Transcriptome dynamics in the asexual cycle of the chordate Botryllus schlosseri

BMC Genomics

Table 5 Expression analysis of previously studied genes

Gene	References	GenBank IDs (mRNA)	ISH probe (nucleotides)	Best hits (scaffold IDs)	stringency conditions: expression level threshold: 0 for p-value: 0.05
Gene	References	GenBank IDs (mRNA)	ISH probe (nucleotides)	Best hits (scaffold IDs)	Filter for minimum clues: 3
					pre-TO vs MC	TO vs pre-TO	MC vs TO
CA1	Degasperi et al., 2009 [34]	FN178501.1	NP	g29085.t1
				g8425.t1
				g2746.t1
MA2		FN178503.1	1-1376	g27308.t1			↓
MA2		FN178503.1	1-1376	g10356.t1
TnT-c		FN178505.1	100-1103	g6900.t1
FoxI	Gasparini et al., 2013 [36]	HE681860.1	1-1167	TCONS_00000859
FoxI		HE681860.1	1-1167	TCONS_00002496
Six1/2		HE681849.1	1-724	g4758.t1			↑
Six3/6		HE681854	1-1106	g29556.t1
Eya		HE681857.1	1-517	g23845.t1
Eya		HE681857.1	1-517	g5457.t1.1
Cdh	Rosner et al., 2007 [37]	U61755.1	3867–4316	g54100.t1	↑		↓
RBL -3	Franchi et al., 2011 [35]	EU051318.1	19-456	g1465.t1

Results of the expression analysis (last three columns) using the web-based platform for the genes listed in the first column. ↓ or ↑: under- or over-expressed, respectively. Absence of arrow in the last three columns indicate that there is no significance in the difference of expression level. Second column: references relative to the ISH studies. Third column: reference the GenBank IDs for the transcripts of which the expression were investigated by ISH. Fourth column: nucleotide region utilized for the ISH probe, and for blast searches in the web-based platform. Fifth column: best hits as identified by blast searches and alignment analyses

ISSN: 1471-2164