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Table 3 Phlomis purpurea genes putatively involved in structural barriers and induced defence responses against Phytophthora cinnamomi

From: De novo assembly of Phlomis purpurea after challenging with Phytophthora cinnamomi

Contig

Putative identity

Reported function or role, notes

fold change

padja

fold change

padja

Ref

12 h

24 h

  

12 h

24 h

 

21722

113347

cytochromes P450 enzyme

lignin biosynthetic pathway, membrane protein

40.3

0.001

10.7

2.54 e-06

[43, 44]

66810

-

β-ketoacyl-CoA synthase/reductase

cutine biosynthesis

30.5

7.71 e-14

-

-

[46, 47]

61695

57161

1-acyl-sn-glycerol-3-phosphate/acyltransferase

cutine biosynthesis

2.4

0.04

2.5

0.006

[46, 47]

85447

27377

o-acyltransferase

BAHD acyltransferases superfamily

biosynthesis cutine/suberine

57.8

1.97 e-05

2.2

0.025

[48]

5933

13339

hydroxycinnamoyltransferase

BAHD acyltransferases superfamily involved in cutin and suberin synthesis

2.5

0.01

2.9

0.7

[48]

5854

-

hydroxycinnamoyl-CoAacetyltransferas

BAHD acyltransferases superfamily (idem)

2.6

0.04

-

-

[48]

27011

83517

desacetoxyvindoline acetyltransferase

BAHD acyltransferases superfamily (idem)

6.9

0.27

2.7

0.07

[48]

9911

53108

myb

regulators of cuticle biosynthesis

3.2

0.001

12.1

0.0002

[49]

62249

52265

myb-related

 

4.7

0.02

2.3

0.3

[50]

66721

131269

myb-like

 

2.5

0.05

3.2

1

[50]

9580

76701

r2r3-myb

regulation of cell wall biosynthesis

6.2

0.1

2.09

0.7

[52]

5647

56253

abc (ATP-Binding Cassette)

transporter in cuticular lipid export

6.5

1.15 e-07

3.1

0.0002

[46, 55]

2081

-

xyloglucan:xyloglucosyl transferase

restructuring and integration in cell walls

7.3

2.42 e-10

-

-

[56]

64844

-

glycosyltransferase

catalyzes transfer of sugars from nucleotide DP to a nucleophilic glycosyl acceptor

7.7

0.0006

-

-

[56]

80942

87785

α-expansin

catalyze extension of cell walls

5.4

0.1

3.9

0.07

[57]

837

-

expansin-like

 

3.4

0.0002

-

-

[57]

7846

36167

cinnamoyl CoA:NADP oxidoreductase (CCR)

catalyzes 1st step synthesis of lignin monomers

11.9

0.0007

2.3

0.13

[60]

25358

-

cinnamyl alcohol dehydrogenase

biosynthetic route to monolignols

6.9

0.004

-

-

[61]

10016

-

cinnamate 4-hydroxylase

lignin biosynthetic pathway, membrane protein

7.3

5.34 e-10

-

-

[62]

1432

-

4-coumarate 3-hydroxylase

lignin biosynthetic pathway, membrane protein

6.5

1.17 e-07

-

-

[62]

1081

 

phenylalanine ammonia-lyase

biosynthetic route toward monolignols

7.1

0.00016

  

[62]

26215

8769

laccase

monolignol polymerization

11.6

0.0002

5.9

2.8 e-07

[63]

21125

-

lacase-14

 

13.6

0.17

-

-

 

-

70446

laccase-like

 

-

-

6.4

0.05

 

-

70447

laccase-13

 

-

-

2.7

1

 

13754

-

laccases 17

 

3.2

0.35

-

-

[64]

781

7923

peroxidase

monolignol oxidation

3.6

0.0005

5.2

2.24 e-06

[12]

20241

99047

CASP-like

Scaffolding activities involved in subcellular precision of lignin polymerization

4.4

0.05

6.0

0.9

[66]

5106

14096

AP2

Transcription factor. Play various roles including response to biotic and environmental stress.

17.7

0.0009

3.1

0.01

[72, 73]

2245

53577

GDSL (esterases/lipases)

Involved in defence from pathogens and stress, plant development, morphogenesis

30.9

4.18 e-22

9.92

4.2 e-08

[74, 77]

51706

-

lipase

 

6.2

0.007

-

-

[76, 77]

766

9217

phospholipase

 

11.0

1.13 e-09

2.4

0.009

[76, 92]

-

24143

esterase

 

-

-

8.9

0.0004

[76, 77]

15968

-

cc-nbs-lrr

resistance-genes in plant response to pathogens

7.7

0.0006

-

-

[82, 83]

64844

-

glycosyltransferase

catalyzes transfer of sugars from nucleotide DP to a nucleophilic glycosyl acceptor

7.7

0.0006

-

-

[78]

12279

69649

udp-glycosyltransferase

catalyzes conversion of cycloartenol to steroidal saponins

11.1

1.01 e-14

3.5

0.0016

[79]

1718

-

farnesyl synthase

involved in biosynthetic route to triterpenes

2.7

0.001

-

-

[79]

13713

-

squalene synthase

involved in biosynthetic route to triterpenes

3.3

0.0001

-

-

[78, 79]

-

8585

cyclase

catalyzes cyclisation of oxidosqualene a step of the triterpene biosynthesis

-

-

2.8

0.002

[78, 79]

54620

-

brassinosteroid

acceptor of UGT enzymes that glycosylate triterpenes (saponin biosynthesis)

8.7

2.23 e-06

-

-

[79]

24145

-

β-amyrin synthase

part of plant triterpene biosynthetic cluster

2.2

0.02

-

-

[785,79]

62788

-

terpene

enzymes involved in terpene metabolism

23.6

7.31 e-15

-

-

[78, 79]

51457

-

pathogenesis-related proteins

acting as chitinases, glucosidases, peroxidases

6.2

0.0004

-

-

[84]

  1. The fold change and the p-value (padj) are shown in separate columns for transcripts up-regulated at 12 and 24 h post-challenge. A dash indicates no contig was found corresponding to a given putative identity at a specified post-challenge time point
  2. aOnly the lowest p-value is shown whenever more than one contig were found to have the same assignment regardless the value of their fold change
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BMC Genomics

ISSN: 1471-2164

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