Table 1 |
||||||
| Gene, function and number of Oct and Oct-like/nub sites in the 5′ upstream region | ||||||
| A. Oct sites in immune and stress response genes with ≥2 fold change in carcass or gut (a) | ||||||
| Gene | Computed gene number | Function | Fold change carcass | Fold change gut | Oct sites | Oct-like /nub |
| CecA1 | CG1365 | Antimicrobial peptide | >10b | >10b | 3 | 2 |
| CecB | CG1878 | Antimicrobial peptide | 5.5 | −1.4 | 1 | |
| CecC | CG1373 | Antimicrobial peptide | 13 | b.b. | 2 | |
| AttC | CG4740 | Antimicrobial peptide | 45 | 14 | 2 | 1 |
| AttD | CG7629 | Antimicrobial peptide | 8.1 | −1.9 | 1 | |
| Def | CG1385 | Antimicrobial peptide | 15 | 1.7 | 2 | |
| Dpt | CG12763 | Antimicrobial peptide | >10b | 4b | 1 | |
| Dpt B | CG10794 | Antimicrobial peptide | 2.7 | −1.4 | 3 | |
| Drosocin | CG10816 | Antimicrobial peptide | 18 | 4.4 | 1 | 1 |
| Drs | CG10810 | Antimicrobial peptide | 4.9 | 1.1 | 1 | |
| Dro2 | CG32279 | Antimicrobial peptide | b.b | 4.1 | 3 | |
| Dro3 | CG32283 | Antimicrobial peptide | b.b | 2.2 | 1 | |
| Dro4 | CG32282 | Antimicrobial peptide | −2.5 | −2.2 | 1 | |
| Dro5 | CG10812 | Antimicrobial peptide | −1.2 | −7.9 | 2 | 1 |
| Listericin | CG9080 | Antimicrobial peptide | 4.4 | −1.7 | 2 | |
| Mtk | CG8175 | Antimicrobial peptide | 2.5 | 1.5 | 3 | 1 |
| Anp | CG1361 | Antimicrobial peptide | b.b | 154 | 5 | |
| LysX | CG9120 | Antimicrobial protein | b.b | −17 | 3 | |
| IM23 | CG15066 | Immune molecule | 21 | 3.5 | 2 | 1 |
| IM10 | CG18279 | Immune molecule | −20 | −26 | 2 | 1 |
| PGRP-SC2 | CG14745 | Recognition | 4.8 | 1.1 | 3 | |
| PGRP-SB1 | CG9681 | Recognition | 4.8 | 1.5 | 1 | |
| PGRP-LD | CG32912-RB/RA/RD | Recognition | 4.6 | 1.8 | 1 | |
| 2 | ||||||
| PGRP-LC | CG4432 | Recognition | 3.8 | 2.9 | 2 | |
| PGRP-LB | CC14704-RA/RC/RD | Recognition | 3.3 | 2.6 | 4 | |
| 5 | ||||||
| 4 | 1 | |||||
| Tep II | CG7052 | Recognition | 2.7 | 1.6 | 2 | |
| Tep IV | CG10363 | Recognition | 2.4 | 1.8 | 4 | |
| GNBP3 | CG5008 | Recognition | −2.1 | −3.9 | 3 | |
| Sr-CIV | CG3212 | Scavenger receptor | b.b | 11 | 1 | 1 |
| Galpha49B | CG17759-RD/RE | Signaling | 2.5 | 4.2 | 3 | 1 |
| Pirk | CG15687 | Signaling | 2.5 | 4.3 | 5 | |
| Prx2540-2 | CG11765 | Peroxiredoxin | 2.0 | −1.4 | 1 | |
| Tsf1 | CG6186 | Iron sequestration | 2.9 | 2.1 | 2 | |
| TotX | CG31193 | Stress peptide | 3.3 | 2.9 | 2 | |
| TotM | CG14027 | Stress peptide | 2.1 | 2.2 | 3 | |
| B. Oct sites in immune genes and in house-keeping genes with no significant fold change in carcass or gut (a) | ||||||
| Dro 6 | CG32268 | Antimicrobial peptide | 1.2 | 1.0 | – | – |
| Drs-like | CG32274 | Antimicrobial peptide | 1.2 | 1.1 | – | – |
| Bsk | CG5680 | JNK Signaling | 1.1 | −1.3 | – | – |
| Gapdh1 | CG12055 | Glycolys | 1.2 | 1.1 | – | – |
| Rpl32/rp49 | CG7939 | Ribosomal protein | −1.1 | −1.1 | 1 | – |
| Act5C | CG4027 | Actin | 1.1 | 1.2 | – | – |
| Aats-arg | CG9020 | Arginine tRNA syntase | 1.0 | −1.1 | – | – |
Consensus sequence of Oct sites: AT(C,G)(C,G,T)AAA(A,T) and of the Oct-like/nub site: ATTCAAAT. Fold change indicates mRNA expression levels in gut and carcass, comparing wild type versus nub1 mutant, data taken from the microarray data in Additional files 5 and 8 unless other wise indicated. Non-reliable values due to concentrations below background have been removed. A longer list of analyzed genes including the positions of the Oct sites is presented as Additional file 11. aLocation of sites within 2000 bp from the transcription start site of respective gene or up to the nearest exone of an adjacent gene. bData taken from RT-qPCR results (Figures 1 and 3). b.b., concentrations below background.
Dantoft et al.
Dantoft et al. BMC Biology 2013 11:99 doi:10.1186/1741-7007-11-99
