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Table 5 Differentially expressed transcripts (DETs) identified in Monilinia fructicola (MFRC), Monilinia laxa (MLAX) and Monilinia fructigena (MFRG)

From: De novo assembly and comparative transcriptome analysis of Monilinia fructicola, Monilinia laxa and Monilinia fructigena, the causal agents of brown rot on stone fruits

Transcript ID

Botrytis cinerea protein IDÂ¥

MFRC

MLAX

MFRG

Expression values

Putative protein function (BLASTx)

Contig size (bp)

E-value (tBLASTn)

Contig size (bp)

E-value (tBLASTn)

Contig size (bp)

E-value (tBLASTn)

(RPKM)

MFRC

MLAX

MFRG

Hydrolytic and carbohydrate-active enzymes

 T9687

Bcin12g01530.1

2023

0.0E + 00

2275

0.0E + 00

2093

0.0E + 00

209.2

12.9

18.3

glycoside hydrolase family 16 protein

 T9618

Bcin09g04440.1

2342

0.0E + 00

1399

0.0E + 00

247

8.0E-43

45.8

3.7

0.4

glycoside hydrolase family 51 protein

 T10205

Bcin03g01930.1

3806

6.4E-15

233

–

619

1.4E-30

9.9

0.3

1.0

glycoside hydrolase family 18 protein

 T10086

NH

745

–

–

–

–

–

12.9

–

–

glycoside hydrolase family 65 protein

 T309

Bcin07g02650.1

1555

0.0E + 00

1443

0.0E + 00

579

9.9E-102

2.4

23.3

1.2

glycoside hydrolase family 5 protein

 T288

Bcin13g02320.1

1628

1.4E-118

1166

1.2E-120

1306

4.5E-120

9.1

95.8

11.5

glycoside hydrolase family 12 protein

 T310

Bcin06g00580.1

3397

0.0E + 00

2763

0.0E + 00

1871

0.0E + 00

3.4

40.2

5.0

glycoside hydrolase family 92 protein

 T6223

Bcin05g01040.1

3259

0.0E + 00

3361

0.0E + 00

3461

0.0E + 00

7.3

6.2

137.4

glycoside hydrolase family 2 protein

 T7115

Bcin02g01420.1

1898

0.0E + 00

1148

9.7E-175

1966

0.0E + 00

5.1

3.6

46.0

glycoside hydrolase family 13 protein

 T9625

Bcin02g05500.1

1569

0.0E + 00

1814

0.0E + 00

221

1.7E-09

56.7

4.4

0.5

α/β hydrolase

 T9489

NH

2787

–

1261

–

–

–

15.0

1.8

–

α/β hydrolase

 T9732

NH

535

–

531

–

361

–

29.0

1.5

0.6

α/β hydrolase, partial

 T10098

NH

1969

–

–

–

–

–

3.0

–

–

putative α/β hydrolase

 T10089

NH

2310

–

–

–

–

–

2.3

–

–

putative amidohydrolase 2

 T9679

Bcin13g05710.1

4801

0.0E + 00

4584

0.0E + 00

3012

0.0E + 00

113.9

7.2

9.3

galactose oxidase precursor protein

 T9581

Bcin10g05620.1

1278

2.3E-100

1211

6.7E-100

1225

1.4E-101

32.1

3.1

2.4

pectate lyase

 T9586

Bcin14g00570.1

903

2.8E-61

–

–

–

–

17.9

–

–

serine hydrolase FSH

 T53

Bcin01g07950.1

2112

0.0E + 00

2475

0.0E + 00

2303

0.0E + 00

3.1

198.8

11.8

laccase 2

 T99

Bcin03g03830.1

1683

6.8E-179

1640

1.9E-177

1352

0.0E + 00

7.4

245.0

23.9

pectin methylesterase

 T163

Bcin01g02320.1

3743

0.0E + 00

4284

0.0E + 00

2008

0.0E + 00

11.3

228.3

26.8

lysophospholipase

 T181

Bcin12g04910.1

7278

1.3E-108

1847

2.6E-113

1546

6.7E-101

4.1

74.9

4.6

prolyl aminopeptidase

 T96

Bcin03g05490.1

1965

3.2E-175

1229

1.3E-176

1544

5.7E-174

2.9

95.1

3.1

hydroxyacylglutathione hydrolase

 T240

Bcin02g00018.1

1916

2.5E-93

1436

4.2E-94

1694

1.1E-95

3.1

38.6

4.5

extracellular dioxygenase

 T9172

NH

3183

–

1985

–

3442

–

6.7

1.4

61.3

cellobiose dehydrogenase

 T8110

Bcin02g07100.1

3717

1.7E-144

1579

5.5E-151

1028

2.2E-152

9.1

4.5

112.2

carbohydrate esterase family 12 protein

Effector and secreted proteins

 T9637

Bcin05g01800.1

1507

3.7E-87

1157

6.0E-71

1101

7.2E-73

74.7

5.8

1.9

protease inhibitor

 T9520

Bcin14g04460.1

5479

0.0E + 00

5131

0.0E + 00

2153

0.0E + 00

104.0

11.6

9.2

RHS repeat protein

 T9914

Bcin11g02900.1

1018

3.6E-158

365

8.9E-65

997

6.0E-91

20.2

0.1

2.0

trypsin-like serine protease

 T144

Bcin03g03300.1

2948

5.4E-98

1189

1.5E-126

2152

7.7E-69

6.5

144.7

9.3

pepsin (secreted protein)

