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Continent-wide tree fecundity driven by indirect climate effects 期刊论文
Nature Communications, 2021
作者:  James S. Clark;  Robert Andrus;  Melaine Aubry-Kientz;  Yves Bergeron;  Michal Bogdziewicz;  Don C. Bragg;  Dale Brockway;  Natalie L. Cleavitt;  Susan Cohen;  Benoit Courbaud;  Robert Daley;  Adrian J. Das;  Michael Dietze;  Timothy J. Fahey;  Istem Fer;  Jerry F. Franklin;  Catherine A. Gehring;  Gregory S. Gilbert;  Cathryn H. Greenberg;  Qinfeng Guo;  Janneke HilleRisLambers;  Ines Ibanez;  Jill Johnstone;  Christopher L. Kilner;  Johannes Knops;  Walter D. Koenig;  Georges Kunstler;  Jalene M. LaMontagne;  Kristin L. Legg;  Jordan Luongo;  James A. Lutz;  Diana Macias;  Eliot J. B. McIntire;  Yassine Messaoud;  Christopher M. Moore;  Emily Moran;  Jonathan A. Myers;  Orrin B. Myers;  Chase Nunez;  Robert Parmenter;  Sam Pearse;  Scott Pearson;  Renata Poulton-Kamakura;  Ethan Ready;  Miranda D. Redmond;  Chantal D. Reid;  Kyle C. Rodman;  C. Lane Scher;  William H. Schlesinger;  Amanda M. Schwantes;  Erin Shanahan;  Shubhi Sharma;  Michael A. Steele;  Nathan L. Stephenson;  Samantha Sutton;  Jennifer J. Swenson;  Margaret Swift;  Thomas T. Veblen;  Amy V. Whipple;  Thomas G. Whitham;  Andreas P. Wion;  Kai Zhu;  Roman Zlotin
收藏  |  浏览/下载:14/0  |  提交时间:2021/03/02
Long-term thermal sensitivity of Earth’s tropical forests 期刊论文
Science, 2020
作者:  Martin J. P. Sullivan;  Simon L. Lewis;  Kofi Affum-Baffoe;  Carolina Castilho;  Flávia Costa;  Aida Cuni Sanchez;  Corneille E. N. Ewango;  Wannes Hubau;  Beatriz Marimon;  Abel Monteagudo-Mendoza;  Lan Qie;  Bonaventure Sonké;  Rodolfo Vasquez Martinez;  Timothy R. Baker;  Roel J. W. Brienen;  Ted R. Feldpausch;  David Galbraith;  Manuel Gloor;  Yadvinder Malhi;  Shin-Ichiro Aiba;  Miguel N. Alexiades;  Everton C. Almeida;  Edmar Almeida de Oliveira;  Esteban Álvarez Dávila;  Patricia Alvarez Loayza;  Ana Andrade;  Simone Aparecida Vieira;  Luiz E. O. C. Aragão;  Alejandro Araujo-Murakami;  Eric J. M. M. Arets;  Luzmila Arroyo;  Peter Ashton;  Gerardo Aymard C.;  Fabrício B. Baccaro;  Lindsay F. Banin;  Christopher Baraloto;  Plínio Barbosa Camargo;  Jos Barlow;  Jorcely Barroso;  Jean-François Bastin;  Sarah A. Batterman;  Hans Beeckman;  Serge K. Begne;  Amy C. Bennett;  Erika Berenguer;  Nicholas Berry;  Lilian Blanc;  Pascal Boeckx;  Jan Bogaert;  Damien Bonal;  Frans Bongers;  Matt Bradford;  Francis Q. Brearley;  Terry Brncic;  Foster Brown;  Benoit Burban;  José Luís Camargo;  Wendeson Castro;  Carlos Céron;  Sabina Cerruto Ribeiro;  Victor Chama Moscoso;  Jerôme Chave;  Eric Chezeaux;  Connie J. Clark;  Fernanda Coelho de Souza;  Murray Collins;  James A. Comiskey;  Fernando Cornejo Valverde;  Massiel Corrales Medina;  Lola da Costa;  Martin Dančák;  Greta C. Dargie;  Stuart Davies;  Nallaret Davila Cardozo;  Thales de Haulleville;  Marcelo Brilhante de Medeiros;  Jhon del Aguila Pasquel;  Géraldine Derroire;  Anthony Di Fiore;  Jean-Louis Doucet;  Aurélie Dourdain;  Vincent Droissant;  Luisa Fernanda Duque;  Romeo Ekoungoulou;  Fernando Elias;  Terry Erwin;  Adriane Esquivel-Muelbert;  Sophie Fauset;  Joice Ferreira;  Gerardo Flores Llampazo;  Ernest Foli;  Andrew Ford;  Martin Gilpin;  Jefferson S. Hall;  Keith C. Hamer;  Alan C. Hamilton;  David J. Harris;  Terese B. Hart;  Radim Hédl;  Bruno Herault;  Rafael Herrera;  Niro Higuchi;  Annette Hladik;  Eurídice Honorio Coronado;  Isau Huamantupa-Chuquimaco;  Walter Huaraca Huasco;  Kathryn J. Jeffery;  Eliana Jimenez-Rojas;  Michelle Kalamandeen;  Marie Noël Kamdem Djuikouo;  Elizabeth Kearsley;  Ricardo Keichi Umetsu;  Lip Khoon Kho;  Timothy Killeen;  Kanehiro Kitayama;  Bente Klitgaard;  Alexander Koch;  Nicolas Labrière;  William Laurance;  Susan Laurance;  Miguel E. Leal;  Aurora Levesley;  Adriano J. N. Lima;  Janvier Lisingo;  Aline P. Lopes;  Gabriela Lopez-Gonzalez;  Tom Lovejoy;  Jon C. Lovett;  Richard Lowe;  William E. Magnusson;  Jagoba Malumbres-Olarte;  Ângelo Gilberto Manzatto;  Ben Hur