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| 1 | aunalysis of the Genome Sequence of the Medicinal Plant Salvia miltiorrhiza显示文摘 | Haibin Xu Jingyuan Song Hongmei Luo Yujun Zhang Qiushi Li Yingjie Zhu Jiang Xu Ying Li Chi Song Bo Wang Wei Sun Guoan Shen Xin Zhang Jun Qian Aijia Ji Zhichao Xu Xiang Luo Liu He Chuyuan Li Chao Sun Haixia Yah Guanghong Cui Xiwen Li Xian 'en Li Jianhe Wei Juyan Liu Yitao Wang Alice Hayward David Nelson Zemin Ning Reuben J. Peters Xiaoquan Qi Shilin Chen | 2016 | Molecular Plant2016，9，6： | 70 |
| 2 | Global Pharmacopoeia Genome Database is an integrated and mineable genomic database for traditional medicines derived from eight international pharmacopoeias显示文摘Genomic data have demonstrated considerable traction in accelerating contemporary studies in traditional medicine. However,the lack of a uniform format and dispersed storage limits the full potential of herb genomic data. In this study, we developed a Global Pharmacopoeia Genome Database(GPGD). The database contains 34,346 records for 903 herb species from eight global pharmacopoeias(Brazilian, Egyptian, European, Indian, Japanese, Korean, the Pharmacopoeia of the People’s Republic of China, and U.S. Pharmacopoeia’s Herbal Medicines Compendium). In particular, the GPGD contains 21,872 DNA barcodes from 867 species, 2,203 organelle genomes from 674 species, 55 whole genomes from 49 species, 534 genomic sequencing datasets from 366 species, and 9,682 transcriptome datasets from 350 species. Among the organelle genomes, 534 genomes from 366 species were newly generated in this study. Whole genomes, organelle genomes, genomic fragments, transcriptomes, and DNA barcodes were uniformly formatted and arranged by species. The GPGD is publicly accessible at http://www.gpgenome.com and serves as an essential resource for species identification, decomposition of biosynthetic pathways, and molecular-assisted breeding analysis. Thus, the database is an invaluable resource for future studies on herbal medicine safety, drug discovery, and the protection and rational use of herbal resources. | Baosheng Liao Haoyu Hu Shuiming Xiao Guanru Zhou Wei Sun Yang Chu Xiangxiao Meng Jianhe Wei Han Zhang Jiang Xu Shilin Chen | 2022 | Science China(Life Sciences)2022，65，4： | 11 |
| 3 | Allele-aware chromosome-level genome assembly of Artemisia annua reveals the correlation between ADS expansion and artemisinin yield显示文摘Artemisia annua is the major natural source of artemisinin,an anti-malarial medicine commonly used worldwide.Here,we present chromosome-level haploid maps for two A.annua strains with different artemisinin contents to explore the relationships between genomic organization and artemisinin production.High-fidelity sequencing,optical mapping,and chromatin conformation capture sequencing were used to assemble the heterogeneous and repetitive genome and resolve the haplotypes of A.annua.Approximately 5o,ooo genes were annotated for each haplotype genome,and a triplication event that occurred approximately 58.12million years ago was examined for the first time in this species.A total of 3,903,467-5,193,414 variants(SNPs,indels,and structural variants)were identified in the 1.5-Gb genome during pairwise comparison between haplotypes,consistent with the high heterozygosity of this species.Genomic analyses revealed a correlation between artemisinin concents and the copy number of amorpha-4,11-dienes ynthasegenes.This correlation was further confirmed by resequencing of 36A.annua samples with varied artemisinin contents.Circular consensus sequencing of transcripts facilitated the detection of paralog expression.Collectively,our study provides chromosome-level allele-aware genome assemblies for two A.annua strains and new insights into the biosynthesis of artemisinin and its regulation,which will contribute to conquering malaria worldwide. | Baosheng Liao Xiaofeng Shen Li Xiang Shuai Guo Shiyu Chen Ying Meng Yu Liang Dandan Ding Junqi Bai Dong Zhang Tomasz Czechowski Yi Li Hui Yao Tingyu Mai Caroline Howard Chao Sun Haitao Liu Jiushi Liu Jin Pei Jihai Gao Jigang Wang Xiaohui Qiu Zhihai Huang Hongyi Li Ling Yuan Jianhe Wei lan Graham Jiang Xu Boli Zhang Shilin Chen | 2022 | Molecular Plant2022，15，8： | 9 |
