Table 1 Number of differentially regulated genes (⩾2-fold (1 × log²), P-value<0.01) between transgenic lines with targeted silacidin deregulation (TSD) and NAT cultures in common with genes identified in previous studies (Shrestha et al., 2012; Mock et al., 2008)

From: A role for the cell-wall protein silacidin in cell size of the diatom Thalassiosira pseudonana

Conditions	TSD1 E	TSD3 E	TSD1 S	TSD3S	TSD1+3 E	TSD1+3 S	TSD1+3 E+S	Total
SLRG	51	36	54	24	7	15	1^a	485
SSRG	29	8	63	21	4	6	2^b	534
Mock_Si	142	101	164	108	13	45	2^c	822
Mock_Fe	121	45	92	59	0	1	0	466
Mock_N	57	39	76	57	2	18	0	627
Mock_T	85	55	139	109	1	13	0	989
Mock_pH	55	42	64	57	6	25	2^d	377
None of above	423	369	731	465	53	153	12^e
Total	702	553	1126	707	77	236	18 (see note)

Abbreviations: E, late exponential phase; S, stationary phase; TSD1, transgenic targeted silacidin deregulation line 1; TSD3, transgenic targeted silacidin deregulation line 3; SLRG, Silaffin-like response genes; SSRG, silicon-starvation responsive genes, (Shrestha et al., 2012); Mock _Si (silicate limitation), _Fe (iron limitation), _N (nitrate limitation), _T (low temperature), _pH (elevated pH), (Mock et al., 2008). Note: Gene ID 23685 features in both Mock_Si and Mock_pH.
Genes differentially regulated in all TSD transcriptomes compared with NAT (TSD1+3 E+S).
^aGene ID 264048 (GO terms 0004672 protein kinase activity, 0004674 protein serine/theonine kinase activity, 0005199 structural component of cell wall, 0005524 ATP-binding, 0006468 protein amino acid phosphorylation).
^bGene ID 8776 (no annotation), Gene ID 9371 (no annotation).
^cGene ID 23685 (no annotation), Gene ID 23671 (no annotation).
^dGene ID 23685 (no annotation), Gene ID 7349 (no annotation).
^eGene IDs 8615, 3898, 8616, 6681, 7687, 12137 (no annotation), Gene ID 7353 (IPR000408 Regulator of chromosome condensation, RCC1), Gene ID 6886 (IPR001440 TPR repeat), 7435 (GO terms 0016051: carbohydrate biosynthetic process, 0016758 transferase activity transferring hexosyl groups), 263350 (GO terms 0003899 DNA- directed RNA polymerase activity, 0006350 transcription) 23686 (IPR001678 Bacterial Fmu (Sun)/eukaryotic nucleolar NOL1/Nop2p), 9840 (GO terms 0003677 DNA binding, 0003700 sequence-specific transcription factor activity, 0005215 transporter activity, 0005634 nucleus, 0006355 regulation of transcription DNA-dependent, 0006810 transport, 0016020 membrane).

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Table 1 Number of differentially regulated genes (⩾2-fold (1 × log²), P-value<0.01) between transgenic lines with targeted silacidin deregulation (TSD) and NAT cultures in common with genes identified in previous studies (Shrestha et al., 2012; Mock et al., 2008)

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