| Table S3. Forty genes selected from DEGs identified in Pt-msx1 pRNAi and RNA-seq
experiments at stage 6 |
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| adapted from
Akiyama-Oda and Oda, Sci. Adv. 6, eaba7261 (2020) |
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| under a Creative Commons
Attribution License 4.0 (CC BY 4.0) |
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| geneID |
Gene name |
logFC(msx6) |
FDR(msx6) |
logFC(hh5) |
FDR(hh5) |
logFC(ptc5) |
FDR(ptc5) |
link to Genome Browser |
NCBI Gene ID (link to NCBI) |
Protein |
Symbol |
E-value |
Protein |
Symbol |
E-value |
Expression in early germ band* |
Expression in Pt-msx1 pRNAi |
| aug3.g9575 |
Pt-gas1 |
-1.21279643 |
3.68E-13 |
0.612531341 |
0.001975041 |
-4.06161243 |
2.86E-197 |
aug3.g9575 |
LOC107438015 |
Protein slit |
sli |
0.69 |
Growth
arrest-specific protein 1 |
GAS1 |
3.00E-15 |
(Central),
Thorax |
Weakened |
| aug3.g8295 |
Pt-mirr4 |
1.03514229 |
4.88E-08 |
-0.72187909 |
8.75E-05 |
-2.54543962 |
7.85E-50 |
aug3.g8295 |
LOC107456088 |
Homeobox protein araucan |
ara |
2.00E-33 |
Iroquois-class
homeodomain protein IRX-6 |
IRX6 |
8.00E-34 |
(Intermediate) |
Expanded in
central region |
| aug3.g21549 |
Pt-odd-skipped
related-B (osr-B) |
1.136290431 |
2.02E-07 |
-0.83971509 |
0.000812917 |
-1.06876585 |
6.54E-12 |
aug3.g21549 |
LOC107451631 |
Protein sister of odd and bowel |
sob |
2.00E-85 |
Protein
odd-skipped-related 2 |
OSR2 |
3.00E-85 |
(Intermediate,
Peripheral, CM cells) |
Expanded in
central region |
| aug3.g27670 |
|
-1.1606515 |
5.36E-06 |
1.77599101 |
3.24E-22 |
-2.30933027 |
1.53E-07 |
aug3.g27670 |
LOC107442497 |
NA |
NA |
NA |
Zinc finger
protein 695 |
ZNF695 |
0.81 |
(Central),
Caudal lobe, Head |
Weakened |
| aug3.g407
(-> g22741) |
Pt-RTP-B |
-0.71704287 |
0.000828159 |
0.747022887 |
0.001355861 |
-3.49699876 |
3.17E-40 |
aug3.g407 |
LOC107440074 |
NA |
NA |
NA |
NA |
NA |
NA |
(Central),
Caudal lobe |
Relatively
normal |
| aug3.g13482 |
Pt-rhomboid |
0.88374402 |
0.003020701 |
-0.81908423 |
0.000162587 |
-4.63024116 |
7.05E-149 |
aug3.g13482 |
LOC107438948 |
RE60377p |
stet |
2.00E-62 |
Rhomboid-related
protein 2 |
RHBDL2 |
3.00E-41 |
(Intermediate) |
Expanded toward
central region |
| aug3.g14027 |
|
0.946942229 |
0.006265657 |
-2.80955067 |
7.07E-18 |
1.374926362 |
4.36E-09 |
aug3.g14027 |
LOC107439765 |
GM08240p |
CG8775 |
1.00E-127 |
Glutamyl
aminopeptidase (Aminopeptidase A) |
ENPEP |
2.00E-111 |
(Weak / No
signal) |
|
| aug3.g10793 |
|
-0.74646325 |
0.006904209 |
-0.90187815 |
0.00505427 |
-0.88301823 |
0.009585648 |
aug3.g10793 |
LOC107454330 |
CG5973, isoform A |
CG5973 |
1.00E-37 |
Alpha-tocopherol
