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| 1 | MicroTom Metabolic Network: Rewiring Tomato Metabolic Regulatory Network throughout the Growth Cycle显示文摘Tomato(Solanum lycopersicum)is a major horticultural crop worldwide and has emerged as a preeminent model for metabolic research.Although many research efforts have focused on the analysis of metabolite differences between varieties and species,the dynamics of metabolic changes during the tomato growth cycle and the regulatory networks that underlie these changes are poorly understood.In this study,we integrated high-resolution spatio-temporal metabolome and transcriptome data to systematically explore the metabolic landscape across 20 major tomato tissues and growth stages.In the resulting MicroTom Metabolic Network,the 540 detected metabolites and their co-expressed genes could be divided into 10 distinct clusters based on their biological functions.Using this dataset,we constructed a global map of the major metabolic changes that occur throughout the tomato growth cycle and dissected the underlying regulatory network.In addition to verifying previously well-established regulatory networks for important metabolites,we identified novel transcription factors that regulate the biosynthesis of important secondary metabolites such as steroidal glycoalkaloids and flavonoids.Our findings provide insights into spatiotemporal changes in tomato metabolism and generate a valuable resource for the study of metabolic regulatory processes in model plants. | Yan Li Yang Chen Lu Zhou Shengjie You Heng Deng Ya Chen Saleh Alseekh Yong Yuan Rao Fu Zixin Zhang Dan Su Alisdair R.Fernie Mondher Bouzayen Tao Ma Mingchun Liu Yang Zhang | 2020 | Molecular Plant2020，13，8： | 10 |
| 2 | Mesozoic–Cenozoic Tectonic Evolution and Uplift in Pamir:Application of Fission Track Thermochronology显示文摘The Pamir Plateau can be divided into three secondary tectonic units from north to south:the North,the Middle and the South Pamir Blocks.The North Pamir Block belonged to the southern margin of Tarim-Karakum,thermochronological study of the Pamir structural intersection indicates that accretion of the Middle Pamir Block to the Eurasian Continental Margin and its subduction and collision with the North Pamir Block occurred in the Middle–Late Jurassic.Due to the Neo-Tethys closure in the Early Cretaceous,the South Pamir Block began to collide with the accretion(the Middle Pamir Block)of the Eurasian Continental Margin.Affected by the collision and continuous convergence between the Indian Plate and the Eurasian Plate since the Cenozoic,Pamir is in a multi-stage differential uplift process.During 56.1–48.5 Ma,North Pamir took the lead in uplifting,that is,the first rapid uplift in the Pamir region began there.The continuous compression and contraction of the Indian and Eurasian plates during 22.0–15.1 Ma forced the Pamir tectonic syntaxis to begin its overall uplift,i.e.Pamir began to enter the second rapid uplift stage in the Early Oligocene,which lasted until the Middle Miocene.During 14.6–8.5Ma,South Pamir was in a rapid uplift stage,while North Pamir was in a relatively stable state,showing asymmetry of tectonic deformation in the Pamir region in space.Since 6.5 Ma,Pamir began to rapidly uplift again. | FAN Baocheng LIU Mingyi HE Zixin MENG Guanglu WU Huanhuan LI Lu | 2021 | Acta Geologica Sinica(English Edition)2021，95，3： | 3 |
