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Table 2 Up-regulated genes of interest

From: Genome-wide transcriptome profiling and spatial expression analyses identify signals and switches of development in tapeworms

Contrast     Log2fold change (transformed mean expression Sample A–Sample B)
Gene model Type Classification Gene Larvae cf. Whole Adult Scolex-Neck cf. Mid Scolex-Neck cf. End Mid cf. Scolex-Neck Mid cf. End End cf. Scolex-Neck End cf. Mid
Larvae cf. Whole Adult
HmN_000064700 TF PRD homeobox aris-like b 7.4 (160–0)
HmN_000644000 TF TALE homeobox pknoxb 6.9 (669–4)
HmN_000423900 SC RTK signalling FGFR1 3.5 (1125–96)
HmN_000737100 TF ETS elf2-like 3.3 (131–13)
HmN_000627700 TF HMG-SOX sox15 3.1 (331–37)
HmN_000595200 SC Wnt signalling fzdEc 2.7 (1875–282)
HmN_000680300 TF Forkhead box foxJ3-like 2.5 (134–22)
HmN_000892300 TF LIM homeobox lhm3/4 2.4 (57–10)
HmN_000174100 TF T-box tbx2-like 1.9 (902–249)
HmN_000112200 SC Wnt signalling wnt2d 1.8 (166–46)
HmN_000055700 SC Notch signalling delta-1 1.6 (500–168)
HmN_000089900 TF E2F e2f4-like 1.3 (1084–432)
HmN_000599500 PTR RNA-binding protein bruno4-like 1.1 (2284–1093)
HmN_000307400 TF SINE homeobox unassignedb 1.0 (196–96)
HmN_000446600 SC Wnt signalling dishevelledb 0.6 (1153–781)
(Larvae cf. Whole Adult) AND (End cf. Scolex-Neck and Mid)
HmN_000689300 SC RTK signalling FGFR2 3.8 (1797–125) 2.0 (145–36) 1.7 (159–46)
HmN_000204900 TF Forkhead box foxO3/4 1.2 (3274–1441) 0.8 (1337–758) 1.2 (1464–634)
HmN_000191700 TF CUT homeobox cux/CASP-like 0.6 (1260–843) 0.9 (892–482) 1.2 (976–414)
(Larvae cf. Whole Adult) AND (Scolex-Neck cf. Mid and/or End)
HmN_000125600 TF Forkhead box foxQ2 9.0 (866–0.5) 6.2 (22–0)
HmN_000074300 TF POU homeobox pou-like b 6.8 (100–0) 4.2 (44–2) 4.5 (36–0)
HmN_000042400 TF PROX homeobox prox1 5.8 (1035–17) 4.2 (127–7) 3.4 (105–7)
HmN_000772500 TF ANTP-HOXL homeobox hox4/dfde 3.8 (1226–91) 4.7 (1424–53) 4.5 (1173–47)
HmN_000845400 TF PRD homeobox otp b 3.7 (157–12) 3.1 (89–10)
HmN_000747700 TF POU homeobox pou4 b 3.3 (130–13) 3.4 (58–5)
HmN_000874900 TF HMG-SOX soxPF2 3.2 (8390–889) 2.1 (2621–632) 2.8 (2159–310)
HmN_000639400 SC Notch signalling delta-2 3.0 (1697–210) 3.1 (773–92) 3.0 (636–75)
HmN_000311000 TF Forkhead box foxD-like 2.6 (808–136) 1.4 (279–105)
HmN_000553800 TF basic Helix-Loop-Helix myoD 2.5 (920–158) 3.2 (909–103) 3.5 (749–65)
HmN_000227100 SC Wnt signalling fzd1/2/3/6/7b 2.4 (4783–883) 1.4 (1616–593) 1.6 (1331–439)
HmN_000208300 TF HMG-SOX soxPF-1 2.2 (1211–260) 1.0 (308–150)
HmN_000521400 TF p54 family p54-like 1.8 (475–134) 2.5 (519–91) 4.1 (427–23)
HmN_000797200 TF p53 family p53-like 1.8 (2287–640) 1.1 (714–343)
HmN_000676800 SC Wnt signalling strabismus-2b 1.6 (1810–586) 0.7 (731–442) 0.9 (602–326)
HmN_000319700 SC Wnt signalling fzd4/FzBc 1.6 (2942–994) 2.1 (3006–687) 2.2 (2476–530)
