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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   4-6 Confirmed
MTM myotubularin myopathy related protein 9 GB19180 Multiple cellular functions, in humans, brain protein linked to neuropathies 0.57   5
7
Confirmed
Histone methyltransferase GB13959 Histone modifications 0.58   4 Confirmed
Nadrin GB16176 A novel GTPase-activating protein 0.47   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   5-6 Confirmed
TBP TATA-box binding protein GB19036 A general transcription factor for RNA polymerase I, II and III. 0.35   1-2 Confirmed
Casein kinase II beta GB12504 Involved in circadian rhythm, brain development 0.42   3 Confirmed
Swiss cheese\NTE
neuropathy target esterase
GB10208 Involved in apoptosis and brain development 0.68   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   13-15 Confirmed
OBP13 odorant binding protein GB18363 Expressed during late larval stages and in pupae [49] 1.17   2-5 Confirmed
Not available RIKEN EST
DB777978
Unknown function, highly expressed in worker head 1.96    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   5-7 Confirmed
  1. *Expression patterns are based on published data and our microarray analyses. Ubiquitous: expressed under all examined conditions. Restricted: typically expressed in one or two tissues. CpG islands were predicted using cpgplot at http://mobyle.pasteur.fr