| 3 | Multiplex genome editing using a dCas9-cytidine deaminase fusion in Streptomyces显示文摘CRISPR/Cas-mediated genome editing has greatly facilitated the study of gene function in Streptomyces. However, it could not be efficiently employed in streptomycetes with low homologous recombination(HR) ability. Here, a deaminase-assisted base editor d Cas9-CDA-ULstr was developed in Streptomyces, which comprises the nuclease-deficient Cas9(dCas9), the cytidine deaminase from Petromyzon marinus(PmCDA1), the uracil DNA glycosylase inhibitor(UGI) and the protein degradation tag(LVA tag). Using d Cas9-CDA-ULstr , we achieved single-, double-and triple-point mutations(cytosine-to-thymine substitutions)at target sites in Streptomyces coelicolor with efficiency up to 100%, 60% and 20%, respectively. This base editor was also demonstrated to be highly efficient for base editing in the industrial strain, Streptomyces rapamycinicus, which produces the immunosuppressive agent rapamycin. Compared with base editors derived from the cytidine deaminase rAPOBEC1, the PmCDA1-assisted base editor dCas9-CDA-ULstr could edit cytosines preceded by guanosines with high efficiency, which is a great advantage for editing Streptomyces genomes(with high GC content). Collectively, the base editor dCas9-CDA-ULstr could be employed for efficient multiplex genome editing in Streptomyces. Since the d Cas9-CDA-ULstr -based genome editing is independent of HR-mediated DNA repair, we believe this technology will greatly facilitate functional genome research and metabolic engineering in Streptomyces strains with weak HR ability. | Yawei Zhao Jinzhong Tian Guosong Zheng Jun Chen Chuanwen Sun Zhongyi Yang Andrei A.Zimin Weihong Jiang Zixin Deng Zhijun Wang Yinhua Lu | 2020 | Science China(Life Sciences)2020，63，7： | 2 |
| 4 | Stabilization Analysis for Discrete-Time Systems with Time Delay显示文摘 | Liu Zixin Lu Shu Zhong Shouming | 2010 | Ap- plied Mathematics and Computation2010，216，7： | 1 |
| 5 | Stabilization Analysis for Discrete-Time Systems with Time Delay显示文摘 | Liu Zixin LU Shu Zhong Shouming | 2010 | Applied Mathematics and Computation2010，216，7： | 1 |
| 6 | A near-complete genome assembly of the allotetrapolyploid Cenchrus fungigraminus(JUJUNCAO)provides insights into its evolution and C4 photosynthesis显示文摘JUJUNCAO(Cenchrus fungigraminus;2n=4x=28)is a Cenchrus grass with the highest biomass production among cultivated plants,and it can be used for mushroom cultivation,animal feed,and biofuel production.Here,we report a nearly complete genome assembly of JUJUNCAO and reveal that JUJUNCAO is an allopolyploid that originated2.7 million years ago(mya).Its genome consists of two subgenomes,and subgenome A shares high collinear synteny with pearl millet.We also investigated the genome evolution of JUJUNCAO and suggest that the ancestral karyotype of Cenchrus split into the A and B ancestral karyotypes of JUJUNCAO.Comparative transcriptome and DNA methylome analyses revealed functional divergence of homeologous gene pairs between the two subgenomes,which was a further indication of asymmetric DNA methylation.The three types of centromeric repeat in the JUJUNCAO genome(CEN137,CEN148,and CEN156)may have evolved independently within each subgenome,with some introgressions of CEN156 from the B to the A subgenome.We investigated the photosynthetic characteristics of JUJUNCAO,revealing its typical C4 Kranz anatomy and high photosynthetic efficiency.NADP-ME and PEPCK appear to cooperate in the major C4 decarboxylation reaction of JUJUNCAO,which is different from other C4 photosynthetic subtypes and may contribute to its high photosynthetic efficiency and biomass yield.Taken together,our results provide insights into the highly efficient photosynthetic mechanism of JUJUNCAO and provide a valuable reference genome for future genetic and evolutionary studies,as well as genetic improvement of Cenchrus grasses. | Huakun Zheng Baiyu Wang Xiuting Hua Ruiting Gao Yuhao Wang Zixin Zhang Yixing Zhang Jing Mei Yongji Huang Yumin Huang Hui Lin Xingtan Zhang Dongmei Lin Siren Lan Zhongjian Liu Guodong Lu Zonghua Wang Ray Ming Jisen Zhang Zhanxi Lin | 2023 | Plant Communications2023，4，5： | 1 |
