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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:44/0  |  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.


  
Long-term physiological and growth responses of Himalayan fir to environmental change are mediated by mean climate 期刊论文
GLOBAL CHANGE BIOLOGY, 2019
作者:  Panthi, Shankar;  Fan, Ze-Xin;  van der Sleen, Peter;  Zuidema, Pieter A.
收藏  |  浏览/下载:23/0  |  提交时间:2020/02/17
central Himalaya  climate change  elevation gradients  high-elevation forests  Himalayan fir (Abies spectabilis)  intrinsic water-use efficiency (iWUE)  long-term growth trends  tree rings  
Tree rings provide no evidence of a CO2 fertilization effect in old-growth subalpine forests of western Canada 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (4) : 1222-1234
作者:  Hararuk, Oleksandra;  Campbell, Elizabeth M.;  Antos, Joseph A.;  Parish, Roberta
收藏  |  浏览/下载:18/0  |  提交时间:2019/04/09
climate change  CO2 fertilization effect  dendroecology  global warming  old-growth forests  tree growth  tree rings  
An intra-stand approach to identify intra-annual growth responses to climate in Pinus nigra subsp laricio Poiret trees from southern Italy 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2018, 425: 9-20
作者:  Mazza, Gianluigi;  Sarris, Dimitrios;  Chiavetta, Ugo;  Ferrara, Rossana M.;  Rana, Gianfranco
收藏  |  浏览/下载:7/0  |  提交时间:2019/04/09
Climate-growth relationships  Tree rings analysis  Water utilization  Mediterranean pine forests  Standardization methods  
Disentangling the effects of acidic air pollution, atmospheric CO2, and climate change on recent growth of red spruce trees in the Central Appalachian Mountains 期刊论文
GLOBAL CHANGE BIOLOGY, 2018, 24 (9) : 3938-3953
作者:  Mathias, Justin M.;  Thomas, Richard B.
收藏  |  浏览/下载:14/0  |  提交时间:2019/04/09
acid deposition  carbon isotopes  elevated CO2  intrinsic water use efficiency  nitrogen isotopes  Picea rubens  tree growth  tree rings  
Forest resilience to drought varies across biomes 期刊论文
GLOBAL CHANGE BIOLOGY, 2018, 24 (5) : 2143-2158
作者:  Gazol, Antonio;  Julio Camarero, Jesus;  Vicente-Serrano, Sergio M.;  Sanchez-Salguero, Raul;  Gutierrez, Emilia;  de Luis, Martin;  Sangueesa-Barreda, Gabriel;  Novak, Klemen;  Rozas, Vicente;  Tiscar, Pedro A.;  Linares, Juan C.;  Martin-Hernandez, Natalia;  Martinez del Castillo, Edurne;  Ribas, Montse;  Garcia-Gonzalez, Ignacio;  Silla, Fernando;  Camison, Alvaro;  Genova, Mar;  Olano, Jose M.;  Longares, Luis A.;  Hevia, Andrea;  Tomas-Burguera, Miquel;  Galvan, J. Diego
收藏  |  浏览/下载:42/0  |  提交时间:2019/04/09
dendroecology  drought stress  forest growth  forest productivity  normalized difference vegetation index  resilience index  tree-rings  
New information for managing Copaifera multijuga Hayne for oleoresin yield 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2018, 414: 85-98
作者:  Medeiros, Raquel da Silva;  Vieira, Gil;  Alves de Almeida, Danilo Roberti;  Fo, Mario Tomazello
收藏  |  浏览/下载:12/0  |  提交时间:2019/04/09
Oleoresin yield  Growth rings  Radial increment  Fallow period  Heartwood percentage  
Annual biomass increment of Xerophytic thickets and sustainability of woody charcoal production in southwestern Madagascar 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2017, 400
作者:  Randriamalala, Josoa Ramarolanonana;  Ramananantoandro, Tahiana;  Radosy, Heriniaina Olivier;  Randriambanona, Herizo;  Herve, Dominique
收藏  |  浏览/下载:10/0  |  提交时间:2019/04/09
Biomass  Productivity  Charcoal  Shrub  Semi-arid  Growth rings  
Tree age determination in the widespread woody plant invader Pittosporum undulatum 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2017, 400
作者:  Borges Silva, L.;  Teixeira, A.;  Alves, M.;  Elias, R. B.;  Silva, L.
收藏  |  浏览/下载:13/0  |  提交时间:2019/04/09
Azores  Growth rate  Pittosporum undulatum  Plant invaders  Tree age  Tree growth rings  Rotation period  
Moose alter the rate but not the trajectory of forest canopy succession after low and high severity fire in Alaska 期刊论文
FOREST ECOLOGY AND MANAGEMENT, 2017, 391
作者:  Conway, Alexandra J.;  Johnstone, Jill F.
收藏  |  浏览/下载:12/0  |  提交时间:2019/04/09
Moose browsing  Alaska  Mixedwoods  Growth rate  Tree rings  Disturbance