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

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. McLaughlin; Qijing Xie; Robert C. Jones; Katja Brueckner; Jiwon Shim; Sudhir Gopal Tattikota; Frank Schnorrer; Katja Rust; Todd G. Nystul; Zita Carvalho-Santos; Carlos Ribeiro; Soumitra Pal; Sharvani Mahadevaraju; 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

doi:10.1126/science.abk2432

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

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. McLaughlin, Qijing Xie, Robert C. Jones, Katja Brueckner, Jiwon Shim, Sudhir Gopal Tattikota, Frank Schnorrer, Katja Rust, Todd G. NystulZita Carvalho-Santos, Carlos Ribeiro, Soumitra Pal, Sharvani Mahadevaraju, 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

School of Medicine

Research output: Contribution to journal › Article › peer-review

Abstract

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.

Original language	English (US)
Article number	eabk2432
Journal	Science
Volume	375
Issue number	6584
DOIs	https://doi.org/10.1126/science.abk2432
State	Published - Mar 4 2022

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10.1126/science.abk2432

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Li, H., Janssens, J., de Waegeneer, M., Kolluru, S. S., Davie, K., Gardeux, V., Saelens, W., David, F. P. A., Brbić, M., Spanier, K., Leskovec, J., McLaughlin, C. N., Xie, Q., Jones, R. C., Brueckner, K., Shim, J., Tattikota, S. G., Schnorrer, F., Rust, K., ... Aerts, S. (2022). Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly. Science, 375(6584), Article eabk2432. https://doi.org/10.1126/science.abk2432

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, Jasper, H, Oliver, B, Perrimon, N, Deplancke, B, Quake, SR, Luo, L & Aerts, S 2022, 'Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly', Science, vol. 375, no. 6584, eabk2432. https://doi.org/10.1126/science.abk2432

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title = "Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly",

abstract = "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.",

author = "Hongjie Li and Jasper Janssens and {de Waegeneer}, Maxime and Kolluru, {Sai Saroja} and Kristofer Davie and Vincent Gardeux and Wouter Saelens and David, {Fabrice P.A.} and Maria Brbi{\'c} and Katina Spanier and Jure Leskovec and McLaughlin, {Colleen N.} and Qijing Xie and Jones, {Robert C.} and Katja Brueckner and Jiwon Shim and Tattikota, {Sudhir Gopal} and Frank Schnorrer and Katja Rust and Nystul, {Todd G.} and Zita Carvalho-Santos and Carlos Ribeiro and Soumitra Pal and Sharvani Mahadevaraju and Przytycka, {Teresa M.} and Allen, {Aaron M.} and Goodwin, {Stephen F.} and Berry, {Cameron W.} and Fuller, {Margaret T.} and Helen White-Cooper and Matunis, {Erika L.} and Stephen DiNardo and Anthony Galenza and O{\textquoteright}Brien, {Lucy Erin} and Dow, {Julian A.T.} and Heinrich Jasper and Brian Oliver and Norbert Perrimon and Bart Deplancke and Quake, {Stephen R.} and Liqun Luo and Stein Aerts",

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month = mar,

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doi = "10.1126/science.abk2432",

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T2 - A single-nucleus transcriptomic atlas of the adult fruit fly

AU - Li, Hongjie

AU - Janssens, Jasper

AU - de Waegeneer, Maxime

AU - Kolluru, Sai Saroja

AU - Davie, Kristofer

AU - Gardeux, Vincent

AU - Saelens, Wouter

AU - David, Fabrice P.A.

AU - Brbić, Maria

AU - Spanier, Katina

AU - Leskovec, Jure

AU - McLaughlin, Colleen N.

AU - Xie, Qijing

AU - Jones, Robert C.

AU - Brueckner, Katja

AU - Shim, Jiwon

AU - Tattikota, Sudhir Gopal

AU - Schnorrer, Frank

AU - Rust, Katja

AU - Nystul, Todd G.

AU - Carvalho-Santos, Zita

AU - Ribeiro, Carlos

AU - Pal, Soumitra

AU - Mahadevaraju, Sharvani

AU - Przytycka, Teresa M.

AU - Allen, Aaron M.

AU - Goodwin, Stephen F.

AU - Berry, Cameron W.

AU - Fuller, Margaret T.

AU - White-Cooper, Helen

AU - Matunis, Erika L.

AU - DiNardo, Stephen

AU - Galenza, Anthony

AU - O’Brien, Lucy Erin

AU - Dow, Julian A.T.

AU - Jasper, Heinrich

AU - Oliver, Brian

AU - Perrimon, Norbert

AU - Deplancke, Bart

AU - Quake, Stephen R.

AU - Luo, Liqun

AU - Aerts, Stein

PY - 2022/3/4

Y1 - 2022/3/4

N2 - 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.

AB - 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.

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DO - 10.1126/science.abk2432

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JO - Science

JF - Science

IS - 6584

M1 - eabk2432

ER -

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

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