| 7 | Impact of age and tumor size on the development of the Kasabach-Merritt phenomenon in patients with kaposiform hemangioendothelioma:a retrospective cohort study显示文摘Introduction The Kasabach–Merritt phenomenon(KMP)is a severe complication of kaposiform hemangioendothelioma(KHE).The risk factors for KMP need further investigation.Methods The medical records of patients with KHE were reviewed.Univariate and multivariate logistic regression models were used for the risk factors for KMP,and the area under the receiver operator characteristic(ROC)curve was used to assess the predictive power of risk factors.Results A total of 338 patients with KHE were enrolled.The incidence of KMP was 45.9%.Age of onset(P<0.001,odds ratio[OR]0.939;95%confidence interval[CI]0.914–0.966),lesion size(P<0.001,OR 1.944;95%CI 1.646–2.296),mixed type(P=0.030,OR 2.428;95%CI 1.092–5.397),deep type(P=0.010,OR 4.006;95%CI 1.389–11.556),and mediastinal or retroperitoneal lesion location(P=0.019,OR 11.864;95%CI 1.497–94.003)were correlated with KMP occurrence through multivariate logistic regression.ROC curve analysis revealed that the optimal cutoffs were 4.75 months for the age of onset(P<0.001,OR 7.206,95%CI 4.073–12.749)and a lesion diameter of 5.35 cm(P<0.001,OR 11.817,95%CI 7.084–19.714).Bounded by a lesion size of 5.35 cm,we found significant differences in tumor morphology,age of onset,treatments,and hematological parameters.Using an onset age of 4.75 months as a cutoff,we found significant differences in tumor morphology,lesion size,hematological parameters,and prognosis.Conclusion For KHE patients with an onset age<4.75 months and/or lesion diameter>5.35 cm,clinicians should be wary of the occurrence of KMP.Active management is recommended to improve the prognosis. | Jiangyuan Zhou Yuru Lan Tong Qiu Xue Gong Zixin Zhang Chunshui He Qiang Peng Fan Hu Xuepeng Zhang Guoyan Lu Liqing Qiu Feiteng Kong Yongbo Zhang Siyuan Chen Yi Ji | 2023 | Precision Clinical Medicine2023，6，2： | 0 |
| 8 | 黄脂菌素生物合成中单加氧酶XanO4催化吨酮形成依赖于隐藏的脱甲氧基反应显示文摘黄脂菌素及其若干多环呫吨酮类抗生素,是一类具有独特的呫吨酮结构和显著抗真菌及抗肿瘤活性的微生物天然产物,但该类抗生素中与发挥生物活性有关的呫吨酮的生物合成机制一直不清楚。 | Lingxin Kong Weike Zhang Yit Heng Chooi Lu Wang Bo Cao Zixin Deng Yiwen Chu 由德林 | 2017 | 科学新闻2017，19，4： | 0 |
| 9 | The concordance between the evolutionary trend and the clinical manifestation of the two SARS-CoV-2 variants显示文摘Coronavirus disease 2019(COVID-19),the disease caused by infection with severe acute respiratory syndrome coronavirus 2(SARS-CoV-2),has developed into a global pandemic that continues to pose an enormous threat to public health and the global economy.Since the first SARS-CoV-2 genome was released[1],thousands of genetic variants have been identified in SARS-CoV-2 strains isolated from worldwide patients. | Ben Hu Ran Liu Xiaolu Tang Yuchen Pan Ming Wang Yongqing Tong Guangming Ye Gaigai Shen Ruochen Ying Aisi Fu Di Li Wanxu Zhao Jing Peng Jie Guo Dong Men Xinmin Yao Yirong Wang Hong Zhang Zhihui Feng Junping Yu Liangjun Chen Zixin Deng Xuemei Lu Ya-Ping Zhang Yirong Li Bende Liu Lilei Yu Yan Li Jian Lu Tiangang Liu | 2021 | National Science Review2021，8，8： | 0 |
