Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly.
Li H., Janssens J., De Waegeneer M., Kolluru SS., Davie K., Gardeux V., Saelens W., David FPA., Brbić M., Spanier K., Leskovec J., McLaughlin CN., Xie Q., Jones RC., Brueckner K., Shim J., Tattikota SG., Schnorrer F., Rust K., Nystul TG., Carvalho-Santos Z., Ribeiro C., Pal S., Mahadevaraju S., Przytycka TM., Allen AM., Goodwin SF., Berry CW., Fuller MT., White-Cooper H., Matunis EL., DiNardo S., Galenza A., O'Brien LE., Dow JAT., FCA Consortium§ None., Jasper H., Oliver B., Perrimon N., Deplancke B., Quake SR., Luo L., Aerts S., Agarwal D., Ahmed-Braimah Y., Arbeitman M., Ariss MM., Augsburger J., Ayush K., Baker CC., Banisch T., Birker K., Bodmer R., Bolival B., Brantley SE., Brill JA., Brown NC., Buehner NA., Cai XT., Cardoso-Figueiredo R., Casares F., Chang A., Clandinin TR., Crasta S., Desplan C., Detweiler AM., Dhakan DB., Donà E., Engert S., Floc'hlay S., George N., González-Segarra AJ., Groves AK., Gumbin S., Guo Y., Harris DE., Heifetz Y., Holtz SL., Horns F., Hudry B., Hung R-J., Jan YN., Jaszczak JS., Jefferis GSXE., Karkanias J., Karr TL., Katheder NS., Kezos J., Kim AA., Kim SK., Kockel L., Konstantinides N., Kornberg TB., Krause HM., Labott AT., Laturney M., Lehmann R., Leinwand S., Li J., Li JSS., Li K., Li K., Li L., Li T., Litovchenko M., Liu H-H., Liu Y., Lu T-C., Manning J., Mase A., Matera-Vatnick M., Matias NR., McDonough-Goldstein CE., McGeever A., McLachlan AD., Moreno-Roman P., Neff N., Neville M., Ngo S., Nielsen T., O'Brien CE., Osumi-Sutherland D., Özel MN., Papatheodorou I., Petkovic M., Pilgrim C., Pisco AO., Reisenman C., Sanders EN., Dos Santos G., Scott K., Sherlekar A., Shiu P., Sims D., Sit RV., Slaidina M., Smith HE., Sterne G., Su Y-H., Sutton D., Tamayo M., Tan M., Tastekin I., Treiber C., Vacek D., Vogler G., Waddell S., Wang W., Wilson RI., Wolfner MF., Wong Y-CE., Xie A., Xu J., Yamamoto S., Yan J., Yao Z., Yoda K., Zhu R., Zinzen RP.
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.