Skip to main content

Table 3 Sequences from previous studies included in the mt dataset.

From: Revisiting the taxonomy of the Rattini tribe: a phylogeny-based delimitation of species boundaries

Voucher

Nominal species

Origin of specimen

Cytb

COI

Phylogenetic species

RrHu1

R. rattus

Huahine, Society Islands

[GenBank: EF186469]

[GenBank: EF186584]

R1

RrSamoa2

R. rattus

Samoa

[GenBank: EF186475]

[GenBank: EF186590]

R1

RrRa18

R. rattus

Raiatea, Society Islands

[GenBank: EF186474]

[GenBank: EF186589]

R1

ABTC50177

R. rattus

Sideia Is., Papua New Guinea

[GenBank: EF186472]

[GenBank: EF186587]

R1

ABTC64906

R. rattus diardi (1)

Kuala Lumpur, Malaysia

[GenBank: EF186413]

[GenBank: EF186528]

R3

ABTC64907

R. rattus diardi

Kuala Lumpur, Malaysia

[GenBank: EF186409]

[GenBank: EF186524]

R3

ABTC64908

R. rattus diardi

Kuala Lumpur, Malaysia

[GenBank: EF186410]

[GenBank: EF186525]

R3

ABTC64909

R. rattus diardi

Kuala Lumpur, Malaysia

[GenBank: EF186411]

[GenBank: EF186526]

R3

ABTC64910

R. rattus diardi

Kuala Lumpur, Malaysia

[GenBank: EF186412]

[GenBank: EF186527]

R3

ABTC 8529

R. kandianus (2)

Sri Lanka

[GenBank: EF186444]

[GenBank: EF18655]

R3

ABTC 8536

R. kandianus

Sri Lanka

[GenBank: EF186445]

[GenBank: EF186560]

R3

ABTC 8540

R. kandianus

Sri Lanka

[GenBank: EF186446]

[GenBank: EF186561]

R3

ABTC 8487

R. tanezumi

Amami Island, Japan

[GenBank: EF186508]

[GenBank: EF186623]

R2

ABTC 8562

R. tanezumi

Amami Island, Japan

[GenBank: EF186510]

[GenBank: EF186625]

R2

ABTC47981

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186493]

[GenBank: EF186608]

R2

ABTC47982

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186494]

[GenBank: EF186609]

R2

ABTC47983

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186495]

[GenBank: EF186610]

R2

ABTC47984

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186502]

[GenBank: EF186617]

R2

ABTC47985

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186503]

[GenBank: EF186618]

R2

ABTC47986

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186504]

[GenBank: EF186619]

R2

ABTC47987

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186505]

[GenBank: EF186620]

R2

ABTC47988

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186506]

[GenBank: EF186621]

R3

ABTC47989

R. tanezumi

Yogyakarta, Indonesia

[GenBank: EF186507]

[GenBank: EF186622]

R2

ABTC47992

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186490]

[GenBank: EF186605]

R3

ABTC47993

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186491]

[GenBank: EF186606]

R2

ABTC47994

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186492]

[GenBank: EF186607]

R5

ABTC47995

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186496]

[GenBank: EF186611]

R3

ABTC47996

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186497]

[GenBank: EF186612]

R3

ABTC47997

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186498]

[GenBank: EF186613]

R3

ABTC47998

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186499]

[GenBank: EF186614]

R3

ABTC47999

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186500]

[GenBank: EF186615]

R3

ABTC48000

R. tanezumi

Jakarta, Indonesia

[GenBank: EF186501]

[GenBank: EF186616]

R3

ABTC48004

R. tanezumi

Northern Sulawesi, Indonesia

[GenBank: EF186511]

[GenBank: EF186626]

R3

ABTC48005

R. tanezumi

Northern Sulawesi, Indonesia

[GenBank: EF186512]

[GenBank: EF186627]

R3

ABTC 8489

R. flavipectus (3)

Hong Kong, China

[GenBank: EF186440]

[GenBank: EF186555]

R2

Chat2

R. exulans

Chatham Islands, New Zealand

[GenBank: EF186426]

[GenBank: EF186541]

R8

CI 6

R. exulans

Aitutaki, Cook Islands

[GenBank: EF186414]

[GenBank: EF186529]

