Table 2.
List of Stem Cell Regulating Genes with Evidence of a Recent Selective Sweep Based on the SweepFinder Results of Pool et al. (2012)
| FBgn Name | Gene Name | Literature Annotated Functiona | GO Annotated Molecular Functionb |
|---|---|---|---|
| Both stem cell | |||
| FBgn0002787 | Rpn8 | GSCMAINT | Endopeptidase activity |
| FBgn0003607 | Su(var)205 | GSCDIFF; Transcription and chromatin remodeling | Chromatin binding |
| FBgn0010278 | Ssrp | GSCMAINT; NSCDIFF; Transcription and chromatin remodeling | Single-stranded DNA binding |
| FBgn0020306 | dom | GSCMAINT; Transcription and chromatin remodeling | Helicase activity |
| FBgn0025832 | Fen1 | GSCMAINT; GSCEF | Endonuclease activity |
| FBgn0030086 | CG7033 | GSCMAINT; CELLEF | ATP binding |
| FBgn0259937 | Nop60B | GSCMAINT; CELLEF; NSCSR; Ribosome biogenesis | Pseudouridylate synthase activity |
| FBgn0260399 | gwl | GSCMAINT; GSCEF | Protein ser/thr kinase activity |
| FBgn0261617 | nej | GSCDIFF; Transcription and chromatin remodeling | Transcription coactivator activity |
| FBgn0265297 | pAbp | GSCMAINT; Translation | Protein binding |
| Germline stem cell | |||
| FBgn0000562 | egl | Translation | mRNA binding |
| FBgn0000996 | dup | GSCMAINT | DNA binding |
| FBgn0001215 | Hrb98DE | Splicing | mRNA binding |
| FBgn0001233 | Hsp83 | — | ATPase activity, coupled |
| FBgn0002791 | mr | GSCMAINT; CELLEF | Ubiquitin protein ligase binding |
| FBgn0003676 | T-cp1 | GSCMAINT; CELLEF | Hydrogen-exporting ATPase activity |
| FBgn0004656 | fs(1)h | GSCMAINT | DNA binding |
| FBgn0004838 | Hrb27C | Splicing | mRNA 3′-UTR binding |
| FBgn0004872 | piwi | — | RNA binding |
| FBgn0011211 | blw | GSCDIFF; Mitochondrial function | Hydrogen-exporting ATPase activity |
| FBgn0011785 | BRWD3 | GSCMAINT; GSCEF | — |
| FBgn0013984 | InR | GSCMAINT | Insulin-activated receptor activity |
| FBgn0021796 | Tor | GSCMAINT; CELLEF | Protein kinase activity |
| FBgn0022943 | Cbp20 | GSCMAINT; CELLEF; Translation | RNA cap binding |
| FBgn0025724 | beta’COP | GSCMAINT | Structural molecule activity |
| FBgn0025830 | IntS8 | GSCMAINT; GSCEF | Molecular_function |
| FBgn0026252 | msk | GSCMAINT; CELLEF | Protein transmembrane transporter activity |
| FBgn0028411 | Nxt1 | GSCMAINT; CELLEF | — |
| FBgn0029113 | Uba2 | GSCMAINT; GSCEF | Ubiquitin activating enzyme activity |
| FBgn0031493 | CG3605 | GSCMAINT; CELLEF; Splicing | — |
| FBgn0031883 | CG11266 | — | mRNA binding |
| FBgn0032393 | CG12264 | GSCMAINT; CELLEF | Cystathionine gamma-lyase activity |
| FBgn0035854 | CG8005 | — | — |
| FBgn0039120 | Nup98-96 | Nuclear pore | Protein binding |
| FBgn0053526 | PNUTS | GSCMAINT | Protein phosphatase regulator activity |
| FBgn0086899 | tlk | — | Protein ser/thr kinase activity |
| FBgn0260934 | Par-1 | GSCMAINT; CELLEF | Protein ser/thr kinase activity |
| FBgn0260936 | scny | GSCMAINT; CELLEF; Transcription and chromatin remodeling | Ubiquitin-specific protease activity |
| FBgn0261797 | Dhc64C | GSCDIFF; Kinetochore/Spindle | ATPase activity, coupled |
| FBgn0262647 | Nup160 | GSCMAINT; CELLEF; Nuclear pore | Protein binding |
| FBgn0262656 | dm | GSCMAINT; Ribosome biogenesis | DNA binding |
| Neural stem cell | |||
| FBgn0000413 | da | NCDDIFF | DNA binding |
| FBgn0002917 | na | — | Cation channel activity |
| FBgn0010328 | woc | — | Protein binding |
| FBgn0015024 | CkIα | — | Protein kinase activity |
| FBgn0020653 | Trxr-1 | — | Protein homodimerization activity |
| FBgn0022238 | lolal | — | Sequence-specific DNA binding transcription factor activity |
| FBgn0024921 | Trn | — | Protein transmembrane transporter activity |
| FBgn0025463 | Bap60 | — | Transcription coactivator activity |
| FBgn0025571 | SF1 | — | Zinc ion binding |
| FBgn0025716 | Bap55 | — | Transcription coactivator activity |
| FBgn0030208 | PPP4R2r | — | Protein phosphatase regulator activity |
| FBgn0031456 | Trn-SR | — | Protein binding |
| FBgn0032388 | CG6686 | — | — |
| FBgn0035422 | RpL28 | — | Structural constituent of ribosome |
| FBgn0036248 | ssp | — | Beta-catenin binding |
| FBgn0038746 | Surf6 | — | Heme transporter activity |
| FBgn0053100 | 4EHP | — | Translation initiation factor activity |
| FBgn0061200 | Nup153 | — | Zinc ion binding |
| FBgn0261793 | Trf2 | — | Sequence-specific DNA binding transcription factor activity |
| FBgn0264962 | Inr-a | — | RNA binding |
Note.—CELLEF, germline general cell essential factor. GSCEF, germline stem cell specific essential factor. NSCCG, neural stem cell regulation of cell growth. NSCSR, neural stem cell self-renewal. Note that these were analyzed from all stem cell regulating gene list identified from both Neumüller et al. (2011) and Yan et al. (2014) regardless of whether it was assigned a control gene or not from this study.
aFunctional annotation based on the study of Neumüller et al. (2011) and Yan et al. (2014).
bFunctional annotation based on GO categorization on Flybase.