Table 2. 240 genes confer phenotypes in S. mediterranea.
See Figure 1E, F for phenotype terminology. “a” observed in “A” scoring (Figure 1B), “c”, observed in “C” scoring (all others observed in “B”). Blastema size: trunk cephalic; smll, small (when number unavailable); hyphen, for large range. Normal sizes not noted. Body fragments: hdfrg, head; tlfrg, tail. Body regions abbreviations are in Figure 1F. If BLST(>1), PR(no) noted if absent; if BLST(≤1), PR(ok) noted if present, nothing noted if absent. If BLST(≤2), “PHX” noted if abnormal and “PHX(ok)” if not. Nothing noted if pharynx data inconclusive. For BLST(≥2.5) ok pharynx regeneration not noted. Eating noted only when should have been possible. Days (d) following amputation noted if schedule atypical.
| Gene ID | Homology | Phenotype | ||
|---|---|---|---|---|
| RNAi limits regeneration, BLST(0–1.5), and causes curling (n=47) | ||||
| HB.14.06d | Argonaute | BLST(0); CRL; LYS(c) | ||
| HE.2.01H | Histone deacetylase 2 | BLST(0); CRL; LYS | ||
| NBE.1.04E | ribosomal protein L3 | BLST(0); CRL; LYS | ||
| NBE.3.08C | H.s.spastic paraplegia | BLST(1.5,ndnt); PHX; PR(no); RGRS(c,blst); CRL(c) | ||
| NBE.3.11F | chondrosarcoma CSA2 | BLST(0,ndnt[c]); REG(slow); CRL | ||
| NBE.4.04D | ADP-ribosylation GAP 3 | BLST(a,0); CRL(a); LYS(a) | ||
| NBE.4.06D | RNA-binding prot S1 | BLST(0,ndnt[c]); CRL; LYS(c) | ||
| NBE.4.08A | Prohibitin | BLST(0); CRL(c); LYS(c) | ||
| NBE.4.08C | PI transfer protein | BLST(0); RGRS; CRL(c); LYS(c) | ||
| NBE.4.10B | CDC23 | BLST(0); PHX; CRL(c); LYS(c) | ||
| NBE.6.12E | replication prot A1 | BLST(1); RGRS(c); CRL(c); LYS(c) | ||
| NBE.6.12H | anion/sugar transporter | BLST(0); CRL | ||
| NBE.7.07D | poly(A) binding prot II | BLST(1); PHX; CRL(c); LYS(c) | ||
| NBE.7.08A | Sec24C | BLST(a,0); CRL(a); LYS(a) | ||
| NBE.8.02D | Tubulin, gamma 1 | BLST(0.5); PHX; CRL(c) | ||
| NBE.8.12D | DEAD box; eIF-4a-like | BLST(0); CRL; LYS | ||
| Other, 31(ribosomal(18), splicing(2), metab(3), chaperones(3), proteasome(2), No match(3)) | ||||
| RNAi limits regeneration, BLST(0–1.5) (n=51) | ||||
| HE.1.07A | DEAD box polypeptide | BLST(1.5,ndnt); PR(no) | ||
| HE.2.01A | THOC4 protein | BLST(1.5); RGRS(b,blst) | ||
| HE.3.03B | SMAD4 | BLST(0.5,ndnt[a]) | ||
| HE.3.03E | prot phosphatase 1cgamma | BLST(0,split[c]); PHX; BUMP | ||
| HE.3.05A | Topoisomerase | BLST(1); PHX; PR(no) | ||
| HE.3.10F | Baf53a | BLST(1); REG(c,slow); PHX | ||
| HE.3.12B | Sec61 | BLST(a,1,ndnt); LYS(a) | ||
| HE.4.02E | DEAD box RNA helicase | BLST(1) | ||
| HE.4.05E | signal recog particle 54k | BLST(0); LES; LYS | ||
| NBE.2.01F | chromobox homolog 1 | BLST(0); PHX; RGRS | ||
| NBE.2.09B | Cyclin L1 | BLST(1.5,pnty); PHX; PR(fnt,cyc); RGRS(c); LES(c,phngl,big); LYS(c) | ||
| NBE.2.10C | tumor suppressor prot101 | BLST(a,1); PHX(a); LYS(a,early) | ||
| NBE.3.01A | K+ channel regulator | BLST(0–2); PR(close); RGRS(blst) | ||
| NBE.3.03G | Rho1 GTPase | BLST(1.5); TLBLST(c,smll,ndnt) | ||
| NBE.3.10d | U2 snRNP A’ | BLST(0.5,ndnt[a]); PHX; PR(no) | ||
| NBE.4.04F | Structure spec recog prot1 | BLST(0.5); PR(no); LYS(c) | ||
| NBE.4.12G | G protein suppressor 1 | BLST(1); PR(back); VAB | ||
| NBE.6.02C | Chromatin assemb fctr1 P55 | BLST(1,morph); PHX; PR(no,asym) | ||
| NBE.6.07H | striatin | BLST(0.5); PR(no); LYS(c) | ||
