|
Display additional annotations [+]
Gene |
Clone |
Species |
Stages |
Anatomy |
darmin
|
|
laevis
|
NF stage 35 and 36
|
endoderm
,
midgut
,
hindgut
|
sox2
|
|
laevis
|
NF stage 35 and 36
|
brain
,
spinal cord
,
foregut
,
head
,
pharyngeal region
|
nkx2-1
|
|
laevis
|
NF stage 35 and 36
|
forebrain
,
hindbrain
,
endoderm
,
lung bud
|
hhex
|
|
laevis
|
NF stage 20
|
mesoderm
,
endoderm
,
foregut
|
nkx2-5
|
|
laevis
|
NF stage 35 and 36
|
heart
,
foregut
,
pharyngeal region
|
ventx2
|
|
laevis
|
NF stage 20
|
mesoderm
,
circumblastoporal collar
,
endoderm
,
hindgut
|
|
|
Fig. S1: Transcriptional program of FG and HG progenitors in vivo.
(A) Scatter plot of log fold change (log2FC) in expression between HG versus FG samples and endo
versus meso samples. HG-enriched transcripts (green), FG-enriched transcripts (orange) meso-enriched
transcripts (red) and endo-enriched transcripts (yellow) based on log2 fold change (FC) ≤-1 or ≥1 and
false discovery rate (FDR) ≤5%. (B) Xenopus orthologs of genes known to be involved in human and
mouse GI development (manually curated list from the literature) are present in our FG-enriched and HGenriched
gene lists. The heatmap shows that the Xenopus transcripts have restricted expression in
manner predicted from the mouse and human literature, illustrating high conservation across species. (C)
GO term enrichment analysis of 172 FG-endo, 294 FG-meso, 518 HG-endo and 202 HG-meso genes
from Fig. 1C. (D) BMP and Wnt pathway components that are expressed in any sample (FG-endo, FGmeso,
HG-endo or HG-meso) above one transcripts per-million reads (TPM >1; lower than this is
considered not expressed). The heatmap shows that BMP pathway genes are expressed in both the FG
and HG, whereas Wnt ligands are generally restricted to the HG and Wnt-antagonists enriched in the FG.
(E) In situ hybridization of mid-sagittal section stage NF20 (hhex and ventx2.1) or NF35 embryos (nr1h5,
nkx2-1, nkx2-5, sox2 and darmin) in DMH1 or Tg(hsp70:dkk1) embryos; anterior left and dorsal up. |