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Table 1 Patterns of polymorphism within and among North American Great Lakes populations of A. l. lyrata at both RPM1 and WRR4

From: R-gene variation across Arabidopsis lyrata subspecies: effects of population structure, selection and mating system

Population

T m

Microsatellites

RAD

N

RPM1

WRR4

  

Ho

Ï€

Ho

 

Ho

Haptotal

Ï€

Ï€syn

Ï€non-syn

Taj D

Haptotal

Ho

Ï€

Ï€syn

Ï€non-syn

Taj D

IND

0.99

0.396

0.0011

0.0748

12

0.250

6

0.0017

0.0039

0.0011

0.407

2

0.333

0.0010

0.0023

0.0007

1.609

PCR

0.98

0.208

0.0010

0.0747

12

0.417

3

0.0009

0.0008

0.0009

−1.102

5

0.833

0.0019

0.0052

0.0009

0.827

PUK

0.96

0.297

-

-

12

0.417

3

0.0014

0.0043

0.0006

1.773a

8

0.750

0.0033

0.0093

0.0016

0.797

LSP

0.94

0.156

-

-

12

0.167

3

0.0006

0.0022

0.0002

0.360

3

0.500

0.0013

0.0048

0.0003

0.346

SBD

0.94

0.427

0.0012

0.0883

12

0.917

5

0.0020

0.0050

0.0012

1.344

6

0.833

0.0025

0.0047

0.0018

−0.242

TSS

0.91

0.313

0.0010

0.0732

12

0.667

4

0.0011

0.0038

0.0004

0.922

5

0.667

0.0033

0.0090

0.0016

1.834a

SAK

0.9

0.375

0.0012

0.0776

12

0.583

4

0.0012

0.0027

0.0008

0.235

6

0.750

0.0017

0.0018

0.0017

−0.119

PIN

0.84

0.307

0.0009

0.0679

12

0.583

5

0.0011

0.0029

0.0006

−0.514

5

0.583

0.0015

0.0004

0.0018

−0.433

MAN

0.83

0.281

0.0009

0.0613

12

0.583

3

0.0023

0.0041

0.0018

1.972a

4

0.333

0.0009

0.0034

0.0002

−0.570

PIC

0.77

0.391

-

-

12a

0.500

2

0.0005

0.0024

0.0000

1.505

4

0.545

0.0009

0.0009

0.0009

−1.284

HDC

0.65

0.078

-

-

12

0.250

3

0.0008

0.0004

0.0009

−0.829

3

0.500

0.0007

0.0027

0.0001

−1.098

Outcrossing mean

0.294

0.0011

0.0740

 

0.485

3.73

0.0013

0.0029

0.0008

 

4.64

0.603

0.0017

0.0040

0.0011

 

TSSA

0.41

0.198

0.0010

0.0671

12b

0.222

4

0.0004

0.0013

0.0001

−1.471

5

0.583

0.0027

0.0076

0.0013

1.634

KTT

0.31

0

0.0002

0.0062

12

0.000

2

0.0006

0.0013

0.0004

0.181

4

0.083

0.0009

0.0033

0.0002

−1.055

RON

0.28

0.042

0.0005

0.0291

12

0.417

2

0.0020

0.0023

0.0020

2.261b

3

0.250

0.0010

0.0030

0.0005

−0.875

WAS

0.25

0.094

-

-

12b

0.182

3

0.0010

0.0020

0.0007

−0.937

2

0.000

0.0004

0.0000

0.0005

−0.890

TC

0.18

0.042

0.0000

0.0015

12

0.083

2

0.0004

0.0020

0.0000

1.027

3

0.083

0.0026

0.0082

0.0010

1.422

LPT

0.13

0.045

0.0002

0.0064

11

0.000

1

0.0000

0.0000

0.0000

-

1

0.000

0.0000

0.0000

0.0000

-

PTP

0.09

0.078

0.0004

0.0038

12

0.000

1

0.0000

0.0000

0.0000

-

2

0.167

0.0022

0.0074

0.0007

2.446b

Selfing mean

0.050

0.0004

0.0190

 

0.114

1.83

0.0007

0.0013

0.0005

 

2.50

0.097

0.0012

0.0037

0.0005

 

a N = 11 for WRR4

                

b N = 11 for RPM1

                
  1. Patterns of polymorphism within and among North American Great Lakes populations of A. l. lyrata at both RPM1 and WRR4 and the averages for all outcrossing and all selfing populations. Populations ordered by population-level outcrossing rates (T m ) from [28]. Observed heterozygosity (Ho): average proportion heterozygous loci for microsatellites/RAD loci; proportion heterozygous individuals for R-genes. Total number of haplotypes (Haptotal) observed at RPM1 and WRR4 within populations. Nucleotide diversity (π): average number pairwise differences divided by sequence length (as calculated by [47]). Synonymous/non-synonymous nucleotide diversity (πsyn/non-syn) calculated using DnaSP v5 [48]. Significance of Tajima’s D values (Taj D) were calculated with DnaSP v5 and denoted by: a 0.05 < p < 0.1 and b p < 0.05. TSSA is classified as mixed mating, so was excluded from the average for selfing populations. ‘-‘indicates that data were not available (due to absence of samples for RAD-sequencing, or lack of within-population polymorphism for calculating Tajima’s D)
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BMC Ecology and Evolution

ISSN: 2730-7182

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