Morphogenesis and development

 T9903

NH

1255

–

1904

–

1965

–

593.7

4.0

18.1

developmental-specific protein Ssp1

 T9722

Bcin15g04790.1

1315

2.2E-177

1359

4.5E-176

1303

2.4E-180

315.4

16.5

31.1

elongation of fatty acid protein

 T9697

Bcin08g05540.1

1612

2.6E-124

2603

2.7E-120

1525

3.4E-123

89.4

5.6

4.5

gas1-like protein/cell surface protein

 T9572

Bcin14g04260.1

4771

2.8E-157

2666

3.4E-163

1333

1.5E-165

70.1

7.0

7.6

cell surface protein/related to gEgh 16 protein

 T9843

Bcin15g03000.1

1843

4.2E-53

1782

8.1E-46

2404

1.1E-56

186.9

3.2

11.8

putative cell wall protein SED1

 T9480

Bcin02g03060.1

3163

0.0E + 00

3630

0.0E + 00

1999

0.0E + 00

85.8

10.6

5.9

fatty acid oxygenase protein

 T205

Bcin12g05860.1

1706

3.6E-159

1271

2.4E-158

1141

3.1E-157

7.5

114.0

3.4

gpi anchored protein

Regulation and signalling

 T9760

Bcin12g01420.1

2515

0.0E + 00

2372

0.0E + 00

1730

0.0E + 00

38.5

1.8

4.7

transcription factor cys6 protein

 T9765

NH

469

–

836

–

336

–

16.3

0.4

1.7

c6 transcription factor

 T10202

Bcin12g02660.1

1341

6.4E-115

–

–

1058

2.7E-108

50.3

–

5.8

fungal specific transcription factor protein

 T63

Bcin05g06170.1

–

–

2572

1.2E-93

1640

4.6E-93

–

4.0

46.6

transcription factor c2h2

 T9641

NH

1903

–

202

–

–

–

2.3

0.2

–

camk protein kinase

 T9481

Bcin05g04260.1

3343

0.0E + 00

670

1.7E-83

218

2.0E-30

6.9

0.8

0.3

serine threonine protein kinase

 T321

Bcin10g03050.1

1327

0.0E + 00

1586

0.0E + 00

–

–

4.6

43.5

–

protein kinase-like protein

 T312

Bcin14g02050.1

2114

0.0E + 00

1914

0.0E + 00

1770

0.0E + 00

7.0

64.5

4.9

regulator of g protein

 T6048

Bcin03g09060.1

909

6.6E-34

560

1.4E-25

1458

1.3E-25

0.7

0.6

6.1

tetratricopeptide-like helical protein

 T2642

Bcin11g05000.1

670

3.5E-19

512

1.6E-07

1419

4.0E-49

0.7

1.2

131.2

elongation factor 2 kinase

 T9894

Bcin10g02660.1

1190

5.2E-143

967

7.3E-146

5797

1.6E-130

199.6

1.8

11.4

MSS4-like protein

Membrane proteins and transport

 T10087

NH

1497

–

–

–

–

–

1.7

–

–

related to antibiotic resistance protein

 T9642

Bcin08g01830.1

1939

0.0E + 00

3904

2.0E-177

1626

0.0E + 00

178.8

13.0

13.2

MFS transporter

 T9594

Bcin09g01740.1

2209

0.0E + 00

2369

0.0E + 00

1175

0.0E + 00

18.7

1.6

1.5

MFS drug efflux pump

 T9657

Bcin12g01880.1

2434

0.0E + 00

577

1.9E-114

949

4.1E-158

13.9

1.0

1.6

MFS transporter

 T10002

Bcin14g00580.1

2068

0.0E + 00

–

–

