A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human

Cell
Tommy V VoHaiyuan Yu

Abstract

Here, we present FissionNet, a proteome-wide binary protein interactome for S. pombe, comprising 2,278 high-quality interactions, of which ∼ 50% were previously not reported in any species. FissionNet unravels previously unreported interactions implicated in processes such as gene silencing and pre-mRNA splicing. We developed a rigorous network comparison framework that accounts for assay sensitivity and specificity, revealing extensive species-specific network rewiring between fission yeast, budding yeast, and human. Surprisingly, although genes are better conserved between the yeasts, S. pombe interactions are significantly better conserved in human than in S. cerevisiae. Our framework also reveals that different modes of gene duplication influence the extent to which paralogous proteins are functionally repurposed. Finally, cross-species interactome mapping demonstrates that coevolution of interacting proteins is remarkably prevalent, a result with important implications for studying human disease in model organisms. Overall, FissionNet is a valuable resource for understanding protein functions and their evolution.

Associated Datasets

Oct 26, 2015
Dec 31, 2015

References

May 9, 1998·Genes & Development·B J BlencoweP A Sharp
Feb 24, 2001·Genome Biology·M Sipiczki
Feb 23, 2002·Nature·V WoodL Cerrutti
Jul 11, 2003·Nature·Balázs PappLaurence D Hurst
Nov 8, 2003·Science·L GiotJ M Rothberg
Jan 6, 2004·Science·André VerdelDanesh Moazed
Jan 6, 2004·Nature Biotechnology·Joel S BaderJohn Chant
Aug 12, 2004·Proceedings of the National Academy of Sciences of the United States of America·Chau-Ti TingChung-I Wu
Oct 7, 2005·Genome Biology·Robert RileyDavid Eisenberg
Mar 25, 2006·PLoS Biology·Gavin C Conant, Kenneth H Wolfe
Dec 8, 2006·Genetics·Yuanfang GuanOlga G Troyanskaya
Aug 21, 2007·Current Opinion in Immunology·Masanori Kasahara
Dec 20, 2008·Nucleic Acids Research·Shuye PuShoshana J Wodak
Jan 3, 2009·PLoS Computational Biology·Todd A Gibson, Debra S Goldberg
Jan 23, 2010·Science·Michael CostanzoCharles Boone
Apr 26, 2011·Nature Methods·Haiyuan YuMarc Vidal
Jul 30, 2011·Science·UNKNOWN Arabidopsis Interactome Mapping Consortium
Mar 1, 2012·Molecular Cell·Anna HegeleUlrich Stelzl
Mar 20, 2012·Nature Methods·Tamás NepuszAlberto Paccanaro
Mar 21, 2012·Genes & Development·Katrina J WoolcockMarc Bühler
Sep 24, 2013·Current Biology : CB·Alyssa E JohnsonKathleen L Gould
Feb 11, 2014·Current Opinion in Plant Biology·Stefan A Rensing
Oct 31, 2014·Nucleic Acids Research·Simon A ForbesPeter J Campbell
Nov 25, 2014·Cell·Thomas RollandMarc Vidal
Jan 3, 2015·Nature Reviews. Genetics·Daniel Holoch, Danesh Moazed
May 7, 2015·Molecular Biology and Evolution·David TalaveraSimon Whelan

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Citations

Jun 15, 2016·Molecular Biology and Evolution·Ting XieHong-Yu Zhang
Sep 16, 2016·Current Genetics·Benjamin Jung Fair, Jeffrey A Pleiss
Sep 7, 2017·Small GTPases·Kazuki Imada, Taro Nakamura
Jul 28, 2018·Protein Science : a Publication of the Protein Society·Tao LinSuvobrata Chakravarty
Jan 23, 2018·Nature Methods·Michael J MeyerHaiyuan Yu
Dec 12, 2019·Nucleic Acids Research·Francesca TagliniElizabeth H Bayne
Jun 25, 2020·Genes·Ekaterina PoverennayaMikhail Pyatnitskiy
Jun 9, 2016·Hormone Molecular Biology and Clinical Investigation·Pedro-Antonio RegidorUwe D Rohr
Jul 22, 2019·Nature Communications·Mohamed Ghadie, Yu Xia
Feb 23, 2020·Genes·Sonia Vidushi Gupta, Kristina Hildegard Schmidt
May 14, 2020·Proceedings of the National Academy of Sciences of the United States of America·Shayne D WierbowskiHaiyuan Yu
Aug 2, 2017·Scientific Reports·Xu-Ming MaoYong-Quan Li
Feb 16, 2019·Proceedings of the National Academy of Sciences of the United States of America·Marinka ZitnikJure Leskovec
Nov 21, 2020·Theory in Biosciences = Theorie in Den Biowissenschaften·Marzieh EidiJürgen Jost
May 7, 2020·Chemical Reviews·Jessica C BowmanLoren Dean Williams
Apr 8, 2019·IScience·Xin BingJishnu Das
Sep 11, 2021·Scientific Reports·Patricia GarcíaJavier Encinar Del Dedo

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