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| 1 | Main protease of SARS-CoV-2 serves as a bifunctional molecule in restricting type I interferon antiviral signaling显示文摘Dear Editor,At present,the world is suffering from an ongoing pandemic of 2019 novel coronavirus(COVID-19)which is caused by severe acute respiratory syndrome coronavirus 2(SARS-CoV-2/2019-nCoV).To date,>20 million cases were confirmed with a death toll at>700,000.Although there are no clinically specific and effective antiviral treatments toward SARS-CoV-2 infection so far,the pathological study of SARS-CoV-2 infection and the development of SARS-CoV-2-specific vaccines are progressing rapidly within these several months.1 However,few reports mentioned the mechanism employed by SARS-CoV-2 for evading from surveillance of immune system. | Yaoxing Wu Ling Ma Zhen Zhuang Sihui Cai Zhiyao Zhao Lingli Zhou Jing Zhang Pei-Hui Wang Jincun Zhao Jun Cui | 2020 | Signal Transduction and Targeted Therapy2020，5，1： | 4 |
| 2 | Integration of full-length transcriptomics and targeted metabolomics to identify benzylisoquinoline alkaloid biosynthetic genes in Corydalis yanhusuo显示文摘Corydalis yanhusuo W.T.Wang is a classic herb that is frequently used in traditional Chinese medicine and is efficacious in promoting blood circulation,enhancing energy,and relieving pain.Benzylisoquinoline alkaloids(BIAs)are the main bioactive ingredients in Corydalis yanhusuo.However,few studies have investigated the BIA biosynthetic pathway in C.yanhusuo,and the biosynthetic pathway of species-specific chemicals such as tetrahydropalmatine remains unclear.We performed full-length transcriptomic and metabolomic analyses to identify candidate genes that might be involved in BIA biosynthesis and identified a total of 101 full-length transcripts and 19 metabolites involved in the BIA biosynthetic pathway.Moreover,the contents of 19 representative BIAs in C.yanhusuo were quantified by classical targeted metabolomic approaches.Their accumulation in the tuber was consistent with the expression patterns of identified BIA biosynthetic genes in tubers and leaves,which reinforces the validity and reliability of the analyses.Full-length genes with similar expression or enrichment patterns were identified,and a complete BIA biosynthesis pathway in C.yanhusuo was constructed according to these findings.Phylogenetic analysis revealed a total of ten enzymes that may possess columbamine-O-methyltransferase activity,which is the final step for tetrahydropalmatine synthesis.Our results span the whole BIA biosynthetic pathway in C.yanhusuo.Our full-length transcriptomic data will enable further molecular cloning of enzymes and activity validation studies. | Dingqiao Xu Hanfeng Lin Yuping Tang Lu Huang Jian Xu Sihui Nian Yucheng Zhao | 2021 | Horticulture Research2021，8，1： | 2 |
| 3 | RNA-induced liquid phase separation of SARS-CoV-2 nucleocapsid protein facilitates NF-kB hyper-activation and inflammation显示文摘The ongoing 2019 novel coronavirus disease(COVID-19)caused by SARS-CoV-2 has posed a worldwide pandemic and a major global public health threat.The severity and mortality of COVID-19 are associated with virus-induced dysfunctional inflammatory responses and cytokine storms.However,the interplay between host inflammatory responses and SARS-CoV-2 infection remains largely unknown.Here,we demonstrate that SARS-CoV-2 nucleocapsid(N)protein,the major structural protein of the virion,promotes the virus-triggered activation of NF-kB signaling.After binding to viral RNA,N protein robustly undergoes liquid-liquid phase separation(LLPS),which recruits TAK1 and IKK complex,the key kinases of NF-kB signaling,to enhance NF-kB activation.Moreover,1,6-hexanediol,the inhibitor of LLPS,can attenuate the phase separation of N protein and restrict its regulatory functions in NF-kB activation.These results suggest that LLPS of N protein provides a platform to Induce NF-kB hyper-activation,which could be a potential therapeutic target against COVID-19 severe pneumonia. | Yaoxing Wu Ling Ma Sihui Cai Zhen Zhuang Zhiyao Zhaou Shouheng Jin Weihong Xie Lingli Zhou Lei Zhang Jincun Zhao Jun Cui | 2021 | Signal Transduction and Targeted Therapy2021，6，5： | 2 |