HmN_000494900 TF HMG-SOX soxPF-3 1.4 (482–185) 1.9 (680–182) 2.6 (560–91)
HmN_000049300 TF Forkhead box foxK2-like 1.3 (830–346) 1.3 (327–133)
HmN_000187500 TF ANTP-HOXL homeobox post2/abdBe 1.2 (843–355) 2.1 (1027–233) 2.1 (846–201)
HmN_000710800 SC Notch signalling groucho2b 1.0 (4350–2141) 0.9 (1895–1037)
HmN_000853800 SC Notch signalling notch1b 0.5 (1086–759) 1.4 (1143–438) 0.8 (942–537)
Scolex-Neck cf. Mid and/or End
HmN_000638300 TF ANTP-NKL homeobox emxb 3.6 (97–7) 3.2 (80–7)
HmN_000385600 TF ANTP-HOXL homeobox meox-1b 3.3 (184–17) 5.3 (152–2)
HmN_000790000 TF Lozenge lz-2 2.7 (240–36) 3.0 (198–24)
HmN_000137200 TF bZIP bZIP137200 2.3 (1535–312)
HmN_000789900 TF Lozenge lz-1 2.2 (182–39) 1.8 (150–41)
HmN_000661900 SC TGF-β/BMP signalling bmp2-like 2.2 (87–19)
HmN_000146600 TF ETS Fli-1-like 2.2 (48–11)
HmN_000068600 SC Hedgehog signalling hedgehogb 1.8 (710–203) 1.8 (585–163)
HmN_000757800 TF POU homeobox pou3b 1.8 (576–167) 1.5 (475–168)
HmN_000328000 SC Wnt signalling wnt1d 1.8 (409–119) 1.4 (337–123)
HmN_000801500 TF GATA GATA2-like 1.5 (194–68)
HmN_000737000 TF ETS elf-1-like 1.5 (423–151)
HmN_000108100 SC Wnt signalling wnt5d 1.3 (304–120)
HmN_000098400 SC TGF-β/BMP signalling noggin-like 1.3 (658–266) 0.9 (542–280)
HmN_000022800 SC Wnt signalling wnt11bd 1.2 (877–373) 1.4 (723–267)
HmN_000010800 TF Hippo signalling TEF-5-like 1.2 (854–368)
HmN_000071500 TF ETS elf-like 1.2 (453–195)
HmN_000359400 SC Wnt signalling sfrp-like/SFLc 0.9 (2930–1523)
HmN_000683800 TF MADS-box mef2-like 0.9 (1220–656)
HmN_000204800 TF CCAAT/EBP c/ebp-like 0.9 (1321–725)
HmN_000762000 TF Forkhead box foxP1-like 0.8 (1182–657)
HmN_000395600 TF Nuclear receptor 2DBD-like 0.8 (800–449)
HmN_000727700 SC TGF-β/BMP signalling smad4-like-2 0.8 (435–246)
HmN_000031200 PTR RNA binding PA2G4-like 0.5 (4610–3218)
HmN_000433400 TF Wnt signalling strabismus-1 2.2 (603–131)
HmN_000204000 SC TGF-β/BMP signalling tgfb-like 2.0 (532–129)
HmN_000878900 SC TGF-β/BMP signalling admp-like 1.3 (373–152)
HmN_000932100 SC Wnt signalling WIFc 1.2 (236–104)
HmN_000997100 PTR DEAD-box helicase unidentified 0.9 (791–413)
HmN_000125500 PTR Pumilio pum1 0.8 (1107–634)
Mid cf. Scolex-Neck
HmN_000727400 TF Forkhead box foxA-like 8.0 (267–0.9) 7.4 (330–0.8)  
HmN_000114300 PTR Piwi-like argonaute group 4 argonautef 7.2 (5463–31)
HmN_000666600 TF PRD homeobox otx b 7.2 (153–0.8) 2.6 (132–17)
HmN_000356000 TF TALE homeobox TALE-likeb 7.1 (905–6)
HmN_000762300 PTR Boule/DAZL boule2 7.0 (3207–25) 2.9 (2783–225)
HmN_000995400   ubiquitin ligase complex zyg11-like 7.0 (1384–11) 6.1 (733–9)
HmN_000832500 TF ANTP-NKL homeobox bsxb 6.8 (44–0)
HmN_000607700 SC RTK signalling aFGF-like-2 6.4 (372–4)
HmN_000466300 TF PRD homeobox pax4/6b 6.3 (50–0.3)
HmN_000018500 SC RTK signalling aFGF-like-2 6.2 (331–4)