| Other, 32(TLN(14), metab(8), proteasome(3), protein sorting(4), no match(3)) | ||||
| RNAi limits regeneration, BLST(0–1.5), and perturbs behavior (n=6) | ||||
| HE.2.09G | RNA helicase | BLST(1); BHV(hdfrg) | ||
| HE.3.07A | Sly1 | BLST(a,smll); BHV(a); LES(a); LYS(a) | ||
| HE.3.07H | Novel | BLST(1.5,flt); PHX; PR(close); RGRS(c,pr[mid]); BHV(movt,flp,vib,light) | ||
| NBE.2.03h | No Match | BLST(1.5); PHX; PR(undv); BHV(a,movt,flp,vib,light) | ||
| NBE.2.09A | KH domain | BLST(1.5); PHX; PR(fnt;wd); BHV(movt,flp,tch,light) | ||
| NBE.6.09E | cyclin B5 | BLST(1.5); PR(no); BHV(movt,light); RGRS(c,blst) | ||
| RNAi reduces regeneration, BLST(2–2.5) (n=24) | ||||
| HB.19.8f | histone acetyltransferase | BLST(2); PR(fnt) | ||
| HE.1.01F | adenylate cyclase-assoc prot1 | BLST(2); PHX(ok); PR(fnt); LYS(c) | ||
| HE.1.06C | Actin | BLST(2); PHX; PR(fnt) | ||
| HE.1.06D | DEAD-box protein 54 | BLST(2); TLBLST(ndnt); PR(no,fnt) | ||
| HE.3.02A | WW domain prot2 | BLST(2); PHX(ok); BHV(sticky) | ||
| NBE.1.12F | TIMM50 phosphatase | BLST(2,morph) | ||
| NBE.2.09G | WD-40 repeat | BLST(2,overpig[bndry]); PHX; PR(close); CRL(c) | ||
| NBE.3.03D | serum response factor | BLST(2); PHX(ok); PR(diffuse); PIG(c,pr) | ||
| NBE.5.03E | ComB | BLST(2); PR(back); RGRS(c,tip) | ||
| NBE.7.09G | Mak16/RNA binding protein | BLST(2); PHX; PR(fnt,asym) | ||
| Other, 14 (TLN(5), metab(5), no match(3), vesicle traffic(1)) | ||||
| RNAi reduces regeneration, BLST(2–2.5), and perturbs behavior (n=11) | ||||
| HE.3.09F | casein kinase I | BLST(2); PR(wd); BHV(movt,eat) | ||
| HE.4.05F | sec granule neuroendocrine prot | BLST(2.5); BHV(movt,flp,vib,light); FLATTENED | ||
| NBE.1.05B | Elongation factor Tu | BLST(2, flt); PHX(ok); PR(back); BHV(movt) | ||
| NBE.1.12G | Tropomyosin 2 | BLST(2); BHV(movt,flp,light); HOURGLASS; LYS(c) | ||
| NBE.5.01A | APC subunit 1 | BLST(2,flt); PHX(ok); RGRS(c,tip); BHV(movt,flp) | ||
| NBE.5.04A | POU domain gene 50 | BLST(2.5); BHV(movt); SPOTS; BLI; BLT | ||
| NBE.6.09C | TXN coactivator tubedown100 | BLST(2,overpig[a]); PHX(ok); PR(no); BHV(jerky,flp,vib,light) | ||
| NBE.8.01B | NA/K-transporter | BLST(2,cntrct); BHV(prlzd,flp,vib,light); LYS(c) | ||
| Other, 3(no match) | ||||
| RNAi allows regeneration but causes tissue regression (n=4) | ||||
| HE.2.11C | MyosinII essential light chain | RGRS(c,asym) | ||
| NBE.2.08E | zinc transporter | PR(asym); RGRS(c,hdsd) | ||
| NBE.3.05F | FKBP-like | RGRS(c,blst) | ||
| NBE.4.12H | No Match | PHX; RGRS(c,hdblst) | ||
| RNAi perturbs blastema morphology but not formation (n=11) | ||||
| H.68.04A | Slit | BLST(flt); PR(slant,ectopic[41d]); GRWTH(c) | ||
| HE.1.05E | ACTG1 | BLST(pnty); PR(cyc); BHV(eat); BMP | ||
| HE.1.06A | synaptotagmin | BLST(pnty) | ||
| HE.2.07D | tolloid-BMP-1 | BLST(ndnt) | ||
| myoD | MyoD | BLST(pnty) | ||
| NBE.1.11D | moesin | BLST(pnty); PR(fuse) | ||
| NBE.2.06D | No Match | BLST(rdge,pnty); PR(fuse); BHV(hdlift) | ||
| NBE.3.12A | common-site lymphoma GEF | BLST(flt) | ||
| NBE.5.01G | neurexin I | HDBLST(ndnt); TLBLST(Split) | ||
| NBE.5.05E | Dorsal switch protein 1 | BLST(pnty); PR(fuse) | ||
| NBE.8.12A | ubiquitin activating enzyme | PR(wd); LES(c); VAB; GRWTH(c,tlfrag[pr]) | ||
| RNAi allows regeneration but perturbs photoreceptor formation (n=26) | ||||
