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| 1 | Improvement of wheat drought and salt tolerance by expression of a stress- inducible transcription factorGmDREB of soybean (Glycinemax)显示文摘Under stress conditions such as droughthigh-salinity and low-temperature, the transcription factorof DREB (dehydration responsive element binding proteins)improved efficiently stress resistance by regulating the ex-pression of its downstream genes with various environmentastress resistance in plants. GmDREB gene (GenBank Acces-sion No. AF514908) encoding a stress-inducible transcriptionfactor was cloned by screening a cDNA library of Glycinemax cv. Jinong 27 with yeast one-hybrid method. GmDREBgene was 910 bp in length and encoded 174 amino acids con-taining a conserved AP2/EREBP DNA-binding domain of 58amino acids. Two conserved functional amino acids, valineand glutamic acid, were located on the 14th and the 19thamino acid residues in the conserved structural domain. Analkaline amino acid region (KKR) related to a nuclear local-ization signal was at the N-terminal, while an acidic aminoacid region (DDD) related to trans-activation was at theC-terminal. Plant expression vectors were constructed andtransformed into wheat by bombardment. In total, 13 trans-genic plants with Ubi::GmDREB and 11 transgenic plantswith rd29A::GmDREB were identified from 103 regenerationplants by molecular analysis. The drought and salt tolerancesof T1 transgenic lines with Ubi::GmDREB orrd29A::GmDREB were demonstrated to be improved ascompared to wild type. The result also suggested that bothUbiquitin and rd29A promoters could effectively drive theexpression of the GmDREB gene and enhance drought andsalt tolerance of T1 plants. | GAO Shiqing XU Huijun CHENG Xianguo CHEN Ming XU Zhaoshi LI Liancheng YE Xingguo DU Lipu HAO Xiaoyan MA Youzhi | 2005 | Chinese Science Bulletin2005，50，23： | 30 |
| 2 | A New Algorithm for the Establishing Data Association Between a Camera and a 2-D LIDAR显示文摘In this paper, we propose a new algorithm to establish the data association between a camera and a 2-D LIght Detection And Ranging sensor(LIDAR). In contrast to the previous works, where data association is established by calibrating the intrinsic parameters of the camera and the extrinsic parameters of the camera and the LIDAR, we formulate the map between laser points and pixels as a 2-D homography. The line-point correspondence is employed to construct geometric constraint on the homography matrix. This enables checkerboard to be not essential and any object with straight boundary can be an effective target. The calculation of the 2-D homography matrix consists of a linear least-squares solution of a homogeneous system followed by a nonlinear minimization of the geometric error in the image plane. Since the measurement quality impacts on the accuracy of the result, we investigate the equivalent constraint and show that placing the calibration target nearby the 2-D LIDAR will provide sufficient constraints to calculate the 2-D homography matrix. Simulation and experimental results validate that the proposed algorithm is robust and accurate. Compared with the previous works, which require two calibration processes and special calibration targets such as checkerboard, our method is more flexible and easier to perform. | Lipu Zhou Zhidong Deng | 2014 | Tsinghua Science and Technology2014，19，3： | 6 |
| 3 | CRISPR/Cas9 editing of wheat TaQ genes alters spike morphogenesis and grain threshability显示文摘The Ta Q alleles as one of the AP2-like transcription factors in common wheat(Triticum aestivum) play an important role in the evolution of spike characteristics from wild and domesticated emmer to modern wheat cultivars. Its loss-of-function mutant not only changed threshability and spike architecture but also affected plant height, flowering time, and floret structure. However, the comprehensive functions of Ta AQ and Ta Dq genes in wheat have not been fully elucidated yet. Here, CRISPR/Sp Cas9 was used to edit wheat Ta AQ and Ta Dq. We obtained homozygous plants in the T1 generation with loss of function of only Ta AQ or Ta Dq and simultaneous loss of function of Ta AQ and Ta Dq to analyze the effect of these genes on wheat spikes and floret