title: The mRNA-bound proteome of the early fly embryo.
abstract: Early embryogenesis is characterized by the maternal to zygotic transition (MZT), in which maternally deposited messenger RNAs are degraded while zygotic transcription begins. Before the MZT, post-transcriptional gene regulation by RNA-binding proteins (RBPs) is the dominant force in embryo patterning. We used two mRNA interactome capture methods to identify RBPs bound to polyadenylated transcripts within the first 2 h of Drosophila melanogaster embryogenesis. We identified a high-confidence set of 476 putative RBPs and confirmed RNA-binding activities for most of 24 tested candidates. Most proteins in the interactome are known RBPs or harbor canonical RBP features, but 99 exhibited previously uncharacterized RNA-binding activity. mRNA-bound RBPs and TFs exhibit distinct expression dynamics, in which the newly identified RBPs dominate the first 2 h of embryonic development. Integrating our resource with in situ hybridization data from existing databases showed that mRNAs encoding RBPs are enriched in posterior regions of the early embryo, suggesting their general importance in posterior patterning and germ cell maturation.
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Hans-Hermann
authors.initials: HH
authors.lastname: Wessels
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Koshi
authors.initials: K
authors.lastname: Imami
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Alexander G
authors.initials: AG
authors.lastname: Baltz
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Marcin
authors.initials: M
authors.lastname: Kolinski
authors.affiliation: Department of Biology, New York University, New York, New York 10003, USA;
authors.forename: Anastasia
authors.initials: A
authors.lastname: Beldovskaya
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Matthias
authors.initials: M
authors.lastname: Selbach
authors.affiliation: Department of Biology, New York University, New York, New York 10003, USA;
authors.forename: Stephen
authors.initials: S
authors.lastname: Small
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany; Department of Biology, Humboldt University, 10115 Berlin, Germany.
authors.forename: Uwe
authors.initials: U
authors.lastname: Ohler
authors.affiliation: Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 13125 Berlin, Germany;
authors.forename: Markus
authors.initials: M
authors.lastname: Landthaler
mesh_terms: D000818:Animals; D029721:Drosophila Proteins / Q000378:metabolism*; D004331:Drosophila melanogaster / Q000196:embryology / Q000235:genetics* / Q000378:metabolism; D047108:Embryonic Development; D005260:Female; D018507:Gene Expression Regulation, Developmental; D008297:Male; D011485:Protein Binding; D020543:Proteome / Q000378:metabolism*; D012333:RNA, Messenger / Q000378:metabolism*; D016601:RNA-Binding Proteins / Q000378:metabolism*
chemical_list: D029721:Drosophila Proteins; D020543:Proteome; D012333:RNA, Messenger; D016601:RNA-Binding Proteins