Table 2

Nucleotide diversity at OsAMT1;1 and at seven loci around it in O. sativa and O. rufipogon

Genes predicted

Position a

Length b

O. sativa (n = 94)c

O. rufipogon (n = 19)



Pi×103

Hd

D1

D2

Pi×103

Hd

D1

D2

The ratio of Pi d


Glutaredoxin subgroup I

-101.9

853

1.21

0.516

1.38

-0.57

2.15

0.830

-2.02*

-3.11**

0.563

C3HC4 type zinc finger family

-74.1

757

0.06

0.042

-1.39

-2.80*

1.87

0.766

-1.31

-1.44

0.032

Lipase class 3 family

-38.5

756

0.06

0.042

-1.39

-2.80*

1.81

0.754

-1.63

-2.17

0.033

Cupin superfamily

-7.3

863

0.05

0.021

-1.39

-2.80*

1.72

0.865

-1.20

-1.44

0.029

OsAMT1;1

0

2688

0.08

0.123

-2.00*

-3.13*

1.72

0.982

-1.59

-0.57

0.047

Hypothetical protein

12.4

877

0.02

0.021

-1.03

-2.02

1.65

0.807

-1.25

-0.88

0.012

Transcriptional corepressor

LEUNIG

27.5

638

0.13

0.042

-1.79*

-3.84**

1.69

0.678

-1.21

-1.51

0.077

Expressed protein

49.5

832

2.01

0.576

0.52

-1.40

3.99

0.906

-0.50

-0.41

0.504


a Position of sampled loci as far to the first nucleotide of OsAMT1;1 that was considered as 0 kb; b Length (bp) of sampled alignment regions is relative to Nipponbare genomic sequence; c Pi (π), nucleotide diversity per site; Hd, haplotype diversity; D1, Tajama's D; D2, Fu and Li's D*; *, ** significant at 0.05 and 0.02 level, respectively; d The relative ratio of Pi for O. sativa to O. rufipogon.

Ding et al. BMC Evolutionary Biology 2011 11:61   doi:10.1186/1471-2148-11-61

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