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Annual aboveground carbon uptake enhancements from assisted gene flow in boreal black spruce forests are not long-lasting 期刊论文
Nature Communications, 2021
作者:  Martin P. Girardin;  Nathalie Isabel;  Xiao Jing Guo;  Manuel Lamothe;  Isabelle Duchesne;  Patrick Lenz
收藏  |  浏览/下载:15/0  |  提交时间:2021/02/22
Differentiation Between Nitrate Aerosol Formation Pathways in a Southeast Chinese City by Dual Isotope and Modeling Studies 期刊论文
JOURNAL OF GEOPHYSICAL RESEARCH-ATMOSPHERES, 2020, 125 (13)
作者:  Xiao, Hong-Wei;  Zhu, Ren-Guo;  Pan, Yuan-Yuan;  Guo, Wei;  Zheng, Neng-Jian;  Liu, Yong-Hui;  Liu, Cheng;  Zhang, Zhong-Yi;  Wu, Jing-Feng;  Kang, Chang-An;  Luo, Li;  Xiao, Hua-Yun
收藏  |  浏览/下载:47/0  |  提交时间:2020/08/18
Recycling and metabolic flexibility dictate life in the lower oceanic crust 期刊论文
NATURE, 2020, 579 (7798) : 250-+
作者:  Zhou, Peng;  Yang, Xing-Lou;  Wang, Xian-Guang;  Hu, Ben;  Zhang, Lei;  Zhang, Wei;  Si, Hao-Rui;  Zhu, Yan;  Li, Bei;  Huang, Chao-Lin;  Chen, Hui-Dong;  Chen, Jing;  Luo, Yun;  Guo, Hua;  Jiang, Ren-Di;  Liu, Mei-Qin;  Chen, Ying;  Shen, Xu-Rui;  Wang, Xi;  Zheng, Xiao-Shuang;  Zhao, Kai;  Chen, Quan-Jiao;  Deng, Fei;  Liu, Lin-Lin;  Yan, Bing;  Zhan, Fa-Xian;  Wang, Yan-Yi;  Xiao, Geng-Fu;  Shi, Zheng-Li
收藏  |  浏览/下载:62/0  |  提交时间:2020/05/13

The lithified lower oceanic crust is one of Earth'  s last biological frontiers as it is difficult to access. It is challenging for microbiota that live in marine subsurface sediments or igneous basement to obtain sufficient carbon resources and energy to support growth(1-3) or to meet basal power requirements(4) during periods of resource scarcity. Here we show how limited and unpredictable sources of carbon and energy dictate survival strategies used by low-biomass microbial communities that live 10-750 m below the seafloor at Atlantis Bank, Indian Ocean, where Earth'  s lower crust is exposed at the seafloor. Assays of enzyme activities, lipid biomarkers, marker genes and microscopy indicate heterogeneously distributed and viable biomass with ultralow cell densities (fewer than 2,000 cells per cm(3)). Expression of genes involved in unexpected heterotrophic processes includes those with a role in the degradation of polyaromatic hydrocarbons, use of polyhydroxyalkanoates as carbon-storage molecules and recycling of amino acids to produce compounds that can participate in redox reactions and energy production. Our study provides insights into how microorganisms in the plutonic crust are able to survive within fractures or porous substrates by coupling sources of energy to organic and inorganic carbon resources that are probably delivered through the circulation of subseafloor fluids or seawater.