Marimon;  Andrew R. Marshall;  Toby Marthews;  Simone Matias de Almeida Reis;  Colin Maycock;  Karina Melgaço;  Casimiro Mendoza;  Faizah Metali;  Vianet Mihindou;  William Milliken;  Edward T. A. Mitchard;  Paulo S. Morandi;  Hannah L. Mossman;  Laszlo Nagy;  Henrique Nascimento;  David Neill;  Reuben Nilus;  Percy Núñez Vargas;  Walter Palacios;  Nadir Pallqui Camacho;  Julie Peacock;  Colin Pendry;  Maria Cristina Peñuela Mora;  Georgia C. Pickavance;  John Pipoly;  Nigel Pitman;  Maureen Playfair;  Lourens Poorter;  John R. Poulsen;  Axel Dalberg Poulsen;  Richard Preziosi;  Adriana Prieto;  Richard B. Primack;  Hirma Ramírez-Angulo;  Jan Reitsma;  Maxime Réjou-Méchain;  Zorayda Restrepo Correa;  Thaiane Rodrigues de Sousa;  Lily Rodriguez Bayona;  Anand Roopsind;  Agustín Rudas;  Ervan Rutishauser;  Kamariah Abu Salim;  Rafael P. Salomão;  Juliana Schietti;  Douglas Sheil;  Richarlly C. Silva;  Javier Silva Espejo;  Camila Silva Valeria;  Marcos Silveira;  Murielle Simo-Droissart;  Marcelo Fragomeni Simon;  James Singh;  Yahn Carlos Soto Shareva;  Clement Stahl;  Juliana Stropp;  Rahayu Sukri;  Terry Sunderland;  Martin Svátek;  Michael D. Swaine;  Varun Swamy;  Hermann Taedoumg;  Joey Talbot;  James Taplin;  David Taylor;  Hans ter Steege;  John Terborgh;  Raquel Thomas;  Sean C. Thomas;  Armando Torres-Lezama;  Peter Umunay;  Luis Valenzuela Gamarra;  Geertje van der Heijden;  Peter van der Hout;  Peter van der Meer;  Mark van Nieuwstadt;  Hans Verbeeck;  Ronald Vernimmen;  Alberto Vicentini;  Ima Célia Guimarães Vieira;  Emilio Vilanova Torre;  Jason Vleminckx;  Vincent Vos;  Ophelia Wang;  Lee J. T. White;  Simon Willcock;  John T. Woods;  Verginia Wortel;  Kenneth Young;  Roderick Zagt;  Lise Zemagho;  Pieter A. Zuidema;  Joeri A. Zwerts;  Oliver L. Phillips
收藏  |  浏览/下载:26/0  |  提交时间:2020/05/25
Asynchronous carbon sink saturation in African and Amazonian tropical forests 期刊论文
NATURE, 2020, 579 (7797) : 80-+
作者:  Wannes Hubau;  Simon L. Lewis;  Oliver L. Phillips;  Kofi Affum-Baffoe;  Hans Beeckman;  Aida Cuní;  -Sanchez;  Armandu K. Daniels;  Corneille E. N. Ewango;  Sophie Fauset;  Jacques M. Mukinzi;  Douglas Sheil;  Bonaventure Sonké;  Martin J. P. Sullivan;  Terry C. H. Sunderland;  Hermann Taedoumg;  Sean C. Thomas;  Lee J. T. White;  Katharine A. Abernethy;  Stephen Adu-Bredu;  Christian A. Amani;  Timothy R. Baker;  Lindsay F. Banin;  Fidè;  le Baya;  Serge K. Begne;  Amy C. Bennett;  Fabrice Benedet;  Robert Bitariho;  Yannick E. Bocko;  Pascal Boeckx;  Patrick Boundja;  Roel J. W. Brienen;  Terry Brncic;  Eric Chezeaux;  George B. Chuyong;  Connie J. Clark;  Murray Collins;  James A. Comiskey;  David A. Coomes;  Greta C. Dargie;  Thales de Haulleville;  Marie Noel Djuikouo Kamdem;  Jean-Louis Doucet;  Adriane Esquivel-Muelbert;  Ted R. Feldpausch;  Alusine Fofanah;  Ernest G. Foli;  Martin Gilpin;  Emanuel Gloor;  Christelle Gonmadje;  Sylvie Gourlet-Fleury;  Jefferson S. Hall;  Alan C. Hamilton;  David J. Harris;  Terese B. Hart;  Mireille B. N. Hockemba;  Annette Hladik;  Suspense A. Ifo;  Kathryn J. Jeffery;  Tommaso Jucker;  Emmanuel Kasongo Yakusu;  Elizabeth Kearsley;  David Kenfack;  Alexander Koch;  Miguel E. Leal;  Aurora Levesley;  Jeremy A. Lindsell;  Janvier Lisingo;  Gabriela Lopez-Gonzalez;  Jon C. Lovett;  Jean-Remy Makana;  Yadvinder Malhi;  Andrew R. Marshall;  Jim Martin;  Emanuel H. Martin;  Faustin M. Mbayu;  Vincent P. Medjibe;  Vianet Mihindou;  Edward T. A. Mitchard;  Sam Moore;  Pantaleo K. T. Munishi;  Natacha Nssi Bengone;  Lucas Ojo;  Fidè;  le Evouna Ondo;  Kelvin S.-H. Peh;  Georgia C. Pickavance;  Axel Dalberg Poulsen;  John R. Poulsen;  Lan Qie;  Jan Reitsma;  Francesco Rovero;  Michael D. Swaine;  Joey Talbot;  James Taplin;  David M. Taylor;  Duncan W. Thomas;  Benjamin Toirambe;  John Tshibamba Mukendi;  Darlington Tuagben;  Peter M. Umunay;  Geertje M. F. van der Heijden;  Hans Verbeeck;  Jason Vleminckx;  Simon Willcock;  Hannsjö;  rg Wö;  ll;  John T. Woods;  Lise Zemagho
收藏  |  浏览/下载:23/0  |  提交时间:2020/05/13

