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Origin of complexity in haemoglobin evolution 期刊论文
NATURE, 2020
作者:  Cheema, Suraj S.;  Kwon, Daewoong;  Shanker, Nirmaan;  dos Reis, Roberto;  Hsu, Shang-Lin;  Xiao, Jun;  Zhang, Haigang;  Wagner, Ryan;  Datar, Adhiraj;  McCarter, Margaret R.;  Serrao, Claudy R.;  Yadav, Ajay K.;  Karbasian, Golnaz;  Hsu, Cheng-Hsiang;  Tan, Ava J.;  Wang, Li-Chen;  Thakare, Vishal;  Zhang, Xiang;  Mehta, Apurva;  Karapetrova, Evguenia;  Chopdekar, Rajesh, V;  Shafer, Padraic;  Arenholz, Elke;  Hu, Chenming;  Proksch, Roger;  Ramesh, Ramamoorthy;  Ciston, Jim;  Salahuddin, Sayeef
收藏  |  浏览/下载:50/0  |  提交时间:2020/07/03

Most proteins associate into multimeric complexes with specific architectures(1,2), which often have functional properties such as cooperative ligand binding or allosteric regulation(3). No detailed knowledge is available about how any multimer and its functions arose during evolution. Here we use ancestral protein reconstruction and biophysical assays to elucidate the origins of vertebrate haemoglobin, a heterotetramer of paralogous alpha- and beta-subunits that mediates respiratory oxygen transport and exchange by cooperatively binding oxygen with moderate affinity. We show that modern haemoglobin evolved from an ancient monomer and characterize the historical '  missing link'  through which the modern tetramer evolved-a noncooperative homodimer with high oxygen affinity that existed before the gene duplication that generated distinct alpha- and beta-subunits. Reintroducing just two post-duplication historical substitutions into the ancestral protein is sufficient to cause strong tetramerization by creating favourable contacts with more ancient residues on the opposing subunit. These surface substitutions markedly reduce oxygen affinity and even confer cooperativity, because an ancient linkage between the oxygen binding site and the multimerization interface was already an intrinsic feature of the protein'  s structure. Our findings establish that evolution can produce new complex molecular structures and functions via simple genetic mechanisms that recruit existing biophysical features into higher-level architectures.


Experimental analysis of reconstructed ancestral globins reveals that haemoglobin'  s complex tetrameric structure and oxygen-binding functions evolved by simple genetic and biophysical mechanisms.


  
Intraplate volcanism originating from upwelling hydrous mantle transition zone 期刊论文
NATURE, 2020
作者:  Calabrese, Claudia;  Davidson, Natalie R.;  Demircioglu, Deniz;  Fonseca, Nuno A.;  He, Yao;  Kahles, Andre;  Kjong-Van Lehmann;  Liu, Fenglin;  Shiraishi, Yuichi;  Soulette, Cameron M.;  Urban, Lara;  Greger, Liliana;  Li, Siliang;  Liu, Dongbing;  Perry, Marc D.;  Xiang, Qian;  Zhang, Fan;  Zhang, Junjun;  Bailey, Peter;  Erkek, Serap;  Hoadley, Katherine A.;  Hou, Yong;  Huska, Matthew R.;  Kilpinen, Helena;  Korbel, Jan O.;  Marin, Maximillian G.;  Markowski, Julia;  Nandi, Tannistha;  Pan-Hammarstrom, Qiang;  Pedamallu, Chandra Sekhar;  Siebert, Reiner;  Stark, Stefan G.;  Su, Hong;  Tan, Patrick;  Waszak, Sebastian M.;  Yung, Christina;  Zhu, Shida;  Awadalla, Philip;  Creighton, Chad J.;  Meyerson, Matthew;  Ouellette, B. F. Francis;  Wu, Kui;  Yang, Huanming;  Brazma, Alvis;  Brooks, Angela N.;  Goke, Jonathan;  Raetsch, Gunnar;  Schwarz, Roland F.;  Stegle, Oliver;  Zhang, Zemin
收藏  |  浏览/下载:75/0  |  提交时间:2020/05/13