HmN_000400200 TF ANTP-HOXL homeobox post2-likee 6.0 (155–3)
HmN_000720400 TF TALE homeobox TALE-like-2b 6.0 (470–7) 3.0 (407–38)
HmN_000625100 TF RFX winged-helix DBD rfx3-like 5.9 (268–4) 2.5 (233–32)
HmN_000469100 TF TALE homeobox meis-like 5.6 (507–9)
HmN_000199100 TF PRD homeobox pax-like 4.7 (141–6) 1.8 (122–33)
HmN_000194800 TF ANTP-NKL homeobox dlxb 4.6 (1422–59)
HmN_000016500 TF ANTP-NKL homeobox msxlx b 4.4 (1037–48)
HmN_000453400 TF ANTP-HOXL homeobox meox-3b 4.0 (27–1)
HmN_000142300 TF Forkhead box foxC-like 3.9 (144–9)
HmN_000582900 TF LIM homeobox lhx2/9b 3.6 (163–13) 2.9 (141–15)
HmN_000304300 TF CUT homeobox onecut 3.3 (1359–135)
HmN_000307900 PTR DEAD-box helicase ddx17-like 3.3 (75–7)
HmN_000525500 TF DM domain sex-determining dmrt-like 2.9 (114–15)
HmN_000961600 TF PROX homeobox prox-2 2.7 (460–69) 3.3 (589–57)
HmN_000385900 TF E-box E2-alpha-like 2.4 (1681–321)
HmN_000343800 TF basic Helix-Loop-Helix HES2b 2.4 (130–25)
HmN_000631100 TF B cell factor family ebf/coe-like 2.3 (135–27)
HmN_000621400 TF C2H2 zinc finger homeobox zfh-1 1.9 (795–216)
HmN_000875600 TF Forkhead box foxJ1-like 1.7 (1116–341) 2.3 (967–176)
HmN_000516200 PTR Pumilio pum2 1.4 (1969–757)
HmN_000467100 TF X-box nfx1-like 1.0 (1295–641)
HmN_000663500 TF ANTP-NKL homeobox nk5/hmxb 1.0 (1102–563)
HmN_000278200 TF Basic leucine zipper bZIP278200 0.9 (294–155)
HmN_000190500 TF ANTP-NKL homeobox nk6b 0.8 (944–541)
HmN_000629700 TF Notch signalling strawberry notchb 0.7 (1317–819)
(Mid cf. End) AND (End cf. Scolex-Neck)
HmN_000458100   ubiquitin ligase complex zyg-11-like 2.2 (793–164) 1.6 (150–47)
End cf. Scolex-Neck and/or Mid
HmN_000663000 TF HMG-Sox sox5/6 3.1 (639–71)
HmN_000117000 TF ANTP-NKL homeobox barh-likeb 1.6 (627–202) 1.1 (685–312)
HmN_000560200 TF basic Helix-Loop-Helix bigmax-like 1.4 (2059–781) 1.1 (2251–1019)
HmN_000337700 SC Slit-Robo signalling slit-like 1.3 (984–393)
HmN_000208700 TF ANTP-NKL homeobox nk2.1b 1.1 (1107–511) 0.8 (1210–684)
HmN_000354400 SC Wnt signalling GSK3-like 0.9 (1823–935)
HmN_000758500 PTR Pumilio pum3 0.8 (4341–2460) 0.8 (4742–2621)
HmN_000556500 SC Wnt signalling sfrpc 0.7 (751–449) 1.1 (823–391)
HmN_000215100 TF Basic leucine zipper bzip-574300 1.8 (493–132)
HmN_000727600 SC TGF-β/BMP signalling smad4-like-1 0.8 (775–429)
  1. aGenes of interest: transcription factors (TF) (n.b. zinc fingers are listed separately in Table S3, Additional file 3), signalling components (SC) and post-transcriptional/translational regulators (PTR). Spatial expression patterns are discussed in the text for gene models shown in bold
  2. bGene identification based on Tsai et al. [35]
  3. cGene identification based on Koziol et al. [63]
  4. dGene identification based on Riddiford and Olson [178]
  5. eGene identification based on Olson [10]
  6. fGene identification based on Skinner et al. [13]