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Table 2 Significantly enriched gene ontology (GO) terms in the elongation zone of Populus trichocarpa

From: Nitrogen-driven stem elongation in poplar is linked with wood modification and gene clusters for stress, photosynthesis and cell wall formation

GO identity

Category

Description

P value (FDR)

ClusterFreq

TotalFreq

GO:0019538

P

protein metabolic process

<0.001

73/494

3727/14903

GO:0009987

P

cellular process

<0.001

227/494

8214/14903

GO:0006412

P

Translation

0.002

5/494

567/14903

GO:0006464

P

cellular protein modification process

0.003

47/494

2227/14903

GO:0008219

P

cell death

0.013

8/494

605/14903

GO:0016265

P

Death

0.013

8/494

605/14903

GO:0005975

P

carbohydrate metabolic process

0.018

50/494

998/14903

GO:0003824

F

catalytic activity

<0.001

401/618

10616/19350

GO:0005515

F

protein binding

<0.001

92/618

4123/19350

GO:0005198

F

structural molecule activity

<0.001

3/618

548/19350

GO:0005488

F

Binding

0.004

352/618

12290/19350

GO:0016301

F

kinase activity

0.011

46/618

2150/19350

GO:0003676

F

nucleic acid binding

0.017

72/618

3014/19350

GO:0000166

F

nucleotide binding

0.019

112/618

4388/19350

GO:0004871

F

signal transducer activity

0.023

5/618

448/19350

GO:0003723

F

RNA binding

0.035

6/618

461/19350

GO:0004872

F

receptor activity

0.060

3/618

298/19350

GO:0005840

C

Ribosome

0.004

2/162

469/6012

GO:0016020

C

Membrane

0.012

59/162

1584/6012

GO:0030312

C

external encapsulating structure

0.014

10/162

142/6012

GO:0005618

C

cell wall

0.014

10/162

142/6012

GO:0005576

C

extracellular region

0.025

5/162

52/6012

GO:0005622

C

Intracellular

0.026

17/162

1144/6012

GO:0005578

C

proteinaceous extracellular matrix

0.035

3/162

22/6012

  1. Plant GOSlim terms were analyzed in Popgenie v3.0 (http://popgenie.org/) using the Analysis Tool GO enrichment (P value < 0.05, FDR adjusted). The input was the list of genes with significantly changed transcript levels in response to fertilization with 5 mM NH4NO3 for 1.5 month compared with non-fertilized plants. GO terms are indicated for biological processes (P), molecular functions (F) and cellular components (C). ClusterFreq and TotalFreq indicate the number of genes for a GO term found in the sample set and in the total genome, respectively.