–

–

5.2

–

–

MFS multidrug transporter protein

 T10106

NH

1913

–

–

–

–

–

1.0

–

–

MFS general substrate transporter

 T9643

Bcin06g00130.1

2760

0.0E + 00

3266

0.0E + 00

1839

0.0E + 00

114.9

8.5

4.9

OPT oligopeptide transporter

 T9629

Bcin10g00330.1

3305

0.0E + 00

1507

0.0E + 00

697

1.9E-144

24.7

2.0

0.7

potassium transporter protein

 T10105

NH

1321

–

–

–

–

–

11.7

–

–

transmembrane protein

 T9893

NH

1461

–

450

–

–

–

84.0

0.7

–

integral membrane protein

 T9288

Bcin14g00590.1

1951

1.3E-117

–

–

–

–

10.6

–

–

putative integral membrane protein

 T9835

Bcin12g05240.1

5309

0.0E + 00

508

8.5E-57

–

–

8.7

0.2

–

Tat pathway signal sequence protein

 T323

Bcin03g01970.1

501

4.5E-07

2097

5.9E-09

–

–

1.1

10.5

–

DUF3328 domain containing protein

Secondary metabolite biosynthesis

 T10081

NH

1907

–

–

–

–

–

1.9

–

–

nrps-like enzyme protein

 T10004

Bcin14g00600.1

5346

0.0E + 00

–

–

–

–

0.9

–

–

polyketide synthase protein

 T8874

Bcin12g04980.1

7211

0.0E + 00

2477

0.0E + 00

5304

0.0E + 00

7.9

2.3

64.2

nonribosomal peptide synthase -like protein

 T10094

NH

2132

–

–

–

–

–

2.6

–

–

bifunctional solanapyrone synthase

 T6684

NH

1552

–

1450

–

1789

1.1E-21

0.8

0.6

43.2

bifunctional solanapyrone synthase

 T10344

Bcin03g00060.1

–

–

–

–

2083

0.0E + 00

–

–

23.2

phenylacetate-CoA ligase paaK

 T253

Bcin07g00950.1

1493

4.7E-68

1476

5.8E-68

1474

4.2E-66

15.4

185.9

15.9

short-chain dehydrogenase

 T9627

Bcin03g01620.1

1643

0.0E + 00

1233

0.0E + 00

1240

0.0E + 00

213.7

16.8

15.2

nad dependent epimerase protein

 T9913

NH

1385

–

461

–

–

–

154.2

0.8

–

cinnamoyl-CoA reductase

 T10102

NH

835

–

–

–

–

–

6.1

–

–

beta-lactamase

 T10099

NH

2921

–

–

–

–

–

4.1

–

–

beta-lactamase/transpeptidase-like protein

 T9539

Bcin11g02630.1

1522

1.2E-16

1481

2.7E-16

1398

1.8E-15

27.4

2.9

2.9

phytanoyl-CoA dioxygenase family protein

 T9957

Bcin07g07120.1

584

7.3E-90

–

–

–

–

0.7

–

–

enoyl-hydratase isomerase family protein

 T10360

Bcin03g00080.1

–

–

–

–

1342

4.2E-117

–

–

34.2

taurine catabolism dioxygenase

 T10358

Bcin03g00090.1

–

–

–

–

2115

0.0E + 00

–

–

43.2

taurine catabolism dioxygenase TauD

Oxidation-reduction processes

 T9579

Bcin15g04780.1

2025

0.0E + 00

2008

0.0E + 00

1869

0.0E + 00

188.6

17.4

20.4

cytochrome P450 monooxygenase

 T7866

Bcin12g04940.1

4816

0.0E + 00

5506

0.0E + 00

1741

