Table 2.
Most enriched Protein families for upregulated and downregulated contigs
| Upregulated | |||
|---|---|---|---|
| Treatment | ID | Description | P value |
| RF Co-Pp | PF05131.9 | Pep3/Vps18/deep orange family | 4.58E-06 |
| RF Co-Pp | PF10433.4 | Mono-functional DNA-alkylating methyl methanesulfonate N-term | 1.13E-04 |
| RF Co-Pp | PF07650.12 | KH domain | 9.43E-04 |
| RF Co-Pp | PF02798.15 | Glutathione S-transferase | 9.85E-04 |
| RF Co-Pp | PF00043.20 | Glutathione S-transferase | 1.03E-03 |
| RF Co-Pp | PF13410.1 | Glutathione S-transferase | 1.05E-03 |
| RF Co-Pp | PF07452.7 | CHRD domain | 1.35E-03 |
| RF Co-Pp | PF13409.1 | Glutathione S-transferase | 1.35E-03 |
| RF Co-Pp | PF02536.9 | mTERF | 1.64E-03 |
| RF Co-Pp | PF13417.1 | Glutathione S-transferase | 1.74E-03 |
| SF Co-Pp | PF05368.8 | NmrA-like family | 9.92E-07 |
| SF Co-Pp | PF13460.1 | NADH(P)-binding | 2.18E-06 |
| SF Co-Pp | PF00067.17 | Cytochrome P450 | 2.45E-06 |
| SF Co-Pp | PF01073.14 | 3-beta hydroxysteroid dehydrogenase/isomerase family | 4.78E-06 |
| SF Co-Pp | PF01370.16 | NAD dependent epimerase/dehydratase family | 9.43E-06 |
| SF Co-Pp | PF13504.1 | Leucine rich repeat | 1.04E-05 |
| SF Co-Pp | PF00560.28 | Leucine Rich Repeat | 2.60E-05 |
| SF Co-Pp | PF13855.1 | Leucine rich repeat | 3.79E-05 |
| SF Co-Pp | PF13854.1 | Kelch motif | 4.60E-05 |
| SF Co-Pp | PF13516.1 | Leucine Rich repeat | 4.96E-05 |
| RF Co-PpPc | PF13229.1 | Right handed beta helix region | 2.73E-10 |
| RF Co-PpPc | PF14368.1 | Probable lipid transfer | 3.90E-09 |
| RF Co-PpPc | PF00230.15 | Major intrinsic protein | 4.07E-09 |
| RF Co-PpPc | PF00234.17 | Protease inhibitor/seed storage/LTP family | 9.65E-09 |
| RF Co-PpPc | PF00657.17 | GDSL-like Lipase/Acylhydrolase | 2.17E-08 |
| RF Co-PpPc | PF07731.9 | Multicopper oxidase | 2.48E-08 |
| RF Co-PpPc | PF12708.2 | Pectate lyase superfamily protein | 2.36E-07 |
| RF Co-PpPc | PF00759.14 | Glycosyl hydrolase family 9 | 2.54E-07 |
| RF Co-PpPc | PF00394.17 | Multicopper oxidase | 3.01E-07 |
| RF Co-PpPc | PF07732.10 | Multicopper oxidase | 4.23E-07 |
| SF Co-PpPc | PF07042.6 | TrfA protein | 9.92E-04 |
| SF Co-PpPc | PF13222.1 | Protein of unknown function (DUF4030) | 1.07E-03 |
| SF Co-PpPc | PF03511.9 | Fanconi anaemia group A protein | 1.68E-03 |
| SF Co-PpPc | PF07963.7 | Prokaryotic N-terminal methylation motif | 1.77E-03 |
| SF Co-PpPc | PF08412.5 | Ion transport protein N-terminal | 1.77E-03 |
| SF Co-PpPc | PF02041.11 | Auxin binding protein | 2.55E-03 |
| SF Co-PpPc | PF02578.10 | Multi-copper polyphenol oxidoreductase laccase | 2.63E-03 |
| SF Co-PpPc | PF12076.3 | WAX2 C-terminal domain | 2.86E-03 |
| SF Co-PpPc | PF07393.6 | Exocyst complex component Sec10 | 3.02E-03 |
| SF Co-PpPc | PF02522.9 | Aminoglycoside 3-N-acetyltransferase | 3.05E-03 |
| Downregulated | |||
| RF Co-Pp | PF14225.1 | Cell morphogenesis C-terminal | 1.50E-04 |
| RF Co-Pp | PF05004.8 | Interferon-related developmental regulator (IFRD) | 1.85E-04 |
| RF Co-Pp | PF08167.7 | rRNA processing/ribosome biogenesis | 4.64E-04 |
