A genomic approach to investigate developmental cell death in woody tissues of Populustrees

Table 1 The unique transcripts in the fiber death library within the POPULUSDB

Cluster	Transcript	Number of ESTs	Most similar Arabidopsis gene	E	Cellular compartment	Expression ratio B/A	P	B
11628	Glycosyl hydrolase family 1 protein	9	At3g60130	4.2E-126	Mitochondrion	29.0	0.00000060	11.8
11658	Proline-rich protein family	6	At2g27390	1.6E-18	Membrane	2.5	0.00015	3.1
11639	Oligopeptide transport family protein	5	At2g37900	1.3E-05	Membrane	2.8	0.00076	1.5
11646	Expressed protein	4	At2g22080	6.1E-01	Endomembrane system	7.9	0.0000091	7.2
11619	Expressed protein	4	At3g45160	2.8E-10	Endomembrane system	4.8	0.0000061	7.8
11625	Transferase family protein	4	At2g25150	3.8E-90		1.7	0.00036	1.9
11648	Basic helix-loop-helix family protein	4	At1g61660	2.9E-54	Chloroplast	1.3	0.14	-5.5
11665	Peroxidase	3	At1g05260	5.3E-119	Endoplasmic reticulum	5.5	0.0000079	7.4
11640	Expressed protein	3	At3g19340	1.2E-43	Membrane	1.1	0.83	-7.7
11662	Expressed protein	3	-	-	-	0.8	0.30	-6.1
11630	PHD-type zinc finger protein	3	At2g36720	1.2E-29	Nucleus	0.7	0.0014	0.2
11653	Ubiquinone reductase	3	At1g76340	9.9E-01	Membrane	0.5	0.010	-1.9

The table shows clusters that are unique to the fiber death library and have an EST abundance above two. The number of EST sequences in each cluster, the most similar Arabidopsis gene and the BLASTX value (E), and the corresponding gene expression from the microarray analysis are shown. The expression ratio is calculated between gene expression in sample B (fiber-cell death) and sample A (early fiber development). The transcripts were each represented on the microarray by a single cDNA clone. A statistically significant difference in gene expression is predicted for transcripts having P < 0.001 (t-test) and B > 0 (Bayesian statistics [55]). The whole list can be seen in Additional data file 1.

ISSN: 1474-760X