto it in this study.The results showed that a high-quality Kuizilikjiz genome with the size of 379.2 Mb and N50 of 31.7 Mb was de novo assembled using the combination of short reads,PacBio high-fidelity long reads,Hi-C data,and a high-density genetic map.Each chromosome contained the centromere and telomeres at both ends.A large number of structural variations were observed between Kuizilikjiz and the other published genomes.A total of 1294 QTLs published in 67 studies were collected and projected onto the T2T genome.Several clustered,co-localized,and overlapped QTLs were determined.Furthermore,20 stable meta-QTLs were identified,which significantly reduced the mapping intervals of the initial QTLs and greatly facilitated identification of the candidate genes.Collectively,the T2T genome assembly together with the numerous projected QTLs will not only broaden the high-quality genome resources but also provide valuable and abundant QTL information for cloning the genes controlling important traits in melon.

关键词： Cucumis elite traits

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A telomere-to-telomere reference genome provides genetic insight into the pentacyclic triterpenoid biosynthesis in Chaenomeles speciosa

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Horticulture Research 2023年第10期10卷 250-261页

作者： Shaofang He Duanyang Weng Yipeng Zhang qiusheng kong Keyue Wang Naliang Jing Fengfeng Li Yuebin Ge Hui Xiong Lei Wu De-Yu Xie Shengqiu Feng Xiaqing Yu Xuekui Wang Shaohua Shu Zhinan Mei College of Plant Science&Technology Huazhong Agricultural UniversityWuhan 430070China Wuhan Carboncode Biotechnologies Co. Ltd.Wuhan 430070China Sinopharm Zhonglian Pharmaceutical Co. Ltd.Wuhan 430070China College of Horticulture&Forestry Huazhong Agricultural UniversityWuhan 430070China School of Pharmaceutical Science South-Central Minzu UniversityWuhan 430074China Department of Plant and Microbial Biology North Carolina State UniversityRaleighNC 27695USA College of Horticulture Nanjing Agricultural UniversityNanjing 210095China

Chaenomeles speciosa(2n=34),a medicinal and edible plant in the Rosaceae,is commonly used in traditional Chinese medicine.To date,the lack of genomic sequence and genetic studies has impeded efforts to improve its medicinal value.Herein,we report the use of an integrative approach involving PacBio HiFi(third-generation)sequencing and Hi-C scaffolding to assemble a high-quality telomere-to-telomere genome of C.speciosa.The genome comprised 650.4 Mb with a contig N50 of 35.5 Mb.Of these,632.3 Mb were anchored to 17 pseudo-chromosomes,in which 12,4,and 1 pseudo-chromosomes were represented by a single contig,two contigs,and four contigs,respectively.Eleven pseudo-chromosomes had telomere repeats at both ends,and four had telomere repeats at a single end.Repetitive sequences accounted for 49.5%of the genome,while a total of 45515 protein-coding genes have been annotated.The genome size of C.speciosa was relatively similar to that of Malus domestica.Expanded or contracted gene families were identified and investigated for their association with different plant metabolisms or biological processes.In particular,functional annotation characterized gene families that were associated with the biosynthetic pathway of oleanolic and ursolic acids,two abundant pentacyclic triterpenoids in the fruits of C.speciosa.Taken together,this telomere-to-telomere and chromosome-level genome of C.speciosa not only provides a valuable resource to enhance understanding of the biosynthesis of medicinal compounds in tissues,but also promotes understanding of the evolution of the Rosaceae.

关键词： value. insight metabolism

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Geographical origin identification of winter jujube(Ziziphus jujuba Dongzao')by using multi-element fingerprinting with chemometrics

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Journal of Integrative Agriculture 2024年第5期23卷 1749-1762页

作者： Xiabing kong qiusheng Chen Min Xu Yihui Liu Xiaoming Li Lingxi Han Qiang Zhang Haoliang Wan Lu Liu Xubo Zhao Jiyun Nie College of Horticulture Qingdao Agricultural University/Laboratory of Quality&Safety Risk Assessment for Fruit(Qingdao)Ministry of Agriculture and Rural Affairs/National Technology Centre for Whole Process Quality Control of FSEN Horticultural Products(Qingdao)/Qingdao Key Lab of Modern Agriculture Quality and Safety EngineeringQingdao 266109China Institute of Agricultural Product Quality Safety and NutritionTianjin Academy of Agricultural SciencesTianjin 300381China College of Food Science and Engineering Northwest A&F UniversityYangling 712100China

