Oocytes of a single individual of Ciona intestinalis (Roscoff, France) were fertilized by a mixture of sperm of two individuals and development was followed microscopically. Embryos were snapfrozen in liquid nitrogen at the appropriate stage and kept at -80°C. Samples at stage 0, 8, 12, 15, 21, 26 were collected from the same fertilzation, while sample from stage 11 was independently collected from a different individual. Total RNA was prepared with the RNA II kit of Magerey Nagel and the quality was checked with the Bioanalyzer, all samples had a RIN value of higher than 9. Strand specific libraries were constructed and the sequencing (50PE) was performed with Illumina HiSeq 2000 technology (BGI, Hong Kong, China). Reads were aligned onto C.robusta genome and considered to reflect the expression of the C.robusta orthologous genes.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No signal was detected.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No distinct zygotic signal was detected.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No distinct zygotic signal was detected.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No distinct zygotic signal was detected.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No distinct zygotic signal was detected

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : No distinct zygotic signal was detected.

Vegetal view of a late gastrula stage wild type embryo probed for Ci-COE expression.

Original Annotation :
COE was expressed in A9.32 cell pair.

Vegetal view of a mid gastrula wild type embryo probed for Ci-COE expression.

Original Annotation :
Ci-COE expression was detected in A9.32 (neural plate) and in B7.8 cell pairs.

Vegetal view of a mid gastrula wild type embryo probed for Ci-COE expression.

Original Annotation :
Ci-COE expression was detected in A9.32 cell pair (neural plate).

Vegetative view of a mid gastrula. COE (also called Ebf) is expressed in A9.32 blastomer pair (row II of neural plate).

Vegetative view of a mid gastrula. COE (also called Ebf), is expressed in A9.32 blastomer pair (row II of neural plate).

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : nervous system

Aniseed Comment: update of annotation from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Imai et al.,2004 ; Imai et al., 2006). Vegetal views of a late gastrula stage wild type embryo probed for COE expression.

Vegetal pole view of a late tailbud stage wild type embryo probed for Ci-COE expression. This picture shows expression in the row II/column4 (A9.32). Numbers indicate any expression over the total number of embryos. Nuclei are labeled with Hoechst (white) to allow easy identification of individual cells.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : nervous system

Aniseed Comment: update of annotation from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Imai et al.,2004 ; Imai et al., 2006).

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : nervous system.
Comment : all or most of neurons

Early tailbud stage wild type embryo probed for Ci-COE expression.

Original annotation : expression of Ci-COE was detected in the tailbud embryos in a bilateral pair of cells in the rostral trunk epidermis (arrow) and in a second more posteriorly placed bilateral pair of cells in the neural tube.

Dorsal view of an early tailbud stage wild type embryo probed for COE expression.

Dorsal view of an early tailbud stage wild type embryo probed for Ci-COE expression.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.

Original Annotation :
Ci-COE expression was detected in the visceral ganglion (A11.120, A11.118, A11.117, A10.57 cell pairs).

Aniseed Annotation :
According to the picture, it seems that there is expression in the sensory vesicle.

Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :COE.
Expression pattern : nervous system.
Comment : all or most of neurons

Mid tailbud stage wild type embryo probed for Ci-COE expression.

Original annotation: expression is located to the future palps (arrow). An additional more posterior pair of cells also expresses Ci-COE, and these become localised to the brain.

Mid tailbud stage wild type embryo probed for Ci-COE expression. No picture available on the article.

Original Annotation :
Ci-COE expression was detected in A11.118, A11.117 and A12.238 cell pairs (visceral ganglion).

This reporter construct shows no activity in Ciona intestinalis late tailbuds.

Lateral view of the neck region of a WT Ciona robusta late tailbud embryo co-electroporated with COE>unc76::GFP (green) and Fgf8/17/18>unc76::mCherry (red) reporter constructs.
Original annotation: A 2.6 kb genomic DNA segment located upstream of the Coe gene directs expression in all of the differentiating visceral ganglion neural precursors (green).
(B) A9.30 lineage is marked by FGF8/17/18>mCherry (red).
(C) Merged view of A and B. COE>GFP marks both A12.240 and A12.239 (anterior-most cells), owing to transient expression in mother cell A11.120. Endogenous Coe expression becomes restricted to A12.239 and excluded from A12.240 starting at this time (data not shown).

Lateral view of the neck region of a WT Ciona robusta late tailbud embryo co-electroporated with COE>unc76::GFP (green) and Fgf8/17/18>unc76::mCherry (red) reporter constructs.
Original annotation:A9.30 lineage is marked by FGF8/17/18>mCherry (red).
(A) Coe enhancer directs GFP expression in all of the differentiating visceral ganglion neural precursors (green).
(C) Merged view of A and B.

Ventral view of a WT Ciona robusta late tailbud embryo probed for COE expression.
COE is expressed in lateral TVCs as early as the tailbud stage (pre-hatching, ~16 hpf). Ventral midline is shown as dotted line.

Dorsal view of a Ciona robusta hatching larva probed for COE expression.
COE is expressed in lateral TVCs, the atrial siphon muscle precursors.