shapes. The results demonstrated that the Ta AQ-edited plants and the Ta AQ and Ta Dq simultaneously-edited plants were nearly similar in spike architecture, whereas the Ta Dq-edited plants were different from the wild-type ones only in plant height. Moreover, the Ta AQ-edited plants or the Ta AQ and Ta Dq simultaneously-edited plants were more brittle than the wild-type and the Ta Dqedited plants. Based on the expression profiling, we postulated that the VRN1, FUL2, SEP2, SEP5, and SEP6 genes might affect the number of spikelets and florets per spike in wheat by regulating the expression of Ta Q. Combining the results of this report and previous reports, we conceived a regulatory network of wheat traits, including plant height, spike shape, and floral organs, which were influenced by AP2-like family genes. The results achieved in this study will help us to understand the regulating mechanisms of Ta AQ and Ta Dq alleles on wheat floral organs and inflorescence development. | Huiyun Liu Ke Wang Huali Tang Qiang Gong Lipu Du Xinwu Pei Xingguo Ye | 2020 | Journal of Genetics and Genomics2020，47，9： | 6 |
| 4 | Combined genomic, transcriptomic, and metabolomic an alyses provide in sights into chayote (Sechium edule) evolution and fruit development显示文摘Chayote(Sechium edule)is an agricultural crop in the Cucurbitaceae family that is rich in bioactive components.To enhance genetic research on chayote,we used Nanopore third-generation sequencing combined with Hi-C data to assemble a draft chayote genome.A chromosome-level assembly anchored on 14 chromosomes(N50 contig and scaffold sizes of 8.40 and 46.56 Mb,respectively)estimated the genome size as 606.42 Mb,which is large for the Cucurbitaceae,with 65.94%(401.08 Mb)ofthe genome comprising repetitive sequences;28,237 protein-coding genes were predicted.Comparative genome analysis indicated that chayote and snake gourd diverged from sponge gourd and that a whole-genome duplication(WGD)event occurred in chayote at 25±4 Mya.Transcriptional and metabolic analysis revealed genes involved in fruit texture,pigment,fl avor,fl avonoids,antioxidants,and plant hormones during chayote fruit development.The analysis of the genome,transcriptome,and metabolome provides insights into chayote evolution and lays the groundwork for future research on fruit and tuber development and genetic improvements in chayote. | Anzhen Fu Qing Wang Jianlou Mu Lili Ma Changlong Wen Xiaoyan Zhao Lipu Gao Jian Li Kai Shi Yunxiang Wang Xuechuan Zhang Xuewen Zhang Fengling Wang Donald Grierson Jinhua Zuo | 2021 | Horticulture Research2021，8，1： | 6 |
| 5 | Transcriptomics and metabolomics analyses provide insights into postharvest ripening and senescence of tomato fruit under low temperature显示文摘Tomato is one of the most important vegetable crops in the world and is a model plant used to study the ripening of climacteric fleshy fruit.During the ripening process of tomato fruit,flavor and aroma metabolites,color,texture and plant hormones undergo significant changes.However,low temperatures delayed the ripening process of tomato fruit,inhibiting flavor compounds and ethylene production.Metabolomics and transcriptomics analyses of tomato fruit stored under low temperature(LT,5°C)and room temperature(RT,25°C)were carried out to investigate the effects of storage temperature on the physiological changes in tomato fruit after harvest.The results of transcriptomics changes revealed that the differentially expressed genes(DEGs)involved in tomato fruit ripening,including several kinds of transcription factors(TFs)(TCP,WRKY,MYB and bZIP),enzymes involved in cell wall metabolism[beta-galactosidase(β-GAL),pectinesterase(PE)and pectate lyase(PL),cellulose and cellulose synthase(CESA)],enzymes associated with fruit flavor and aroma[acetyltransferase(AT),malic enzyme(ME),lipoxygenase(LOX),aldehyde dehydrogenase(ALDH),alcohol dehydrogenase(ADH)and hexokinase(HK)],genes associated with heat stress protein 70 and genes involved in the production of plant hormones such as Ethylene responsive factor 1(ERF1),Auxin/indoleacetic acids protein(AUX/IAA),gibberellin regulated protein.Based on the above results,we constructed a regulatory network model of the effects of different temperatures during the fruit ripening