Table 3 Overrepresented Gene Ontology biological process terms in Gb or Gh fiber. Transcripts that had higher expression (fold change ≥2) on at least one DPA in the cross genotype comparison were analyzed for over-representation of GO biological process terms (p < 0.006, q < 0.05). FDR q-values were determined as in Table 1 (see p-values in Additional file 14)

GO:0042254

ribosome biogenesis

1.15E-09

GO:0015996

chlorophyll catabolic process

3.92E-06

GO:0042026

protein refolding

3.28E-05

GO:0010150

leaf senescence

3.92E-06

GO:0010143

cutin biosynthetic process

2.11E-04

GO:0019745

pentacyclic triterpenoid biosynthetic process

3.92E-06

GO:0006730

one-carbon metabolic process

2.01E-03

GO:0006090

pyruvate metabolic process

1.02E-05

GO:0006821

chloride transport

2.81E-03

GO:0009414

response to water deprivation

2.89E-05

GO:0006448

regulation of translational elongation

9.92E-03

GO:0006013

mannose metabolic process

1.23E-04

GO:0006536

glutamate metabolic process

1.00E-02

GO:0006094

gluconeogenesis

1.78E-04

GO:0009637

response to blue light

1.60E-02

GO:0006096

glycolysis

2.07E-04

GO:0015808

L-alanine transport

1.63E-02

GO:0006000

fructose metabolic process

3.34E-04

GO:0050732

negative regulation of peptidyl-tyrosine phosphorylation

1.63E-02

GO:0009651

response to salt stress

4.62E-04

GO:0051085

chaperone mediated protein folding requiring cofactor

1.63E-02

GO:0010193

response to ozone

1.11E-03

GO:0048640

negative regulation of developmental growth

1.63E-02

GO:0016556

mRNA modification

1.27E-03

GO:0072521

purine-containing compound metabolic process

2.76E-02

GO:0009965

leaf morphogenesis

1.34E-03

GO:0006639

acylglycerol metabolic process

2.76E-02

GO:0010363

regulation of plant-type hypersensitive response

1.97E-03

GO:0051302

regulation of cell division

2.76E-02

GO:0052542

defense response by callose deposition

2.47E-03

GO:0006909

phagocytosis

2.76E-02

GO:0030048

actin filament-based movement

2.47E-03

GO:0046653

tetrahydrofolate metabolic process

2.76E-02

GO:0009834

secondary cell wall biogenesis

2.47E-03

GO:0006123

mitochondrial electron transport, cytochrome c to oxygen

2.76E-02

GO:0019643

reductive tricarboxylic acid cycle

3.29E-03

GO:0006497

protein lipidation

4.45E-02

GO:0010167

response to nitrate

4.00E-03

GO:0009220

pyrimidine ribonucleotide biosynthetic process

4.50E-02

GO:0000165

MAPK cascade

5.62E-03

GO:0015865

purine nucleotide transport

4.50E-02

GO:0045492

xylan biosynthetic process

6.01E-03

GO:0015721

bile acid and bile salt transport

4.50E-02

GO:0010413

glucuronoxylan metabolic process

6.01E-03

GO:0015701

bicarbonate transport

4.50E-02

GO:0050832

defense response to fungus

6.46E-03

GO:0009116

nucleoside metabolic process

4.59E-02

GO:0051567

histone H3-K9 methylation

6.99E-03

GO:0008033

tRNA processing

4.74E-02

GO:0071805

potassium ion transmembrane transport

6.99E-03

GO:0043068

positive regulation of programmed cell death

6.99E-03

GO:0010200

response to chitin

8.09E-03

GO:0000910

cytokinesis

9.02E-03

GO:0019344

cysteine biosynthetic process

9.46E-03

GO:0007030

Golgi organization

1.03E-02