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| 1 | Development and applications of functional gene microarrays in the analysis of the functional diversity,composition,and structure of microbial communities显示文摘Functional gene arrays(FGAs)are a special type of microarrays containing probes for key genes involved in microbial functional processes,such as biogeochemical cycling of carbon,nitrogen,sulfur,phosphorus,and metals,biodegradation of environmental contaminants,energy processing,and stress responses.GeoChips are considered as the most comprehensive FGAs.Experimentally established probe design criteria and a computational pipeline integrating sequence retrieval,probe design and verification,array construction,data analysis,and automatic update are used to develop the GeoChip technology.GeoChip has been systematically evaluated and demonstrated to be a powerful tool for rapid,specific,sensitive,and quantitative analysis of microbial communities in a high-throughput manner.Several generations of GeoChip have been developed and applied to investigate the functional diversity,composition,structure,function,and dynamics of a variety of microbial communities from different habitats,such as water,soil,marine,bioreactor,human microbiome,and extreme ecosystems.GeoChip is able to address fundamental questions related to global change,bioenergy,bioremediation,agricultural operation,land use,human health,environmental restoration,and ecological theories and to link the microbial community structure to environmental factors and ecosystem functioning. | Zhili HE Joy DVAN NOSTRAND Ye DENG Jizhong ZHOU | 2011 | Frontiers of Environmental Science & Engineering2011，5，1： | 9 |
| 2 | Physiological effects of weightlessness: countermeasure system development for a long-term Chinese manned spaceflight显示文摘The Chinese space station will be built around 2020. As a national space laboratory, it will offer unique opportunities for studying the physiological effects of weightlessness and the efficacy of the countermeasures against such effects. In this paper, we described the development of countermeasure systems in the Chinese space program. To emphasize the need of the Chinese space program to implement its own program for developing countermeasures, we reviewed the literature on the negative physiological effects of weightlessness, the challenges of completing missions, the development of countermeasure devices, the establishment of countermeasure programs, and the efficacy of the countermeasure techniques in American and Russian manned spaceflights. In addition, a brief overview was provided on the Chinese research and development on countermeasures to discuss the current status and goals of the development of countermeasures against physiological problems associated with weightlessness. | Linjie Wang Zhili Li Cheng Tan Shujuan Liu Jianfeng Zhang Siyang He Peng Zou Weibo Liu Yinghui Li | 2019 | Frontiers of Medicine2019，13，2： | 9 |
| 3 | Host metabolism dysregulation and cell tropism identification in human airway and alveolar organoids upon SARS-CoV-2 infection显示文摘The coronavirus disease 2019(COVID-19)pandemic is caused by infection with the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2),which is spread primary via respiratory droplets and infects the lungs.Currently widely used cell lines and animals are unable to accurately mimic human physiological conditions because of the abnormal status of cell lines(transformed or cancer cells)and species differences between animals and humans.Organoids are stem cell-derived selforganized three-dimensional culture in vitro and model the physiological conditions of natural organs.Here we showed that SARS-CoV-2 infected and extensively replicated in human embryonic stem cells(hESCs)-derived lung organoids,including airway and alveolar organoids which covered the complete infection and spread route for SARS-CoV-2 within lungs.The infected ceils were ciliated,club,and alveolar type 2(AT2)cells,which were sequentially located from the proximal to the