| 4 | Application of CRISPR/Cas9 in plant biology显示文摘The CRISPR/Cas(clustered regularly interspaced short palindromic repeats/CRISPRassociated proteins) system was first identified in bacteria and archaea and can degrade exogenous substrates. It was developed as a gene editing technology in 2013. Over the subsequent years, it has received extensive attention owing to its easy manipulation, high efficiency, and wide application in gene mutation and transcriptional regulation in mammals and plants. The process of CRISPR/Cas is optimized constantly and its application has also expanded dramatically. Therefore, CRISPR/Cas is considered a revolutionary technology in plant biology. Here, we introduce the mechanism of the type II CRISPR/Cas called CRISPR/Cas9, update its recent advances in various applications in plants, and discuss its future prospects to provide an argument for its use in the study of medicinal plants. | Xuan Liu Surui Wu Jiao Xu Chun Sui Jianhe Wei | 2017 | Acta Pharmaceutica Sinica B2017，7，3： | 8 |
| 5 | 为细菌的房间的一个非凡的紧、敏感的光可切换的基因表达式系统显示文摘 | Chen, Xianjun Liu, Renmei Ma, Zhengcai Xu, Xiaopei Zhang, Haoqian Xu, Jianhe Ouyang, Qi Yang, Yi | 2016 | Cell Research2016，26，7： | 7 |
| 6 | Microfluidic reactor with immobilized enzyme-from construction to applications:A review显示文摘Microfluidic,as the systems for using microchannel(micron-or sub-micron scale)to process or manipulate microflow,is being widely applied in enzyme biotechnology and biocatalysis.Microfluidic immobilized enzyme reactor(MIER)is a tool with great value for the study of catalytic property and optimal reaction parameter in a flourishing and highly producing manner.In view of its advantages in efficiency,economy,and addressable recognition especially,MIER occupies an important position in the investigation of life science,including molecular biology,bioanalysis and biosensing,biocatalysis etc.Immobilization of enzymes can generally improve their stability,and upon most occasions,the immobilized enzyme is endowed with recyclability.In this review,the enzyme immobilization techniques applied in MIER will be discussed,followed by summarizing the novel developments in the field of MIER for biocatalysis,bioconversion and bioanalysis.The preponderances and deficiencies of the current state-of-the-art preparation ways of MIER are peculiarly discussed.In addition,the prospects of its future study are outlined. | Han Zhang Yunpeng Bai Ning Zhu Jianhe Xu | 2021 | Chinese Journal of Chemical Engineering2021，34，2： | 3 |
| 7 | Genetic analysis of meio-and mito-gynogenetic stocks of Paralichthys olivaceus with microsatellite markers显示文摘Twenty microsatellite markers (Po1, Po13, Po33, Po35, Po42, Po48, Po56, Po89, Po91, kop6, kop7, kop8, kop12, kop15, kop18, kop21, kop22, kop23, kop26, Po-str1) were used to assess the meiogynogenetic and mitogynogenetic stocks of the left-eyed flounder, Paralichthys olivaceus, which were derived from single pair crossing. Twelve of the 20 loci utilized showed heterozygosity in the female and were mapped in relation to their centromeres in the meiogynogenetic diploid flounder. Microsatellite-centromere map distance, calculated under the assumption of complete interference, ranged from 15.8 cM for kop22 to 50 cM for Po13, Po56 and Po89. Excluding the kop22, the heterozygosities of the rest of the loci were close to 100%, suggesting the occurrence of near complete interference on the chromosome arms that carried these loci. In the mitogynogenetic diploid flounder, each individual showed exact homozygousity and the segregation profiles did not deviate from the Mendelian 1∶1 pattern. The results indicated that there was no lethal gene linked with the loci analyzed. Such high interference accounted for the high recombination rates and large map distances. The Po13 and Po56 loci, Po91 and kop18 loci, kop15 and kop21 loci are tightly linked on the same chromosome arm in pairs. | WANG Wei YOU Feng XU Jianhe SUN Wei ZHU Xiangping GAO Tianxiang ZHANG Peijun | 2008 | Acta Oceanologica Sinica2008，27，2： | 3 |
