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A metabolic pathway for bile acid dehydroxylation by the gut microbiome 期刊论文
NATURE, 2020
作者:  Zhong, Miao;  Tran, Kevin;  Min, Yimeng;  Wang, Chuanhao;  Wang, Ziyun;  Dinh, Cao-Thang;  De Luna, Phil;  Yu, Zongqian;  Rasouli, Armin Sedighian;  Brodersen, Peter;  Sun, Song;  Voznyy, Oleksandr;  Tan, Chih-Shan;  Askerka, Mikhail;  Che, Fanglin;  Liu, Min;  Seifitokaldani, Ali;  Pang, Yuanjie;  Lo, Shen-Chuan;  Ip, Alexander;  Ulissi, Zachary;  Sargent, Edward H.
收藏  |  浏览/下载:14/0  |  提交时间:2020/07/03

The biosynthetic pathway that produces the secondary bile acids DCA and LCA in human gut microbes has been fully characterized, engineered into another bacterial host, and used to confer DCA production in germ-free mice-an important proof-of-principle for the engineering of gut microbial pathways.


The gut microbiota synthesize hundreds of molecules, many of which influence host physiology. Among the most abundant metabolites are the secondary bile acids deoxycholic acid (DCA) and lithocholic acid (LCA), which accumulate at concentrations of around 500 mu M and are known to block the growth ofClostridium difficile(1), promote hepatocellular carcinoma(2)and modulate host metabolism via the G-protein-coupled receptor TGR5 (ref.(3)). More broadly, DCA, LCA and their derivatives are major components of the recirculating pool of bile acids(4)  the size and composition of this pool are a target of therapies for primary biliary cholangitis and nonalcoholic steatohepatitis. Nonetheless, despite the clear impact of DCA and LCA on host physiology, an incomplete knowledge of their biosynthetic genes and a lack of genetic tools to enable modification of their native microbial producers limit our ability to modulate secondary bile acid levels in the host. Here we complete the pathway to DCA and LCA by assigning and characterizing enzymes for each of the steps in its reductive arm, revealing a strategy in which the A-B rings of the steroid core are transiently converted into an electron acceptor for two reductive steps carried out by Fe-S flavoenzymes. Using anaerobic in vitro reconstitution, we establish that a set of six enzymes is necessary and sufficient for the eight-step conversion of cholic acid to DCA. We then engineer the pathway intoClostridium sporogenes, conferring production of DCA and LCA on a nonproducing commensal and demonstrating that a microbiome-derived pathway can be expressed and controlled heterologously. These data establish a complete pathway to two central components of the bile acid pool.


  
Estimating aboveground net biomass change for tropical and subtropical forests: Refinement of IPCC default rates using forest plot data 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (11) : 3609-3624
作者:  Suarez, Daniela Requena;  39;dja, Justin Kassi;  39;Guessan, Anny Estelle
收藏  |  浏览/下载:11/0  |  提交时间:2019/11/27
biomass change  global ecological zones  IPCC  managed and logged forests  old-growth forests  secondary forests  (sub)tropical forests  
Restoring temperate secondary forests by promoting sprout regeneration: Effects of gap size and within-gap position on the photosynthesis and growth of stump sprouts with contrasting shade tolerance 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2018, 429: 267-277
作者:  Zhang, Ting;  Yan, Qiaoling;  Wang, Jing;  Zhu, Jiaojun
收藏  |  浏览/下载:22/0  |  提交时间:2019/04/09
Foliage traits  Growth  Photosynthetic response  Stump sprouts  Restoration of secondary forests  
Reprint of "Managing drought-sensitive forests under global change. Low competition enhances long-term growth and water uptake in Abies pinsapo" (Reprinted from Journal of Forest Ecology and Management vol 418, 2018) 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2018, 418: 23-33
作者:  Lechuga, Victor;  Carraro, Vinicio;  Vinegla, Benjamin;  Antonio Carreira, Jose;  Carlos Linares, Juan
收藏  |  浏览/下载:9/0  |  提交时间:2019/04/09
Abies pinsapo  Competition  Dendrometer  Drought  Granier sensor  Sap flow  Secondary growth  Thinning  
Managing drought-sensitive forests under global change. Low competition enhances long-term growth and water uptake in Abies pinsapo 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2017, 406
作者:  Lechuga, Victor;  Carraro, Vinicio;  Vinegla, Benjamin;  Antonio Carreira, Jose;  Carlos Linares, Juan
收藏  |  浏览/下载:7/0  |  提交时间:2019/04/09
Abies pinsapo  Competition  Dendrometer  Drought  Granier sensor  Sap flow  Secondary growth  Thinning  
Photoperiod cues and patterns of genetic variation limit phenological responses to climate change in warm parts of species' range: Modeling diameter-growth cessation in coast Douglas-fir 期刊论文
GLOBAL CHANGE BIOLOGY, 2017, 23 (8)
作者:  Ford, Kevin R.;  Harrington, Constance A.;  Clair, J. Bradley St.
收藏  |  浏览/下载:6/0  |  提交时间:2019/04/09
cambial growth  climate change  day length  diameter growth  genecology  phenology  Pseudotsuga menziesii var. menziesii  secondary growth