Table 7

miRNAs conservation between O. sativa and four wild rice species detected from their BES datasets

O. sativa miRNA ID hits by wild rice species*

O. sativa miRNA family

Target mRNA class

O. nivara

O. rufipogon

O. glaberrima

O. punctata

Total no. of loci

miR156

ND

d

1

miR159

MYB and TCP TFs

e

b

2

miR160

ND

d

1

miR162

DICER-LIKE 1

b

1

miR164

ND

a

1

miR166

HD-Zip TFs

f, h, k

h, k, n

h, n

c

9

miR167

Auxin response factors TFs

a, d, f

j

d

a

6

miR168

ARGONAUTE

b

1

miR169

CCAAT binding factor and HAP2-like TFs

n, p

c

3

miR171

SCARECROW-like TFs

c, e, f

c

c, d

a

7

miR319

ND

a

1

miR395

ATP sulphurylases

i, j, k

3

miR396

GRF TFs, rhodenase-like, and kinesin-like protein B

b

1

miR397

Laccases and beta-6 tubulin

a

a

2

miR399

Phosphatase TFs

e

b, e

3

miR418

ND

x

x

2

miR420

ND

x

x

x

3

miR441

ND

b

a, b, c

c

5

miR442

ND

x

x

x

3

miR446

ND

x

x

x

3

miR531

ND

x

x

2

miR535

ND

x

x

x

x

4

Total no. of loci

20

22

15

7

64

*Named miRNA loci ID [69] are shown by species (for example, a putative miR156d locus ID is noted using a 'd' in the O. rufipogon column). For miRNA without a locus ID (for example, miR408), an 'x' is shown. ND, not determined; TF, transcription factor.

Kim et al. Genome Biology 2008 9:R45   doi:10.1186/gb-2008-9-2-r45