| 8 | Applicability of the Welch method for examining self-noise level parameters for broadband seismometers显示文摘Seismometer self-noise levels were determined using Sleeman's three-sensor method in combination with the Welch method for different parameter combinations. The self-noise levels decreased with the increasing segment window length, which is equivalent to the subwindow length, and with the increasing segment overlap rate for different frequency points at a fixed band. After the statistical examination of 9800 different parameter combinations, a zone of reasonable self-noise calculation parameter combinations was identified. Reasons for the unsuitability of certain parameter combinations were explored with respect to their distortion of the seismometer's self-noise levels. | Li Xiaojun Yang Dake Xie Jianbo Ma Jiemei Yuan Songyong Xu Weiwei Zhao Jianhe Li Dongsheng | 2015 | Geodesy and Geodynamics2015，6，3： | 3 |
| 9 | Cloning, expression and characterization of COI1 gene(AsCOI1) from Aquilaria sinensis(Lour.)Gilg显示文摘Aquilaria sinensis, a kind of typically wounding-induced medicinal plant with a great economical value, is widely used in the production of traditional Chinese medicine, perfume and incense.Coronatine-insensitive protein 1(COI1) acts as a receptor in jasmonate(JA) signaling pathway, and regulates the expression of JA-responsive genes in plant defense. However, little is known about the COI1 gene in A. sinensis. Here, based on the transcriptome data, a full-length cDNA sequence of COI1(termed as AsCOI1) was firstly cloned by RT–PCR and rapid-amplification of cDNA ends(RACE) strategies.AsCOI1 is 2330 bp in length(Gen Bank accession No. KM189194), and contains a complete open frame(ORF) of 1839 bp. The deduced protein was composed of 612 amino acids, with a predicted molecular weight of 68.93 k Da and an isoelectric point of 6.56, and was predicted to possess F-box and LRRs domains. Combining bioinformatics prediction with subcellular localization experiment analysis, AsCOI1 was appeared to locate in nucleus. AsCOI1 gene was highly expressed in roots and stems, the major organs of agarwood formation. Methyl jasmonate(Me JA), mechanical wounding and heat stress could significantly induce the expression level of AsCOI1 gene. AsCOI1 is an early wound-responsive gene, and it likely plays some role in agarwood formation. | Yongcui Liao Jianhe Wei Yanhong Xu Zheng Zhang | 2015 | Acta Pharmaceutica Sinica B2015，5，5： | 2 |
| 10 | LOWER DOSE OF AMINOGLYCOSIDE OTOTOXIC EXPOSURE CAUSES PRESYNAPTIC ALTERATIONS ASSOICATED WITH HEARING LOSS显示文摘Objective To study presynaptic alternations of cochlear ribbons arising from aminoglycoside ototoxic stimuli in C57BL/6J mice. Methods Animals were injected with low dose gentamicin(100 mg/kg/day) for14 days, From the 14 th to 28 th days, the mice were maintained free of gentamicin treatment. Immunohistochemistry labeling was employed to trace RIBEYE, a major presynaptic componment of ribbon synapses.RIBEYE/CtBP2 expression levels were assessed and compared with hearing threshold shifts. Auditory function was assessed by auditory brainstem responses. The stereocilia of outer hair cells(OHCs) and IHCs was examined by scanning electron microscopy(SEM). Results Hearing thresholds were elevated with peak hearing loss observed on the 7th day after gentamicin exposure, followed by improvement after the 7th day.RIBEYE/CtBP2 expression directly correlated with observed hearing threshold shifts. Strikingly, we did not see any obvious changes in stereocilia in both OHCs and IHCs until the 28 th day. Mild changes in stereocilia were only observed in OHCs on the 28 th day. Conclusions These findings indicate that presynapse cochlear ribbons, rather than stereocilia, may be sensitive to aminoglycoside ototoxic exposure in mice cochleae. A pattern of RIBEYE/CtBP2 expression changes seems to parallel hearing threshold shifts and suggests presynaptic response properties to lower dosage of aminoglycoside ototoxic stimuli. | LIU Ke WANG Xiaoyu LI Sijun TANG Siquan XU Yice WANG Xuefeng SUN Jianhe YANG Weiyan YANG Shiming | 2014 | Journal of Otology2014，9，1： | 2 |
| 11 | Biochemical properties and potential applications of an organic solvent tolerant lipase isolated from Serratia marcescens ECU1010显示文摘 | Zhao Lili Xu Jianhe Zhao Jian | 2008 | Process Biochem2008，43，6： | 1 |
