Skip to main content

Table 3 Genes up-regulated in P. cheesemanii, P. exile and P. novae-zelandiae in transcript and protein profiling

From: Transcript and protein profiling identify candidate gene sets of potential adaptive significance in New Zealand Pachycladon

  

T

P

  

T

P

Locus

Description

LogFC

LogFC

Locus

Description

LogFC

LogFC

P. cheesemanii (29 genes up-regulated)

  

P. cheesemanii (2 genes down-regulated)

  

Translation

  

Cell wall modification

  

At1g05190

ribosomal protein L6

1.6

1.6

At1g11580

pectin methylesterase

-1.1

-1

At3g02560

40S ribosomal protein S7

1.0

2.9

Carbohydrate metabolism

  

At5g13510

ribosomal protein L10 family protein

1.0

1.7

At4g19810

glycosyl hydrolase family 18 protein

-0.8

-1.4

At5g30510

30S ribosomal protein S1

1.5

1.9

    

At5g54600

50S ribosomal protein L24

0.8

3.7

P. exilis (4 genes up-regulated)

  

Photosynthesis light phase

  

Citrate cycle

  

At1g52230

photosystem I subunit H2

2.4

2.3

At2g20420

succinyl-CoA ligase (GDP-forming) beta

0.7

0.9

At4g21280

photosystem II subunit Q

1.2

1.8

S-adenosylmethionine biosynthetic process

  

At4g03280

Rieske FeS center of cytochrome b6f

1.2

1.2

At2g36880

methionine adenosyl transferase 3

0.7

1.2

At5g64040

photosystem I subunit N

1.8

4.7

Carbohydrate metabolism

  

At4g04640

chloroplast ATP synthase gamma subunit

1.3

0.8

At5g11720

alpha-glucosidase 1

0.7

5.0

At3g01480

chloroplast cyclophilin

1.3

2.0

Other

   

Calvin cycle

  

At4g34180

cyclase family protein

0.9

1.6

At1g12900

gap dehydrogenase a subunit 2

1.7

0.6

    

At1g32060

phosphoribulokinase (PRK)

1.5

0.6

P. exilis (4 genes down-regulated)

  

Pentose phosphate pathway

   

Carbohydrate metabolism

  

At2g21330

fructose-bisphosphate aldolase 1

1.3

0.4

At1g70730

phosphoglucomutase, cytoplasmic

-0.7

-0.32

Fatty acid beta oxidation

  

Stress response

  

At5g09660

peroxisomal malate dehydrogenase 2

1.4

1.0

At3g11930

universal stress protein (USP)

-2.6

-2.8

Interconversion of CO2 and bicarbonate

  

At5g24770

vegetative storage protein 2 (VSP2)

-2.4

-3.4

At3g01500

carbonic anhydrase 1, chloroplast

3.3

1.8

At5g24780

vegetative storage protein 1 (VSP1)

-2.9

-3.5

At5g14740

carbonic anhydrase 2, cytoplasm

1.4

1.2

    

Protein folding

  

P. novae-zelandiae (8 genes up-regulated)

  

At1g55490

chloroplast chaperonin 60 beta

0.9

1.4

Detoxification of xenobiotics

  

At5g20720

20 kDa chaperonin chloroplast

0.9

2.1

At1g17170

glutathione S-transferase

2.7

9.7

Oxidative stress

  

At3g62700

glutathione-conjugate transporter

1.2

3.2

At1g07890

L-ascorbate peroxidase 1, cytosolic

0.8

0.4

Cellular metal ion homeostasis

  

At5g06290

2-cys peroxiredoxin, chloroplast

1.1

1.2

At4g16370

oligopeptide transporter family protein

1.4

8.5

Serine family amino acid metabolic process

  

Interconversion of CO2 and bicarbonate

  

At4g11640

serine racemase

2.3

1.6

At1g23730

carbonic anhydrase

1.7

4.3

Other

  

Stress response

  

At4g02530

chloroplast thylakoid lumen protein

1.3

3.5

At5g24770

vegetative storage protein 2 (VSP2)

3.5

12.1

At1g54780

thylakoid lumen 18.3 kDa protein

1.3

1.3

At5g24780

vegetative storage protein 1 (VSP1)

2.6

6.3

At2g37220

chloroplast RNA binding protein

1.0

3.7

At5g58390

peroxidase

1.4

3.5

At1g57770

amine oxidase family

1.1

2.2

Other

  

At1g62750

translation elongation factor

1.2

1.6

At1g79690

nudix hydrolase homolog 3

0.9

2.9

At3g15360

thioredoxin M-type 4

1.5

4.6

    

At5g19440

alcohol dehydrogenase

0.9

2.2

    
  1. Locus, description, log fold change (logFC), and gene ontology terms (biological process) for genes found specifically up- and down-regulated in P. cheesemanii, P. exile and P. novae-zelandiae when compared to the two remaining species combined. Only genes for which both transcripts (T) and proteins (P) have been found to be differentially expressed are listed (P. cheesemanii: 29 up-regulated genes, 2 down-regulated genes; P. exile: 4 up-regulated genes, 4 down-regulated genes; P. novae-zelandiae: 8 up-regulated genes; compare Venn diagrams in left panel of figure 1).
Back to article page

BMC Ecology and Evolution

ISSN: 2730-7182

Contact us