Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly

• DOI: 10.1126/science.abk2432
• Publication Date: 2022-03-03T18:55:57Z
• Authors: Hongjie Li; Jasper Janssens; Maxime De Waegeneer; Sai Saroja Kolluru; Kristofer Davie; Vincent Gardeux; Wouter Saelens; Fabrice P. A. David; Maria Brbić; Katina Spanier; Jure Leskovec; Colleen N. McLaug...; Qijing Xie; Robert C. Jones; Katja Brueckner; Jiwon Shim; Sudhir Gopal Tatt...; Frank Schnorrer; Katja Rust; Todd G. Nystul; Zita Carvalho-Santos; Carlos Ribeiro; Soumitra Pal; Sharvani Mahadeva...; Teresa M. Przytycka; Aaron M. Allen; Stephen F. Goodwin; Cameron W. Berry; Margaret T. Fuller; Helen White-Cooper; Erika L. Matunis; Stephen DiNardo; Anthony Galenza; Lucy Erin O’Brien; Julian A. T. Dow; ; Heinrich Jasper; Brian Oliver; Norbert Perrimon; Bart Deplancke; Stephen R. Quake; Liqun Luo; Stein Aerts; Devika Agarwal; Yasir Ahmed-Braimah; Michelle Arbeitman; Majd M. Ariss; Jordan Augsburger; Kumar Ayush; Catherine C. Baker; Torsten Banisch; Katja Birker; Rolf Bodmer; Benjamin Bolival; Susanna E. Brantley; Julie A. Brill; Nora C. Brown; Norene A. Buehner; Xiaoyu Tracy Cai; Rita Cardoso-Figu...; Fernando Casares; Amy Chang; Thomas R. Clandinin; Sheela Crasta; Claude Desplan; Angela M. Detweiler; Darshan B. Dhakan; Erika Donà; Stefanie Engert; Swann Floc’hlay; Nancy George; Amanda J. Gonzále...; Andrew K. Groves; Samantha Gumbin; Yanmeng Guo; Devon E. Harris; Yael Heifetz; Stephen L. Holtz; Felix Horns; Bruno Hudry; Ruei-Jiun Hung; Yuh Nung Jan; Jacob S. Jaszczak; Gregory S. X. E. ...; Jim Karkanias; Timothy L. Karr; Nadja Sandra Kath...; James Kezos; Anna A. Kim; Seung K. Kim; Lutz Kockel; Nikolaos Konstant...; Thomas B. Kornberg; Henry M. Krause; Andrew Thomas Labott; Meghan Laturney; Ruth Lehmann; Sarah Leinwand; Jiefu Li; Joshua Shing Shun Li; Kai Li; Ke Li; Liying Li; Tun Li; Maria Litovchenko; Han-Hsuan Liu; Yifang Liu; Tzu-Chiao Lu; Jonathan Manning; Anjeli Mase; Mikaela Matera-Va...; Neuza Reis Matias; Caitlin E. McDono...; Aaron McGeever; Alex D. McLachlan; Paola Moreno-Roman; Norma Neff; Megan Neville; Sang Ngo; Tanja Nielsen; Caitlin E. O’Brien; David Osumi-Suthe...; Mehmet Neset Özel; Irene Papatheodorou; Maja Petkovic; Clare Pilgrim; Angela Oliveira P...; Carolina Reisenman; Erin Nicole Sanders; Gilberto dos Santos; Kristin Scott; Aparna Sherlekar; Philip Shiu; David Sims; Rene V. Sit; Maija Slaidina; Harold E. Smith; Gabriella Sterne; Yu-Han Su; Daniel Sutton; Marco Tamayo; Michelle Tan; Ibrahim Tastekin; Christoph Treiber; David Vacek; Georg Vogler; Scott Waddell; Wanpeng Wang; Rachel I. Wilson; Mariana F. Wolfner; Yiu-Cheung E. Wong; Anthony Xie; Jun Xu; Shinya Yamamoto; Jia Yan; Zepeng Yao; Kazuki Yoda; Ruijun Zhu; Robert P. Zinzen
• Keywords: Male; 0301 basic medicine; General Science & Technology; 1.1 Normal biological development and functioning; FCA Consortium§; Genes, Insect; Single cell transcriptomics; Databases; 03 medical and health sciences; Genetic; Underpinning research; Databases, Genetic; Genetics; Animals; Drosophila Proteins; Gene Regulatory Networks; RNA-Seq; Cell Nucleus; Sex Characteristics; Multidisciplinary; Drosophila melanogaster; Genes; Gene Expression Regulation; Drosophila; Female; Generic health relevance; Atlas; Single-Cell Analysis; Transcriptome; Insect; Biotechnology; Transcription Factors

For more than 100 years, the fruit fly Drosophila melanogaster has been one of the most studied model organisms. Here, we present a single-cell atlas of the adult fly, Tabula Drosophilae , that includes 580,000 nuclei from 15 individually dissected sexed tissues as well as the entire head and body, annotated to >250 distinct cell types. We provide an in-depth analysis of cell type–related gene signatures and transcription factor markers, as well as sexual dimorphism, across the whole animal. Analysis of common cell types between tissues, such as blood and muscle cells, reveals rare cell types and tissue-specific subtypes. This atlas provides a valuable resource for the Drosophila community and serves as a reference to study genetic perturbations and disease models at single-cell resolution.