distal airway and terminal alveoli,respectively.Additionally,RNA-seq revealed early cell response to virus infection including an unexpected downregulation of the metabolic processes,especially lipid metabolism,in addition to the well-known upregulation of immune response.Further,Remdesivir and a human neutralizing antibody potently inhibited SARS-CoV-2 replication in lung organoids.Therefore,human lung organoids can serve as a pathophysiological model to investigate the underlying mechanism of SARS-CoV-2 infection and to discover and test therapeutic drugs for COVID-19. | Rongjuan Pei Jianqi Feng Yecheng Zhang Hao Sun Lian Li Xuejie Yang Jiangping He Shuqi Xiao Jin Xiong Ying Lin Kun Wen Hongwei Zhou Jiekai Chen Zhili Rong Xinwen Chen | 2021 | Protein & Cell2021，12，9： | 7 |
| 4 | High Thermoelectric Performance of Cu-Doped PbSe-PbS System Enabled by High-Throughput Experimental Screening显示文摘Recent advances in high-throughput(HTP)computational power and machine learning have led to great achievements in exploration of new thermoelectric materials.However,experimental discovery and optimization of thermoelectric materials have long relied on the traditional Edisonian trial and error approach.Herein,we demonstrate that ultrahigh thermoelectric performance in a Cu-doped PbSe-PbS system can be realized by HTP experimental screening and precise property modulation.Combining the HTP experimental technique with transport model analysis,an optimal Se/S ratio showing high thermoelectric performance has been efficiently screened out.Subsequently,based on the screened Se/S ratio,the doping content of Cu has been subtly adjusted to reach the optimum carrier concentration.As a result,an outstanding peak zT~1:6 is achieved at 873 K for a 1.8 at%Cu-doped PbSe_(0.6)S_(0.4) sample,which is the superior value among the n-type Te-free lead chalcogenides.We anticipate that current work will stimulate large-scale unitization of the HTP experimental technique in the thermoelectric field,which can greatly accelerate the research and development of new high-performance thermoelectric materials. | Li You Zhili Li Quanying Ma Shiyang He Qidong Zhang Feng Wang Guoqiang Wu Qingyi Li Pengfei Luo Jiye Zhang Jun Luo | 2020 | Research2020，，1： | 4 |
| 5 | Metabolic and Phylogenetic Profile of Bacterial Community in Guishan Coastal Water(Pearl River Estuary), South China Sea显示文摘Characteristics of a microbial community are important as they indicate the status of aquatic ecosystems. In the present study, the metabolic and phylogenetic profile of the bacterioplankton community in Guishan coastal water(Pearl River Estuary), South China Sea, at 12 sites(S1–S12) were explored by community-level physiological profiling(CLPP) with BIOLOG Eco-plate and denaturing gradient gel electrophoresis(DGGE). Our results showed that the core mariculture area(S6, S7 and S8) and the sites associating with human activity and sewage discharge(S11 and S12) had higher microbial metabolic capability and bacterial community diversity than others(S1–5, S9–10). Especially, the diversity index of S11 and S12 calculated from both CLPP and DGGE data(H >3.2) was higher than that of others as sewage discharge may increase water nitrogen and phosphorus nutrient. The bacterial community structure of S6, S8, S11 and S12 was greatly influenced by total phosphorous, salinity and total nitrogen. Based on DGGE fingerprinting, proteobacteria, especially γ- and α-proteobacteria, were found dominant at all sites. In conclusion, the aquaculture area and wharf had high microbial metabolic capability. The structure and composition of bacterial community were closely related to the level of phosphorus, salinity and nitrogen. | HU Xiaojuan LIU Qing LI Zhuojia HE Zhili GONG Yingxue CAO Yucheng YANG Yufeng | 2014 | Journal of Ocean University of China2014，13，5： | 4 |
