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Atmospheric chemical loss processes of isocyanic acid (HNCO): a combined theoretical kinetic and global modelling study 期刊论文
ATMOSPHERIC CHEMISTRY AND PHYSICS, 2020, 20 (11) : 6671-6686
作者:  Rosanka, Simon;  Vu, Giang H. T.;  Nguyen, Hue M. T.;  Pham, Tien, V;  Javed, Umar;  Taraborrelli, Domenico;  Vereecken, Luc
收藏  |  浏览/下载:10/0  |  提交时间:2020/06/16
Extant timetrees are consistent with a myriad of diversification histories 期刊论文
NATURE, 2020, 580 (7804) : 502-+
作者:  Bhaskar, M. K.;  Riedinger, R.;  Machielse, B.;  Levonian, D. S.;  Nguyen, C. T.;  Knall, E. N.;  Park, H.;  Englund, D.;  Loncar, M.;  Sukachev, D. D.;  Lukin, M. D.
收藏  |  浏览/下载:19/0  |  提交时间:2020/07/03

An infinite number of alternative diversification scenarios-which may have markedly different, but equally plausible, dynamics-can underpin a given time-calibrated phylogeny of extant species, suggesting many previous studies have over-interpreted phylogenetic evidence.


Time-calibrated phylogenies of extant species (referred to here as '  extant timetrees'  ) are widely used for estimating diversification dynamics(1). However, there has been considerable debate surrounding the reliability of these inferences(2-5) and, to date, this critical question remains unresolved. Here we clarify the precise information that can be extracted from extant timetrees under the generalized birth-death model, which underlies most existing methods of estimation. We prove that, for any diversification scenario, there exists an infinite number of alternative diversification scenarios that are equally likely to have generated any given extant timetree. These '  congruent'  scenarios cannot possibly be distinguished using extant timetrees alone, even in the presence of infinite data. Importantly, congruent diversification scenarios can exhibit markedly different and yet similarly plausible dynamics, which suggests that many previous studies may have over-interpreted phylogenetic evidence. We introduce identifiable and easily interpretable variables that contain all available information about past diversification dynamics, and demonstrate that these can be estimated from extant timetrees. We suggest that measuring and modelling these identifiable variables offers a more robust way to study historical diversification dynamics. Our findings also make it clear that palaeontological data will continue to be crucial for answering some macroevolutionary questions.


  
Dietary fructose feeds hepatic lipogenesis via microbiota-derived acetate 期刊论文
NATURE, 2020, 579 (7800) : 586-+
作者:  Ng, Andrew H.;  Nguyen, Taylor H.;  Gomez-Schiavon, Mariana;  Dods, Galen;  Langan, Robert A.;  Boyken, Scott E.;  Samson, Jennifer A.;  Waldburger, Lucas M.;  Dueber, John E.;  Baker, David;  El-Samad, Hana
收藏  |  浏览/下载:29/0  |  提交时间:2020/07/03

A genetic mouse model is used to reveal a two-pronged mechanism of fructose-induced de novo lipogenesis in the liver, in which fructose catabolism in hepatocytes provides a signal to promote lipogenesis, whereas fructose metabolism by the gut microbiota provides acetate as a substrate to feed lipogenesis.


Consumption of fructose has risen markedly in recent decades owing to the use of sucrose and high-fructose corn syrup in beverages and processed foods(1), and this has contributed to increasing rates of obesity and non-alcoholic fatty liver disease(2-4). Fructose intake triggers de novo lipogenesis in the liver(4-6), in which carbon precursors of acetyl-CoA are converted into fatty acids. The ATP citrate lyase (ACLY) enzyme cleaves cytosolic citrate to generate acetyl-CoA, and is upregulated after consumption of carbohydrates(7). Clinical trials are currently pursuing the inhibition of ACLY as a treatment for metabolic diseases(8). However, the route from dietary fructose to hepatic acetyl-CoA and lipids remains unknown. Here, using in vivo isotope tracing, we show that liver-specific deletion of Acly in mice is unable to suppress fructose-induced lipogenesis. Dietary fructose is converted to acetate by the gut microbiota(9), and this supplies lipogenic acetyl-CoA independently of ACLY(10). Depletion of the microbiota or silencing of hepatic ACSS2, which generates acetyl-CoA from acetate, potently suppresses the conversion of bolus fructose into hepatic acetyl-CoA and fatty acids. When fructose is consumed more gradually to facilitate its absorption in the small intestine, both citrate cleavage in hepatocytes and microorganism-derived acetate contribute to lipogenesis. By contrast, the lipogenic transcriptional program is activated in response to fructose in a manner that is independent of acetyl-CoA metabolism. These data reveal a two-pronged mechanism that regulates hepatic lipogenesis, in which fructolysis within hepatocytes provides a signal to promote the expression of lipogenic genes, and the generation of microbial acetate feeds lipogenic pools of acetyl-CoA.


  
Elpistostege and the origin of the vertebrate hand 期刊论文
NATURE, 2020, 579 (7800) : 549-+
作者:  Ng, Andrew H.;  Nguyen, Taylor H.;  Gomez-Schiavon, Mariana;  Dods, Galen;  Langan, Robert A.;  Boyken, Scott E.;  Samson, Jennifer A.;  Waldburger, Lucas M.;  Dueber, John E.;  Baker, David;  El-Samad, Hana
收藏  |  浏览/下载:34/0  |  提交时间:2020/07/03

The pectoral fin of an Elpistostege watsoni specimen from the Upper Devonian period of Canada combines digits and fin rays, blurring the line between the appendages of fish and land vertebrates.