  
Improved protein structure prediction using potentials from deep learning 期刊论文
NATURE, 2020, 577 (7792) : 706-+
作者:  Ma, Runze;  Cao, Duanyun;  Zhu, Chongqin;  Tian, Ye;  Peng, Jinbo;  Guo, Jing;  Chen, Ji;  Li, Xin-Zheng;  Francisco, Joseph S.;  Zeng, Xiao Cheng;  Xu, Li-Mei;  Wang, En-Ge;  Jiang, Ying
收藏  |  浏览/下载:157/0  |  提交时间:2020/07/03

Protein structure prediction can be used to determine the three-dimensional shape of a protein from its amino acid sequence(1). This problem is of fundamental importance as the structure of a protein largely determines its function(2)  however, protein structures can be difficult to determine experimentally. Considerable progress has recently been made by leveraging genetic information. It is possible to infer which amino acid residues are in contact by analysing covariation in homologous sequences, which aids in the prediction of protein structures(3). Here we show that we can train a neural network to make accurate predictions of the distances between pairs of residues, which convey more information about the structure than contact predictions. Using this information, we construct a potential of mean force(4) that can accurately describe the shape of a protein. We find that the resulting potential can be optimized by a simple gradient descent algorithm to generate structures without complex sampling procedures. The resulting system, named AlphaFold, achieves high accuracy, even for sequences with fewer homologous sequences. In the recent Critical Assessment of Protein Structure Prediction(5) (CASP13)-a blind assessment of the state of the field-AlphaFold created high-accuracy structures (with template modelling (TM) scores(6) of 0.7 or higher) for 24 out of 43 free modelling domains, whereas the next best method, which used sampling and contact information, achieved such accuracy for only 14 out of 43 domains. AlphaFold represents a considerable advance in protein-structure prediction. We expect this increased accuracy to enable insights into the function and malfunction of proteins, especially in cases for which no structures for homologous proteins have been experimentally determined(7).


  
A genome-wide association study identifies six novel risk loci for primary biliary cholangitis 期刊论文
NATURE COMMUNICATIONS, 2017, 8
作者:  Qiu, Fang;  Tang, Ruqi;  Zuo, Xianbo;  Shi, Xingjuan;  Wei, Yiran;  Zheng, Xiaodong;  Dai, Yaping;  Gong, Yuhua;  Wang, Lan;  Xu, Ping;  Zhu, Xiang;  Wu, Jian;  Han, Chongxu;  Gao, Yueqiu;  Zhang, Kui;  Jiang, Yuzhang;  Zhou, Jianbo;  Shao, Youlin;  Hu, Zhigang;  Tian, Ye;  Zhang, Haiyan;  Dai, Na;  Liu, Lei;  Wu, Xudong;  Zhao, Weifeng;  Zhang, Xiaomin;  Zang, Zhidong;  Nie, Jinshan;  Sun, Weihao;  Zhao, Yi;  Mao, Yuan;  Jiang, Po;  Ji, Hualiang;  Dong, Qing;  Li, Junming;  Li, Zhenzhong;  Bai, Xinli;  Li, Li;  Lin, Maosong;  Dong, Ming;  Li, Jinxin;  Zhu, Ping;  Wang, Chan;  Zhang, Yanqiu;  Jiang, Peng;  Wang, Yujue;  Jawed, Rohil;  Xu, Jing;  Zhang, Yu;  