Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| gene (D. melanogaster) | cherub | NA | FLYB:FBgn0262972 | |
| gene (D. melanogaster) | Syncrip | NA | FLYB:FBgn0038826 | |
| gene (D. melanogaster) | Staufen | NA | FLYB:FBgn0003520 | |
| gene (D. melanogaster) | Imp | NA | FLYB:FBgn0285926 | |
| antibody | anti-Deadpan (guinea pig, polyclonal) |
PMID:24630726 | (1:1000) | |
| antibody | anti-Elav (rat, monoclonal) | Developmental Studies Hybridoma Bank |
7E8A10, RRID:AB_528218 | (1:200) |
| antibody | anti-Staufen (rat polyclonal) | PMID:19481457 | (1:100) | |
| antibody | anti-Staufen (goat polyclonal) | Santa Cruz Biotechnology | dN-16, sc-15823, RRID:AB_661413 |
(1:2000) |
| antibody | anti-Asense (rat polyclonal) | PMID:24630726 | (1:500) | |
| antibody | anti-HA (mouse monoclonal) | Roche | clone 12CA5, 11583816001 | |
| antibody | anti-aPKC (rabbit polyclonal) | Santa Cruz Biotechnology | sc-216, RRID:AB_2300359 | (1:500) |
| antibody | anti-GFP (chicken polyclonal) | Abcam | ab13970, RRID:AB_300798 | (1:500) |
| antibody | anti-Miranda (rabbit polyclonal) | PMID:24630726 | (1:500) | |
| antibody | secondary antibody (HRP-linked Whole Antibodies) |
GE Healthcare, Abcam, Santa Cruz Biotechnologies |
sc-2384, NA931V, ab6908, RRID:AB_955425, RRID:AB_634814 |
1:2000 |
| antibody | anti-Syncrip (guinea pig polyclonal) |
PMID:23213441 | (1:500) | |
| antibody | anti-PH3(Ser10) (mouse monoclonal) |
Cell Signalling Technologies | 9706S, RRID:AB_331748 | (1:1000) |
| antibody | Alexa 405, 488, 568, 647 | Invitrogen | Alexa Fluor dyes | (1:1500) |
| other | Hoechst 33342 | Thermo Scientific Fisher | 62249 | (20 µM) |
| chemical compound | Colcemid | Enzo Life Sciences | ALX-430–033 M001 | (25 µM) |
| chemical compound | Protein G Dynabeads | Thermo Scientific Fisher | 10004D | |
| Recombinant DNA reagent | genomic cherub region (Bac clone) |
Pacman Resources | CH322-116G10, FLYB:FBcl0758452 |
|
| Recombinant DNA reagent | Walium20 vector | Plasmid Repository of DNA Resource Core(Harvard Medical School) |
pWalium20 | |
| other | FISH probes labeled with Quasar Dye |
Biosearch Technologies | cherub all | this study - oligonucleotide sequence see Materials and methods |
| other | FISH probes labeled with Quasar Dye |
Biosearch Technologies | cherub RA/RC | this study - oligonucleotide sequence see Materials and methods |
| other | FISH probes labeled with Quasar Dye |
Biosearch Technologies | cherub RB/RC | this study - oligonucleotide sequence see Materials and methods |
| other | FISH probes labeled with Quasar Dye |
Biosearch Technologies | cherub RC | this study - oligonucleotide sequence see Materials and methods |
| software,algorithm | JACoP | PMID:17210054 | ||
| software,algorithm | Prism 7 | GraphPad Software | RRID:SCR_002798 | |
| software,algorithm | PhyloCSF | PMID:21685081 | ||
| software,algorithm | FlowJo software | FlowJo, LLC | RRID:SCR_008520 | |
| software,algorithm | BWA | PMID:19451168 | RRID:SCR_015853 | |
| software,algorithm | Picard tools (v1.82) | Broad Institute | RRID:SCR_006525 | http://broadinstitute.github.io/picard |
| software,algorithm | GATK (v2.3) | Broad Institute | RRID:SCR_001876 | https://software.broadinstitute.org/gatk/ |
| software,algorithm | MuTect (v1.1.4) | PMID:23396013 | RRID:SCR_000559 | |
| software,algorithm | SnpEff (v3.2a) | PMID:22728672 | RRID:SCR_005191 | |