| 4 | All five COVID-19 outbreaks during epidemic period of 2020/2021 in China were instigated by asymptomatic or pre-symptomatic individuals显示文摘Introduction:The significance of asymptomatic or pre-asymptomatic individuals in driving the COVID-19 epidemic in China or other countries remains uncertain.Method:We collected and analyzed all the epidemiologic and virological diagnostic details of the infected individuals released by public health authorities and reiterated every episode of outbreak on a timeline.All individuals associated with the five outbreaks had tested positive for SARS-CoV-2 infection.Results:In this study,all five COVID-19 outbreaks reported in China since October 2020 were analyzed.The Kashgar outbreak in Xinjiang province came into light for the first time on October 22,2020.However,it was initiated before October 11,2020,by a local asymptomatic import and export worker,who was infected at the working place.Subsequently,his wife caught the infection,which led to 430 more infections reported in the outbreak.The Beijing outbreak with 41 cases was noticed for the first time on December 22,2020.However,our analysis revealed that it was initiated by an asymptomatic individual from Indonesia on December 10,2020.The Shenyang outbreak,with 38 cases,noticed for the first time on December 23,2020,was initiated by a pre-symptomatic individual from South Korea on December 13,2020.Conclusion:The asymptomatic or pre-symptomatic individuals during the asymptomatic period were unsuspectingly infected by SARS-CoV-2,and unintentionally transmitted the virus to a large number of people.These findings suggest that early detection of asymptomatic or pre-symptomatic individuals is of critical importance in preventing future outbreaks or epidemics. | Caixin Yang Sihui Zhang Shan Lu Jing Yang Yanpeng Cheng Yue Liu Lijun Zhao Jian Gong Jianguo Xu | 2021 | Journal of Biosafety and Biosecurity2021，3，1： | 1 |
| 5 | Population Genetics of SARS-CoV-2: Disentangling Effects of Sampling Bias and Infection Clusters显示文摘A novel RNA virus,the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2),is responsible for the ongoing outbreak of coronavirus disease 2019(COVID-19).Population genetic analysis could be useful for investigating the origin and evolutionary dynamics of COVID-19.However,due to extensive sampling bias and existence of infection clusters during the epidemic spread,direct applications of existing approaches can lead to biased parameter estimations and data misinterpretation.In this study,we first present robust estimator for the time to the most recent common ancestor(TMRCA)and the mutation rate,and then apply the approach to analyze 12,909 genomic sequences of SARS-CoV-2.The mutation rate is inferred to be 8.69×10^(−4) per site per year with a 95%confidence interval(CI)of[8.61×10^(−4),8.77×10^(−4)],and the TMRCA of the samples inferred to be Nov 28,2019 with a 95%CI of[Oct 20,2019,Dec 9,2019].The results indicate that COVID-19 might originate earlier than and outside of Wuhan Seafood Market.We further demonstrate that genetic polymorphism patterns,including the enrichment of specific haplotypes and the temporal allele frequency trajectories generated from infection clusters,are similar to those caused by evolutionary forces such as natural selection.Our results show that population genetic methods need to be developed to efficiently detangle the effects of sampling bias and infection clusters to gain insights into the evolutionary mechanism of SARS-CoV-2.Software for implementing VirusMuT can be downloaded at http://gffzzdbc7b6aaae734bddsoxkob05cwkw66qwo.ffgz.tsg.suse.edu.cn/biocode/tools/BT007081. | Qi Liu Shilei Zhao Cheng-Min Shi Shuhui Song Sihui Zhu Yankai Su Wenming Zhao Mingkun Li Yiming Bao Yongbiao Xue Hua Chen | 2020 | Genomics, Proteomics & Bioinformatics2020，18，6： | 1 |
| 6 | cGAS guards against chromosome endto-end fusions during mitosis and facilitates replicative senescence显示文摘As a sensor of cytosolic DNA, the role of cyclic GMP-AMP synthase (cGAS) in innate immune response is well established, yet how its functions in different biological conditions remain to be elucidated. Here, we identify cGAS as an essential regulator in inhibiting mitotic DNA double-strand break (DSB) repair and protecting short telomeres from end-to-end fusion independent of the canonical cGAS-STING pathway. cGAS associates with telomeric/subtelomeric DNA during mitosis when TRF1/TRF2/POT1 are deficient on telomeres. Depletion of cGAS leads to mitotic chromosome end-to-end fusions predominantly occurring between short telomeres. Mechanistically, cGAS interacts with CDK1 and positions them to chromosome ends. Thus, CDK1 inhibits mitotic non-homologous end joining (NHEJ) by blocking the recruitment of RNF8. cGAS-deficient human primary cells are defective in entering replicative senescence and display chromosome end-to-end fusions, genome instability and prolonged growth arrest. Altogether, cGAS safeguards genome stability by controlling mitotic DSB repair to inhibit mitotic chromosome end-to-end fusions, thus facilitating replicative senescence. | Xiaocui Li Xiaojuan Li Chen Xie Sihui Cai Mengqiu Li Heping Jin Shu Wu Jun Cui Haiying Liu Yong Zhao | 2022 | Protein & Cell2022，13，1： | 1 |
