Table 2

Microarray validation by quantitative RT-PCR

Treatment

microarray

QRT-PCR

Agreement


M. grisea BR29

Ma

Mq

st. dev.

P-val


OsWRKY4

0.410

1.184

0.3818

0.0125

YES

OsWRKY18

0.629

2.0010

0.524

0.0119

YES

OsWRKY43

-0.324

-1.370

2.828

0.2403

NO

OsWRKY61

0.511

1.655

0.4857

0.0035

YES

OsWRKY71

1.053

1.7643

0.6223

0.0494

YES

OsWRKY87

NS

0.669

0.287

0.0098

qRT-PCR

OsWRKY100

-0.294

-0.081

0.825

0.9247

NO

OsWRKY112

0.407

1.829

1.245

0.0324

YES


M. oryzae BR32

Ma

Mq

st. dev.

P-val


OsWRKY4

0.444

0.653

0.1858

0.1011

NO

OsWRKY18

0.554

0.8351

0.453

0.0352

YES

OsWRKY40

0.481

0.875

0.6098

0.0478

YES

OsWRKY43

-0.505

-1.049

2.361

0.2616

NO

OsWRKY61

0.235

1.056

0.3291

0.0478

YES

OsWRKY64

-0.365

-1.006

0.715

0.0365

YES

OsWRKY87

0.325

0.480

0.185

0.0410

YES

OsWRKY100

-0.500

-0.838

0.256

0.0379

YES

OsWRKY112

0.427

1.508

0.755

0.0503

YES


M. oryzae FR13

Ma

Mq

st. dev.

P-val


OsWRKY4

0.557

0.985

0.4824

0.0229

YES

OsWRKY53

-0.673

-0.8908

0.1138

0.0209

YES

OsWRKY61

0.402

1.272

0.6398

0.0100

YES

OsWRKY63

0.539

2.169

0.379

0.0013

YES

OsWRKY100

-0.402

-1.631

0.402

0.0165

YES

OsWRKY101

0.506

0.992

0.698

0.0752

NO

OsWRKY115

0.670

0.8978

0.6437

0.069

NO


OSMOTIC stress

Ma

Mq

st. dev.

P-val


OsWRKY4

-0.813

-1.290

0.745

0.0478

YES

OsWRKY18

-1.256

-1.400

0.595

0.0421

YES

OsWRKY40

-0.248

-1.355

0.757

0.0089

YES

OsWRKY43

0.270

0.293

0.457

0.3920

NO

OsWRKY61

-0.443

-1.570

0.349

0.0164

YES

OsWRKY63

-0.234

-0.658

0.017

0.2974

NO

OsWRKY87

-0.309

-1.320

0.272

0.0314

YES

OsWRKY112

-0.404

-0.848

0.368

0.0468

YES


Results of quantitative expression for the fourteen OsWRKY genes selected to validate the OsWRKYARRAY results are summarized. The expression level of each OsWRKY gene was measured in leaf samples infected with three Magnaporthe strains (BR29, BR32, FR13) and after osmotic stress treatment (see Treatment column). Ma is the log2 value of the ratio of expression levels between treated and control RNA samples obtained in the OsWRKYARRAY (see Table 1); Mq and st.dev. indicate log2 and standard deviation of ratio treated vs controls obtained by qRT-PCR, respectively. P-val indicates the P-value obtained with the statistical T-test. Results with an associated P-value > 0.05 were considered not significant and therefore are not reported. The "Agreement" column reports agreement among microarray and qRT-PCR results. YES with agreement in up/down regulation; NO without agreement in up/down regulation; qRT-PCR: indicates genes up/down regulated only in the qRT-PCR experiments. NS in the microarray colum indicates genes resulted not significant at the statistical analysis of the microarray data.

Berri et al. BMC Plant Biology 2009 9:120   doi:10.1186/1471-2229-9-120

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