Table 2.
Reference Strains and New Isolates of Orientia Used in the Study
| No. | Isolate | GenBank no. | Geographic location | Region/Province | District/Village | Latitude | Longitude | Ct of Otsu47 qPCR | ORF Length |
|---|---|---|---|---|---|---|---|---|---|
| 1 | CRF27 | HM156047 | Thailand N | Chiang Rai | Thoeng | 19.683333 | 100.2 | 38.28a | 1401 |
| 2 | CRF79 | HM156048 | Thailand N | Chiang Rai | Muang | 19.95234 | 99.88293 | 44.27a | 1401 |
| 3 | CRF93 | HM156049 | Thailand N | Chiang Rai | Fang | 19.91667 | 99.21667 | 41.56a | 1401 |
| 4 | CRF116 | HM156050 | Thailand N | Chiang Rai | Muang | 19.95234 | 99.88293 | 40.66a | 1401 |
| 5 | CRF136 | HM156051 | Thailand N | Chiang Rai | Muang | 19.95234 | 99.88293 | 34.99a | 1401 |
| 6 | FPW1038 | HM156052 | Thailand NW | Tak | Mae Ramat | 16.96667 | 98.51667 | 23.61b | 1404 |
| 7 | FPW2016 | HM156053 | Thailand NW | Tak | Phop Phra | 16.38611 | 98.69028 | 21.87b | 1401 |
| 8 | UT76 | HM156054 | Thailand NE | Udorn Thani | Muang | 17.38644 | 102.7883 | 20.86b | 1401 |
| 9 | UT169 | HM156055 | Thailand NE | Udorn Thani | Muang | 17.38644 | 102.7883 | 21.25b | 1401 |
| 10 | UT176 | HM156056 | Thailand NE | Udorn Thani | Ban Phu | 17.13417 | 102.9183 | 20.29b | 1401 |
| 11 | UT221 | HM156057 | Thailand NE | Udorn Thani | Muang | 17.38644 | 102.7883 | 21.09b | 1401 |
| 12 | UT418 | HM156058 | Thailand NE | Udorn Thani | Muang | 17.38644 | 102.7883 | 21.18b | 1401 |
| 13 | UT661 | HM156059 | Thailand NE | Udorn Thani | Muang | 17.38644 | 102.7883 | 36.77a | 1401 |
| 14 | TM1320 | HM156060 | Laos | Vientiane capital | Sangthong/Samphanna | 18.05579 | 102.31616 | 38.33a | 1401 |
| 15 | TM1324 | HM156061 | Laos | Vientiane capital | Xaysettha/Kham ngoi | 17.98086 | 102.68386 | 38.95a | 1401 |
| 16 | SIDO | HM156062 | Australia | NA | NA | NA | NA | 26.94a | 1401 |
| 17 | Chuto | HM156063 | UAE | NA | NA | NA | NA | 42.82a | 1404 |
| r-1 | TH1811 | HM595489 | Thailand | NA | NA | NA | NA | -ND | 1401 |
| r-2 | TH1817 | HM156064 | Thailand | Nakorn Ratchasima | Pak Tong Chai/Pak Tong Chai | 14.7167 | 102.0167 | 19.73b | 1401 |
| r-3 | TA763 | HM595490 | Thailand | Ubon Ratchathani | Sirinthorn/Chong Mek | 15.1333 | 105.4667 | 19.2b | 1401 |
| r-4 | MAK243 | HM595491 | Taiwan | Pescadore Islands | NA | NA | NA | 18.98b | 1401 |
| r-5-1 | Kato RDD10-001 | HM595493 | Japan | Nigata | NA | 37.9112 | 139.0052 | 21.8b | 1401 |
| r-5-2 | Kato | L11697 | Japan | Nigata | NA | 37.9112 | 139.0052 | 21.44b | 1401 |
| r-6 | Karp | L31934 | New Guinea | NA | NA | NA | NA | 17.56b | 1401 |
| r-7 | Gilliam | L31933 | Burma | NA | NA | NA | NA | 14.9b | 1401 |
| r-8 | Ikeda | AP008981 | Japan | Nigata | NA | 37.9112 | 139.0052 | -ND | 1401 |
| r-9 | Boryong | AM494475 | South Korea | South Chungcheong | / Boryong | NA | NA | -ND | 1401 |
a
Ct values for the10 DNA preparations obtained from blood samples of scrub typhus patients.
b
Ct values determined for DNA preparations from cultures of patient and reference samples.
Ct, cycle threshold values; ORF, open reading frame; NA, not available; ND, not determined.