| 7 | Phase-separated nucleocapsid protein of SARS-CoV-2 suppresses cGAS-DNA recognition by disrupting cGAS-G3BP1 complex显示文摘Currently,the incidence and fatality rate of SARS-CoV-2 remain continually high worldwide.COVID-19 patients infected with SARS-CoV-2 exhibited decreased type I interferon(IFN-I)signal,along with limited activation of antiviral immune responses as well as enhanced viral infectivity.Dramatic progresses have been made in revealing the multiple strategies employed by SARS-CoV-2 in impairing canonical RNA sensing pathways.However,it remains to be determined about the SARS-CoV-2 antagonism of cGAS-mediated activation of IFN responses during infection.In the current study,we figure out that SARS-CoV-2 infection leads to the accumulation of released mitochondria DNA(mtDNA),which in turn triggers cGAS to activate IFN-I signaling.As countermeasures,SARS-CoV-2 nucleocapsid(N)protein restricts the DNA recognition capacity of cGAS to impair cGAS-induced IFN-I signaling.Mechanically,N protein disrupts the assembly of cGAS with its co-factor G3BP1 by undergoing DNA-induced liquid-liquid phase separation(LLPS),subsequently impairs the double-strand DNA(dsDNA)detection ability of cGAS.Taken together,our findings unravel a novel antagonistic strategy by which SARS-CoV-2 reduces DNA-triggered IFN-I pathway through interfering with cGAS-DNA phase separation. | Sihui Cai Chenqiu Zhang Zhen Zhuang Shengnan Zhang Ling Ma Shuai Yang Tao Zhou Zheyu Wang Weihong Xie Shouheng Jin Jincun Zhao Xiangdong Guan Jianfeng Wu Jun Cui Yaoxing Wu | 2023 | Signal Transduction and Targeted Therapy2023，8，5： | 1 |
| 8 | Inorganic Ultrathin 2D Photocatalysts:Modulation Strategies and Environmental/Energy Applications显示文摘CONSPECTUS:Photocatalysis technology has gained extensive attention in the past few decades due to its potential to alleviate or solve energy and environmental contamination problems.The development and design of new photocatalytic semiconductor materials with high catalytic activity has become a research hotspot in this field.In recent years,inorganic ultrathin two-dimensional(2D)semiconductor photocatalysts have shown excellent performance in photocatalytic applications due to their high specific surface area,clear atomic structure,unique electronic structure,intrinsic quantum confined electrons,and high atomic exposure ratio.When the thickness of the bulk semiconductor is decreased to the atomic level,its local atomic structure changes prominently.This is a major reason why the atomic thin 2D materials could show improved inherent properties and produce new properties that are not available in the corresponding bulk semiconductors.Furthermore,compared with the bulk photocatalysts,the surface electronic structure of inorganic ultrathin 2D materials is more sensitive and thus could be regulated more easily by surface and interfacial modification methods,leading to great optimization of photocatalytic properties.Therefore,inorganic ultrathin 2D materials not only provide an ideal reaction model for clearly revealing the relationships between surface/interface structure characteristics and photocatalytic performance but also bring new opportunities for the development of efficient catalysts to resolve energy crises and environmental problems.In this Account,we summarize our previous work on the applications of inorganic ultrathin 2D nanomaterials in the field of photocatalysis.First,we briefly introduce the classification and controlled fabrication of inorganic ultrathin 2D nanomaterials,including metal chalcogenides,bismuth-based photocatalysts,metal oxides,and metal-free materials.Then,we focus on the surface and interfacial modification strategies for effectively engineering the photocatalytic activity of 2D photocatalysts,including defect engineering,metal doping,single atom loading,and heterojunction construction.These strategies can effectively adjust the inherent physical and chemical properties of inorganic ultrathin 2D nanomaterials,change their electronic structure to improve the light absorption ability,promote the separation and migration of photogenerated electrons and holes,optimize the catalytic active sites,and even change the reaction energy barrier of the photocatalytic reaction.Additionally,we discuss the research progress of inorganic ultrathin 2D photocatalysts in hydrogen evolution,contaminant removal,and sterilization.Finally,we put forward the prospects,challenges,and novel viewpoints of feasible solutions of inorganic ultrathin 2D materials in photocatalysis applications.Overall,this Account provides in-depth insight into modulation strategies and the structure−activity relationship of inorganic ultrathin 2D materials for researchers in photocatalytic fields,which is beneficial to accelerate the practical applications of inorganic ultrathin 2D materials in the field of environment and energy. | Mingmei Li He Zhang Zhiyong Zhao Pengfei Wang Yi Li Sihui Zhan | 2023 | Accounts of Materials Research2023，4，1： | 0 |
