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Table 2 Most enriched Protein families for upregulated and downregulated contigs

From: Transcriptome analysis in oak uncovers a strong impact of endogenous rhythmic growth on the interaction with plant-parasitic nematodes

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
  1. 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