Structurally intact tropical forests sequestered about half of the global terrestrial carbon uptake over the 1990s and early 2000s, removing about 15 per cent of anthropogenic carbon dioxide emissions(1-3). Climate-driven vegetation models typically predict that this tropical forest '  carbon sink'  will continue for decades(4,5). Here we assess trends in the carbon sink using 244 structurally intact African tropical forests spanning 11 countries, compare them with 321 published plots from Amazonia and investigate the underlying drivers of the trends. The carbon sink in live aboveground biomass in intact African tropical forests has been stable for the three decades to 2015, at 0.66 tonnes of carbon per hectare per year (95 per cent confidence interval 0.53-0.79), in contrast to the long-term decline in Amazonian forests(6). Therefore the carbon sink responses of Earth'  s two largest expanses of tropical forest have diverged. The difference is largely driven by carbon losses from tree mortality, with no detectable multi-decadal trend in Africa and a long-term increase in Amazonia. Both continents show increasing tree growth, consistent with the expected net effect of rising atmospheric carbon dioxide and air temperature(7-9). Despite the past stability of the African carbon sink, our most intensively monitored plots suggest a post-2010 increase in carbon losses, delayed compared to Amazonia, indicating asynchronous carbon sink saturation on the two continents. A statistical model including carbon dioxide, temperature, drought and forest dynamics accounts for the observed trends and indicates a long-term future decline in the African sink, whereas the Amazonian sink continues to weaken rapidly. Overall, the uptake of carbon into Earth'  s intact tropical forests peaked in the 1990s. Given that the global terrestrial carbon sink is increasing in size, independent observations indicating greater recent carbon uptake into the Northern Hemisphere landmass(10) reinforce our conclusion that the intact tropical forest carbon sink has already peaked. This saturation and ongoing decline of the tropical forest carbon sink has consequences for policies intended to stabilize Earth'  s climate.