| 9 | Metagenomic evidence for the co-existence of SARS and H1N1 in patients from 2007-2012 flu seasons in France显示文摘By re-analzying public metagenomic data from 101 patients infected with influenza A virus during the 2007–2012 H1N1 flu seasons in France,we identified 22 samples with SARS-CoV sequences.In three of them,the SARS genome sequences could be fully assembled out of each.These sequences are highly similar(99.99%and 99.70%)to the artificially constructed recombinant SARS-CoV(SARSr-CoV)strains generated by the J.Craig Venter Institute in the USA.Moreover,samples from different flu seasons have different SARS-CoV strains,and the divergence between these strains cannot be explained by natural evolution.Our study also shows that retrospective studies using public metagenomic data from past major epidemic outbreaks serve as a genomic strategy for the research of the origins or spread of infectious diseases. | Qi Liu Zhenglin Du Sihui Zhu Wenming Zhao Hua Chen Yongbiao Xue | 2021 | Biosafety and Health2021，3，6： | 0 |
| 10 | Tailoring the surface and interface structures of photocatalysts to enhance hydrogen production显示文摘Photocatalytic water splitting using semiconductor photocatalysts is a promising approach for the production of carbon-neutral,sustainable and clean hydrogen fuel.However,the separation and transport of photoinduced carriers are generally considered to be rate-limiting steps,and their low efficiency remains a major challenge.Therefore,much effort has been devoted to developing new strategies in surface/interface engineering of photocatalysts to improve the dynamics of charge separation/transport.This feature article briefly summarizes recent advances in photocatalyst surface/interface engineering by our research group,which have been achieved through the design of various novel photocatalysts,including interfacial modulation,heterostructure construction,heteroatom doping,single atom and diatom sites.The article is divided into three parts:first,we briefly introduce the three key processes involved in solar water splitting and reveal relationships between the properties of nanostructural photocatalysts and the fundamentals of water splitting;second,we detail methods and strategies for surface and interfacial structures to improve the efficiency of the fundamental processes,especially charge separation;finally,we explore prospects for photocatalytic water splitting applications.This article provides a valuable resource and strategies for researchers currently working in the field of photocatalytic water splitting. | Tao Zhang Pengfei Wang Shuai Yue Fei Li Zhiyong Zhao Sihui Zhan | 2024 | Science China Chemistry2024，67，4： | 0 |
| 11 | A Unifi ed View of Carbon Neutrality:Solar-Driven Selective Upcycling of Waste Plastics显示文摘With the rapid development of plastic production and consumption globally,the amount of post-consumer plastic waste has reached levels that have posed environmental threats.Considering the substantial CO_(2)emissions throughout the plastic lifecycle from material production to its disposal,photocatalysis is considered a promising strategy for eff ective plastic recycling and upcycling.It can upgrade plastics into value-added products under mild conditions using solar energy,realizing zero carbon emissions.In this paper,we explain the basics of photocatalytic plastic reformation and underscores plastic feedstock reformation pathways into high-value-added products,including both degradation into CO_(2)followed by reformation and direct reformation into high-value-added products.Finally,the current applications of transforming plastic waste into fuels,chemicals,and carbon materials and the outlook on upcycling plastic waste by photocatalysis are presented,facilitating the realization of carbon neutrality and zero plastic waste. | Zhiyong Zhao Shuai Yue Gaohua Yang Pengfei Wang Sihui Zhan | 2024 | Transactions of Tianjin University2024，30，1： | 0 |
| 12 | Genetic and immunologic characteristics of colorectal cancer patients with KRAS mutations and predictive significance of tumor immune microenvironment in adjuvant chemotherapy显示文摘Colorectal cancer(CRC)is one of the most common cancers around the world,and it is one of the leading causes of cancer-related death.1 Although anti-EGFR therapy and immune checkpoint inhibitor(ICl)therapy are becoming more and more important for colorectal therapy,however,clinical outcomes of current treatments for metastatic CRC,especially with ICls,have been shown to be affected by the status of KRAS.Therefore,KRAS mutation status detection has become a very important diagnostic factor for managing metastatic CRC patients. | Zhengqi Wen Wenliang Li Chengmin Shi Junrui Ma Sihui Zhao Ruize Zhou Xihong Liu Rong Yang Zhiping Zhang Hushan Zhang Bo Li | 2024 | Genes & Diseases2024，11，3： | 0 |
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