Table 1

Number of plant and fungi ITS sequences amplified in silico from EMBL fungal and plant databases, using the various primer combinations and allowing none to three mismatches.

Primer comb.

Fungal ITS sequences

Plant ITS sequences


Number of mismatches *

0

1

2

3

0

1

2

3


ITS5-ITS4

5482

5924

6026

6123

500

514

5667

5996

NS7-ITS2

1067

1291

1313

1320

23

190

231

403

ITS3-LR3

2070

2459

2499

2548

51

168

248

300

ITS1-ITS2

17545

19816

25223

25457

1107

17665

18755

19084

ITS1-F-ITS2

2112

4169

4592

4658

20

21

21

24

ITS5-ITS2

7713

8993

9180

9293

94

703

11123

12100

ITS1-ITS4

10013

10610

12488

12656

5783

6740

7500

7620

ITS3-ITS4

18815

21195

21663

22078

415

7829

8583

8852

ITS3-ITS4-B

1269

1673

1811

1863

0

0

0

0


* The number of mismatches allowed between the primer and the DNA strand reflects the stringency level of the PCR, i.e. strict PCR conditions such as annealing temperature close to or above the recommended Tm will not allow unspecific sequences (including one or more mismatches) to be amplified.

Bellemain et al. BMC Microbiology 2010 10:189   doi:10.1186/1471-2180-10-189

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