Homoeolog-specific transcriptional bias in allopolyploid wheat

Akhunova, Alina R; Matniyazov, Rustam T; Liang, Hanquan; Akhunov, Eduard D

doi:10.1186/1471-2164-11-505

BMC Genomics

Table 4 GO annotation of up- and down-regulated homoeologous copies of genes in the synthetic polyploid wheat

From: Homoeolog-specific transcriptional bias in allopolyploid wheat

GO term	Biological process	D genome (AT)		AB genome (TC)
		suppression	activation	suppression	activation
GO:0009987	cellular process	264	512	145	1231
GO:0008152	metabolic process	214	454	137	1039
GO:0009058	biosynthetic process	127	170	53	494
GO:0019538	protein metabolic process	115	199	78	545
GO:0016043	cellular component organization	72	123	39	290
GO:0006412	translation	64	54**	29	232
GO:0006810	transport	61	108	42	287
GO:0006139	nucleic acid metabolic process	55	101	21	255
GO:0006950	response to stress	53	65	24	201
GO:0007275	Multi-cellular organism development	51	101	31	229
GO:0008150	Biological process	45**	118	45	295
GO:0006464	protein modification process	42	95	30	205
GO:0000003	reproduction	38	69	33	154
GO:0009628	response to abiotic stimulus	30	32	15	88
GO:0009790	embryonic development	29	52	24	121
GO:0009791	post-embryonic development	27	41	19	102
GO:0040007	growth	23	50	21	111
GO:0007049	cell cycle	22	49	26*	93
GO:0006091	precursor metabolites and energy	21	62*	4	97
GO:0006350	transcription	19	56	10	106
GO:0006519	cellular amino acid metabolic process	18	17	0**	72
GO:0009653	anatomical structure morphogenesis	17	42	10	78
GO:0007165	signal transduction	17	55	22	139
GO:0009056	catabolic process	14**	98	21	172
GO:0009607	response to biotic stimulus	13	19	6	36
GO:0009719	response to endogenous stimulus	13	24	2	55
GO:0008219	cell death	11	19	7	39
GO:0030154	cell differentiation	11	35	5	71
GO:0016265	death	11	19	7	41
GO:0019748	secondary metabolic process	10	7	0	12
GO:0005975	carbohydrate metabolic process	9**	80	14	94**
GO:0006259	DNA metabolic process	9	17	3	49
GO:0006629	lipid metabolic process	9	24	5	39
GO:0007154	cell communication	8	16**	5	47**
GO:0019725	cellular homeostasis	7	6	4	34
GO:0009605	response to external stimulus	6	10	2	31
GO:0007267	cell-cell signaling	5	4	1	13
GO:0015979	photosynthesis	5	10	3	15
GO:0016049	cell growth	3	10	3	14
GO:0009991	response to extracellular stimulus	3	5	2	17
GO:0007610	behavior	2	9	2	34
GO:0009908	flower development	2	3	0	8
GO:0009838	abscission	1	0	0	1
GO:0040029	regulation of gene expression, epigenetic	1	8	0	11

* GO categories showing statistically significant overrepresentation of genes (Fisher exact test, FDR ≤ 0.05)
** GO categories showing statistically significant underrepresentation of genes (Fisher exact test, FDR ≤ 0.05)

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ISSN: 1471-2164

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