0.0E + 00

8.3

4.8

144.9

cytochrome P450 monooxygenase GliC

 T271

Bcin12g06400.1

2729

1.7E-89

1723

3.7E-89

2006

4.1E-84

2.3

26.9

3.0

benzoate 4-monooxygenase cyt P450

 T151

Bin07g05430.1

–

–

1917

0.0E + 00

1917

0.0E + 00

–

91.9

8.0

cytochrome P450 monooxygenase

 T9563

Bcin11g00830.1

2364

0.0E + 00

2348

0.0E + 00

2064

0.0E + 00

89.5

9.0

2.5

flavin-binding monooxygenase

 T9787

Bcin08g04930.1

3159

0.0E + 00

2405

0.0E + 00

6429

0.0E + 00

51.2

1.8

4.3

flavin-binding monooxygenase-like protein

 T9590

NH

1899

–

246

–

241

–

3.3

0.3

0.3

fad linked oxidase domain protein

 T9873

NH

2044

–

732

–

254

–

28.3

0.3

0.6

choline dehydrogenase/alcohol oxidase

 T10204

Bcin09g04870.1

5827

4.5E-04

–

–

1888

3.2E-04

25.7

–

2.7

SDH assembly factor mitochondrial

 T9693

Bcin12g01060.1

2089

0.0E + 00

894

1.3E-138

1435

0.0E + 00

86.5

5.2

9.5

indoleamine 2,3-dioxygenase beta type

 T10270

Bcin07g03220.1

–

–

728

6.9E-15

–

–

–

2.2

–

carbonic anhydrase

 T212

Bcin16g02850.1

2962

0.0E + 00

3150

0.0E + 00

2336

0.0E + 00

3.0

46.5

4.1

fad binding domain-containing protein

 T9868

Bcin10g04440.1

1193

5.0E-136

–

–

–

–

262.5

–

–

SDR family protein

 T10221

Bcin14g00490.1

–

–

1246

4.2E-34

–

–

–

8.0

–

short-chain dehydrogenase

 T9930

Bcin01g01090.1

203

3.0E-13

1607

7.4E-156

–

 

0.3

3.1

–

short-chain dehydrogenase

 T3472

Bcin02g00280.1

1460

2.7E-133

1953

9.8E-157

1862

9.4E-158

1.0

1.4

13.3

fad binding domain-containing protein

 T4552

Bcin03g00320.1

1989

0.0E + 00

290

–

1740

0.0E + 00

1.2

1.4

64.0

oxidase

 T242

Bcin12g06180.1

2314

0.0E + 00

1495

0.0E + 00

1395

0.0E + 00

32.4

405.7

32.3

nitrilase/cyanide hydratase

 T134

Bcin13g05670.1

1347

0.0E + 00

1329

0.0E + 00

1473

0.0E + 00

29.8

698.6

52.6

nitrilase/cyanide hydratase

 T378

Bcin01g05790.1

3598

0.0E + 00

3508

0.0E + 00

2494

0.0E + 00

11.2

91.1

8.3

nitrite reductase

Nucleic acid modification and metabolism

 T9754

Bcin05g02630.1

1567

0.0E + 00

2003

0.0E + 00

2430

0.0E + 00

113.2

5.3

10.5

zinc ion binding protein

 T10103

NH

2588

–

–

–

–

–

131.5

–

–

group II intron reverse transcriptase/maturase

 T10111

NH

5711

–

–

–

2937

–

4.0

–

80.5

group II intron reverse transcriptase/maturase

 T4409

BC1G_20011mito

510

–

214

–

4757

–

1.4

1.6

13.2

group II intron

 T10367

Bcin12g04370.1

–

–

–

–

4858

5.3E-73

–

–

29.4

retrotransposon polyprotein (Ty3/Gypsy)

