title: Regional Cell-Specific Transcriptome Mapping Reveals Regulatory Complexity in the Adult Drosophila Midgut.
abstract: Deciphering contributions of specific cell types to organ function is experimentally challenging. The Drosophila midgut is a dynamic organ with five morphologically and functionally distinct regions (R1-R5), each composed of multipotent intestinal stem cells (ISCs), progenitor enteroblasts (EBs), enteroendocrine cells (EEs), enterocytes (ECs), and visceral muscle (VM). To characterize cellular specialization and regional function in this organ, we generated RNA-sequencing transcriptomes of all five cell types isolated by FACS from each of the five regions, R1-R5. In doing so, we identify transcriptional diversities among cell types and document regional differences within each cell type that define further specialization. We validate cell-specific and regional Gal4 drivers; demonstrate roles for transporter Smvt and transcription factors GATAe, Sna, and Ptx1 in global and regional ISC regulation, and study the transcriptional response of midgut cells upon infection. The resulting transcriptome database (http://flygutseq.buchonlab.com) will foster studies of regionalization, homeostasis, immunity, and cell-cell interactions.
authors.affiliation: German Cancer Research Center (DKFZ), Center for Molecular Biology Heidelberg University (ZMBH) Alliance, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany.
authors.forename: Devanjali
authors.initials: D
authors.lastname: Dutta
authors.affiliation: Department of Entomology, Cornell University, Ithaca, NY 14853, USA.
authors.forename: Adam J
authors.initials: AJ
authors.lastname: Dobson
authors.affiliation: Department of Entomology, Cornell University, Ithaca, NY 14853, USA.
authors.forename: Philip L
authors.initials: PL
authors.lastname: Houtz
authors.affiliation: German Cancer Research Center (DKFZ), Center for Molecular Biology Heidelberg University (ZMBH) Alliance, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany.
authors.forename: Christine
authors.initials: C
authors.lastname: Gläßer
authors.affiliation: Department of Entomology, Cornell University, Ithaca, NY 14853, USA.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Revah
authors.affiliation: German Cancer Research Center (DKFZ), Center for Molecular Biology Heidelberg University (ZMBH) Alliance, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany.
authors.forename: Jerome
authors.initials: J
authors.lastname: Korzelius
authors.affiliation: German Cancer Research Center (DKFZ), Center for Molecular Biology Heidelberg University (ZMBH) Alliance, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany.
authors.forename: Parthive H
authors.initials: PH
authors.lastname: Patel
authors.affiliation: German Cancer Research Center (DKFZ), Center for Molecular Biology Heidelberg University (ZMBH) Alliance, Im Neuenheimer Feld 282, 69120 Heidelberg, Germany. Electronic address: b.edgar@dkfz.de.
authors.forename: Bruce A
authors.initials: BA
authors.lastname: Edgar
authors.affiliation: Department of Entomology, Cornell University, Ithaca, NY 14853, USA. Electronic address: nicolas.buchon@cornell.edu.
authors.forename: Nicolas
authors.initials: N
authors.lastname: Buchon
mesh_terms: D000009:Abdominal Muscles / Q000166:cytology / Q000378:metabolism; D000818:Animals; D002454:Cell Differentiation; D049109:Cell Proliferation; D002470:Cell Survival; D004330:Drosophila / Q000235:genetics / Q000378:metabolism*; D029721:Drosophila Proteins / Q000037:antagonists & inhibitors / Q000235:genetics / Q000378:metabolism; D020895:Enterocytes / Q000166:cytology / Q000378:metabolism; D019858:Enteroendocrine Cells / Q000166:cytology / Q000378:metabolism; D050980:GATA Transcription Factors / Q000037:antagonists & inhibitors / Q000235:genetics / Q000378:metabolism; D007413:Intestinal Mucosa / Q000378:metabolism; D007422:Intestines / Q000166:cytology*; D025341:Principal Component Analysis; D034622:RNA Interference; D034741:RNA, Small Interfering / Q000378:metabolism; D000071250:Snail Family Transcription Factors; D013234:Stem Cells / Q000166:cytology / Q000378:metabolism; D027981:Symporters / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism; D059467:Transcriptome
chemical_list: D029721:Drosophila Proteins; D050980:GATA Transcription Factors; C499641:GATAe protein, Drosophila; D034741:RNA, Small Interfering; D000071250:Snail Family Transcription Factors; D027981:Symporters; D014157:Transcription Factors; C119981:biotin transporter; C435749:kay protein, Drosophila; C000604451:sna protein, Drosophila