Museum Number Cytochrome b Genbank #




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Supplementary/Appendices
Table S1. Museum number with no prefix is the mammal collection of the Museum of Vertebrate Zoology, University of California, Berkeley, California. FMNH prefix is the Field Museum of Natural History, Chicago, Illinois. ABTC prefix is the South Australian Museum. CBGP refers to Centre de Biologie et de Gestion des Populations, Montpellier, France. MahaU refers to Mahasarakham University, Mahasarakham, Thailand. UKMNH refers to University of Kansas Museum of Natural History. The haplotype name where used by Aplin et al. (2011) is shown by the reference.

Museum Number

Cytochrome b Genbank #

Phylogenetic species group assignment

General Locality

Microsatellite genotyped?

DNAsp hap

Reference

OUTGROUPS

 

 

 

 







186533

JQ824369

Niviventer langbianis

Vietnam




9

this study

176530

JQ814207

andamensis

China




55

this study

176532

JQ814208

andamensis

China




54

this study

193095

JN675485

andamensis

China




53

Aplin et al. (2011) 100Ran_48 

193096

JQ814211

andamensis

China




55

this study

FMNH168825

JQ814249

andamensis

Cambodia




38

this study

specimen voucher R3087

HM217403

andamensis

Thailand




17

Pagès et al. (2010)

186526

JQ814264

losea

Vietnam

Y

41

this study

226407

JQ814283

norvegicus

Oakland, California




2

this study

ABTC 48063

EU349762

Maxomys bartelsii

Indonesia




23

Rowe et al. (2008)

Sample R2953, no voucher

HM217396

andamensis

Thailand




16

Pagès et al. (2010)

HS130/KT2832

AB033701

argentiventer

Indonesia




31

Suzuki et al. (2000)

CB0001

HM217362

argentiventer

Cambodia




15

Pagès et al. (2010)

CB0104

HM217364

argentiventer

Cambodia




15

Pagès et al. (2010)

Sample R3484, no voucher

HM217421

Clade 5 - sakeratensis

Thailand




13

Pagès et al. (2010)

Sample R3510, no voucher

HM217423

Clade 5 - sakeratensis

Thailand




12

Pagès et al. (2010)

ABTC 48025

EF186514

Clade 6 - tiomanicus

Indonesia




25

Robins et al. (2007)

Sample R1833, no voucher

HM217391

Clade 6 - tiomanicus

Thailand




14

Pagès et al. (2010)

FMNH 142350

DQ191485

everetti

Philippines




30

Jansa et al. (2006)

Sample R5349, voucher at CBGP

HM217470

exulans

Thailand




18

Pagès et al. (2010)

Sample R5447, voucher at CBGP

HM217472

exulans

Thailand




18

Pagès et al. (2010)

ABTC 8615

EF186438

fuscipes

Australia




29

Robins et al. (2007)

ABTC 8605

EF186439

fuscipes

Australia




28

Robins et al. (2007)

ABTC 65754

EF186441

hoffmanni

Indonesia




27

Robins et al. (2007)

ABTC 65809

EF186442

hoffmanni

Indonesia




27

Robins et al. (2007)

ABTC 65753

EF186443

hoffmanni

Indonesia




27

Robins et al. (2007)

UKMNH 160771

EU349781

leucopus

Papua New Guinea




22

Rowe et al. (2008)

sample L0180, voucher at MahaU

HM217478

nitidus

Laos




20

Pagès et al. (2010)

sample L0192, voucher at MahaU

HM217479

nitidus

Laos




19

Pagès et al. (2010)

Sample Haiphong port #20, no voucher

AB355903

norvegicus

Vietnam




1

Truong et al. (2009)

ABTC 41168

EF186480

sordidus

Australia




26

Robins et al. (2007)

ABTC 51688

EF186518

tunneyi

Australia




24

Robins et al. (2007)

ABTC 00549

EU349783

villosissimus

Australia

 

21

Rowe et al. (2008)






















Non-North America R. rattus Lineage II, IV

 

 

 

 







MSB141265

JQ814256

Clade 2 - tanezumi

China

Y

3

this study

MSB141286

JQ814260

Clade 2 - tanezumi

China

Y

4

this study

MSB141293

JQ814262

Clade 2 - tanezumi

China

Y

32

this study

MSB141273

JQ814258

Clade 2 - tanezumi

China

Y

33

this study

MSB141295

JQ814263

Clade 2 - tanezumi

China

Y

33

this study

MSB141266

JQ814257

Clade 2 - tanezumi

China

Y

33

this study

MSB141289

JQ814261

Clade 2 - tanezumi

China

Y

34

this study

MSB141261

JQ814255

Clade 2 - tanezumi

China




33

this study

MSB141279

JQ814259

Clade 2 - tanezumi

China

Y

33

this study

176528

JN675576

Clade 2 - tanezumi

China

Y

7

Aplin et al. 99RrII_47 

176526

JN675575

Clade 2 - tanezumi

China

Y

56

Aplin et al. 98RrII_47

176527

JQ814205

Clade 2 - tanezumi

China

Y

56

this study

176529

JQ814206

Clade 2 - tanezumi

China

Y

56

this study

JL1113/HS1734, table 1 in Suzuki et al. 2003

AB096841

Clade 2 - tanezumi

China




60

Suzuki et al. (2000)

ABTC 8489

EF186440

Clade 2 - tanezumi

China




42

Robins et al. (2007)

ABTC 47993

EF186491

Clade 2 - tanezumi

Indonesia




46

Robins et al. (2007)

ABTC 47981

EF186493

Clade 2 - tanezumi

Indonesia




61

Robins et al. (2007)

ABTC 47982

EF186494

Clade 2 - tanezumi

Indonesia




62

Robins et al. (2007)

ABTC 47983

EF186495

Clade 2 - tanezumi

Indonesia




61

Robins et al. (2007)

ABTC 47984

EF186502

Clade 2 - tanezumi

Indonesia




7

Robins et al. (2007)

ABTC 47985

EF186503

Clade 2 - tanezumi

Indonesia




61

Robins et al. (2007)

ABTC 47986

EF186504

Clade 2 - tanezumi

Indonesia




7

Robins et al. (2007)

ABTC 47987

EF186505

Clade 2 - tanezumi

Indonesia




7

Robins et al. (2007)

ABTC 47989

EF186507

Clade 2 - tanezumi

Indonesia




7

Robins et al. (2007)

sample HS2393, no voucher

AB211040

Clade 2 - tanezumi

Japan




42

Chinen et al. (2005)
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