process.According to the analysis of the metabolomics results,it was found that the contents of many metabolites in tomato fruit were greatly affected by storage temperature,including,organic acids(L-tartaric acid,a-hydroxyisobutyric acid and 4-acetamidobutyric acid),sugars(melezitose,beta-Dlactose,D-sedoheptulose 7-phosphate,2-deoxyribose 1-phosphate and raffinose)and phenols(coniferin,curcumin and feruloylputrescine).This study revealed the effects of storage temperature on postharvest tomato fruit and provided a basis for further understanding of the molecular biology and biochemistry of fruit ripening. | Chunmei Bai Caie Wu Lili Ma Anzhen Fu Yanyan Zheng Jiawei Han Changbao Li Shuzhi Yuan Shufang Zheng Lipu Gao Xinhua Zhang Qing Wang Demei Meng Jinhua Zuo | 2023 | Horticultural Plant Journal2023，9，1： | 3 |
| 6 | The genome and transcriptome analysis of snake gourd provide insights into its evolution and fruit development and ripening显示文摘Snake gourd(Trichosanthes anguina L.),which belongs to the Cucurbitaceae family,is a popular ornamental and food crop species with medicinal value and is grown in many parts of the world.Although progress has been made in its genetic improvement,the organization,composition,and evolution of the snake gourd genome remain largely unknown.Here,we report a high-quality genome assembly for snake gourd,comprising 202 contigs,with a total size of 919.8 Mb and an N50 size of 20.1 Mb.These findings indicate that snake gourd has one of the largest genomes of Cucurbitaceae species sequenced to date.The snake gourd genome assembly harbors 22,874 protein-coding genes and 80.0%of the genome consists of repetitive sequences.Phylogenetic analysis reveals that snake gourd is closely related to sponge gourd but diverged from their common ancestor~33–47 million years ago.The genome sequence reported here serves as a valuable resource for snake gourd genetic research and comparative genomic studies in Cucurbitaceae and other plant species.In addition,fruit transcriptome analysis reveals the candidate genes related to quality traits during snake gourd fruit development and provides a basis for future research on snake gourd fruit development and ripening at the transcript level. | Lili Ma Qing Wang Jianlou Mu Anzhen Fu Changlong Wen Xiaoyan Zhao Lipu Gao Jian Li Kai Shi Yunxiang Wang Xuewen Zhang Xuechuan Zhang Zhangjun Fei Donald Grierson Jinhua Zuo | 2020 | Horticulture Research2020，7，1： | 2 |
| 7 | Development of powdery mildew resistant derivatives of wheat variety Fielder for use in genetic transformation显示文摘Genetic transformation is widely used to improve target traits and to study gene function in wheat.However,transformation efficiency depends on the physiological status of the recipient genotype and that is affected by several factors including powdery mildew(PM)infection.The widely used recipient variety Fielder is very susceptible to PM.Therefore,it would be beneficial to develop PM resistant derivatives with high regeneration ability for use in genetic transformation.In the present study PM resistant lines CB037 and Pm97033 carrying genes Pm21 and PmV,respectively,were backcrossed to Fielder with selection for PM resistance.Five lines,NT89,NT90,NT154,and WT48 with Pm21 and line FL347 with PmV were developed,identified by molecular markers and genomic in situ hybridization(GISH)or fluorescent in situ hybridization(FISH),and further subjected to detailed assessment of agronomic traits and regeneration ability following genetic transformation capacity.Lines FL347,WT48,NT89 and NT154 assessed as being equal to,or superior,to Fielder in regeneration and transformation ability are recommended as suitable materials for the replacement of Fielder for wheat gene transfer and genome editing study. | Xiaona Liang Xiaomin Bie Yuliang Qiu Ke Wang Zujun Yang Yuqi Jia Zhiying Xu Mei Yu Lipu Du Zhishan Lin Xingguo Ye | 2023 | The Crop Journal2023，11，2： | 2 |