  
Ocean acidification does not impair the behaviour of coral reef fishes 期刊论文
NATURE, 2020, 577 (7790) : 370-+
作者:  Clark, Timothy D.;  Raby, Graham D.;  Roche, Dominique G.;  Binning, Sandra A.;  Speers-Roesch, Ben;  Jutfelt, Fredrik;  Sundin, Josefin
收藏  |  浏览/下载:9/0  |  提交时间:2020/07/03

The partial pressure of CO2 in the oceans has increased rapidly over the past century, driving ocean acidification and raising concern for the stability of marine ecosystems(1-3). Coral reef fishes are predicted to be especially susceptible to end-of-century ocean acidification on the basis of several high-profile papers(4,5) that have reported profound behavioural and sensory impairments-for example, complete attraction to the chemical cues of predators under conditions of ocean acidification. Here, we comprehensively and transparently show that-in contrast to previous studies-end-of-century ocean acidification levels have negligible effects on important behaviours of coral reef fishes, such as the avoidance of chemical cues from predators, fish activity levels and behavioural lateralization (left-right turning preference). Using data simulations, we additionally show that the large effect sizes and small within-group variances that have been reported in several previous studies are highly improbable. Together, our findings indicate that the reported effects of ocean acidification on the behaviour of coral reef fishes are not reproducible, suggesting that behavioural perturbations will not be a major consequence for coral reef fishes in high CO2 oceans.


  
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes 期刊论文
NATURE, 2020, 578 (7793) : 102-+
作者:  Clark, Timothy D.;  Raby, Graham D.;  Roche, Dominique G.;  Binning, Sandra A.;  Speers-Roesch, Ben;  Jutfelt, Fredrik;  Sundin, Josefin
收藏  |  浏览/下载:15/0  |  提交时间:2020/07/03

The discovery of drivers of cancer has traditionally focused on protein-coding genes(1-4). Here we present analyses of driver point mutations and structural variants in non-coding regions across 2,658 genomes from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium(5) of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). For point mutations, we developed a statistically rigorous strategy for combining significance levels from multiple methods of driver discovery that overcomes the limitations of individual methods. For structural variants, we present two methods of driver discovery, and identify regions that are significantly affected by recurrent breakpoints and recurrent somatic juxtapositions. Our analyses confirm previously reported drivers(6,7), raise doubts about others and identify novel candidates, including point mutations in the 5'  region of TP53, in the 3'  untranslated regions of NFKBIZ and TOB1, focal deletions in BRD4 and rearrangements in the loci of AKR1C genes. We show that although point mutations and structural variants that drive cancer are less frequent in non-coding genes and regulatory sequences than in protein-coding genes, additional examples of these drivers will be found as more cancer genomes become available.


