A comparison of heat-stress transcriptome changes between wild-type Arabidopsis pollen and a heat-sensitive mutant harboring a knockout of cyclic nucleotide-gated cation channel 16 (cngc16)

Rahmati Ishka, Maryam; Brown, Elizabeth; Weigand, Chrystle; Tillett, Richard L.; Schlauch, Karen A.; Miller, Gad; Harper, Jeffrey F.

doi:10.1186/s12864-018-4930-4

Table 3 HS-dependent changes in WT that were most different in cngc16 under HS

From: A comparison of heat-stress transcriptome changes between wild-type Arabidopsis pollen and a heat-sensitive mutant harboring a knockout of cyclic nucleotide-gated cation channel 16 (cngc16)

Gene ID	Description	Net-work ^a	Function based on S (String), MM (MapMan), T (TAIR)	WT Heat Avg.	cngc16 Heat Avg.	log2- CHG	Sig. adj. p-val.	Seed-ling HS log2- CHGb	Ratio pollen to seed-ling ^c
Over-responsive in cngc16 compared to WT under HS
AT4G33790	FAR3, CER4, acyl CoA reductase	B	Cell Wall, Cuticular Wax ^S	5.6	30.4	2.1	0.001	0.16	0.03
AT3G05650	Receptor-like protein 32, RLP32		Biotic Stress Signaling ^S	20.4	73.2	1.7	0.009	−0.58	< 0.01
AT3G44310	Nitrilase 1		Secondary Metabolism ^MM	54.1	146	1.4	< 0.001	−0.43	< 0.01
AT5G59320	Lipid transfer protein 3	C	Membrane Dynamics ^S	131	366	1.4	0.004	0.32	0.06
AT5G25280	Serine-rich protein		Unknown ^{S,MM, T}	146	376	1.3	0.010	2.05	0.01
AT5G59613	ATP synthase		ATP Synthase ^T	31.5	78.3	1.2	0.001	NA	0.08
AT5G15960	Stress-responsive protein (KIN1)		Stress Protein, Antifreeze ^T	58.4	139	1.2	0.005	0.09	0.00
AT5G59310	Lipid transfer protein 4	C	Membrane Dynamics ^S	377	879	1.2	0.004	0.32	0.17
AT2G24940	MAPR2 steroid-binding protein 3		Membrane Dynamics ^S	40.9	91.8	1.1	0.009	0.15	0.02
AT3G04120	GAP dehydrogenase C subunit 1	B	Glycolysis ^MM	160	338	1.0	0.001	0.12	0.01
AT1G07590	Tetratricopeptide repeat (TPR)-like		Gene Expression ^MM	66.5	142	1.0	0.006	0.15	0.02
Under-responsive in cngc16 compared to WT under HS
AT2G20110	Tesmin/TSO1-like with CXC domain		Gene Expression ^MM	120	51.6	−1.2	0.002	0.20	2.60
AT1G49490	LRX9, Leucine-Rich Repeat/Extensin 9		Cell Wall Functions ^MM	149137	61672	−1.2	< 0.001	0.09	702
AT2G46192	Non-coding RNA, “other_rna”		Gene Expression ^MM	91.0	33.6	−1.4	< 0.001	NA	2.57
AT5G17320	HDG9, homeodomain GLABROUS 9		Gene Expression ^MM	37.0	11.6	−1.5	0.010	0.24	120
AT4G12870	Lysosomal thiol (GILT) reductase	A	Unknown ^{S,MM, T}	20.3	5.8	−1.6	0.007	NA	0.02
AT3G08770	Lipid transfer protein 6	A	Membrane Dynamics ^S	108	31.2	−1.6	< 0.001	−0.53	< 0.01
AT1G56100	Invertase/pectin methylesterase inhibitor	A	Cell Wall Functions ^MM	21.7	3.2	−2.3	< 0.001	0.02	< 0.01
AT2G46960	CYP709B1, cytochrome P450	A	Stress Responsive P450 ^S	17.8	2.3	−2.3	0.002	0.29	6.63
AT5G47350	Alpha/beta-Hydrolases superfamily	A	Membrane Dynamics ^T	43.8	6.0	−2.5	< 0.001	0.07	< 0.01
AT3G20210	Delta vacuolar processing enzyme	A	Protein Degradation ^S	31.0	3.7	−2.6	< 0.001	0.07	2644
AT4G15750	Invertase/pectin methylesterase inhibitor	A	Cell Wall Functions ^MM	51.7	5.2	−2.9	< 0.001	0.22	17.1
AT1G26240	Proline-rich extensin-like family		Cell Wall Functions ^MM	14.4	0.4	−3.2	< 0.001	0.09	0.50

^aNetwork group analysis was done using STRING [32]
^bHS-dependent changes in transcript abundance in seedlings (aerial parts) based on publically available data using the AtGenExpress Visualization Tool (AVT) (http://jsp.weigelworld.org/expviz/expviz.jsp) [33] for seedlings exposed to one hour HS at 38 °C. The log2-fold change was calculated based on a comparison of means of normalized values for two heat-stressed and two non-stressed seedling samples
^cRatio of expression between pollen and seedling is based on [22]. NA stands for not applicable because it was not possible to calculate based on the information available
Functional annotation based on S (STRING, [32]), MM (MapMan, [71]), and T (TAIR, [64]), as noted

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ISSN: 1471-2164

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