Gene expression studies for the analysis of domoic acid production in the marine diatom Pseudo-nitzschia multiseries

Table 4 Transcripts at lower levels in stationary (high-toxin-producing) as compared to late-exponential (low-toxin-producing) phase in Pseudo-nitzschia multiseries ( Ps-n ) as determined by cDNA microarray analysis

		Fold change^a
		Stationary versus late-exponential phase
Ps-n NR Identifier	JGI Ps-n Genome Hit	Non-axenic	Non-axenic	Axenic	Predicted gene product
	Scaffold:Start-End	Expt. 1	Expt. 2	Expt.
PSN0100	32:397085-398987	0.34 ± 0.01	0.33 ± 0.05	0.39 ± 0.01	Pyrophosphate-dependent phosphofructokinase (PFK)
PSN0060	133:16659-18505	0.20± 0.02	0.16 ± 0.03	0.44 ± 0.04	Predicted protein with signal or transit peptide
PSN0048	188:179178-180986	0.36± 0.08	0.25 ± 0.06	0.52 ± 0.05	Predicted protein with signal or transit peptide
PSN0080	461:123066-124152	0.32 ± 0.02	0.33 ± 0.03	0.57 ± 0.07	Predicted protein with mitochondrial transit peptide
135E4	1441:17433-18891	0.17 ± 0.00	0.19 ± 0.02	0.45 ± 0.02	Predicted protein
165G9	8:175639-176910	0.37 ± 0.02	0.37 ± 0.02	0.62 ± 0.04	Tetratricopeptide repeat protein
135H6^b	214:78592-7971	0.41 ± 0.00	0.22 ± 0.02	0.59 ± 0.00	Fucoxanthin-chlorophyll a-c binding protein,
					chloroplastic (FCP)

^aThe fold-change data presented are the average of all of the cDNA clones that were printed on the array for each transcript. The number of cDNA clones for each transcript was: PSN0100 (2), PSN0060 (5), PSN0048 (5), PSN0080 (3), 135E4 (1), 165G9 (1), 135H6 (1), and each clone was printed twice.
^b135H6 was included as a gene of interest in RT-qPCR analysis, below, although it did not meet our fold-change cut-off for the original FDR microarray analysis (yet, all LFDRs were <10%). Please see Methods for statistical analysis, and Additional file1 for FDR and LDFR data.

ISSN: 1471-2199