| 8 | Regulations of m^(6)A methylation on tomato fruit chilling injury显示文摘Tomato fruit are sensitive to chilling injury(CI)during cold storage.Several factors have been discovered to be involved in chilling injury of tomato fruit.Plant hormones play an important regulatory role,however,the relationship between chilling injury and N6-methyladenosine(m^(6)A)methylation of transcripts in plant hormone pathways has not been reported yet.In order to clarify the complex regulatory mechanism of m^(6)A methylation on chilling injury in tomato fruit,Nanopore direct RNA sequencing was employed.A large number of enzymes and transcription factors were found to be involved in the regulation process of fruit chilling injury,which were associated with plant hormone,such as 1-aminocyclopropane 1-carboxylate synthase(ACS),aspartate aminotransferase(AST),auxin response factor(ARF2),ethylene response factor 2(ERF2),gibberellin 20-oxidase-3(GA20ox)and jasmonic acid(JA).By conjoint analysis of the differential expression transcripts related to chilling injury andm^(6)Amethylation differential expression transcripts 41 differential expression transcripts were identified involved in chilling injury including 1-aminocyclopropane-1-carboxylate oxidase(ACO)and pectinesterase(PE)were down-regulated and heat shock cognate 70 kD protein 2(cpHSC70),HSP70-binding protein(HspBP)and salicylic acid-binding protein 2(SABP2)were up-regulated.Our results will provide a deeper understanding for chilling injury regulatory mechanism and post-harvest cold storage of tomato fruit. | Chunmei Bai Minghuan Fang Baiqiang Zhai Lili Ma Anzhen Fu Lipu Gao Xiaohong Kou Demei Meng Qing Wang Shufang Zheng Jinhua Zuo | 2021 | Horticultural Plant Journal2021，7，5： | 2 |
| 9 | De novo sequencing and comparative analysis of three red algal species of Family Solieriaceae to discover putative genes associated with carrageenan biosysthesis显示文摘Betaphycus gelatinus,Kappaphycus alvarezii and Eucheuma denticulatum of Family Solieriaceae,Order Gigartinales,Class Rhodophyceae are three important carrageenan-producing red algal species,which produce different types of carrageenans,beta(β)-carrageenan,kappa(κ)-carrageenan and iota(ι)-carrageenan.So far the carrageenan biosynthesis pathway is not fully understood and few information is about the Solieriaceae genome and transcriptome sequence.Here,we performed the de novo transcriptome sequencing,assembly,functional annotation and comparative analysis of these three commercial-valuable species using an Illumina short-sequencing platform Hiseq 2000 and bioinformatic software.Furthermore,we compared the different expression of some unigenes involved in some pathways relevant to carrageenan biosynthesis.We finally found 861 different expressed KEGG orthologs which contained a glycolysis/gluconeogenesis pathway(21 orthologs),carbon fixation in photosynthetic organisms(16 orthologs),galactose metabolism(5 orthologs),and fructose and mannose metabolism(9 orthologs) which are parts of the carbohydrate metabolism.We also found 8 different expressed KEGG orthologs for sulfur metabolism which might be importantly related to biosynthesis of different types of carrageenans.The results presented in this study provided valuable resources for functional genomics annotation and investigation of mechanisms underlying the biosynthesis of carrageenan in Family Solieriaceae. | SONG Lipu WU Shuangxiu SUN Jing WANG Liang LIU Tao CHI Shan LIU Cui LI Xingang YIN Jinlong WANG Xumin YU Jun | 2014 | Acta Oceanologica Sinica2014，33，2： | 1 |
| 10 | Dispersion destabilization in magnetic water treatment显示文摘 | Lipus L C Krope J Crepinsek L | 2001 | Colloid and Interface Science2001，236，3： | 1 |
| 11 | Influence of magnetic field on the aragonite precipitation 显示文摘 | Lipus L C Dobersek D | 2007 | Chemical Engineering Science2007，62，： | 1 |
| 12 | Influence of magnetic field on the aragonite precipitation 显示文摘 | Lipus L C Dobersek D | 2007 | Chemical Engineering Science2007，62，2： | 1 |
| 13 | C-HMAX: Artificial Cognitive Model Inspired by the Color Vision Mechanism of the Human Brain显示文摘Artificial cognitive models and computational neuroscience methods have garnered great interest from both neurologist and leading analysts in recent years. Among the cognitive models, HMAX has been widely used in computer vision systems for its robustness shape and texture features inspired by the ventral stream of the human brain. This work presents a Color-HMAX (C-HMAX) model based on the HMAX model which imitates the color vision mechanism of the human brain that the HMAX model does not include. C-HMAX is then applied to the German Traffic Sign Recognition Benchmark (GTSRB) which has 43 categories and 51 840 sample traffic signs with an accuracy of 98.41%, higher than most other models including linear discriminant analysis and multi-scale convolutional neural network. | Bo Yang Lipu Zhou Zhidong Deng | 2013 | Tsinghua Science and Technology2013，18，1： | 1 |
