Table 1 Selected genes with contrasting CpG [o/e] ratios analysed by bisulfite sequencing
From: Epigenetic regulation of the honey bee transcriptome: unravelling the nature of methylated genes
Genes ubiquitously expressed predicted to be methylated | ||||||
|---|---|---|---|---|---|---|
Gene ID or Common name | OGS2 ID or GenBank ID | Predicted function and expression patterns* | CpG [o/e] | CpG island | Exon(s) analyzed | Predicted Methylation status |
DCTN4 dynactin p62 | XP_001121083 | A subunit of the Dynactin complex | 0.62 | Â | 4-6 | Confirmed |
MTM myotubularin myopathy related protein 9 | GB19180 | Multiple cellular functions, in humans, brain protein linked to neuropathies | 0.57 | Â | 5 7 | Confirmed |
Histone methyltransferase | GB13959 | Histone modifications | 0.58 | Â | 4 | Confirmed |
Nadrin | GB16176 | A novel GTPase-activating protein | 0.47 | Â | 10 | Confirmed |
PKCbp1 Receptor of activated prot.kinase C | GB12499 | The ligand, PKC, is involved in learning, such as spatial learning in rats | 0.65 | Â | 5-6 | Confirmed |
TBP TATA-box binding protein | GB19036 | A general transcription factor for RNA polymerase I, II and III. | 0.35 | Â | 1-2 | Confirmed |
Casein kinase II beta | GB12504 | Involved in circadian rhythm, brain development | 0.42 | Â | 3 | Confirmed |
Swiss cheese\NTE neuropathy target esterase | GB10208 | Involved in apoptosis and brain development | 0.68 | Â | 9 | Confirmed |
Genes with restricted patterns of expression predicted to be unmethylated | ||||||
GLOX glucose oxidase | GB19418 | FAD flavoprotein oxidoreductase Restricted pattern of expression (very high in HP gland) | 1.14 | YES | Promoter 7-8 | Confirmed |
VHDL lipid transporter | GB15055 | Larval-specific, very high density lipoprotein | 1.39 | Â | 13-15 | Confirmed |
OBP13 odorant binding protein | GB18363 | Expressed during late larval stages and in pupae [49] | 1.17 | Â | 2-5 | Confirmed |
Not available | RIKEN EST DB777978 | Unknown function, highly expressed in worker head | 1.96 | Â | Â | Confirmed |
ImpL3-like L-lactate dehydrogenase | GB13882 | Larval gene upregulated in worker larvae | 1.33 | YES | 3-4 | Confirmed |
Squid RNP-CS RNA-binding domain protein | GB15796 | Required for the correct localization and translational regulation of the gurken message | 1.22 | Â | 5-7 | Confirmed |