Table 2 Orthogroups (OGs) with signals of relaxed and diversifying selection or intensified and diversifying selection. k values are selection parameter values (exponent of dN/dS ratio, i.e., k in ω^k). FDR values are from Benjamini-Hochberg FDR correction. Orthogroups shown are present in both Coregonus and Salvelinus. For aBSREL, p-values after correction for multiple testing (FDR < 0.10) are shown

 OG0001544

adaptor-related protein complex 1, mu 2 subunit (ap1m2)

intracellular protein transport; vesicle-mediated transport; clathrin adaptor complex

antigen processing and presentation of exogenous peptide antigen via MHC class II, regulation of defence response to virus by virus

0.000

1.019E-05

0.04471

 OG0002461

protein kinase C epsilon type-like (LOC106589411)

protein serine/threonine kinase activity; ATP binding; protein phosphorylation; serine family amino acid metabolic process; intracellular signal transduction

cell adhesion, motility, and cell cycle, neuron growth, ion channel regulation, immune response, signal transduction

6.825E-08

6.478E-06

0.07476

 OG0003986

solute carrier family 6 (neurotransmitter transporter), member 8 (slc6a8)

neurotransmitter:sodium symporter activity; cation transport; neurotransmitter transport; integral component of membrane

muscle contraction, required for the uptake of creatine in muscles and brain

7.970E-05

3.046E-12

0.05603

 OG0000840

probable histone deacetylase 1-B (hda1b)

nucleus; NAD-dependent histone deacetylase activity (H3-K14 specific); metal ion binding;histone H3 deacetylation

transcriptional regulation, cell cycle progression, developmental events

0.0002432

1.952E-06

2.398E-12

 OG0005675

E3 ubiquitin-protein ligase RNF128-like (LOC110537269), transcript variant X1

–

interleukin regulation, T-cell control, functions in the patterning of the dorsal ectoderm, sensitises ectoderm to respond to neural-inducing signals

0.0002432

1.282E-08

0.5357

 OG0004474

endoplasmic reticulum aminopeptidase 1-like (LOC106570844)

endoplasmic reticulum membrane; proteolysis; regulation of blood pressure; zinc ion binding; antigen processing and presentation of endogenous peptide antigen via MHC class I; metalloaminopeptidase activity

regulation of innate immune response, response to bacterium, angiogenesis, regulation of blood pressure, fat cell differentiation

0.01917

2.008E-05

0.1651

 OG0000651

tyrosine-protein phosphatase non-receptor type 6-like (LOC106576571), transcript variant X3

protein tyrosine phosphatase activity; protein dephosphorylation; tyrosine metabolic process

haematopoiesis, various immune functions

0.03186

1.547E-06

0.3844

 OG0002139

calcipressin-2-like (LOC109900784), transcript variant X1

nucleic acid binding; calcium-mediated signaling

regulation of calcineurin-NFAT signalling cascade, calcium-mediated signalling, potential role in central nervous development

0.06629

2.753E-11

0.6235

 OG0014882

junctophilin-2 (LOC111976619)

junctional membrane complex

calcium ion homeostasis, regulation of cardiac muscle tissue development

0.08725

3.460E-09

0.6595

 OG0000798

acetyl-CoA carboxylase beta (acacb), transcript variant X3

acetyl-CoA carboxylase activity; ATP binding; pyruvate metabolic process; fatty acid biosynthetic process; acetyl-CoA carboxylase complex; metal ion binding

regulation of cholesterol biosynthetic process, acetyl-CoA metabolic process

0.000

0.000

4.683

 OG0011982

synapsin-3 (LOC111950806)

ATP binding; neurotransmitter secretion; synaptic vesicle

neurotransmitter secretion, regulation of synaptic transmission, GABAergic

0.0001606

0.000

8.330

 OG0004141

clone Contig3164 cathepsin K precursor

proteolysis; cysteine-type peptidase activity

osteoclastic bone resorption, bone remodelling, collagen metabolic process

0.0002432

3.664E-14

7.769

 OG0013215

lysine-specific demethylase 4B-like (LOC106574093), transcript variant X3

histone H3-K36 demethylation; histone H3-K9 demethylation (manually derived from UniProt/Swiss-Prot)

histone H3-K36 demethylation, histone H3-K9 demethylation, negative regulation of transcription

0.003614

3.970E-12

10.28

 OG0003822

sterile alpha motif domain-containing protein 9-like (LOC109881303), transcript variant X2

protein binding

endosomal vesicle fusion

0.006278

9.533E-06

1.603

 OG0007378

alpha-2,8-sialyltransferase 8F-like (LOC106588277), transcript variant X2

protein glycosylation; sialyltransferase activity

carbohydrate biosynthetic process, glycolipid metabolic process, ganglioside biosynthetic process, (modulation of cell signal transduction, maybe involved in function of nervous system)

0.008768

2.090E-11

9.549E-08

1.9625

 OG0003820

paired amphipathic helix protein Sin3a-like (LOC106587652), transcript variant X3

transcription corepressor activity; transcription factor complex; negative regulation of transcription

negative regulation of transcription, regulation of lipid metabolic process, regulation of circadian rhythms

0.01812

5.292E-09

1.450

 OG0004629

furin-1-like (LOC106587394), transcript variant X2

serine-type endopeptidase activity; proteolysis

involved in microbial infection, regulation of endopeptidase activity, TGF-beta-1 activation

0.01896

0.000

19.99

 OG0010786

serine/threonine-protein kinase 6 (stk6)

protein serine/threonine kinase activity; ATP binding; protein phosphorylation; serine family amino acid metabolic process

activation of protein kinase activity, regulation of transcription

0.01972

0.000

6.183

 OG0012826

beta-1,4-galactosyltransferase 6-like (LOC106560385), transcript variant X1

carbohydrate metabolic process; transferase activity

neuronal maturation, axonal and myelin formation, lactosylceramide biosynthetic process, carbohydrate metabolic process

0.03015

1.221E-12

6.768

 OG0010420

torsin-1A-interacting protein 2 (LOC111975742)

endoplasmic reticulum organization; positive regulation of ATPase activity; protein localization to nuclear envelope (manually derived from UniProt/Swiss-Prot)

endoplasmic reticulum integrity, positive regulation of ATPase activity

0.03800

0.000

1.870

 OG0011057

receptor-interacting serine/threonine-protein kinase 4-like (LOC106567956)

protein kinase activity; protein binding; ATP binding; protein phosphorylation

positive regulation of NF-kappaB transcription factor activity

0.08386

5.012E-06

3.356