R8

Fiji1

R. exulans

Fiji

[GenBank: EF186417]

[GenBank: EF186532]

R8

Hawaii3

R. exulans

Hawaii

[GenBank: EF186418]

[GenBank: EF186533]

R8

Hu38

R. exulans

Huahine, Society Islands

[GenBank: EF186420]

[GenBank: EF186535]

R8

Kap6

R. exulans

Kapiti Island, New Zealand

[GenBank: EF186425]

[GenBank: EF186540]

R8

Ra22

R. exulans

Raiatea, Society Islands

[GenBank: EF186429]

[GenBank: EF186544]

R8

RNZAwa01

R. exulans

Great Barrier Island, New Zealand

[GenBank: EF186424]

[GenBank: EF186539]

R8

Samoa 3

R. exulans

Manua, Samoa

[GenBank: EF186430]

[GenBank: EF186545]

R8

Taku5

R. exulans

Takutea, Cook Islands

[GenBank: EF186416]

[GenBank: EF186531]

R8

UaHuka4

R. exulans

UaHuka, Marquesas Islands

[GenBank: EF186422]

[GenBank: EF186537]

R8

ABTC 8480

R. exulans

Thailand

[GenBank: EF186434]

[GenBank: EF186549]

R8

ABTC 8553

R. exulans

Thailand

[GenBank: EF186432]

[GenBank: EF186547]

R8

ABTC 8559

R. exulans

Thailand

[GenBank: EF186433]

[GenBank: EF186548]

R8

ABTC43078

R. exulans

Yuro, Papua New Guinea

[GenBank: EF186427]

[GenBank: EF186542]

R8

ABTC48011

R. exulans

Cibodas Forest, Java, Indonesia

[GenBank: EF186421]

[GenBank: EF186536]

R8

ABTC48895

R. exulans

Nagada Harbour, Papua New Guinea

[GenBank: EF186428]

[GenBank: EF186543]

R8

ABTC65753

R. hoffmanni

Tangoa, Sulawesi, Indonesia

[GenBank: EF186443]

[GenBank: EF186558]

-

ABTC65754

R. hoffmanni

Tangoa, Sulawesi, Indonesia

[GenBank: EF186441]

[GenBank: EF186556]

-

ABTC65809

R. hoffmanni

Mt Nokilalaki, Sulawesi, Indonesia

[GenBank: EF186442]

[GenBank: EF186557]

-

Rargen_1266

R. argentiventer**

Bangkok, Thailand

O.Verneau, unpublished

-

R6

Rsikki_866

R. sikkimensis **(4)

Mocchan, Vietnam

O.Verneau, unpublished

-

R7

ABTC48025

R. tiomanicus

Cibodas Forest, Java, Indonesia

[GenBank: EF186514]

[GenBank: EF186629]

R5

ABTC48026

R. tiomanicus

Cibodas Forest, Java, Indonesia

[GenBank: EF186513]

[GenBank: EF186628]

R5

Rn Ra 15

R. norvegicus

Raiatea, Society Islands

[GenBank: EF186462]

[GenBank: EF186577]

R9

Rn Hu 21

R. norvegicus

Huahine, Society Islands

[GenBank: EF186461]

[GenBank: EF186576]

R9

  1. "Nominal species" stands for the identification given to the specimen by the curator or the collector ([25] and F. Catzeflis, pers. comm.).
  2. "Phylogenetic species" relies on the DNA-based species delimitation method (see also Figure 3).
  3. (1) Rattus rattus diardi: Robins et al [25] reports that the specimens ABTC64906-64910 are identified by the South Australian Museum as the subspecies Rattus rattus diardi (not diardii) as listed by Ellerman [71] on the basis on R. r. diardi after Jentink [72]. As already mentioned by Robins et al., [25], R. diardii (after Jentink 1880) is however considered as a synonym for R. tanezumi by Musser and Carleton [16] but there is no 1880 reference in their bibliography.
  4. (2) R. kandianus is listed as a synonym of R. rattus [16], (3) R. flavipectus of R. tanezumi [16], (4) R. sikkimensis of R. andamanensis [16].
  5. ** indicates that specimens are no more available in the mammal tissue collection housed at the Institut des Sciences de l'Evolution de Montpellier [73].
  6. Mismatches between nominal species and phylogenetic species are highlighted in bold.