 T10387

Bcin03g00140.1

–

–

–

–

5352

0.0E + 00

–

–

48.2

retrotransposon polyprotein (Ty3/Gypsy)

 T10365

Bcin10g04500.1

–

–

–

–

9377

1.0E-53

–

–

37.7

retrotransposon polyprotein (Ty3/Gypsy)

 T10350

Bcin13g03280.1

–

–

–

–

4443

3.9E-29

–

–

625.5

retrotransposon polyprotein (Ty1/Copia)

 T10389

Bcin09g03840.1

–

–

274

6.8E-26

2191

1.4E-98

–

0.1

4.3

retrotransposon polyprotein (Ty1/Copia)

 T3334

NH

–

–

–

–

737

–

–

–

163.6

RT from transposon X-element

 T5170

Bcin16g02550.1

–

–

–

–

1065

0.0E + 00

–

–

150.5

transposase

 T10352

Bcin14g04350.1

–

–

–

–

2493

5.2E-15

–

–

10.3

chromo domain containing protein

 T6826

Bcin10g02210.1

–

–

–

–

802

1.1E-04

–

–

261.0

chromo domain containing protein

 T91

NH

–

–

4405

–

–

–

–

6.4

–

probable dna polymerase

 T10215

Bcin16g04490.1

–

–

2149

2.4E-55

–

–

–

1.5

–

ribonuclease iii protein

 T7829

Bcin03g00050.1

–

–

–

–

1759

0.0E + 00

–

–

60.5

ribonuclease H-like protein

 T10342

Bcin13g01670.1

–

–

–

–

1939

1.3E-96

–

–

3.2

trna splicing endonuclease subunit protein

Miscellaneous

 T9817

Bcin12g06170.1

1248

1.4E-122

1658

1.5E-117

607

3.5E-58

241.3

6.5

1.0

allergen protein

 T10319

Bcin13g01080.1

–

–

–

–

1891

3.6E-56

–

–

3.7

similar to DUF946 domain-containing protein

 T10320

Bcin04g06320.1

–

–

–

–

1682

4.3E-04

–

–

3.3

putative heterokaryon incompatibility protein

 T9635

NH

4825

–

682

–

331

–

11.6

0.9

1.1

HET-domain-containing protein

 T326

Bcin04g00810.1

–

–

1446

0.0E + 00

–

–

–

38.2

–

ankyrin repeat protein

 T357

Bcin13g01520.1

2371

5.4E-91

1623

3.7E-144

586

4.1E-94

1.4

11.8

1.1

ankyrin repeat-containing protein

 T10346

Bcin01g11420.1

–

–

–

–

1019

1.2E-19

–

–

1.8

glutathione S-transferase protein

 T10278

Bcin07g01490.1

–

–

1982

9.3E-12

395

–

–

2.5

–

AAA family ATPase

 T9525

Bcin07g05160.1

6988

1.7E-119

595

1.1E-45

–

–

3.3

0.4

–

HSP mitochondrial precursor protein

 T9961

Bcin06g06170.1

705

1.4E-20

–

–

–

–

0.7

–

–

MmgE/PrpD family protein

 T9939

Bcin01g10190.1

438

7.6E-05

–

–

–

–

0.7

–

–

BTB/POZ domain-containing protein

 T9988

Bcin10g02020.1

2167

3.1E-51

–

–

–

–

4.7

–

–

BTB/POZ domain-containing protein

 T9546

NH

2010

–

430

–

–

–

3.2

0.3

–

SET domain-containing protein

 T256

NH

1637

–

2277

–

537

–

2.2

26.6

0.7

tldc domain

  1. ¥ NH = No homologs in the B. cinerea proteome. Over-expressed transcripts are highlighted in bold