Transcriptional profiling of Arabidopsis root hairs and pollen defines an apical cell growth signature

Becker, Jörg D; Takeda, Seiji; Borges, Filipe; Dolan, Liam; Feijó, José A

doi:10.1186/s12870-014-0197-3

BMC Plant Biology

Table 1 Selectively expressed genes in apical growing cells

From: Transcriptional profiling of Arabidopsis root hairs and pollen defines an apical cell growth signature

Function	Probe set	AGI ID	Gene	Pollen	Root hair	Enriched	FC	Pollen FC	Root hair FC
Protein modifications	264284_at	At1g61860	Protein kinase, putative	13390	360	X	72.4	141.2	3.5
Protein modifications	249950_at	At5g18910	Protein kinase family protein	8337	261	X	56.5	110.0	3.0
Protein modifications	251433_at	At3g59830	Ankyrin protein kinase, putative	2322	279	X	19.1	34.2	3.9
Protein modifications	258832_at	At3g07070	Protein kinase family protein	795	2708	X	19.0	8.3	29.7
Protein modifications	267582_at	At2g41970	Protein kinase, putative	2680	2854	X	12.5	12.2	12.8
Protein modifications	263378_at	At2g40180	Protein phosphatase 2C, putative/PP2C, putative	1481	197	X	10.8	19.2	2.4
Protein modifications	248909_at	At5g45810	CIPK19	2006	560	X	6.4	10.2	2.6
Protein modifications	265178_at	At1g23540	Protein kinase family protein	620	133	X	6.3	10.6	2.0
Protein modifications	264127_at	At1g79250	Protein kinase, putative	347	452	X	4.3	3.8	4.7
Protein modifications	253718_at	At4g29450	Leucine-rich repeat protein kinase, putative	233	176			2.9
Calcium signalling	245036_at	At2g26410	IQD4 (IQ-domain 4); calmodulin binding	12177	1885	X	59.5	105.5	13.6
Calcium signalling	259064_at	At3g07490	AGD11 (ARF-GAP DOMAIN 11)	4146	1254	X	17.5	27.3	7.6
Calcium signalling	254774_at	At4g13440	Calcium-binding EF hand family protein	90	173				1.8
G-protein signalling	259836_at	At1g52240	ATROPGEF11/ROPGEF11 (KINASE PARTNER PROTEIN-LIKE)	3003	282	X	51.8	95.5	8.1
G-protein signalling	260161_at	At1g79860	ATROPGEF12/MEE64/ROPGEF12 (KINASE PARTNER PROTEIN-LIKE)	3436	661	X	44.0	75.0	13.1
G-protein signalling	263458_at	At2g22290	AtRABH1d (Arabidopsis Rab GTPase homolog H1d)	458	674	X	12.2	9.4	14.9
G-protein signalling	254173_at	At4g24580	Pleckstrin homology (PH) domain-containing protein-related / RhoGAP domain-containing protein	782	164	X	4.8	8.0	1.6
G-protein signalling	266190_at	At2g38840	Guanylate-binding family protein	1383	1343	X	2.3	2.5	2.2
Cell wall proteins	263453_at	At2g22180	Hydroxyproline-rich glycoprotein family protein	5725	233	X	37.8	73.0	2.7
Cell wall Proteins	249375_at	At5g40730	AGP24 (ARABINOGALACTAN PROTEIN 24)	19904	13284	X	16.3	19.7	12.9
Cell wall proteins	259720_at	At1g61080	Proline-rich family protein	533	482	X	11.0	11.6	10.3
Cell wall proteins	246872_at	At5g26080	Proline-rich family protein	128	152	X	1.5	1.4	1.6
Cell wall proteins	245159_at	At2g33100	ATCSLD1 (Cellulose synthase-like D1)	11021	55			132.6
Cell wall proteins	250801_at	At5g04960	pectinesterase family protein	67	8360				114.1
Cell wall proteins	251842_at	At3g54580	Proline-rich extensin-like family protein	447	150			4.2
Cell wall proteins	265275_at	At2g28440	Proline-rich family protein	488	136			6.2