| HE.1.03A | rab GDI | PR(fnt); LES(prephx) | ||
| HE.2.03F | DEAD box RNA helicase | PR(fnt) | ||
| HE.2.05E | myocyte enhancing factor 2 | PR(fnt); BHV(attach,eat) | ||
| HE.3.02C | ACY1L2 protein | PR(fnt,fuse,brown) | ||
| NBE.1.01E | polypyrimidine binding prot | PR(fnt) | ||
| NBE.1.05H | RGS9 | PR(no); BHV(light) | ||
| NBE.1.11C | Ku70-binding protein | PR(fnt) | ||
| NBE.4.10D | memb-bound O-acyl transferase | PR(fnt); BHV(light); FLATTENED | ||
| NBE.6.04A | HMGB2 protein | PR(fnt) | ||
| NBE.6.04H | tumor differentially expressed 2 | BLST(overpig); PR(fnt); BHV(light) | ||
| NBE.6.06A | senescence downregulated leo1 | PR(no,fnt) | ||
| NBE.7.03B | Rab-related GTPase | PR(fnt) | ||
| NBE.7.03H | signal recog particle rec, B | PR(c,fnt) | ||
| NBE.7.09D | ribonuclease | PR(fnt) | ||
| NBE.8.07H | astacin | PR(fnt); BHV(light) | ||
| Other, 11(no match/novel(6), metabolism(2), proteolysis(2), protein sorting(1)) | ||||
| RNAi allows regeneration but causes abnormal behavior (n=25) | ||||
| HE.1.01H | beta tubulin | BLST(cntrct); BHV(prlzd,flp,vib,tch,light); BLT; BLI; LYS(c) | ||
| HE.1.02E | coiled-coil, rootletin | BHV(movt,flp,tch); BLI; BLT | ||
| HE.1.03G | tubulin, alpha 3 | BLST(cntrct); BHV(glide,flp,vib,light); BLI; BLT; LYS(c,hdfrg) | ||
| HE.1.08G | Spectrin alpha chain | FRECKLES; BHV(movt,vib) | ||
| HE.1.08H | RNA-binding Cpo/MEC-8 | BHV(movt,flp,eat) | ||
| HE.2.02B | proprotein convertase 2 | BLST(2); BHV(prlzd,flp,vib,tch,light); LYS | ||
| HE.2.07B | Polypyrimidine binding prot2 | BHV(movt,flp); FLATTENED | ||
| HE.3.02G | inositol polyP multikinase | BHV(eat) | ||
| HE.3.06G | clathrin-associated protein | PR(diffuse); BHV(movt,flp,vib) | ||
| HE.4.01H | Na/K ATPase Transporter | BHV(movt,extend,flp,vib,light) | ||
| NBE.1.11B | nudC | PHX; PR(no); BHV(movt,flp); LES(c); LYS(c) | ||
| NBE.6.12B | Transcription factor BTF3 | BHV(movt,flp,light); LYS(hdfrg; tlfrg) | ||
| NBE.7.02G | GTP-binding reg beta chain | TLBLST(split); BHV(movt,flp) | ||
| NBE.7.10A | Zinc Finger Iguana/Dzip1 | BHV(inch,vib); BLI; BLT | ||
| NBE.8.03E | Outer dense fiber sperm tails 2 | BHV(sidewinder,light) | ||
| NBE.8.11B | Pre-acrosome localization prot | BHV(inch,eat) | ||
| NBE.8.11C | hepatocell carcinoma antigen127 | BHV(stick&stretch) | ||
| NBE.8.11E | WD-40 repeat g-prot beta-like | BHV(movt,flp); HOURGLASS; BUMP; LYS(c,hdfrag,tlfrag) | ||
| Other, 6(no match/novel) | ||||
| RNAi primarily causes early lysis (n=8) | ||||
| HE.3.01G | Na/K ATPase alpha | LYS(early) | ||
| HE.3.04D | no match | LYS(early) | ||
| HE.3.11E | Contactin | LYS(a,early) | ||
| NBE.1.07G | 60S ribosomal protein L9 | BLST(a,smll); BHV(a,movt); LYS(a) | ||
| NBE.5.12D | proteasome beta 4 subunit | LYS(a) | ||
| Other, 3(ARP2/3 subunits(2), no match(1)) | ||||
| RNAi allows regeneration but causes other defects (n=27) | ||||
| HE.4.06F | No Match | TLBLST(0,ndnt); PR(c,no) | ||
| NBE.3.07F | hunchback TXN factor | SPOTS, BLI, BLOAT | ||
| NBE.7.07H | nucleostemin/GTPase | TLBLST(0,split); REG(slow[phx]); PR(fnt) | ||
| NBE.7.09H | 3-hydroxybutyrate dehydrog | PHX(big) | ||
| NBE.8.03C | No Match | FRECKLES | ||
| NBE.8.09D | activin receptor kinase | BHV(light); FLATTENED; RDGE(drsl) | ||
| VC-1 only (n=11), H3P only (n=7), H3P/VC-1 (n=3) | ||||