Digital expression profiling of novel diatom transcripts provides insight into their biological functions

Table 1 List of different libraries and culture conditions together with library statistics

Library	Short name	Strains	Condition/medium^a	cDNAs	Contigs	Singletons	TUs	%R^b
Original standard^c	OS	Pt1 clone 8.6 (CCAP1055/1)		12,136	3,274	1,165	4,439	67.31
Silica plus	SP	Pt1 clone 8.6 (CCAP1055/1)	350 uM metasilicate in ASW	7,508	3,077	384	3,461	57.21
Silica minus	SM	Pt1 clone 8.6 (CCAP1055/1)	No metasilicate addition	6,968	2,838	459	3,297	54.63
Oval morphotype	OM	Pt3 (CCAP1052/1B)	Low salinity (10% ASW)	4,544	2,202	214	2,416	48.78
Nitrate replete	NR	Pt1 clone 8.6 (CCAP1055/1)	1.12 mM in chemostat	3,632	2,028	242	2,270	39.01
Nitrate starved	NS	Pt1 clone 8.6 (CCAP1055/1)	50 μM for 3 days in chemostat	9,122	3,271	512	3,783	60.79
Ammonium adapted	AA	Pt1 clone 8.6 (CCAP1055/1)	75 μM	9,031	3,329	567	3,896	60.20
Urea adapted	UA	Pt1 clone 8.6 (CCAP1055/1)	50 μM	8,552	3,157	464	3,621	59.82
Tropical accession	TA	Pt9 (CCMP633)	Grown at 15°C	4,821	2,015	160	2,175	56.95
Low decadienal	LD	Pt1clone 8.6 (CCAP1055/1)	0.5 μg/m 2E,4E-decadienal for 6 h	9,227	3,322	537	3,859	61.65
High decadienal	HD	Pt1 clone 8.6 (CCAP1055/1)	5 μg/m 2E,4E-decadienal for 6 h	3,541	1,734	323	2,057	44.95
Iron limited	FL	Pt1 clone 8.6 (CCAP1055/1)	5 nM	8,264	3,064	487	3,551	59.19
Triradiate morphotype	TM	Pt8 (CCAP1055)		12,566	3,055	520	3,575	70.49
Blue light	BL	Pt1 clone 8.6 (CCAP1055/1)	48 h dark adapted cells exposed to 1 h blue light	12,045	4,253	607	4,860	59.61
CO₂ high 4 days	C4	Pt1 clone 8.6 (CCAP1055/1)	3.2 mM DIC for 4 days in chemostat	10,283	3,564	160	3,724	63.78
CO₂ high 1 day	C1	Pt1 clone 8.6 (CCAP1055/1)	3.2 mM DIC for 1 day in chemostat	10,307	3,598	165	3,763	63.49

^aAll cells grown in artificial seawater media, except chemostat cultures, which were grown in Walne medium [54]. ^bPercent redundancy of sequences in each library. ^cThe original P. tricornutum cDNA library described previously [21, 22] is herein referred to as OS. Although incorporated into the comparative expression analyses, it was not examined extensively because it was generated using a different cDNA library protocol. ASW (artificial sea water),; TU, transcriptional unit.