Transcriptional profiles underlying parent-of-origin effects in seeds of Arabidopsis thaliana

Tiwari, Sushma; Spielman, Melissa; Schulz, Reiner; Oakey, Rebecca J; Kelsey, Gavin; Salazar, Andres; Zhang, Ke; Pennell, Roger; Scott, Rod J

doi:10.1186/1471-2229-10-72

BMC Plant Biology

Table 4 Genes called up in 2xX4x and 2xX6x, not up in 4xX2x and 6xX2x.

From: Transcriptional profiles underlying parent-of-origin effects in seeds of Arabidopsis thaliana

AtId	symbol	annotation	GO biological process (function)
At1g03445	BSU1	serine/threonine phosphatase	brassinosteroid mediated signalling
At1g13680		phospholipase C, similar to MAP3K-like protein kinase	intracellular signalling cascade
At1g17770	SUVH7	SU(VAR)3-9 homolog, a SET domain protein	chromatin modification
At1g22090	EMB2204	unknown protein	embryonic development
At1g44090	ATGA20OX5	gibberellin 20-oxidase	(isopenicillin-N synthase activity)
At1g48010		invertase/pectin methylesterase inhibitor family protein	(pectinesterase inhibitor activity)
		small, secreted, cysteine rich protein with sequence similarity to
At1g60985	SCRL6	SCR (S locus cysteine-rich protein)	signal transduction
At1g65300	PHE2/AGL38	MADS-box family transcription factor	regulation of transcription
At1g65330	PHE1/AGL37	MADS-box family transcription factor	regulation of transcription/embryonic development
		bifunctional cytosolic hydroxymethyldihydropterin
At1g69190		pyrophosphokinase/dihydropteroate synthase (HPPK/DHPS)	response to oxidative stress
At1g71770	PAB5	polyadenylate-binding protein	translational initiation
		protease inhibitor/seed storage/lipid transfer protein (LTP)
At1g73560		family protein	lipid transport
At1g73610		GDSL-motif lipase/hydrolase family protein	lipid metabolic process
At1g77510	ATPDIL1-2	protein disulfide isomerase	cell redox homeostasis
At2g02000	GAD3	glutamate decarboxylase, calmodulin binding	carboxylic acid metabolic process
At2g02010	GAD4	glutamate decarboxylase, calmodulin binding	carboxylic acid metabolic process
At2g02490		unknown protein	unknown
At2g02515		unknown protein	unknown
At2g15740		zinc finger (C2H2 type) family protein	regulation of transcription
At2g18490		zinc finger (C2H2 type) family protein	regulation of transcription
At2g23170	GH3.3	IAA-amido synthase	response to auxin stimulus/auxin homeostasis
At2g25330		meprin and TRAF homology domain-containing protein	unknown
At2g25700	ASK3	E3 ubiquitin ligase SCF complex subunit SKP1/ASK1 (At3)	(ubiquitin-protein ligase activity)
At2g26050		zinc ion binding	unknown
At2g30810		gibberellin-regulated family protein	response to gibberellin stimulus
At2g36560		DNA-binding protein-related	unknown
At2g39640		glycosyl hydrolase family 17 protein	carbohydrate metabolic processes
At2g43670		glycosyl hydrolase family 17 protein	unknown
At2g45110	ATEXPB4	beta-expansin	cellulose and pectin-containing cell wall loosening
At3g02670		proline-rich family protein	phosphate transport
At3g05460		sporozoite surface protein-related	unknown
At3g05860	AGL45	MADS-box family transcription factor	regulation of transcription
At3g10780		emp24/gp25L/p24 family protein	intracellular protein transport
			cell redox homeostasis/intracellular signalling
At3g11920		glutaredoxin-related	cascade
At3g17150		pectinesterase inhibitor	(pectinesterase inhibitor activity)
At3g21410	FBW1	F-box family protein	ubiquitin-dependent protein catabolic process
At3g24510	GIG2	defensin-like (DEFL) family protein	unknown
At3g49770		unknown protein	unknown
At3g57160		unknown protein	unknown
At3g57270	BG1	glycosyl hydrolase family 17 protein, beta-1,3-glucanase	carbohydrate metabolic process
At4g16500		cysteine protease inhibitor family protein	(enzyme regulator activity)
At4g25530	FWA	homeodomain protein	regulation of transcription
		small, secreted, cysteine rich protein with sequence similarity to
At4g29285	LCR24	the PCP (pollen coat protein) gene family	unknown
		chromatin remodeling factor, strong similarity to CHD3	chromatin assembly or disassembly/regulation of
At4g31900		(PICKLE)	transcription
At4g32105		galactosyltransferase	protein amino acid glycosylation
At4g35725		unknown protein	unknown
At4g36590	AGL40	MADS-box transcription factor	regulation of transcription
At4g37360	CYP81D2	cytochrome P450 family protein	electron transport
At4g39650	GGT2	gamma-glutamyltranspeptidase	glutathione catabolic process
At5g05260	CYP79A2	cytochrome P450	glucosinolate biosynthesitic process
		protease inhibitor/seed storage/lipid transfer protein (LTP)
At5g09370		family protein	lipid transport
At5g09730	BXL3	glycosyl hydrolase family 3 protein, beta-xylosidase	carbohydrate metabolic process
At5g10440	CYCD4;2	cyclin family protein	regulation of progression through cell cycle
At5g12070		self-incompatibility protein-related	unknown
At5g14960	E2L1/DEL2	transcription factor/E2F-like repressor	regulation of progression through cell cycle
At5g20710	BGAL7	beta-galactosidase	lactose catabolic process
At5g34883		unknown protein	unknown
At5g34885		unknown protein	unknown
At5g40040	RPP2E	60S acidic ribosomal protein P2	translational elongation
At5g46950		invertase/pectin methylesterase inhibitor family protein	(pectinesterase inhibitor activity)
At5g50480		CCAAT-box binding transcription factor Hap5a	regulation of transcription
At5g54220		defensin-like (DEFL) family protein	Unknown

*bold AtId = also down in 4 × 2, 6 × 2 (SLR/pSLR ≤-0.6)
Up = (SLR/pSLR ≥ 0.6), not up = (SLR/pSLR (≤ 0.3).
GO annotations were obtained from TAIR (http://www.arabidopsis.org/tools/bulk/go/index.jsp; Berardini et al., 2004). GO function terms are provided where no biological process terms were annotated.

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ISSN: 1471-2229

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