| 6 | Influence of endogenous ciliary neurotrophic factor on neural differentiation of adult rat hippocampal progenitors显示文摘Ciliary neurotrophic factor is the only known neurotrophic factor that can promote differentiation of hippocampal neural progenitor cells to glial cells and neurons in adult rats.This process is similar to spontaneous differentiation.Therefore,ciliary neurotrophic factor may be involved in spontaneous differentiation of neural stem cells.To verify this hypothesis,the present study isolated neural progenitor cells from adult male rats and cultured them in vitro.Results showed that when neural progenitor cells were cultured in the absence of mitogen fibroblast growth factor-2 or epidermal growth factor,they underwent spontaneous differentiation into neurons and glial cells.Western blot and immunocytochemical staining showed that exogenous ciliary neurotrophic factor strongly induced adult hippocampal progenitor cells to differentiate into neurons and glial cells.Moreover,passage 4 adult hippocampal progenitor cells expressed high levels of endogenous ciliary neurotrophic factor,and a neutralizing antibody against ciliary neurotrophic factor prevented the spontaneous neuronal and glial differentiation of adult hippocampal progenitor cells.These results suggest that the spontaneous differentiation of adult hippocampal progenitor cells is mediated partially by endogenous ciliary neurotrophic factor. | Jun Ding Zhili He Juan Ruan Ying Liu Chengxin Gong Shenggang Sun Honghui Chen | 2013 | Neural Regeneration Research2013，8，4： | 2 |
| 7 | Applications of functional gene microarrays for profiling microbial communities显示文摘 | Zhili He Joy D Van Nostrand Jizhong Zhou | 2012 | Current Opinion in Biotechnology2012，，3： | 1 |
| 8 | Responses of the functional structure of soil microbial community to livestock grazing in the T ibetan alpine grassland显示文摘 | Yunfeng Yang Linwei Wu Qiaoyan Lin Mengting Yuan Depeng Xu Hao Yu Yigang Hu Jichuang Duan Xiangzhen Li Zhili He Kai Xue Joy van Nostrand Shiping Wang Jizhong Zhou | 2012 | Glob Change Biol2012，，2： | 1 |
| 9 | Study on degradation kinetics of epalrestat in aqueous solutions and characterization of its major degradation products under stress degradation conditions by UHPLC-PDA-MS/MS显示文摘Drug stability is closely related to drug safety and needs to be considered in the process of drug production,package and storage.To investigate the stability of epalrestat,a carboxylic acid derivative,a reversed-phase high-performance liquid chromatography(RP-HPLC)method was developed in this study and applied to analyzing the degradation kinetics of epalrestat in aqueous solutions in various conditions,such as different pH,temperatures,ionic strengths,oxidation and irradiation.The calibration curve was A=1.6×10^5C–1.3×10^3(r=0.999)with the liner range of 0.5–24μg/mL,the intra-day and inter-day precision was less than 2.0%,as was the repeatibility.The average accuracy for different concentrations was more than 98.5%,indicating that perfect recoveries were achieved.Degradation kinetic parameters such as degradation rate constants(k),activation energy(Ea)and shelf life(t0.9)under different conditions were calculated and discussed.The results indicated that the degradation behavior of epalrestat was pH-dependent and the stability of epalrestat decreased with the rised irradiation and ionic strength;however,it was more stable in neutral and alkaline conditions as well as lower temperatures.The results showed that the degradation kinetics of epalrestat followed first-order reaction kinetics.Furthermore,the degradation products of epalrestat under stress conditions were identified by UHPLC-PDA-MS/MS,with seven degradation products being detected and four of them being tentatively identified. | Hong Sun Suyan Liu Xun Gao Zhili Xiong Zhonggui He Longshan Zhao | 2019 | Journal of Pharmaceutical Analysis2019，9，6： | 1 |