Winter jujube(Ziziphus jujuba'Dongzao')is greatly appreciated by consumers for its excellent quality,but brand infringement frequently occurs in the market.Here,we first determined a total of 38 elements in 167 winter jujube samples from the main winter jujube producing areas of China by inductively coupled plasma mass spectrometer(ICP-MS).As a result,16 elements(Mg,K,Mn,Cu,Zn,Mo,Ba,Be,As,Se,Cd,Sb,Ce,Er,Tl,and Pb)exhibited significant differences in samples from different producing areas.Supervised linear discriminant analysis(LDA)and orthogonal projection to latent structures discriminant analysis(OPLS-DA)showed better performance in identifying the origin of samples than unsupervised principal component analysis(PCA).LDA and OPLS-DA had a mean identification accuracy of 87.84 and 94.64%in the testing set,respectively.By using the multilayer perceptron(MLP)and C5.0,the prediction accuracy of the models could reach 96.36 and 91.06%,respectively.Based on the above four chemometric methods,Cd,Tl,Mo and Se were selected as the main variables and principal markers for the origin identification of winter jujube.Overall,this study demonstrates that it is practical and precise to identify the origin of winter jujube through multi-element fingerprint analysis with chemometrics,and may also provide reference for establishing the origin traceability system of other fruits.

关键词： winter jujube multi-element fingerprint analysis chemometrics origin traceability

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水氮互作对石榴幼苗光合荧光及生理特性的影响

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果树学报 2022年第12期39卷 2352-2364页

作者：柴亚倩关思慧崔洪鑫许静朱晓玲刁明孔秋生石河子大学农学院·新疆生产建设兵团特色果蔬栽培生理与种质资源利用重点实验室新疆石河子832003

【目的】探究水氮互作对石榴幼苗光合荧光及生理特性的影响。【方法】采用盆栽控水法,设置3个灌水(W1:灌水上下限为田间持水量的35%~45%;W2:灌水上下限为田间持水量的55%~65%;W3:灌水上下限为田间持水量的75%~85%)与4个施氮耦合(N0,0 g... 详细信息

【目的】探究水氮互作对石榴幼苗光合荧光及生理特性的影响。【方法】采用盆栽控水法,设置3个灌水(W1:灌水上下限为田间持水量的35%~45%;W2:灌水上下限为田间持水量的55%~65%;W3:灌水上下限为田间持水量的75%~85%)与4个施氮耦合(N0,0 g·kg^(-1);N1,0.1 g·kg^(-1);N2,0.2 g·kg^(-1);N3,0.3 g·kg^(-1))处理,探索不同处理对叶片叶绿素含量、光合荧光特性、渗透调节物质含量与氮代谢酶活性的影响。【结果】叶绿素含量、光合特性(P_(n)、G_(s)、T_(r))、叶绿素荧光参数(除NPQ外)、氮代谢酶活性均在W2条件下最佳;且随灌水量降低,可溶性蛋白(SP)含量降低,可溶性糖(SS)与脯氨酸(Pro)含量升高。W3条件下,除G_(S)活性以N2处理最佳外,叶绿素含量、光合特性、荧光参数[F_(v)/F_(m)、ETR、Y(Ⅱ)]、渗透调节物质含量与其余氮代谢酶活性均随施氮量的增加而提高;W2条件下,叶绿素含量、光合特性、荧光(除NPQ外)、SP含量及氮代谢酶活性在整个处理过程中均以N2处理最高,SS和Pro含量随施氮量的增加而增加;W1条件下,叶绿素含量、光合特性(P_(n)、G_(s)、T_(r))、荧光(除NPQ外)、SP、SS含量和氮代谢酶活性随氮肥的增加而减少,Pro含量变化与之相反,且在各灌水条件下,NPQ变化与F_(v)/F_(m)相反,C_(i)与NPQ变化呈负相关。【结论】综合各项指标发现,通过合理施用氮肥可有效缓解干旱胁迫,W2N2为该试验条件下的最佳水氮组合。

关键词：石榴幼苗水氮光合渗透调节氮代谢

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Comprehensive Mineral Nutrition Analysis of Watermelon Grafted onto Two Different Rootstocks

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Horticultural Plant Journal 2016年第2期2卷 105-113页

作者： HUANG Yuan ZHAO Liqiang kong qiusheng CHENG Fei NIU Mengliang XIE Junjun Muhammad Azher Nawaz BIE Zhilong College of Horticulture and Forestry Sciences Huazhong Agricultural University Key Laboratory of Horticultural Plant Biology Ministry of Education