  
Zucchini consensus motifs determine the mechanism of pre-piRNA production 期刊论文
NATURE, 2020, 578 (7794) : 311-+
作者:  Clark, Timothy D.;  Raby, Graham D.;  Roche, Dominique G.;  Binning, Sandra A.;  Speers-Roesch, Ben;  Jutfelt, Fredrik;  Sundin, Josefin
收藏  |  浏览/下载:14/0  |  提交时间:2020/07/03

PIWI-interacting RNAs (piRNAs) of between approximately 24 and 31 nucleotides in length guide PIWI proteins to silence transposons in animal gonads, thereby ensuring fertility(1). In the biogenesis of piRNAs, PIWI proteins are first loaded with 5 '  -monophosphorylated RNA fragments called pre-pre-piRNAs, which then undergo endonucleolytic cleavage to produce pre-piRNAs(1,2). Subsequently, the 3 '  -ends of pre-piRNAs are trimmed by the exonuclease Trimmer (PNLDC1 in mouse)(3-6) and 2 '  -O-methylated by the methyltransferase Hen1 (HENMT1 in mouse)(7-9), generating mature piRNAs. It is assumed that the endonuclease Zucchini (MitoPLD in mouse) is a major enzyme catalysing the cleavage of pre-pre-piRNAs into pre-piRNAs(10-13). However, direct evidence for this model is lacking, and how pre-piRNAs are generated remains unclear. Here, to analyse pre-piRNA production, we established a Trimmer-knockout silkworm cell line and derived a cell-free system that faithfully recapitulates Zucchini-mediated cleavage of PIWI-loaded pre-pre-piRNAs. We found that pre-piRNAs are generated by parallel Zucchini-dependent and -independent mechanisms. Cleavage by Zucchini occurs at previously unrecognized consensus motifs on pre-pre-piRNAs, requires the RNA helicase Armitage, and is accompanied by 2 '  -O-methylation of pre-piRNAs. By contrast, slicing of pre-pre-piRNAs with weak Zucchini motifs is achieved by downstream complementary piRNAs, producing pre-piRNAs without 2 '  -O-methylation. Regardless of the endonucleolytic mechanism, pre-piRNAs are matured by Trimmer and Hen1. Our findings highlight multiplexed processing of piRNA precursors that supports robust and flexible piRNA biogenesis.


A silkworm model recapitulates key steps of Zucchini-mediated cleavage of pre-pre-piRNA and provides insights into Zucchini-mediated and -independent pathways that generate pre-piRNAs, which converge to a common piRNA maturation step.


  
Global warming may disproportionately affect larger adults in a predatory coral reef fish 期刊论文
GLOBAL CHANGE BIOLOGY, 2017, 23 (6)
作者:  Messmer, Vanessa;  Pratchett, Morgan S.;  Hoey, Andrew S.;  Tobin, Andrew J.;  Coker, Darren J.;  Cooke, Steven J.;  Clark, Timothy D.
收藏  |  浏览/下载:7/0  |  提交时间:2019/04/09
body size  climate change  critical thermal maximum  Great Barrier Reef  metabolic rate  Plectropomus leopardus  thermal tolerance  
Biodiversity redistribution under climate change: Impacts on ecosystems and human well-being 期刊论文
SCIENCE, 2017, 355 (6332)
作者:  Pecl, Gretta T.;  Araujo, Miguel B.;  Bell, Johann D.;  Blanchard, Julia;  Bonebrake, Timothy C.;  Chen, I-Ching;  Clark, Timothy D.;  Colwell, Robert K.;  Danielsen, Finn;  Evengard, Birgitta;  Falconi, Lorena;  Ferrier, Simon;  Frusher, Stewart;  Garcia, Raquel A.;  Griffis, Roger B.;  Hobday, Alistair J.;  Janion-Scheepers, Charlene;  Jarzyna, Marta A.;  Jennings, Sarah;  Lenoir, Jonathan;  Linnetved, Hlif I.;  Martin, Victoria Y.;  McCormack, Phillipa C.;  McDonald, Jan;  Mitchell, Nicola J.;  Mustonen, Tero;  Pandolfi, John M.;  Pettorelli, Nathalie;  Popova, Ekaterina;  Robinson, Sharon A.;  Scheffers, Brett R.;  Shaw, Justine D.;  Sorte, Cascade J. B.;  Strugnell, Jan M.;  Sunday, Jennifer M.;  Tuanmu, Mao-Ning;  Verges, Adriana;  Villanueva, Cecilia;  Wernberg, Thomas;  Wapstra, Erik;  Williams, Stephen E.
收藏  |  浏览/下载:26/0  |  提交时间:2019/11/27