Next-generation large-scale binary protein interaction network for Drosophila melanogaster
-
Published:2023-04-15
Issue:1
Volume:14
Page:
-
ISSN:2041-1723
-
Container-title:Nature Communications
-
language:en
-
Short-container-title:Nat Commun
Author:
Tang Hong-WenORCID, Spirohn KerstinORCID, Hu Yanhui, Hao TongORCID, Kovács István A.ORCID, Gao Yue, Binari Richard, Yang-Zhou Donghui, Wan Kenneth H.ORCID, Bader Joel S.ORCID, Balcha Dawit, Bian Wenting, Booth Benjamin W., Coté Atina G., de Rouck Steffi, Desbuleux Alice, Goh Kah Yong, Kim Dae-Kyum, Knapp Jennifer J.ORCID, Lee Wen Xing, Lemmens Irma, Li Cathleen, Li Mian, Li Roujia, Lim Hyobin Julianne, Liu Yifang, Luck KatjaORCID, Markey Dylan, Pollis CarlORCID, Rangarajan Sudharshan, Rodiger JonathanORCID, Schlabach Sadie, Shen Yun, Sheykhkarimli DayagORCID, TeeKing Bridget, Roth Frederick P.ORCID, Tavernier Jan, Calderwood Michael A.ORCID, Hill David E.ORCID, Celniker Susan E., Vidal Marc, Perrimon NorbertORCID, Mohr Stephanie E.ORCID
Abstract
AbstractGenerating reference maps of interactome networks illuminates genetic studies by providing a protein-centric approach to finding new components of existing pathways, complexes, and processes. We apply state-of-the-art methods to identify binary protein-protein interactions (PPIs) forDrosophila melanogaster. Four all-by-all yeast two-hybrid (Y2H) screens of > 10,000Drosophilaproteins result in the ‘FlyBi’ dataset of 8723 PPIs among 2939 proteins. Testing subsets of data from FlyBi and previous PPI studies using an orthogonal assay allows for normalization of data quality; subsequent integration of FlyBi and previous data results in an expanded binaryDrosophilareference interaction network, DroRI, comprising 17,232 interactions among 6511 proteins. We use FlyBi data to generate an autophagy network, then validate in vivo using autophagy-related assays. Thedeformed wings(dwg) gene encodes a protein that is both a regulator and a target of autophagy. Altogether, these resources provide a foundation for building new hypotheses regarding protein networks and function.
Funder
U.S. Department of Health & Human Services | National Institutes of Health Howard Hughes Medical Institute
Publisher
Springer Science and Business Media LLC
Subject
General Physics and Astronomy,General Biochemistry, Genetics and Molecular Biology,General Chemistry,Multidisciplinary
Reference88 articles.
1. Choi, S. G. et al. Maximizing binary interactome mapping with a minimal number of assays. Nat. Commun. 10, 3907 (2019). 2. Carazzolle, M. F. et al. IIS–Integrated Interactome System: a web-based platform for the annotation, analysis and visualization of protein-metabolite-gene-drug interactions by integrating a variety of data sources and tools. PLoS One 9, e100385 (2014). 3. Luck, K. et al. A reference map of the human binary protein interactome. Nature 580, 402–408 (2020). 4. Lambourne, L. et al. Binary interactome models of inner- versus outer-complexome organisation. bioRxiv, (2022). 2021.2003.2016.435663. 5. Mohr, S. E. & Perrimon, N. Drosophila melanogaster: A simple system for understanding complexity. Dis. Model. Mech. 12, dmm041871 (2019).
Cited by
6 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献
|
|