| software,algorithm | Published aCGH datasets | PMID:22090375 and 21724831 | ||
| software,algorithm | TopHat | PMID:19289445 | RRID:SCR_013035 | |
| software,algorithm | DESeq (v1.10.1) | PMID:20979621 | RRID:SCR_000154 | |
| software,algorithm | HTSeq | PMID:25260700 | RRID:SCR_005514 | |
| software,algorithm | Biostrings | R package version 2.40.2. | ||
| commercial assay | Nextera DNA Library Preparation Kit |
Illumina | FC-121–1031 | |
| commercial assay | Agencourt AMPure XP beads | Beckman Coulter | A63880 | |
| commercial assay | TRIzol LS | Ambion | 10296010 | |
| commercial assay | NEBNext Ultra DNA Library Prep Kit |
Illumina | E7370S | |
| commercial assay | Agilent High Sensitivity DNA Kit | Agilent Technologies | 5067–4626 | |
| other | Rinaldini solution | PMID:22884370 | 1X | |
| Peptide | Staufen Blocking peptide | Santa Cruz Biotechnology | sc-15823P | used 10x amount of primary antibody |
| Peptide | HA Blocking Peptide | Roche | 11666975001 | used 10x amount of primary antibody |
| genetic reagent (Drosophila melanogaster) |
UAS-brat RNAi | Vienna Drosophila Resource Center |
VDRC:105054 and 31333 | |
| genetic reagent (Drosophila melanogaster) |
UAS-mira RNAi | PMID:16564014 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-mCherry RNAi | Bloomington Drosophila Stock Center |
BDSC:35785, RRID:BDSC_35785 |
|
| genetic reagent (Drosophila melanogaster) |
UAS-aPKCΔN | PMID:12629552 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-staufen RNAi | Vienna Drosophila Resource Center |
VDRC:106645 | |
| genetic reagent (Drosophila melanogaster) |
UAS-Syp RNAi | Vienna Drosophila Resource Center |
VDRC:33012 | |
| genetic reagent (Drosophila melanogaster) |
UAS-Syp-RB-HA | PMID:26472907 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-Imp RNAi | Bloomington Drosophila Stock Center |
BDSC:34977, RRID:BDSC_34977 |
|
| genetic reagent (Drosophila melanogaster) |
UAS-svp RNAi | Vienna Drosophila Resource Center |
VDRC:37087 | |
| genetic reagent (Drosophila melanogaster) |
UAS-svp | gift from Y. Hiromi | ||
| genetic reagent (Drosophila melanogaster) |
brat k06028 | PMID:10949924 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-dcr2; wor-GAL4, ase-GAL80; UAS-CD8::GFP |
PMID:21549331 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-dcr2; insc-GAL4, UAS-CD8::GFP |
PMID:21549331 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-stinger::RFP | PMID:11056799 | ||
| genetic reagent (Drosophila melanogaster) |
UAS-stinger::GFP | PMID:11056799 | ||
| genetic reagent (Drosophila melanogaster) |
tubulin-GAL80ts | Bloomington Drosophila Stock Center |
BDSC:7017, RRID:BDSC_7017 |
|
| genetic reagent (Drosophila simulans) |
D. simulans | Drosophila Species Stock Center |
14021–0251.265 | |
| genetic reagent (Drosophila willistoni) |
D. willistoni | Drosophila Species Stock Center |
14030–0814.10 | |
| genetic reagent (Drosophila melanogaster) |
UAS-cherub RNAi | this paper | RNAi against cherub | |
| genetic reagent (Drosophila melanogaster) |
cherubDEL | this paper | full deletion of cherub locus |
|
| genetic reagent (Drosophila melanogaster) |
cherubpromDEL | this paper | deletion of promotor region of cherub |
|
| genetic reagent (Drosophila melanogaster) |
cherubgenomic rescue | this paper | genomic rescue construct of cherub, BAC clone CH322-116G10 |