| RF Co-Pp | PF06146.7 | Phosphate-starvation-inducible E | 9.10E-04 |
| RF Co-Pp | PF12348.3 | CLASP N terminal | 1.04E-03 |
| RF Co-Pp | PF13798.1 | Protein of unknown function with PCYCGC motif | 1.54E-03 |
| RF Co-Pp | PF10248.4 | Myelodysplasia-myeloid leukemia factor 1-interacting protein | 2.43E-03 |
| RF Co-Pp | PF11305.3 | Protein of unknown function (DUF3107) | 2.47E-03 |
| RF Co-Pp | PF14151.1 | YfhD-like protein | 2.96E-03 |
| RF Co-Pp | PF01690.12 | Potato leaf roll virus readthrough protein | 3.02E-03 |
| SF Co-Pp | PF07732.10 | Multicopper oxidase | 1.50E-14 |
| SF Co-Pp | PF00394.17 | Multicopper oxidase | 1.48E-13 |
| SF Co-Pp | PF07731.9 | Multicopper oxidase | 4.20E-13 |
| SF Co-Pp | PF00225.18 | Kinesin motor domain | 2.17E-11 |
| SF Co-Pp | PF00759.14 | Glycosyl hydrolase family 9 | 2.07E-08 |
| SF Co-Pp | PF06525.6 | Sulfocyanin (SoxE) | 3.46E-08 |
| SF Co-Pp | PF00230.15 | Major intrinsic protein | 1.74E-07 |
| SF Co-Pp | PF00091.20 | Tubulin/FtsZ family | 2.03E-07 |
| SF Co-Pp | PF13229.1 | Right handed beta helix region | 4.66E-07 |
| SF Co-Pp | PF12708.2 | Pectate lyase superfamily protein | 5.02E-07 |
| RF Co-PpPc | PF03055.10 | Retinal pigment epithelial membrane protein | 1.44E-07 |
| RF Co-PpPc | PF00332.13 | Glycosyl hydrolases family 17 | 2.84E-06 |
| RF Co-PpPc | PF01738.13 | Dienelactone hydrolase family | 1.73E-05 |
| RF Co-PpPc | PF00670.16 | S-adenosyl-L-homocysteine hydrolase | 3.31E-05 |
| RF Co-PpPc | PF04101.11 | Glycosyltransferase family 28 C-terminal domain | 5.33E-05 |
| RF Co-PpPc | PF01973.13 | Protein of unknown function DUF115 | 6.11E-05 |
| RF Co-PpPc | PF13528.1 | Glycosyl transferase family 1 | 1.02E-04 |
| RF Co-PpPc | PF00300.17 | Histidine phosphatase superfamily (branch 1) | 1.80E-04 |
| RF Co-PpPc | PF02772.11 | S-adenosylmethionine synthetase | 2.47E-04 |
| RF Co-PpPc | PF00221.14 | Aromatic amino acid lyase | 3.04E-04 |
| SF Co-PpPc | PF10604.4 | Polyketide cyclase / dehydrase and lipid transport | 2.47E-04 |
| SF Co-PpPc | PF03169.10 | OPT oligopeptide transporter protein | 5.82E-04 |
| SF Co-PpPc | PF00190.17 | Cupin | 6.22E-04 |
| SF Co-PpPc | PF00407.14 | Pathogenesis-related protein Bet VI family | 8.53E-04 |
| SF Co-PpPc | PF05360.9 | yia A/B two helix domain | 2.28E-03 |
| SF Co-PpPc | PF03547.13 | Membrane transport protein | 3.25E-03 |
| SF Co-PpPc | PF02442.12 | Lipid membrane protein of large eukaryotic DNA viruses | 3.58E-03 |
| SF Co-PpPc | PF07963.7 | Prokaryotic N-terminal methylation motif | 3.80E-03 |
| SF Co-PpPc | PF05153.10 | Family of unknown function (DUF706) | 3.99E-03 |
| SF Co-PpPc | PF01092.14 | Ribosomal protein S6e | 4.35E-03 |
Table shows the top ten most enriched Protein families for up- and downregulated contigs in leaves harvested from oak microcuttings during root (RF) and shoot flush growth stages (SF) treated with P. penetrans (Co-Pp) and the co-inoculation of P. penetrans and P. croceum (Co-PpPc), Protein family (Pfam) ID, Pfam term description and significance level (P-value) are provided