Transcription	261643_at	At1g27720	Transcription initiation factor	540	196	X	3.1	4.7	1.6
ENTH	247941_at	At5g57200	Epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-related	717	108	X	9.3	16.3	2.3
P- and V-ATPases	251405_at	At3g60330	AHA7 (ARABIDOPSIS H(+)-ATPASE 7)	654	2829	X	22.7	8.2	37.2
Lipid degradation	267439_at	At2g19060	GDSL-motif lipase/hydrolase family protein	181	396	X	3.4	2.6	4.2
Vesicle transport	259338_at	At3g03800	SYP131 (syntaxin 131)	13646	603	X	45.0	86.6	3.3
Exocyst	250204_at	At5g13990	ATEXO70C2 (exocyst subunit EXO70 family protein C2)	1428	695	X	16.4	21.1	11.7
Exocyst	245979_at	At5g13150	ATEXO70C1 (exocyst subunit EXO70 family protein C1)	3238	1780	X	15.8	20.5	11.1
Aging	249868_at	At5g23030	TET12 (TETRASPANIN12)	97	1167				19.5
Cytoskeleton organisation	266697_at	At2g19770	PRF5 (PROFILIN5)	5226	165	X	30.4	59.1	1.8
Ion transport	251053_at	At5g01490	CAX4 (cation exchanger 4)	495	342			1.8
Isoprenoid biosynthesis	257274_at	At3g14510	Geranylgeranyl pyrophosphate synthase, putative	58	112				1.8
Microtubule-based movement	254205_at	At4g24170	Kinesin motor family protein	1216	143	X	13.0	23.5	2.5
Protein Folding	260478_at	At1g11040	DNAJ chaperone C-terminal domain-containing protein	1136	112			17.5
Pyrophosphatase activity	266765_at	At2g46860	Inorganic pyrophosphatase, putative (soluble)	1024	598	X	10.8	14.2	7.4
Unknown	246592_at	At5g14890	NHL repeat-containing protein	7155	144	X	48.7	95.6	1.8
Unknown	260320_at	At1g63930	Similar to unknown protein (TAIR:AT4G23530.1)	1169	1495	X	18.0	15.8	20.1
Unknown	267051_at	At2g38500	Similar to DTA4 (DOWNSTREAM TARGET OF AGL15-4) (TAIR:AT1G79760.1)	4282	546	X	13.6	24.3	2.8
Unknown	256506_at	At1g75160	Similar to unknown protein (TAIR:AT5G05840.1)	958	310	X	12.8	19.9	5.6
Unknown	266674_at	At2g29620	Similar to unknown protein (TAIR:AT1G07330.1)	337	839	X	9.7	5.6	13.8
Unknown	251135_at	At5g01280	Similar to proline-rich family protein (TAIR:AT3G09000.1)	134	1001	X	7.8	1.6	14.0
Unknown	249185_at	At5g43030	DC1 domain-containing protein	346	487	X	4.8	4.0	5.6
Unknown	251047_at	At5g02390	similar to unknown protein (TAIR:AT1G07620.1)	388	321	X	4.6	5.2	4.0
Unknown	252987_at	At4g38390	Similar to unknown protein (TAIR:AT1G76270.1)	106	423				5.5
Unknown	254972_at	At4g10440	Dehydration-responsive family protein	135	144
Unknown	260195_at	At1g67540	Unknown protein	540	51			6.5

The first column shows the functional classification of the gene (see also Figure 7). The second column depicts the Affymetrix probe set, followed by TAIR locus (AGI ID) assigned to this probe set and gene annotation in the third and fourth column. In columns five and six the expression values for pollen and root hairs, respectively, are given. The following three columns (7 to 8) depict, if a gene is selectively and /or enriched expressed in root hairs and pollen, followed by the average of the lower confidence bound of the fold change (FC) for apical growing cells. The last two columns give the average FC of pollen and root hairs, respectively.

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