transfer protein-like |
TTPAL |
4.00E-43 |
(Weak / No
signal) |
|
| aug3.g8250 |
Pt-BarH1 |
0.635228584 |
0.009227676 |
-2.70203876 |
8.84E-81 |
1.008019893 |
8.77E-10 |
aug3.g8250 |
LOC107456035 |
BarH2, isoform B |
B-H2 |
6.00E-46 |
BarH-like 1
homeobox protein |
BARHL1 |
2.00E-44 |
(Peripheral),
Head |
Relatively
normal |
| aug3.g18397 |
Pt-prd2 (pax3/7B) |
-1.580501 |
2.75E-13 |
0.555261514 |
0.01235854 |
-3.14193409 |
7.30E-66 |
aug3.g18397 |
LOC107445228 |
Protein gooseberry-neuro |
gsb-n |
8.00E-113 |
Paired box protein Pax-3 |
PAX3 |
2.00E-110 |
Caudal lobe/Clock-like |
Continued in caudal |
| aug3.g5047 |
Pt-asl-H |
-2.97244002 |
2.75E-13 |
0.009587766 |
0.994874051 |
-2.42274519 |
6.83E-06 |
aug3.g5047 |
LOC107452883 |
Achaete-scute complex protein T8 |
ase |
5.00E-07 |
Achaete-scute
homolog 1 |
ASCL1 |
3.00E-06 |
Caudal
lobe/Clock-like |
Missing |
| aug3.g3963 |
Pt-ets21c |
1.363281879 |
2.81E-12 |
0.481945762 |
0.279253556 |
-2.22837757 |
5.41E-24 |
aug3.g3963 |
LOC107451332 |
DNA-binding protein D-ETS-6 |
Ets21C |
6.00E-37 |
Friend leukemia
integration 1 transcription factor |
FLI1 |
9.00E-30 |
Thorax-opisthosoma
boundary |
Expanded in
caudal lobe |
| aug3.g9318 |
Pt-krüppel-1
(krü-1) |
-2.62364037 |
3.59E-09 |
0.014253507 |
0.991608757 |
-5.54062846 |
1.73E-10 |
aug3.g9318 |
LOC107453167 |
Protein krueppel |
Kr |
1.00E-79 |
Zinc finger
protein 568 |
ZNF568 |
5.00E-39 |
Caudal
lobe/Clock-like |
Missing |
| aug3.g16372 |
Pt-GCH1 |
-1.48825212 |
5.48E-08 |
-1.2203872 |
0.000492398 |
-0.27680034 |
0.540400776 |
aug3.g16372 |
LOC107442125 |
GTP cyclohydrolase 1 |
Pu |
1.00E-86 |
GTP
cyclohydrolase 1 |
GCH1 |
4.00E-96 |
Weak / No signal |
|
| aug3.g11688 |
Pt-pax6-A |
-2.63944164 |
5.48E-08 |
NA |
NA |
NA |
NA |
aug3.g11688 |
LOC107436595 |
GH14454p |
toy |
1.00E-129 |
Paired box
protein Pax-6 |
PAX6 |
1.00E-150 |
Head |
Weaken |
| aug3.g19819 |
|
-1.3924459 |
6.66E-08 |
0.917616634 |
7.52E-13 |
0.947711943 |
0.38723656 |
aug3.g19819 |
|
Cdc25-like protein phosphatase twine |
twe |
0.95 |
Small G protein
signaling modulator 2 |
SGSM2 |
0.92 |
No pattern |
|
| aug3.g1120 |
|
-1.64716562 |
6.66E-08 |
-1.16546478 |
0.087417633 |
-0.25177105 |
0.631171504 |
aug3.g1120 |
LOC107445673 |
Autophagy-specific gene 8a, isoform A |
Atg8a |
4.00E-15 |
Microtubule-associated
proteins 1A/1B light chain 3C |
MAP1LC3C |
2.00E-22 |
Weak / No signal |
|
| aug3.g25735 |
Pt-Na/Ca
exchange protein-A |
1.216370381 |
7.77E-08 |
-0.28351597 |
0.796990641 |
-0.83167208 |
0.013040798 |
aug3.g25735 |
LOC107452633 |
Na/Ca exchange protein |
Calx |
0 |
Sodium/calcium
exchanger 3 |
SLC8A3 |
0 |
Weak / No signal |
|
| aug3.g11206 |
|
1.998297826 |