Wang, Qixia;  Yang, Yue;  Yang, Fan;  Lian, Min;  Jiang, Xiang;  Xiao, Xiao;  Li, Yanmei;  Fang, Jingyuan;  Qiu, Dekai;  Zhu, Zhen;  Qiu, Hong;  Zhang, Jianqiong;  Tian, Wenyan;  Chen, Sufang;  Jiang, Ling;  Ji, Bing;  Li, Ping;  Chen, Guochang;  Wu, Tianxue;  Sun, Yan;  Yu, Jianjiang;  Tang, Huijun;  He, Michun;  Xia, Min;  Pei, Hao;  Huang, Lihua;  Qing, Zhuye;  Wu, Jianfang;  Huang, Qinghai;  Han, Junhai;  Xie, Wei;  Sun, Zhongsheng;  Guo, Jian;  He, Gengsheng;  Gershwin, M. Eric;  Lian, Zhexiong;  Liu, Xiang;  Seldin, Michael F.;  Liu, Xiangdong;  Chen, Weichang;  Ma, Xiong
收藏  |  浏览/下载:51/0  |  提交时间:2019/11/27
The formation of nitro-aromatic compounds under high NOx and anthropogenic VOC conditions in urban Beijing, China 期刊论文
ATMOSPHERIC CHEMISTRY AND PHYSICS, 2019, 19 (11) : 7649-7665
作者:  Wang, Yujue;  Hu, Min;  Wang, Yuchen;  Zheng, Jing;  Shang, Dongjie;  Yang, Yudong;  Liu, Ying;  Li, Xiao;  Tang, Rongzhi;  Zhu, Wenfei;  Du, Zhuofei;  Wu, Yusheng;  Guo, Song;  Wu, Zhijun;  Lou, Shengrong;  Hallquist, Mattias;  Yu, Jian Zhen
收藏  |  浏览/下载:25/0  |  提交时间:2019/11/26
Inhibition of the mevalonate pathway enhances cancer cell oncolysis mediated by M1 virus 期刊论文
NATURE COMMUNICATIONS, 2018, 9
作者:  Liang, Jiankai;  Guo, Li;  Li, Kai;  Xiao, Xiao;  Zhu, Wenbo;  Zheng, Xiaoke;  Hu, Jun;  Zhang, Haipeng;  Cai, Jing;  Yu, Yaya;  Tan, Yaqian;  Li, Chuntao;  Liu, Xincheng;  Hu, Cheng;  Liu, Ying;  Qiu, Pengxin;  Su, Xingwen;  He, Songmin;  Lin, Yuan;  Yan, Guangmei
收藏  |  浏览/下载:46/0  |  提交时间:2019/11/27
A Predictive Model for the Streamwise Velocity in the Near-Neutral Atmospheric Surface Layer 期刊论文
JOURNAL OF GEOPHYSICAL RESEARCH-ATMOSPHERES, 2019, 124 (1) : 238-251
作者:  Han, Guo Wen;  Liu, Li;  Bo, Tian Li;  Zheng, Xiao Jing
收藏  |  浏览/下载:9/0  |  提交时间:2019/04/09
streamwise velocity  atmospheric surface layer  modulation effects  large-scale motions  
An autoimmune disease variant of IgG1 modulates B cell activation and differentiation 期刊论文
SCIENCE, 2018, 362 (6415) : 700-+
作者:  Chen, Xiangjun;  Sun, Xiaolin;  Yang, Wei;  Yang, Bing;  Zhao, Xiaozhen;  Chen, Shuting;  He, Lili;  Chen, Hui;  Yang, Changmei;  Xiao, Le;  Chang, Zai;  Guo, Jianping;  He, Jing;  Zhang, Fuping;  Zheng, Fang;  Hu, Zhibin;  Yang, Zhiyong;  Lou, Jizhong;  Zheng, Wenjie;  Qi, Hai;  Xu, Chenqi;  Zhang, Hong;  Shan, Hongying;  Zhou, Xu-jie;  Wang, Qingwen;  Shi, Yi;  Lai, Luhua;  Li, Zhanguo;  Liu, Wanli
收藏  |  浏览/下载:37/0  |  提交时间:2019/11/27
The secondary formation of organosulfates under interactions between biogenic emissions and anthropogenic pollutants in summer in Beijing 期刊论文
ATMOSPHERIC CHEMISTRY AND PHYSICS, 2018, 18 (14) : 10693-10713
作者:  Wang, Yujue;  Hu, Min;  Guo, Song;  Wang, Yuchen;  Zheng, Jing;  Yang, Yudong;  Zhu, Wenfei;  Tang, Rongzhi;  Li, Xiao;  Liu, Ying;  Le Breton, Michael;  Du, Zhuofei;  Shang, Dongjie;  Wu, Yusheng;  Wu, Zhijun;  Song, Yu;  Lou, Shengrong;  Hallquist, Mattias;  Yu, Jianzhen
收藏  |  浏览/下载:27/0  |  提交时间:2019/04/09