Grafting is a widely used practice in fruit-bearing vegetables. However, why grafting affects plant growth, fruit yield, and quality, especially from the aspect of mineral nutrition, remains unclear. In this study, watermelon cultivar ‘Zaojia 8424' was grafted onto bottle gourd ‘Jingxinzhen1'(Lagenaria siceraria) and pumpkin ‘Qingyanzhen 1'(Cucurbita maxima × C. moschata). Non-grafted plants were used as the control. Results show that rootstock grafting significantly increases plant growth and single fruit weight of watermelon. Watermelon grafted onto rootstocks, especially pumpkin, exhibits significantly higher root volume, root surface area, and number of root tips and forks in comparison with non-grafted plants. Fruit flesh, rind firmness, and rind thickness were enhanced by grafting. However, fruit soluble solids and taste significantly decreased in plants grafted onto pumpkin. The total uptake(mg · plant^(-1)) and concentration(mg · g^(-1)DW) of N, K, Ca, Fe, Mg, and Mn in root, stem, leaf,fruit rind, and flesh were generally higher in grafted plants compared to non-grafted ones, especially for N of pumpkin rootstock-grafted plants.The total uptake of nutrients of plants grafted onto bottle gourd and pumpkin was increased by 30.41% and 49.14% at fruit development stage and by 21.33% and 47.46% at fruit maturation stage, respectively, compared with non-grafted plants. We concluded that watermelon grafting onto suitable rootstocks can increase the uptake of mineral nutrition, especially for N in the pumpkin rootstock grafted plants, thereby affecting plant growth, fruit yield, and quality.

关键词： watermelon grafting rootstock mineral element fruit quality nitrogen

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Transcription factor EHF interacting with coactivator AJUBA aggravates malignancy and acts as a therapeutic target for gastroesophageal adenocarcinoma

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Acta Pharmaceutica Sinica B 2024年第5期14卷 2119-2136页

作者： Li Peng Yanyi Jiang Hengxing Chen Yongqiang Wang qiusheng Lan Shuiqin Chen Zhanwang Huang Jingyuan Zhang Duanqing Tian Yuntan Qiu Diankui Cai Jiangyun Peng Daning Lu Xiaoqing Yuan Xianzhu Yang Dong Yin Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation Guangdong-Hong Kong Joint Laboratory for RNA MedicineSun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China Medical Research Center Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China Hefei Institutes of Physical Science Chinese Academy of SciencesHefei 230031China Department of Gastrointestinal Surgery Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China Department of Hepatobiliary Surgery Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China School of Biomedical Sciences and Engineering South China University of TechnologyGuangzhou International CampusGuangzhou 511442China

Transcriptional dysregulation of genes is a hallmark of tumors and can serve as targets for cancer drug development.However,it is extremely challenging to develop small-molecule inhibitors to target abnormally expressed transcription factors(TFs)except for the nuclear receptor family of TFs.Little is known about the interaction between TFs and transcription cofactors in gastroesophageal adenocarcinoma(GEA)or the therapeutic effects of targeting TF and transcription cofactor complexes.In this study,we found that ETS homologous factor(EHF)expression is promoted by a core transcriptional regulatory circuitry(CRC),specifically ELF3-KLF5-GATA6,and interference with its expression suppressed the malignant biological behavior of GEA cells.Importantly,we identified Ajuba LIM protein(AJUBA)as a new coactivator of EHF that cooperatively orchestrates transcriptional network activity in GEA.Furthermore,we identified KRAS signaling as a common pathway downstream of EHF and AJUBA.Applicably,dual targeting of EHF and AJUBA by lipid nanoparticles cooperatively attenuated the malignant biological behaviors of GEA in vitro and in vivo.In conclusion,EHF is upregulated by the CRC and promotes GEA malignancy by interacting with AJUBA through the KRAS pathway.Targeting of both EHF and its coactivator AJUBA through lipid nanoparticles is a novel potential therapeutic strategy.

关键词： EHF AJUBA KRAS pathway Enhancer Core transcriptional regulatory circuitry Gastroesophageal adenocarcinoma Gastric adenocarcinoma Esophageal adenocarcinoma Transcription factor Coactivator Lipid nanoparticles

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真菌病毒BmPV1抑制Bipolaris maydis侵染寄主作用研究

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菌物学报 2024年第6期43卷 96-104页

作者：王亚娇及增发栗秋生吴玉星韩森孔令晓河北省农林科学院植物保护研究所、农业农村部华北北部作物有害生物综合治理重点实验室、河北省农业有害生物综合防治技术创新中心、河北省作物有害生物综合防治国际科技联合研究中心河北保定071000 河北省农林科学院河北石家庄050000

玉米小斑病是我国玉米生产上的重要病害之一,每年造成玉米大幅减产。Bipolarismaydis partitivirus 1(BmPV1)病毒是玉米小斑病菌B.maydis携带的一种dsRNA病毒,具有弱毒性,能够引起B.maydis的致病力降低,但BmPV1对寄主侵染的影响并不明... 详细信息