| 12 | Metformin suppresses calcium oxalate crystal-induced kidney injury by promoting Sirt1 and M2 macrophage-mediated anti-inflammatory activation显示文摘Dear Editor,Kidney stones are one of the most common clinical diseases in urology.Approximately 80%of renal calculi are composed of calcium oxalate(CaOx)crystals,which are gradually deposited in the medullary collecting duct or in the renal interstitium,causing nephrocalcinosis.1 Although CaOx nephrocalcinosis is usually asymptomatic. | Haoran Liu Chen Duan Xiaoqi Yang Jianhe Liu Yaoliang Deng Hans-Göran Tiselius Zhangqun Ye Tao Wang Jinchun Xing Hua Xu | 2023 | Signal Transduction and Targeted Therapy2023，8，2： | 1 |
| 13 | Significant im- provement of Serratia marcescens lipase fermentation, by optimizing medium, induction, and oxygen supply 显示文摘 | Long Zhangde Xu Jianhe Pan Jiang | 2007 | Applied Biochemistry and Biotechnology2007，142，2： | 1 |
| 14 | Construction and Expression of Serratia Marcescens ECU1010 Lipase (lipA) in Pichia Pastoris显示文摘 | Faxiang Ye Liqiang Fan Jianhe Xu Jian Zhao Wanhong He Minjun Ni | 2010 | Journal of Life Sciences2010，4，3： | 1 |
| 15 | Induction of diploid gynogenesis in turbot Scophthalmus maximus with left-eyed flounder Paralichthys olivaceus sperm显示文摘 | Xu Jianhe You Feng Sun Wei | 2008 | Aquacult Int2008，16，： | 1 |
| 16 | Enzymatic transformation of ginsenosid~ Rg3 to Rh2 using newly isolated Fusarium proliferatum ECU2042显示文摘 | SU Jinhuan XU Jianhe LU Wcnya | 2006 | Journal of Molecular Catalysis B: Enzymatic2006，38，2： | 1 |
| 17 | Asymmetric bioreduction of γ- and δ-keto acids by native carbonyl reductases from Saccharomyces cerevisiae显示文摘Optically pure(R)-γ-and(R)-δ-lactones can be prepared by intramolecular cyclization of chiral hydroxy acids/esters reduced asymmetrically from γ-and δ-keto acids/esters using Saccharomyces cerevisiae(S.cerevisiae) as a whole-cell biocatalyst.However,some of the enzymes catalyzing these reactions in S.cerevisiae are still unknown up to date.In this report,two carbonyl reductases,OdCRl and OdCR2,were successfully discovered,and cloned from S.cerevisiae using a genome-mining approach,and overexpressed in Escherichia coli(E.coli).Compared with OdCR1,OdCR2 can reduce 4-oxodecanoic acid and 5-oxodecanoic acid asymmetrically with higher stereoselectivity,generating(R)-γ-decalactone(99% ee) and(R)-δ-decalactone(98% ee) in 85% and 92%yields,respectively.This is the first report of native enzymes from S.cerevisiae for the enzymatic synthesis of chiral γ-and δ-lactones which is of wide uses in food and cosmetic industries. | Chunlei Ren Tao Wang Xiaoyan Zhang Jiang Pan Jianhe Xu Yunpeng Bai | 2021 | Chinese Journal of Chemical Engineering2021，34，1： | 1 |
| 18 | Immobilization of trophic anaerobic acetogen for semi-continuous syngas fermentation显示文摘The massive consumption of fossil energy force s people to find new source s of energy.Syngas fermentation has become a hot research field as its high potential in renewable energy production and sustainable development.In this study,trophic anaerobic acetogen Morella thermoacetica was successfully immobilized by calcium alginate embedding method.The ability of the immobilized cells on production of acetic acid through syngas fermentation was compared in both airlift and bubble column bioreactors.The bubble column bioreactor was selected as the better type of bioreactor.The production of acetic acid reached 32.3 g·L^(-1) in bubble column bioreactor with a space-time yield of 2.13 g·L^(-1)·d^(-1).The immobilized acetogen could be efficiently reused without significant lag period,even if exposed to air for a short time.A semi-continuous syngas fermentation was performed using immobilized cells,with an average space-time acetic acid yield of 3.20 g·L^(-1)·d^(-1).After 30 days of fermentation,no significant decrea se of the acetic acid production rate was observed. | Lijuan Zhang Peng Hu Jiang Pan Huilei Yu Jianhe Xu | 2021 | Chinese Journal of Chemical Engineering2021，34，1： | 1 |
| 19 | Overexpression of Serratia marcescens lipase in Escherichia coli for efficient bioresolution of racemic ketoprofen显示文摘 | Long Zhangde Xu Jianhe Zhao Lili | 2007 | Journal of Molecular Catalysis B:Enzymatic2007，47，3： | 1 |
| 20 | Efficient kinetic resolu-tion of c//-menthol by lipase-catalyzed enantioselective esteri-fication with acid anhydride in fed-batch reactor 显示文摘 | Xu Jianhe Kawamoto T Tanaka A | 1995 | AppliedMicrobiology and Biotechnology1995，43，3： | 1 |
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