| 10 | Metagenomic insights into the effects of submerged plants on functional potential of microbial communities in wetland sediments显示文摘Submerged plants in wetlands play important roles as ecosystem engineers to improve self-purification and promote elemental cycling.However,their effects on the functional capacity of microbial communities in wetland sediments remain poorly understood.Here,we provide detailed metagenomic insights into the biogeochemical potential of microbial communities in wetland sediments with and without submerged plants(i.e.,Vallisneria natans).A large number of functional genes involved in carbon(C),nitrogen(N)and sulfur(S)cycling were detected in the wetland sediments.However,most functional genes showed higher abundance in sediments with submerged plants than in those without plants.Based on the comparison of annotated functional genes in the N and S cycling databases(i.e.,NCycDB and SCycDB),we found that genes involved in nitrogen fixation(e.g.,nifD/H/K/W),assimilatory nitrate reduction(e.g.,nasA and nirA),denitrification(e.g.,nirK/S and nosZ),assimilatory sulfate reduction(e.g.,cysD/H/J/N/Q and sir),and sulfur oxidation(e.g.,glpE,soeA,sqr and sseA)were significantly higher(correctedp<0.05)in vegetated vs.unvegetated sediments.This could be mainly driven by environmental factors including total phosphorus,total nitrogen,and C:N ratio.The binning of metagenomes further revealed that some archaeal taxa could have the potential of methane metabolism including hydrogenotrophic,acetoclastic,and methylotrophic methanogenesis,which are crucial to the wetland methane budget and carbon cycling.This study opens a new avenue for linking submerged plants with microbial functions,and has further implications for understanding global carbon,nitrogen and sulfur cycling in wetland ecosystems. | Binhao Wang Xiafei Zheng Hangjun Zhang Xiaoli Yu Yingli Lian Xueqin Yang Huang Yu Ruiwen Hu Zhili He Fanshu Xiao Qingyun Yan | 2021 | Marine Life Science & Technology2021，3，4： | 1 |
| 11 | Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation显示文摘 | Ye Deng Ping Zhang Yujia Qin Qichao Tu Yunfeng Yang Zhili He Christopher Warren Schadt Jizhong Zhou | 2016 | Environ Microbiol2016，，1： | 1 |
| 12 | GeoChip 4: a functional gene‐array‐based high‐throughput environmental technology for microbial community analysis显示文摘 | Qichao Tu Hao Yu Zhili He Ye Deng Liyou Wu Joy D. Van Nostrand Aifen Zhou James Voordeckers Yong‐Jin Lee Yujia Qin Christopher L. Hemme Zhou Shi Kai Xue Tong Yuan Aijie Wang Jizhong Zhou | 2014 | Mol Ecol Resour2014，，5： | 1 |
| 13 | Micro- bial electricity generation enhances decabromodiphenyl ether (BDE-209) degradation显示文摘 | Yang Yonggang Xu Meiying He Zhili | 2013 | PloS one2013，8，70： | 1 |
| 14 | Analysis method of mechanism action reliability based on virtual prototyping technology显示文摘 | Ji Yujie Sun Zhili Li Liangqiao He Enshan | 2004 | The Proceedings of the 6th International Conference on Reliability Maintainability & Safety2004，，8： | 1 |
| 15 | A low-cost and high efficient zirconium-modified-Na-attapulgite adsorbent for fluoride removal from aqueous solutions显示文摘 | Zhang Gaoke He Zhili | | 0，，： | 1 |
| 16 | Improved method for synthesis of low molecular weight protamine–siRNA conjugate显示文摘RNAi technology has aroused wide public interest due to its high efficiency and specificity to treat multiple types of diseases. However, the effective delivery of siRNA remains a challenge due to its large molecular weight and strong anionic charge. Considering their remarkable functions in vivo and features that are often desired in drug delivery carriers, biomimetic systems for siRNA delivery become an effective and promising strategy. Based on this, covalent attachment of synthetic cell penetrating peptides(CPP) to siRNA has become of great interest. We developed a monomeric covalent conjugate of low molecular weight protamine(LMWP, a well-established CPP) and siRNA via a cytosol-cleavable disulfide linkage using PEG as a crosslinker. Results showed that the conjugates didn't generate coagulation, and exhibited much better RNAi potency and intracellular delivery compared with the conventional charge-complexed CPP/siRNA aggregates. Three different synthetic and purification methods were compared in order to optimize synthesis efficiency and product yield. The methodology using hetero-bifunctional NHS–PEG–OPSS as a crosslinker to synthesize LMWP–siRNA simplified the synthesis and purification process and produced the highest yield. These results pave the way towards siRNA biomimetic delivery and future clinical translation. | Zhili Yu Junxiao Ye Xing Pei Lu Sun Ergang Liu Jianxin Wang Yongzhuo Huang Seung Jin Lee Huining He | 2018 | Acta Pharmaceutica Sinica B2018，8，1： | 1 |