The evolution of fishes to tetrapods (four-limbed vertebrates) was one of the most important transformations in vertebrate evolution. Hypotheses of tetrapod origins rely heavily on the anatomy of a few tetrapod-like fish fossils from the Middle and Late Devonian period (393-359 million years ago)(1). These taxa-known as elpistostegalians-include Panderichthys(2), Elpistostege(3,4) and Tiktaalik(1,5), none of which has yet revealed the complete skeletal anatomy of the pectoral fin. Here we report a 1.57-metre-long articulated specimen of Elpistostege watsoni from the Upper Devonian period of Canada, which represents-to our knowledge-the most complete elpistostegalian yet found. High-energy computed tomography reveals that the skeleton of the pectoral fin has four proximodistal rows of radials (two of which include branched carpals) as well as two distal rows that are organized as digits and putative digits. Despite this skeletal pattern (which represents the most tetrapod-like arrangement of bones found in a pectoral fin to date), the fin retains lepidotrichia (fin rays) distal to the radials. We suggest that the vertebrate hand arose primarily from a skeletal pattern buried within the fairly typical aquatic pectoral fin of elpistostegalians. Elpistostege is potentially the sister taxon of all other tetrapods, and its appendages further blur the line between fish and land vertebrates.


  
Effects of Chemical Feedbacks on Decadal Methane Emissions Estimates 期刊论文
GEOPHYSICAL RESEARCH LETTERS, 2020, 47 (3)
作者:  Nguyen, Newton H.;  Turner, Alexander J.;  Yin, Yi;  Prather, Michael J.;  Frankenberg, Christian
收藏  |  浏览/下载:5/0  |  提交时间:2020/07/02
Recurrent interactions in local cortical circuits 期刊论文
NATURE, 2020, 579 (7798) : 256-+
作者:  Liu, Yang;  Nguyen, Phong T.;  Wang, Xun;  Zhao, Yuting;  Meacham, Corbin E.;  Zou, Zhongju;  Bordieanu, Bogdan;  Johanns, Manuel;  Vertommen, Didier;  Wijshake, Tobias;  May, Herman;  Xiao, Guanghua;  Shoji-Kawata, Sanae;  Rider, Mark H.
收藏  |  浏览/下载:8/0  |  提交时间:2020/07/03

Most cortical synapses are local and excitatory. Local recurrent circuits could implement amplification, allowing pattern completion and other computations(1-4). Cortical circuits contain subnetworks that consist of neurons with similar receptive fields and increased connectivity relative to the network average(5,6). Cortical neurons that encode different types of information are spatially intermingled and distributed over large brain volumes(5-7), and this complexity has hindered attempts to probe the function of these subnetworks by perturbing them individually(8). Here we use computational modelling, optical recordings and manipulations to probe the function of recurrent coupling in layer 2/3 of the mouse vibrissal somatosensory cortex during active tactile discrimination. A neural circuit model of layer 2/3 revealed that recurrent excitation enhances sensory signals by amplification, but only for subnetworks with increased connectivity. Model networks with high amplification were sensitive to damage: loss of a few members of the subnetwork degraded stimulus encoding. We tested this prediction by mapping neuronal selectivity(7) and photoablating(9,10) neurons with specific selectivity. Ablation of a small proportion of layer 2/3 neurons (10-20, less than 5% of the total) representing touch markedly reduced responses in the spared touch representation, but not in other representations. Ablations most strongly affected neurons with stimulus responses that were similar to those of the ablated population, which is also consistent with network models. Recurrence among cortical neurons with similar selectivity therefore drives input-specific amplification during behaviour.


Computational modelling, imaging and single-cell ablation in layer 2/3 of the mouse vibrissal somatosensory cortex reveals that recurrent activity in cortical neurons can drive input-specific amplification during behaviour.


  
Relationship between the molecular composition, visible light absorption, and health-related properties of smoldering woodsmoke aerosols 期刊论文
ATMOSPHERIC CHEMISTRY AND PHYSICS, 2020, 20 (1) : 539-559
作者:  Chan, Lam Kam;  Nguyen, Khanh Q.;  Karim, Noreen;  Yang, Yatian;  Rice, Robert H.;  He, Guochun;  Denison, Michael S.;  Nguyen, Tran B.
收藏  |  浏览/下载:12/0  |  提交时间:2020/07/02
Data Mining to Uncover Heterogeneous Water Use Behaviors From Smart Meter Data 期刊论文
WATER RESOURCES RESEARCH, 2019
作者:  Cominola, A.;  Nguyen, K.;  Giuliani, M.;  Stewart, R. A.;  Maier, H. R.;  Castelletti, A.
收藏  |  浏览/下载:6/0  |  提交时间:2020/02/16
water demand management  water end uses  segmentation analysis  data mining  water use behaviors  smart meters  
Scalable submicrometer additive manufacturing 期刊论文
SCIENCE, 2019, 366 (6461) : 105-+
作者:  Saha, Sourabh K.;  Wang, Dien;  Nguyen, Vu H.;  Chang, Yina;  Oakdale, James S.;  Chen, Shih-Chi
收藏  |  浏览/下载:16/0  |  提交时间:2019/11/27
Low-volatility compounds contribute significantly to isoprene secondary organic aerosol (SOA) under high-NOx conditions 期刊论文
ATMOSPHERIC CHEMISTRY AND PHYSICS, 2019, 19 (11) : 7255-7278
作者:  Schwantes, Rebecca H.;  Charan, Sophia M.;  Bates, Kelvin H.;  Huang, Yuanlong;  Nguyen, Tran B.;  Mai, Huajun;  Kong, Weimeng;  Flagan, Richard C.;  Seinfeld, John H.
收藏  |  浏览/下载:6/0  |  提交时间:2019/11/26