玉米小斑病是我国玉米生产上的重要病害之一,每年造成玉米大幅减产。Bipolarismaydis partitivirus 1(BmPV1)病毒是玉米小斑病菌B.maydis携带的一种dsRNA病毒,具有弱毒性,能够引起B.maydis的致病力降低,但BmPV1对寄主侵染的影响并不明确。本研究采用农杆菌转化法将gfp基因分别导入到携带BmPV1病毒的玉米小斑病菌株3086-BmPV1以及脱毒菌株3086-non中,通过PCR扩增及荧光观察分析荧光标记菌株的稳定性;检测gfp基因的插入对菌株生物学特征的影响;采用叶面喷施孢子悬浮液的方式接种,并利用共聚焦显微镜观察带毒菌株及脱毒菌株对玉米叶片的侵染情况。PCR扩增和荧光观察结果表明,gfp基因成功整合到菌株3086-BmPV1和3086-non中;生物学特征分析表明gfp基因的插入对菌株的生长速度、产孢量和致病力无显著影响;侵染观察发现脱毒菌株3086-non-GFP对玉米叶片侵染有两条途径:直接侵染玉米表皮细胞并向邻近细胞扩散;侵染气孔,并通过气孔沿着细胞间隙向邻近细胞扩散。带毒菌株3086-BmPV1-GFP只能在叶片表面生长,多数不能侵染表皮细胞。综上所述,本研究观察了玉米小斑病菌带毒和不带毒菌株对玉米的侵染过程,明确了病毒BmPV1能够通过抑制小斑病菌对玉米叶片的侵入达到弱毒作用。

关键词：玉米小斑病真菌病毒BmPV1 弱毒性荧光标记侵染过程

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纳米纤维状氧化铝为载体的加氢脱硫催化剂的研究

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无机盐工业 2008年第7期40卷 29-31页

作者：孔秋生张鹏远陈建峰北京化工大学教育部超重力工程研究中心北京100029

以超重力法制备的纳米纤维状γ-氧化铝为载体,采用传统等体积浸渍法与超声波技术相结合,制备了一系列不同活性组分含量的镍/γ-氧化铝纳米加氢脱硫催化剂。利用XRD,TEM,BET等表征手段,分析了产品的结构和粒子形貌。结果表明,当活性组分... 详细信息

以超重力法制备的纳米纤维状γ-氧化铝为载体,采用传统等体积浸渍法与超声波技术相结合,制备了一系列不同活性组分含量的镍/γ-氧化铝纳米加氢脱硫催化剂。利用XRD,TEM,BET等表征手段,分析了产品的结构和粒子形貌。结果表明,当活性组分质量分数为8%、焙烧温度为500℃、浸渍时间为16 h时,催化剂活性组分镍在纳米纤维状γ-氧化铝载体上分散比较均匀,活性组分粒度均一,形貌最佳。

关键词：纳米纤维状载体 γ-氧化铝催化剂加氢脱硫

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心电图压缩算法中的小波基选择

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计算机工程与应用 2002年第18期38卷 6-8页

作者：练秋生王成儒孔令富燕山大学信息工程学院通讯与电子工程系秦皇岛066004

文章研究心电图压缩算法中的小波基选择。算法中采用整-整小波进行小波变换,用小波零树嵌入编码和自适应算术编码对心电图压缩。小波库由9种小波基组成。用MIT-BIH心率数据库的样本数据对提出的算法进行测试,结果表明,在压缩过程中对每... 详细信息

文章研究心电图压缩算法中的小波基选择。算法中采用整-整小波进行小波变换,用小波零树嵌入编码和自适应算术编码对心电图压缩。小波库由9种小波基组成。用MIT-BIH心率数据库的样本数据对提出的算法进行测试,结果表明,在压缩过程中对每段心电图选取最优小波基能显著地降低信号失真度。

关键词：心电图压缩算法小波基选择整-整小波变换零树编码临床诊断

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心电图小波零树压缩算法的研究

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计算机工程与应用 2002年第7期38卷 60-62页

作者：练秋生王成儒孔令富燕山大学信息工程学院通讯与电子工程系秦皇岛066004

该文提出了一种小波零树编码的心电图压缩算法。算法由整数小波变换、小波零树编码、自适应算术编码三部分组成。算法不需要任何浮点运算,计算复杂度低,压缩效率高,便于在便携式Holter中实现。用MIT-BIH心率数据库的样本数据对提出的算... 详细信息

该文提出了一种小波零树编码的心电图压缩算法。算法由整数小波变换、小波零树编码、自适应算术编码三部分组成。算法不需要任何浮点运算,计算复杂度低,压缩效率高,便于在便携式Holter中实现。用MIT-BIH心率数据库的样本数据对提出的算法进行测试,结果表明提出的算法是有效的,在得到高压缩比的同时仍能保持低的信息失真度。

关键词：心电图数据压缩整数小波变换零树编码算法图像编码

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