IDEAS home Printed from https://ideas.repec.org/a/nat/nature/v425y2003i6959d10.1038_nature02026.html
   My bibliography  Save this article

Global analysis of protein localization in budding yeast

Author

Listed:
  • Won-Ki Huh

    (Department of Biochemistry and Biophysics)

  • James V. Falvo

    (Department of Biochemistry and Biophysics)

  • Luke C. Gerke

    (Department of Biochemistry and Biophysics)

  • Adam S. Carroll

    (Department of Biochemistry and Biophysics)

  • Russell W. Howson

    (Department of Biochemistry and Biophysics)

  • Jonathan S. Weissman

    (Department of Biochemistry and Biophysics
    Department of Cellular and Molecular Pharmacology)

  • Erin K. O'Shea

    (Department of Biochemistry and Biophysics)

Abstract

A fundamental goal of cell biology is to define the functions of proteins in the context of compartments that organize them in the cellular environment. Here we describe the construction and analysis of a collection of yeast strains expressing full-length, chromosomally tagged green fluorescent protein fusion proteins. We classify these proteins, representing 75% of the yeast proteome, into 22 distinct subcellular localization categories, and provide localization information for 70% of previously unlocalized proteins. Analysis of this high-resolution, high-coverage localization data set in the context of transcriptional, genetic, and protein–protein interaction data helps reveal the logic of transcriptional co-regulation, and provides a comprehensive view of interactions within and between organelles in eukaryotic cells.

