Table IV. Changes in the abundance of potentially trans-encoded ncRNAs in the wild type and the mutant ∆ndhR of Synechocystis 6803 in response to a sudden shift in Ci supply.

Values are given as log₂ fold changes and were regarded as significant (asterisks) if the log₂ value was −1 or less or 1 or more and the P value was 0.05 or less. For each strain, the expression values at HC were used as reference. Fold changes between the wild type and ∆ndhR under HC were calculated by subtracting the corresponding wild-type value. The columns are sorted by the fold change values for the wild type at 24 h of LC. It should be noted that only ncRNAs with an annotation based on Mitschke et al. (2011) were considered here. However, due to the fixed-distance algorithm that was used to classify ncRNAs, there might be some overlap with UTR annotations (e.g. ncl0690 is found upstream of ndhR and includes its 5′ UTR).

Systematic Name	Annotation	Wild Type		∆ndhR		∆ndhR-Wild Type at HC
		3 h of LC	24 h of LC	3 h of LC	24 h of LC
NC-425	CsiR1, SyR14, ncr0380	3.03*	5.69*	0.59	5.64*	0.07
NC-101	ncr1200	1.94*	3.85*	0.80	4.22*	−0.16
NC-392	ncr0840	2.60*	2.71*	1.09	2.82*	0.12
NC-423	ncr0700	1.75*	2.66*	1.38*	2.68*	0.30
NC-55	ncr0240	1.96*	2.65*	1.45*	3.01*	−0.02
NC-137	ncr1350	0.80	2.05*	0.47	1.66*	−0.33
NC-247	ncl0570	0.28	1.94*	0.13	2.02*	−0.13
NC-115	ncr1500	0.23	1.80*	0.23	1.82*	−0.04
NC-97	ncl1110	−0.17	1.68*	−0.21	2.00*	−0.08
NC-248	ncr1240	0.63	1.67*	0.27	1.87*	−0.02
NC-443	SyR52, ncl1790	0.49	1.49*	0.50	1.85*	−0.01
NC-319	ncl0690	1.56*	1.34*	0.15	1.00	3.29*
NC-388	ncr1650	1.04*	1.25*	0.54	1.70*	−0.01
NC-17	ncl0170	0.14	1.24*	0.36	1.19*	−0.72
NC-261	ncr0080	0.78	1.19*	0.40	1.45*	−0.14
NC-372	ncl1060	−0.15	1.19*	−0.05	1.73*	0.03
NC-239	ncr1280	1.79*	1.16*	1.48*	0.30	0.28
NC-430	ncr0210	0.74	1.14*	−0.36	−0.71	1.58*
NC-272	ncr0530	0.35	1.13*	0.19	1.02*	−0.07
NC-168	ncl1350	0.00	1.12*	0.33	0.61	−0.26
NC-237	ncl1700	0.16	1.10*	0.08	1.36*	−0.06
NC-262	ncr1220	−0.09	1.07*	−0.18	1.19*	0.02
NC-404	ncl1010	0.13	1.07*	0.31	0.72	0.01
NC-135	ncl0440	0.75	1.02*	0.23	0.80	0.05
NC-639	ncl0215	−0.71	−1.31*	−0.44	−1.44*	−0.02
NC-22	ncr1020	−1.26*	−1.39*	−1.10*	−1.34*	−0.02
NC-250	ncr1390	−1.56*	−1.51*	−0.88	−1.47*	−0.34
NC-230	ncl0540	−2.02*	−1.52*	−0.75	−1.96*	−0.54
NC-412	ncl0110	−1.42*	−1.55*	−1.19*	−1.55*	−0.04
NC-171	NsiR4, SyR12, ncl0540	−2.22*	−1.58*	−0.81	−1.97*	−0.58
NC-318	ncl1500	−1.83*	−1.66*	−0.53	−2.20*	−0.19
NC-334	ncl1330	−1.80*	−1.84*	−0.08	−1.97*	−0.41
NC-146	ncl0380	−1.85*	−1.90*	−1.17*	−1.86*	−0.12
NC-240	ncr1660	−2.61*	−3.18*	−1.92*	−3.36*	−0.10