| 17 | Assessment of carbon sink potential and methane reduction scenarios of marine macroalgae(Gracilaria)cultivation显示文摘Marine macroalgae cultivation is an important part of the effort to address climate change through carbon sinks.Gracilaria,especially Gracilaria lemaneiformis and Gracilaria lichenoides are the major macroalgae cultivated in China.This study proposes a method to assess the net carbon sink of marine macroalgae(Gracilaria)cultivation.First,the net carbon sink of Gracilaria cultivation in China is calculated based on the yield of annual cultivated Gracilaria recorded in China Fishery Statistical Yearbook from 2011 to 2020.Next,we predict the net carbon sink trend of Gracilaria cultivation from 2021 to 2030 using the autoregressive integrated moving average model(ARIMA).Finally,the potential carbon sink increase and methane reduction related to Gracilaria cultivation in China is explored through a scenario analysis.We find that the net carbon sink of Gracilaria cultivation in China was about 32.1-92.4 kilotons per year from 2011 to 2020,and shows a great annual growth trend.Moreover,the predicted net carbon sink of Gracilaria cultivation would increase to 77.8-191.4 kilotons per year from 2021 to2030,thereby could contribute considerably in the achievement of China's carbon peak goal.Under a scenario of producing ruminant green feed with additional Gracilaria cultivation,each ton of macroalgae is predicted to reduce carbon emission(i.e.,methane)by 0.33-0.68 tons.Thus,marine macroalgae cultivation might form a synergistic chain of'carbon sink increase-water purification-economy-methane reduction'.This study proposes a synergistic new model that operates through marine macroalgae cultivation,economic aquaculture,and green feed production. | Yifan XU Huanping LIU Yufeng YANG Hongtao SHEN Ruimin ZHANG Cheng WANG Zhijian HUANG Jianguo HE Zhili HE Qingyun YAN | 2023 | Science China Earth Sciences2023，66，5： | 0 |
| 18 | Synergetic roadmap of carbon neutrality and clean air for China显示文摘It is well recognized that carbon dioxide and air pollutants share similar emission sources so that synergetic policies on climate change mitigation and air pollution control can lead to remarkable co-benefits on greenhouse gas reduction,air quality improvement,and improved health.In the context of carbon peak,carbon neutrality,and clean air policies,this perspective tracks and analyzes the process of the synergetic governance of air pollution and climate change in China by developing and monitoring 18 indicators.The 18 indicators cover the following five aspects:air pollution and associated weather-climate conditions,progress in structural transition,sources,inks,and mitigation pathway of atmospheric composition,health impacts and benefits of coordinated control,and synergetic governance system and practices.By tracking the progress in each indicator,this perspective presents the major accomplishment of coordinated control,identifies the emerging challenges toward the synergetic governance,and provides policy recommendations for designing a synergetic roadmap of Carbon Neutrality and Clean Air for China. | Qiang Zhang Zhicong Yin Xi Lu Jicheng Gong Yu Lei Bofeng Cai Cilan Cai Qimin Chai Huopo Chen Hancheng Dai Zhanfeng Dong Guannan Geng Dabo Guan Jianlin Hu Cunrui Huang Jianing Kang Tiantian Li Wei Li Yongsheng Lin Jun Liu Xin Liu Zhu Liu Jinghui Ma Guofeng Shen Dan Tong Xuhui Wang Xuying Wang Zhili Wang Yang Xie Honglei Xu Tao Xue Bing Zhang Da Zhang Shaohui Zhang Shaojun Zhang Xian Zhang Bo Zheng Yixuan Zheng Tong Zhu Jinnan Wang Kebin He | 2023 | Environmental Science and Ecotechnology2023，，4： | 0 |