| 10 | Dwell time and bloodstream infection incidence of umbilical venous catheterization in China显示文摘Importance:Central line-associated bloodstream infection(CLABSI)is one of the most serious complications of central venous access devices.Reducing the risk of CLABSI is of utmost significance in efforts to improve neonatal mortality rates and enhance long-term prognosis.Objective:To determine the dwell time and incidence of CLABSI of umbilical venous catheterization(UVC)for preterm infants in China.Methods:Preterm infants with UVC admitted to 44 tertiary neonatal intensive care units in 24 provinces in China were enrolled.Study period was from November 2019 to August 2021.The end point of observations was 48 h after umbilical venous(UV)catheter removal.The primary outcomes were dwell time of UV catheter and UVC-associated CLABSI.Data between infants with UV catheter dwell time≤7 days and>7 days,and with birth weight(BW)≤1000 g and>1000 g were compared.Results:In total,2172 neonates were enrolled(gestational age 30.0±2.4 weeks,BW 1258.5±392.8 g).The median UV catheter dwell time was 7(6–10)days.The incidence of UVC-associated CLABSI was 3.03/1000 UV catheter days.For infants with UV catheter dwell time≤7 days and>7 days,the UVC-associated CLABSI incidence was 3.71 and 2.65 per 1000 UV catheter days,respectively,P=0.23.For infants with UVC dwell times of 3–6,7–12,and 13–15 days,the UVC-associated CLABSI rates were 0.14%,0.68%,and 2.48%(P<0.01).The Kaplan–Meier plot of UV catheter dwell time to CLABSI showed no difference between infants with BW≤1000 g and>1000 g(P=0.60).Interpretation:The median dwell time of UV catheter was 7 days,and the incidence of UVC-associated CLABSI was 3.03/1000 catheter days in China.The daily risk of UVC-associated CLABSI and other complications increased with the dwell time. | Xu Zheng Dan He Zixin Yang Lu Chen Min Jiang Yujie Qi Fei Qin Jie Yu Yaguang Peng Ling Liu Mingyan Hei | 2023 | Pediatric Investigation2023，7，4： | 0 |
| 11 | A phylogenetic approach identifies patterns of beta diversity and floristic subregions of the Qinghai-Tibet Plateau显示文摘Patterns of taxonomic and phylogenetic beta diversity and their relationships with environmental correlates can help reveal the origin and evolutionary history of regional biota.The Qinghai-Tibet Plateau(QTP)harbors an exceptionally diverse flora,however,a phylogenetic perspective has rarely been used to investigate its beta diversity and floristic regions.In this study,we used a phylogenetic approach to identify patterns of beta diversity and quantitatively delimit floristic regions on the Qinghai-Tibet Plateau.We also examined the relationships between multifaceted beta diversity,geographical distance,and climatic difference,and evaluated the relative importance of various factors(i.e.,climate,topography and history)in shaping patterns of beta diversity.Sørensen dissimilarity indices indicated that patterns of species turnover among sites dominated the QTP.We also found that patterns of both taxonomic and phylogenetic beta diversity were significantly related to geographical distance and climatic difference.The environmental factors that contributed most to these patterns of beta diversity include annual precipitation,mean annual temperature,climatic gradients and climatic instability.Hierarchical dendrograms of dissimilarity and non-metric multidimensional scaling ordination based on phylogenetic beta diversity data identified ten floristic subregions in the QTP.Our results suggest that the contemporary environment and historical climate changes have filtered species composition among sites and eventually determined beta diversity patterns of plants in the QTP. | Haibin Yu Man Yang Zixin Lu Weitao Wang Fangyuan Yu Yonghua Zhang Xue Yin Hongjun Yu Junjie Hu David C.Deane | 2024 | Plant Diversity2024，46，1： | 0 |
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