Table 1 Summary of the cytochrome b gene sequences generated in this study for the three invasive Rattus species occurring in South Africa and the reference sequences used for genetic analyses
Rattus tanezumi(south Africa) | ||||
|---|---|---|---|---|
Haplotype | Sampling Locality | N | Genbank AN (Museum AN) | Reference |
RT01 | Giyani (Nkomo-B), LP | 7 | DQ439816- DQ439822 | This study |
RT01 | Tshilimbani, LP | 19 | HQ157805 | This study |
RT01 | Tholakele, Paulpietersburg, KZN | 2 | DQ439823, DQ439826 | This study |
RT01 | Mvuzini, Vryheid, KZN | 3 | DQ439824-5, DQ439827 | This study |
RT01 | Ophuzane, Paulpietersburg, KZN | 6 | DQ439829, DQ439845-8 | This study |
RT01 | Hammanskraal, GP | 12 | DQ439828 | This study |
RT01 | Rietondale, Pretoria, GP | 1 | DQ444864 | This study |
RT01 | Moreleta Park, Pretoria, GP | 1 | FJ842262 | This study |
RT01 | Tembisa, GP | 3 | HQ157804 | This study |
RT01 | Roodeplaat, GP | 13 | HQ157807 | This study |
RT01 | Richmond, KZN | 1 | FJ842263 (DM8685) | This study |
RT01 | Shongweni, Durban, KZN | 2 | DQ439849-50 (DM8401, DM8402) | This study |
RT01 | Swaziland (Mcaphozini Area) | 6 | FJ842264 (DM8892, DM8896-8900) | This study |
RT02 | Tembisa, GP | 1 | FJ842265 | This study |
2 | 14 localities | 77 | Â | Â |
Rattus tanezumi (elsewhere) | ||||
Haplotype | Country (Locality) | N | Genbank AN (Museum AN) | Reference |
RT03 | Japan, Vietnam | 3 | AB355899-900, AB211040 | |
RT04 | Japan (Amami Island) | 1 | EU273712 | [9] |
RT05 | Japan | 1 | AB211041 | [29] |
RT06 | Vietnam | 1 | AB355901 | [30] |
RT07 | China | 1 | AB096841 | [28] |
5 | 3 countries | 7 | Â | Â |
Rattus rattus (South Africa) | ||||
Haplotype | Sampling Locality | N | Genbank AN (Museum AN) | Reference |
RR01 | Giyani (Nkomo-B), LP | 9 | DQ439830, DQ439851-8 | This study |
RR01 | Sekhukhune (Bloublommetjieskloof), LP | 2 | DQ439831-2 | This study |
RR01 | Tshilimbani, LP | 4 | HQ157802 | This study |
RR01 | Tembisa, GP | 1 | HQ157801 | This study |
RR03 | Hammanskraal, GP | 4 | DQ439834-5 | This study |
RR03 | Moreleta Park, Pretoria, GP | 1 | FJ842266 | This study |
RR03 | Tembisa, GP | 2 | HQ157800 | This study |
RR03 | Verena, MP | 1 | HQ157803 | This study |
RR04 | Renosterkop, LP | 1 | HQ157806 | This study |
RR04 | Hammanskraal, GP | 1 | DQ439833 | This study |
RR04 | Hillcrest, Pretoria, GP | 1 | FJ842267 | This study |
RR04 | Umkomaas, KZN | 5 | DQ439836-8 (DM8403-7) | This study |
RR05 | Hammanskraal, GP | 1 | FJ842268 | This study |
RR06 | Cape Town, WCP | 2 | GQ891608 | [4] |
RR10 | Melmoth, KZN | 1 | [HQ157808] (DM8820) | This study |
RR11 | Ladysmith, KZN | 1 | [HQ157809] (DM8907) | This study |
7 | 13 localities | 37 | Â | Â |
Rattus rattus (elsewhere) | ||||
Haplotype | Country (Locality) | N | Genbank AN | Reference |
RR01 | Tanzania | 1 | H217365 | [8] |
RR02 | Indonesia | 1 | AB033702 | [27] |
RR06 | New Zealand (Titirangi) | 1 | EU273707 | [9] |
RR07 | Japan | 2 | AB211039 [AB211042] | [29] |
RR08 | India | 1 | H217367 | [8] |
RR09 | Oman | 1 | H217366 | [8] |
6 | 6 countries | 7 | Â | Â |
Rattus norvegicus (South Africa) | ||||
Haplotype | Sampling Locality | N | Genbank AN (Museum AN) | Reference |
RN01 | Sydenham, Durban, KZN | 2 | FJ842270 (DM7744, DM7745) | This study |
RN01 | Durban CBD, KZN | 3 | FJ842271 (DM7783, DM7804-5) | This study |
RN01 | Montclair Park, Durban, KZN | 2 | DQ439842-3 (DM7788, DM7789) | This study |
RN01 | Cato Crest IS, Durban, KZN | 2 | FJ842272 (DM7802, DM7803) | This study |
RN01 | Cato Manor Rd, Durban, KZN | 1 | DQ439844 (DM7820) | This study |
RN01 | Tembisa, GP | 1 | FJ842269 | This study |
RN01 | O.R. Tambo International Airport, GP | 1 | FJ842273 | This study |
RN01 | Johannesburg Zoological Gardens | 8 | HQ157799 | This study |
RN02 | Cato Crest IS, Durban, KZN | 2 | FJ842274 (DM7790, DM7791) | This study |
RN03 | Durban Harbour, KZN | 2 | DQ439840-1 (DM7706, DM7711) | This study |
RN04 | Warwick Ave, Durban, KZN | 1 | DQ439839 (DM7645) | This study |
RN12 | O.R. Tambo International Airport, GP | 9 | FJ842275 | This study |
RN12 | Tembisa, GP | 3 | FJ842276 | This study |
5 | 10 localities | 37 | Â | Â |
Rattus norvegicus (elsewhere) | ||||
Haplotype | Sampling Locality of wild caught animals/(Lab Strain) | N | Genbank AN | Reference |
RN01 | (BN/SsNHsdMCW) | 1 | AY172581 | [46] |
RN01 | China*, Sweden | 2 | [GU592972*], FJ919765 | [11] |
RN09 | (GH/OmrMcwi), [GH/Swe] | 2 | DQ673911, [DQ673913] | [2] |
RN10 | Milwaukee, USA | 1 | DQ673916 | [2] |
RN05 | Indonesia | 1 | FJ842279 | This study |
RN07 | Vietnam | 1 | FJ842278 | This study |
RN08 | Vietnam | 2 | AB355902, [AB355903] | [30] |
RN11 | Copenhagen, Denmark | 1 | AJ428514 | [47] |
RN06 | Vietnam | 1 | FJ842277 | This study |
RN13 | Tokyo, Japan | 1 | DQ673917 | [2] |
RN13 | (T2DN/Mcwi) | 1 | DQ673915 | [2] |
RN14 | (Sprague-Dawley) | 1 | AB033713 | [48] |
RN15 | (Wistar) | 1 | X14848 | [49] |
11 | 7 countries | 16 | Â | Â |