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Table 1 RNA-Seq sequencing and read mapping to the grapevine genome

From: Downy mildew resistance induced by Trichoderma harzianum T39 in susceptible grapevines partially mimics transcriptional changes of resistant genotypes

Treatmenta

Replicateb

Total readsc

Filtered readsd

%

Mapped readse

%

Unique readsf

%

Multi-readsg

%

C

1

20480361

19388264

95

17975427

93

17473619

97

501808

3

 

2

20182309

19095859

95

17935380

94

17392482

97

542898

3

 

3

15856292

14845528

94

13327853

90

12749078

96

578775

4

T39

1

24312739

23208015

95

21103884

91

20207496

96

896388

4

 

2

35315408

32565826

92

30409086

93

29495812

97

913274

3

 

3

25081653

23722385

95

21873968

92

21145558

97

728410

3

C+P.v.

1

21934228

20800485

95

19240139

92

18603657

97

636482

3

 

2

25097152

23684317

94

21637677

91

20896985

97

740692

3

 

3

22471334

21555054

96

19384445

90

18634940

96

749505

4

T39+P.v.

1

22897386

21318685

93

18406407

86

17576560

95

829847

5

 

2

29049603

26710912

92

24801196

93

23981057

97

820139

3

 

3

22603588

21369934

95

19558774

92

18859902

96

698872

4

  1. a Grapevine leaves of control (C), Trichoderma harzianum T39-treated (T39), Plasmopara viticola-inoculated control (C+P.v.) and P. viticola-inoculated T39-treated (T39+P.v.) plants.
  2. b Biological replicates (plants), numbered from 1 to 3.
  3. c Total sequenced reads as sum of reads obtained from two replicates of sequencing for each treatment.
  4. d Reads passing the quality check and the corresponding percentage (%) of total reads.
  5. e Reads mapping to Pinot Noir grapevine genome[77] Release 3[78], and the corresponding percentage (%) of filtered reads.
  6. f Reads mapping to unique locations in the grapevine genome, and the corresponding percentage (%) of mapped reads.
  7. g Reads mapping to more than one location (2–100 matches) in the grapevine genome, and the corresponding percentage (%) of mapped reads.