Most magmatism occurring on Earth is conventionally attributed to passive mantle upwelling at mid-ocean ridges, to slab devolatilization at subduction zones, or to mantle plumes. However, the widespread Cenozoic intraplate volcanism in northeast China(1-3) and the young petit-spot volcanoes(4-7) offshore of the Japan Trench cannot readily be associated with any of these mechanisms. In addition, the mantle beneath these types of volcanism is characterized by zones of anomalously low seismic velocity above and below the transition zone(8-12) (a mantle level located at depths between 410 and 660 kilometres). A comprehensive interpretation of these phenomena is lacking. Here we show that most (or possibly all) of the intraplate and petit-spot volcanism and low-velocity zones around the Japanese subduction zone can be explained by the Cenozoic interaction of the subducting Pacific slab with a hydrous mantle transition zone. Numerical modelling indicates that 0.2 to 0.3 weight per cent of water dissolved in mantle minerals that are driven out from the transition zone in response to subduction and retreat of a tectonic plate is sufficient to reproduce the observations. This suggests that a critical amount of water may have accumulated in the transition zone around this subduction zone, as well as in others of the Tethyan tectonic belt(13) that are characterized by intraplate or petit-spot volcanism and low-velocity zones in the underlying mantle.


The widespread intraplate volcanism in northeast China and the unusual '  petit-spot'  volcanoes offshore Japan could have resulted from the interaction of the subducting Pacific slab with a hydrous mantle transition zone.