2.04E-07 |
NA |
NA |
-2.23661046 |
1.51E-08 |
aug3.g11206 |
LOC107457468 |
Allatostatin-A |
AstA |
0.002 |
Pericentrin |
PCNT |
1.2 |
Weak / No signal |
|
| aug3.g16171 |
|
-2.10265298 |
1.19E-06 |
-1.51728121 |
0.004166502 |
0.711743873 |
0.166919191 |
aug3.g16171 |
LOC107441837 |
GH07253p |
stops |
3.00E-04 |
Ankyrin repeat
and SOCS box protein 17 |
ASB17 |
0.007 |
(Peripheral) |
Relatively
normal |
| aug3.g297 |
|
2.03561154 |
2.99E-06 |
NA |
NA |
NA |
NA |
aug3.g297 |
LOC107452634 |
MIP13816p |
CG11498-RA |
5.00E-33 |
Guanidinoacetate
N-methyltransferase |
GAMT |
4.2 |
Thorax-opisthosoma
boundary, very weak |
(Not determined) |
| aug3.g18316 |
|
-1.53909928 |
3.04E-06 |
-0.19963578 |
0.918010654 |
-0.62447156 |
0.253428422 |
aug3.g18316 |
LOC107445125 |
CG5428 |
St1 |
3.00E-23 |
Sulfotransferase
1C2 |
SULT1C2 |
2.00E-32 |
Weak / No signal |
|
| aug3.g17399 |
Pt-histone
H2A-2 (H2A-2) |
-1.28193545 |
4.43E-06 |
0.032240452 |
0.967654993 |
1.154737366 |
0.00051566 |
aug3.g17399 |
LOC107443684 |
Histone H2A |
His2A |
4.00E-53 |
Histone H2A type
1-A |
HIST1H2AA |
2.00E-48 |
Dividing cells |
Dividing cells |
| aug3.g1123 |
|
-1.87845686 |
1.09E-05 |
-0.74727563 |
0.012587057 |
-0.43662391 |
0.386412421 |
aug3.g1123 |
LOC107445674 |
Ecdysone-induced protein 78C |
Eip78C |
3.1 |
Intestinal-type
alkaline phosphatase |
ALPI |
0.23 |
Weak / No signal |
|
| aug3.g8877 |
|
2.997567724 |
2.03E-05 |
NA |
NA |
NA |
NA |
aug3.g8877 |
LOC107456846 |
Sodium/potassium-transporting ATPase subunit beta-2 |
nrv2 |
5.00E-30 |
Sodium/potassium-transporting ATPase subunit beta-1 |
ATP1B1 |
9.00E-13 |
Weak / No signal |
|
| aug3.g11448 |
|
-1.19641586 |
2.25E-05 |
-1.27342064 |
3.57E-06 |
-0.52792003 |
0.304897746 |
aug3.g11448 |
LOC110283280 |
Protein fork head |
fkh |
3.5 |
Uroplakin-1b |
UPK1B |
1.6 |
Weak / No signal |
|
| aug3.g14989 |
|
-0.84033622 |
2.47E-05 |
-0.83646248 |
0.004950856 |
0.167795827 |
0.6694956 |
aug3.g14989 |
LOC107441064 |
CG8839, isoform A |
CG8839 |
2.00E-105 |
Fatty-acid amide
hydrolase 2 |
FAAH2 |
7.00E-111 |
Weak / No signal |
|
| aug3.g19451 |
Pt-pax6-B |
-2.28930429 |
2.73E-05 |
NA |
NA |
NA |
NA |
aug3.g19451 |
LOC107446875 |
Twin of eyeless, isoform C |
toy |
3.00E-87 |
Paired box
protein Pax-6 |
PAX6 |
1.00E-87 |
No pattern |
|
| aug3.g23620 |
|
-1.06997017 |
3.28E-05 |
-1.10675869 |
6.28E-06 |
-0.34531156 |
0.447447274 |
aug3.g23620 |
LOC107452446 |
CG9317, isoform A |
CG9317 |
2.00E-69 |
Solute carrier
family 22 member 2 |
SLC22A2 |
2.00E-49 |
Weak / No signal |
|
| aug3.g3346 |
Pt-zfp36-A |
0.930872999 |
3.85E-05 |
1.783891306 |
3.82E-09 |
0.290005648 |
0.31795962 |
aug3.g3346 |
LOC107450449 |
Protein TIS11 |