| 14 | Genetic Variation and Metabolic Pathway Intricacy Govern the Active Compound Content and Quality of the Chinese Medicinal Plant Lonicera Japonica Thunb显示文摘 | Yuan Yan Song Lipu Li Guiming | 2012 | Genomics2012，13，： | 1 |
| 15 | A homogenized approach to classify advanced gastric cancer patients with limited and adequate number of pathologically examined lymph nodes显示文摘Background:The prognosis of gastric cancer patients with a limited number of pathologically examined lymph nodes(eLN,<16)is dismal compared to those with adequately eLN(≥16),yet they are still classified within the same subgroups using the American Joint Committee on Cancer(AJCC)staging system.We aimed at formulating an easy-to-adopt and clinically reliable stratification approach to homogenize the classification for these two categories of patients.Methods:Patients staged according to the 8th AJCC pathological nodal(N)and tumor-node-metastasis(TNM)clas-sification were stratified into a Limited and Adequate eLN cohort based on their number of pathologically examined LNs.The statistical differences between the 5-year overall survival(OS)rates of both cohorts were determined and based on which,patients from the Limited eLN cohort were re-classified to a proposed modified nodal(N′)and TNM(TN′M)classification,by matching their survival rates with those of the Adequate eLN cohort.The prognostic perfor-mance of the N′and TN′M classification was then compared to a formulated lymph-node-ratio-based nodal classifica-tion,in addition to the 8th AJCC N and TNM classification.Results:Significant heterogeneous differences in 5-year OS between patients from the Limited and Adequate eLN cohort of the same nodal subgroups were identified(all P<0.001).However,no significant differences in 5-year OS were observed between the subgroups N0,N1,N2,and N3a of the Limited eLN cohort when compared with N1,N2,N3a,and N3b from the Adequate eLN cohort,respectively(P=0.853,0.476,0.114,and 0.230,respectively).A novel approach was formulated in which only patients from the Limited eLN cohort were re-classified to one higher nodal subgroup,denoted as the N′classification.This re-classification demonstrated superior stratifying and prognostic ability as compared to the 8th AJCC N and lymph-node-ratio classification(Akaike information criterion values[AIC]:12,276 vs.12,358 vs.12,283,respectively).The TN′M classification also demonstrated superior prognostic ability as compared to the 8th AJCC TNM classification(AIC value:12,252 vs.12,312).Conclusion:The proposed lymph node classification approach provides a clinically practical and reliable technique to homogeneously classify cohorts of gastric cancer patients with limited and adequate number of pathologically examined lymph nodes. | Sharvesh Raj Seeruttun Lipu Xu Fangwei Wang Xiaodong Yi Cheng Fang Zhimin Liu Wei Wang Zhiwei Zhou | 2019 | Cancer Communications2019，39，1： | 1 |
| 16 | PreparationoffinecopGperpowdersandtheirapplicationin BMEGMLCC显示文摘 | WuSongping QinHaoli LiPu | 2006 | JournalofUniversityofScienceandTechnologyBeijing2006，13，3： | 1 |
| 17 | Influence of magnetic field on the aragonite precipitation显示文摘 | Lipus L C Dobersek D | 2007 | Chemical Engineering Science2007，，62： | 1 |
| 18 | Electromagnets for high-flow water processing显示文摘 | Lipus L C Acko D Hamler A | 2001 | Chemical Engineering and Processing: Process Intensi- fication2001，，50： | 1 |
| 19 | Efficient Removal of Lead from Washing Effluent of Lead-contaminated Soil with Garlic Peel显示文摘 | CHEN Xing YIN Lipu ZHOU Hongyu LIU Junyou LI Xiaohui AI Xianbin HUANG Kai | 2018 | Chemical Research in Chinese Universities2018，34，6： | 1 |
| 20 | Dispersion destabili- zation in magnetized water treatment 显示文摘 | Lipus L C KorPe J Cre Pinsek L | 2001 | Journal of Colloid Interface science2001，236，2： | 1 |
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