  
Symbiont population control by host-symbiont metabolic interaction in Symbiodiniaceae-cnidarian associations 期刊论文
NATURE COMMUNICATIONS, 2020, 11 (1)
作者:  Xiang, Tingting;  Lehnert, Erik;  Jinkerson, Robert E.;  Clowez, Sophie;  Kim, Rick G.;  DeNofrio, Jan C.;  Pringle, John R.;  Grossman, Arthur R.
收藏  |  浏览/下载:2/0  |  提交时间:2020/05/13
The OncoPPi network of cancer-focused protein-protein interactions to inform biological insights and therapeutic strategies 期刊论文
NATURE COMMUNICATIONS, 2017, 8
作者:  Li, Zenggang;  Ivanov, Andrei A.;  Su, Rina;  Gonzalez-Pecchi, Valentina;  Qi, Qi;  Liu, Songlin;  Webber, Philip;  McMillan, Elizabeth;  Rusnak, Lauren;  Pham, Cau;  Chen, Xiaoqian;  Mo, Xiulei;  Revennaugh, Brian;  Zhou, Wei;  Marcus, Adam;  Harati, Sahar;  Chen, Xiang;  Johns, Margaret A.;  White, Michael A.;  Moreno, Carlos;  Cooper, Lee A. D.;  Du, Yuhong;  Khuri, Fadlo R.;  Fu, Haian
收藏  |  浏览/下载:12/0  |  提交时间:2019/11/27
Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours 期刊论文
NATURE, 2018, 555 (7696) : 371-+
作者:  Ma, Xiaotu;  Liu, Yu;  Liu, Yanling;  Alexandrov, Ludmil B.;  Edmonson, Michael N.;  Gawad, Charles;  Zhou, Xin;  Li, Yongjin;  Rusch, Michael C.;  Easton, John;  Huether, Robert;  Gonzalez-Pena, Veronica;  Wilkinson, Mark R.;  Hermida, Leandro C.;  Davis, Sean;  Sioson, Edgar;  Pounds, Stanley;  Cao, Xueyuan;  Ries, Rhonda E.;  Wang, Zhaoming;  Chen, Xiang;  Dong, Li;  Diskin, Sharon J.;  Smith, Malcolm A.;  Auvil, Jaime M. Guidry;  Meltzer, Paul S.;  Lau, Ching C.;  Perlman, Elizabeth J.;  Maris, John M.;  Meshinchi, Soheil;  Hunger, Stephen P.;  Gerhard, Daniela S.;  Zhang, Jinghui
收藏  |  浏览/下载:15/0  |  提交时间:2019/11/27
Chemical and structural studies provide a mechanistic basis for recognition of the MYC G-quadruplex 期刊论文
NATURE COMMUNICATIONS, 2018, 9
作者:  Calabrese, David R.;  Chen, Xiang;  Leon, Elena C.;  Gaikwad, Snehal M.;  Phyo, Zaw;  Hewitt, William M.;  Alden, Stephanie;  Hilimire, Thomas A.;  He, Fahu;  Michalowski, Aleksandra M.;  Simmons, John K.;  Saunders, Lindsey B.;  Zhang, Shuling;  Connors, Daniel;  Walters, Kylie J.;  Mock, Beverly A.;  Schneekloth, John S., Jr.
收藏  |  浏览/下载:8/0  |  提交时间:2019/11/27
The transcriptional landscape of polyploid wheat 期刊论文
SCIENCE, 2018, 361 (6403) : 662-+
作者:  Ramirez-Gonzalez, R. H.;  Borrill, P.;  Lang, D.;  Harrington, S. A.;  Brinton, J.;  Venturini, L.;  Davey, M.;  Jacobs, J.;  van Ex, F.;  Pasha, A.;  Khedikar, Y.;  Robinson, S. J.;  Cory, A. T.;  Florio, T.;  Concia, L.;  Juery, C.;  Schoonbeek, H.;  Steuernagel, B.;  Xiang, D.;  Ridout, C. J.;  Chalhoub, B.;  Mayer, K. F. X.;  Benhamed, M.;  Latrasse, D.;  Bendahmane, A.;  Wulff, B. B. H.;  Appels, R.;  Tiwari, V.;  Datla, R.;  Choulet, F.;  Pozniak, C. J.;  Provart, N. J.;  Sharpe, A. G.;  Paux, E.;  Spannagl, M.;  Braeutigam, A.;  Uauy, C.
收藏  |  浏览/下载:11/0  |  提交时间:2019/11/27
beta(2)-Adrenoreceptor is a regulator of the alpha-synuclein gene driving risk of Parkinson's disease 期刊论文
SCIENCE, 2017, 357 (6354) : 891-897
作者:  Mittal, Shuchi;  Bjornevik, Kjetil;  Im, Doo Soon;  Flierl, Adrian;  Dong, Xianjun;  Locascio, Joseph J.;  Abo, Kristine M.;  Long, Elizabeth;  Jin, Ming;  Xu, Bing;  Xiang, Yang K.;  Rochet, Jean-Christophe;  Engeland, Anders;  Rizzu, Patrizia;  Heutink, Peter;  Bartels, Tim;  Selkoe, Dennis J.;  Caldarone, Barbara J.;  Glicksman, Marcie A.;  Khurana, Vikram;  Schule, Birgitt;  Park, David S.;  Riise, Trond;  Scherzer, Clemens R.
收藏  |  浏览/下载:6/0  |  提交时间:2019/11/27
Allelic reprogramming of 3D chromatin architecture during early mammalian development 期刊论文
NATURE, 2017, 547 (7662) : 232-+
作者:  Du, Zhenhai;  Zheng, Hui;  Huang, Bo;  Ma, Rui;  Wu, Jingyi;  Zhang, Xianglin;  He, Jing;  Xiang, Yunlong;  Wang, Qiujun;  Li, Yuanyuan;  Ma, Jing;  Zhang, Xu;  Zhang, Ke;  Wang, Yang;  Zhang, Michael Q.;  Gao, Juntao;  Dixon, Jesse R.;  Wang, Xiaowo;  Zeng, Jianyang;  Xie, Wei
收藏  |  浏览/下载:11/0  |  提交时间:2019/11/27
Strong thermal acclimation of photosynthesis in tropical and temperate wet-forest tree species: the importance of altered Rubisco content 期刊论文
GLOBAL CHANGE BIOLOGY, 2017, 23 (7)
作者:  Scafaro, Andrew P.;  Xiang, Shuang;  Long, Benedict M.;  Bahar, Nur H. A.;  Weerasinghe, Lasantha K.;  Creek, Danielle;  Evans, John R.;  Reich, Peter B.;  Atkin, Owen K.
收藏  |  浏览/下载:5/0  |  提交时间:2019/04/09
climate modelling  earth system models  photosynthesis  photosynthesis modelling  Rubisco content  temperature  thermal acclimation  tropical trees  V-cmax