Suggested Citation

  • Won-Ki Huh & James V. Falvo & Luke C. Gerke & Adam S. Carroll & Russell W. Howson & Jonathan S. Weissman & Erin K. O'Shea, 2003. "Global analysis of protein localization in budding yeast," Nature, Nature, vol. 425(6959), pages 686-691, October.
    • Handle: RePEc:nat:nature:v:425:y:2003:i:6959:d:10.1038_nature02026
    DOI: 10.1038/nature02026
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/nature02026
    File Function: Abstract
    Download Restriction: Access to the full text of the articles in this series is restricted.
    File URL: https://libkey.io/10.1038/nature02026?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Oliver M Crook & Aikaterini Geladaki & Daniel J H Nightingale & Owen L Vennard & Kathryn S Lilley & Laurent Gatto & Paul D W Kirk, 2020. "A semi-supervised Bayesian approach for simultaneous protein sub-cellular localisation assignment and novelty detection," PLOS Computational Biology, Public Library of Science, vol. 16(11), pages 1-21, November.
    2. Stefan A. Hoffmann & Yizhi Cai, 2024. "Engineering stringent genetic biocontainment of yeast with a protein stability switch," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    3. Maya Dinur-Mills & Merav Tal & Ophry Pines, 2008. "Dual Targeted Mitochondrial Proteins Are Characterized by Lower MTS Parameters and Total Net Charge," PLOS ONE, Public Library of Science, vol. 3(5), pages 1-8, May.
    4. Verena Kohler & Andreas Kohler & Lisa Larsson Berglund & Xinxin Hao & Sarah Gersing & Axel Imhof & Thomas Nyström & Johanna L. Höög & Martin Ott & Claes Andréasson & Sabrina Büttner, 2024. "Nuclear Hsp104 safeguards the dormant translation machinery during quiescence," Nature Communications, Nature, vol. 15(1), pages 1-20, December.
    5. Julia P. Schessner & Vincent Albrecht & Alexandra K. Davies & Pavel Sinitcyn & Georg H. H. Borner, 2023. "Deep and fast label-free Dynamic Organellar Mapping," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
    6. Nebojsa Jukic & Alma P. Perrino & Frédéric Humbert & Aurélien Roux & Simon Scheuring, 2022. "Snf7 spirals sense and alter membrane curvature," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    7. Michelle Lindström & Lihua Chen & Shan Jiang & Dan Zhang & Yuan Gao & Ju Zheng & Xinxin Hao & Xiaoxue Yang & Arpitha Kabbinale & Johannes Thoma & Lisa C. Metzger & Deyuan Y. Zhang & Xuefeng Zhu & Huis, 2022. "Lsm7 phase-separated condensates trigger stress granule formation," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    8. Jian Cui & Jinghua Liu & Yuhua Li & Tieliu Shi, 2011. "Integrative Identification of Arabidopsis Mitochondrial Proteome and Its Function Exploitation through Protein Interaction Network," PLOS ONE, Public Library of Science, vol. 6(1), pages 1-16, January.
    9. Alex N Nguyen Ba & Bob Strome & Jun Jie Hua & Jonathan Desmond & Isabelle Gagnon-Arsenault & Eric L Weiss & Christian R Landry & Alan M Moses, 2014. "Detecting Functional Divergence after Gene Duplication through Evolutionary Changes in Posttranslational Regulatory Sequences," PLOS Computational Biology, Public Library of Science, vol. 10(12), pages 1-15, December.
    10. Arthur Fischbach & Angela Johns & Kara L. Schneider & Xinxin Hao & Peter Tessarz & Thomas Nyström, 2023. "Artificial Hsp104-mediated systems for re-localizing protein aggregates," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    11. Lit-Hsin Loo & Danai Laksameethanasan & Yi-Ling Tung, 2014. "Quantitative Protein Localization Signatures Reveal an Association between Spatial and Functional Divergences of Proteins," PLOS Computational Biology, Public Library of Science, vol. 10(3), pages 1-17, March.
    12. Jian Qiu & William Stafford Noble, 2008. "Predicting Co-Complexed Protein Pairs from Heterogeneous Data," PLOS Computational Biology, Public Library of Science, vol. 4(4), pages 1-10, April.
    13. Sunny Sharma & Jun Yang & Ewa Grudzien-Nogalska & Jessica Shivas & Kelvin Y. Kwan & Megerditch Kiledjian, 2022. "Xrn1 is a deNADding enzyme modulating mitochondrial NAD-capped RNA," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    14. Joke J F A van Vugt & Martijn de Jager & Magdalena Murawska & Alexander Brehm & John van Noort & Colin Logie, 2009. "Multiple Aspects of ATP-Dependent Nucleosome Translocation by RSC and Mi-2 Are Directed by the Underlying DNA Sequence," PLOS ONE, Public Library of Science, vol. 4(7), pages 1-14, July.
    15. Xiaomei Wu & Erli Pang & Kui Lin & Zhen-Ming Pei, 2013. "Improving the Measurement of Semantic Similarity between Gene Ontology Terms and Gene Products: Insights from an Edge- and IC-Based Hybrid Method," PLOS ONE, Public Library of Science, vol. 8(5), pages 1-11, May.
    16. Yosuke Ito & Yuhei Chadani & Tatsuya Niwa & Ayako Yamakawa & Kodai Machida & Hiroaki Imataka & Hideki Taguchi, 2022. "Nascent peptide-induced translation discontinuation in eukaryotes impacts biased amino acid usage in proteomes," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    17. Louis-François Handfield & Yolanda T Chong & Jibril Simmons & Brenda J Andrews & Alan M Moses, 2013. "Unsupervised Clustering of Subcellular Protein Expression Patterns in High-Throughput Microscopy Images Reveals Protein Complexes and Functional Relationships between Proteins," PLOS Computational Biology, Public Library of Science, vol. 9(6), pages 1-19, June.
    18. Nicola M. Moloney & Konstantin Barylyuk & Eelco Tromer & Oliver M. Crook & Lisa M. Breckels & Kathryn S. Lilley & Ross F. Waller & Paula MacGregor, 2023. "Mapping diversity in African trypanosomes using high resolution spatial proteomics," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    19. Md. Abdulla Al Mamun & Wei Cao & Shugo Nakamura & Jun-ichi Maruyama, 2023. "Large-scale identification of genes involved in septal pore plugging in multicellular fungi," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    20. Rory M Donovan & Jose-Juan Tapia & Devin P Sullivan & James R Faeder & Robert F Murphy & Markus Dittrich & Daniel M Zuckerman, 2016. "Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories," PLOS Computational Biology, Public Library of Science, vol. 12(2), pages 1-25, February.
    21. Chung-Chi Liao & Yi-Sen Wang & Wen-Chieh Pi & Chun-Hsiung Wang & Yi-Min Wu & Wei-Yi Chen & Kuo-Chiang Hsia, 2023. "Structural convergence endows nuclear transport receptor Kap114p with a transcriptional repressor function toward TATA-binding protein," Nature Communications, Nature, vol. 14(1), pages 1-16, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:nature:v:425:y:2003:i:6959:d:10.1038_nature02026. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.