Tis11 |
2.00E-39 |
Zinc finger
protein 36, C3H1 type-like 1 (Fragment) |
ZFP36L1 |
3.00E-42 |
No pattern |
|
| aug3.g27619 |
Pt-CG8312-B |
1.08110734 |
4.11E-05 |
2.162155611 |
7.15E-09 |
0.610302696 |
0.016819886 |
aug3.g27619 |
LOC107442388 |
GH04568p |
CG8312 |
8.00E-67 |
Protein FAM43A |
FAM43A |
8.00E-32 |
Weak / No signal |
|
| aug3.g3231 |
Pt-Dipeptidyl-peptidase
1-A |
-0.7626995 |
4.84E-05 |
0.309892719 |
0.246374892 |
-0.04325485 |
0.924903201 |
aug3.g3231 |
LOC107450247 |
CG3074, isoform A |
Swim |
1.00E-39 |
cDNA FLJ55694,
highly similar to Dipeptidyl-peptidase 1 (EC
3.4.14.1) |
|
2.00E-151 |
Weak / No signal |
|
| aug3.g3735 |
|
-1.687542 |
8.53E-05 |
NA |
NA |
-0.74053211 |
0.14091056 |
aug3.g3735 |
|
CG8839, isoform A |
CG8839 |
8.00E-78 |
Fatty-acid amide
hydrolase 2 |
FAAH2 |
1.00E-68 |
Weak / No signal |
|
| aug3.g2550 |
Pt-caspase-B |
-0.95132141 |
0.000142936 |
0.529763477 |
0.218403857 |
-0.2133215 |
0.604195438 |
aug3.g2550 |
LOC107449050 |
Caspase |
Ice |
1.00E-44 |
Caspase-7 |
CASP7 |
2.00E-37 |
Weak / No signal |
|
| aug3.g15606 |
Pt-Scr-A |
-1.43394323 |
0.000252872 |
1.041978136 |
0.01824702 |
-3.41798366 |
5.43E-05 |
aug3.g15606 |
LOC107450661 |
Homeotic protein Sex combs reduced |
Scr |
1.00E-40 |
Homeobox protein
Hox-A5 |
HOXA5 |
1.00E-34 |
Thorax |
Missing |
| aug3.g25079 |
|
-3.220953 |
0.000253398 |
NA |
NA |
0.320024297 |
0.848357562 |
aug3.g25079 |
LOC107455623 |
CG14280 |
CG14280 |
2.00E-46 |
Tumor necrosis
factor-inducible gene 6 protein |
TNFAIP6 |
7.00E-04 |
Weak / No signal |
|
| aug3.g11061 |
Pt-sox2-A |
-0.72799705 |
0.000256555 |
-1.66702086 |
1.22E-06 |
0.104648322 |
0.839244951 |
aug3.g11061 |
LOC107457313 |
LD44245p |
SoxN |
5.00E-43 |
Transcription
factor SOX-2 |
SOX2 |
5.00E-50 |
Head |
Weakened |
| aug3.g4957 |
Pt-BDH1 |
-0.99992056 |
0.000263418 |
-1.160743 |
0.002155214 |
-0.55335511 |
0.134050513 |
aug3.g4957 |
LOC107452761 |
CG8888 |
CG8888 |
5.00E-30 |
D-beta-hydroxybutyrate
dehydrogenase, mitochondrial |
BDH1 |
1.00E-55 |
Weak / No signal |
|
| aug3.g4586 |
Pt-fd102C |
-1.82480754 |
0.000263418 |
NA |
NA |
NA |
NA |
aug3.g4586 |
LOC107452205 |
Forkhead domain 102C |
fd102C |
4.00E-67 |
Forkhead box
protein B1 |
FOXB1 |
2.00E-29 |
Head |
Weakened |
| aug3.g20968 |
Pt-hairy-D |
-0.88816727 |
0.000293895 |
-0.67384925 |
0.110471632 |
-0.15235794 |
0.618492466 |
aug3.g20968 |
LOC107449847 |
Protein deadpan |
dpn |
6.00E-17 |
Transcription
factor HES-1 |
HES1 |
1.00E-20 |
Caudal
lobe/Clock-like, Head, Thorax |
Missing |
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*Parentheses indicate expression in the germ
disc. |
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