| 19 | A novel inhibitor of ARfl and ARv7 induces protein degradation to overcome enzalutamide resistance in advanced prostate cancer显示文摘Enzalutamide(ENZ) is a second-generation androgen receptor(AR) antagonist used for the treatment of castration-resistant prostate cancer(CRPC) and reportedly prolongs survival time within a year of starting therapy. However, CRPC patients can develop ENZ resistance(ENZR), mainly driven by abnormal reactivation of AR signaling, involving increased expression of the full-length AR(ARfl)or dominantly active androgen receptor splice variant 7(ARv7) and ARfl/ARv7 heterodimers. There is currently no efficient treatment for ENZR in CRPC. Herein, a small molecule LLU-206 was rationally designed based on the ENZ structure and exhibited potent inhibition of both ARfl and constitutively active ARv7 to inhibit PCa proliferation and suppress ENZR in CRPC. Mechanically, LLU-206 promoted ARfl/ARv7 protein degradation and decreased ARfl/ARv7 heterodimers through mouse double minute 2-mediated ubiquitination. Finally, LLU-206 exhibited favorable pharmacokinetic properties with poor permeability across the blood-brain barrier, leading to a lower prevalence of adverse effects, including seizure and neurotoxicity, than ENZ-based therapies. In a nutshell, our findings demonstrated that LLU-206 could effectively inhibit ARfl/ARv7-driven CRPC by dual-targeting of ARfl/ARv7 heterodimers and protein degradation, providing new insights for the design of new-generation AR inhibitors to overcome ARfl/ARv7-driven CRPC. | Yan Li Ya Chu Guangjiang Shi Xiaobin Wang Wanli Ye Chun Shan Dajia Wang Di Zhang Wei He Jingwei Jiang Shuqian Ma Yuhong Han Zhili Zhao Shijia Du Zhen Chen Zhiyu Li Yong Yang Chen Wang Xi Xu Hongxi Wu | 2022 | Acta Pharmaceutica Sinica B2022，12，11： | 0 |
| 20 | Environmental selection and evolutionary process jointly shape genomic and functional profiles of mangrove rhizosphere microbiomes显示文摘Mangrove reforestation with introduced species has been an important strategy to restore mangrove ecosystem functioning.However,how such activities affect microbially driven methane(CH4),nitrogen(N),and sulfur(S)cycling of rhizosphere microbiomes remains unclear.To understand the effect of environmental selection and the evolutionary process on microbially driven biogeochemical cycles in native and introduced mangrove rhizospheres,we analyzed key genomic and functional profiles of rhizosphere microbiomes from native and introduced mangrove species by metagenome sequencing technologies.Compared with the native mangrove(Kandelia obovata,KO),the introduced mangrove(Sonneratia apetala,SA)rhizosphere microbiome had significantly(p<0.05)higher average genome size(AGS)(5.8 vs.5.5 Mb),average 16S ribosomal RNA gene copy number(3.5 vs.3.1),relative abundances of mobile genetic elements,and functional diversity in terms of the Shannon index(7.88 vs.7.84)but lower functional potentials involved in CH4 cycling(e.g.,mcrABCDG and pmoABC),N2 fixation(nifHDK),and inorganic S cycling(dsrAB,dsrC,dsrMKJOP,soxB,sqr,and fccAB).Similar results were also observed from the recovered Proteobacterial metagenome-assembled genomes with a higher AGS and distinct functions in the introduced mangrove rhizosphere.Additionally,salinity and ammonium were identified as the main environmental drivers of functional profiles of mangrove rhizosphere microbiomes through deterministic processes.This study advances our understanding of microbially mediated biogeochemical cycling of CH_(4),N,and S in the mangrove rhizosphere and provides novel insights into the influence of environmental selection and evolutionary processes on ecosystem functions,which has important implications for future mangrove reforestation. | Xiaoli Yu Qichao Tu Jihua Liu Yisheng Peng Cheng Wang Fanshu Xiao Yingli Lian Xueqin Yang Ruiwen Hu Huang Yu Lu Qian Daoming Wu Ziying He Longfei Shu Qiang He Yun Tian Faming Wang Shanquan Wang Bo Wu Zhijian Huang Jianguo He Qingyun Yan Zhili He | 2023 | mLife2023，2，3： | 0 |
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