Volume 20, Number 7—July 2014
Dispatch
Diversity of Francisella tularensis Subsp. holarctica Lineages, China
Yanhua Wang, Yao Peng, Rong Hai
, Lianxu Xia, Hang Li, Zhikai Zhang, Hong Cai, Ying Liang, Xiaona Shen, Dongzheng Yu, Dawn Birdsell, David M. Wagner, and Paul Keim
, Lianxu Xia, Hang Li, Zhikai Zhang, Hong Cai, Ying Liang, Xiaona Shen, Dongzheng Yu, Dawn Birdsell, David M. Wagner, and Paul Keim
Table 1
Francisella tularensis isolates used in study of lineages in China*
| Strain ID | Year of isolation | Region and country | Subspecies or species | Source | F.3 910179† | B.2 5162‡ | B.3 470841‡ | B.4 823672‡ | B.5 1853655‡ | B.6 713647‡ | B.12 109781‡ | B.16 608245§ | B.17 1743207§ | B.19 1373999§ | B.20 1396082, 1789417§ | B.23 253120§ | Major subgroup¶ | Subgroup# |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 410108 | 1962 | Tibet, China | subsp. holarctica | Human | G | C | G | A | C | G | A | T | C | C | T | C | BV | B.16 |
| 410109 | 1962 | Tibet, China | subsp. holarctica | Human | G | C | G | A | C | G | A | T | C | C | T | C | BV | B.16 |
| 410111 | 1964 | Tibet, China | subsp. holarctica | Tick (D. everestianus) | G | C | G | A | C | G | A | T | C | C | T | C | BV | B.16 |
| FSC022** | 1950 | Japan | subsp. holarctica | Human | G | C | G | A | C | G | A | T | C | C | T | C | BV | B.16 |
| 410107 | Pre-1992 | Heilongjiang, China | subsp. holarctica | Hare | G | A | A | A | T | G | T | G | C | A | C | C | BI | B.20 |
| 410116 | 1983 | Xinjiang, China | subsp. holarctica | Tick | G | A | A | A | T | G | T | G | C | A | C | C | BI | B.20 |
| 410117 | Pre-1992 | Xinjiang, China | subsp. holarctica | Tick | G | A | A | A | T | G | T | G | C | A | C | C | BI | B.20 |
| FSC200** | 1998 | Sweden | subsp. holarctica | Human | G | A | A | A | T | G | T | G | C | A | C | C | BI | B.20 |
| RC503/ FSC257** | 1949 | Russia | subsp. holarctica | Tick (D. pictus) | G | A | A | A | T | G | T | G | C | A | T | A | BIII | B.23 |
| LVS** | UNK | Russia | subsp. holarctica | UNK | G | A | A | A | T | G | T | G | C | A | T | A | BIII | B.23 |
| 410112 | 1971 | Tibet, China | subsp. holarctica | Tick (D. everestianus) | G | A | A | T | C | G | A | G | A | C | T | C | BII | B.4 |
| 410113 | 1964 | Tibet, China | subsp. holarctica | Tick (D. everestianus) | G | A | A | T | C | G | A | G | A | C | T | C | BII | B.4 |
| 920607 | Pre-1992 | Tibet, China | subsp. holarctica | UNK | G | A | A | T | C | G | A | G | A | C | T | C | BII | B.4 |
| OSU18** | 1978 | Oklahoma, United States | subsp. holarctica | Beaver | G | A | A | T | C | G | A | G | A | C | T | C | BII | B.4 |
| MI00-1730** | 2000 | Michigan, United States | subsp. holarctica | Human | G | A | A | T | C | G | A | G | A | C | T | C | BII | B.4 |
| 410105 | 1962 | Tibet, China | subsp. holarctica | Human | G | A | A | A | T | A | A | G | C | C | T | C | BIV | B.6 |
| FTNF002-00** | UNK | France | subsp. holarctica | UNK | G | A | A | A | T | A | A | G | C | C | T | C | BIV | B.6 |
| URFT1** | 1997 | France | subsp. holarctica | Human | G | A | A | A | T | A | A | G | C | C | T | C | BIV | B.6 |
| F92** | 2004 | Germany | subsp. holarctica | Marmoset | G | A | A | A | T | A | A | G | C | C | T | C | BIV | B.6 |
| OR96-0246** | 1996 | Oregon, United States | subsp. holarctica | UNK | G | A | A | A | T | A | A | G | C | C | T | C | BIV | B.6 |
| Schu S4** | 1941 | Ohio, United States | subsp. tularensis | Human | A | C | G | A | C | G | A | G | C | C | T | C | NA | NA |
| FSC147** | 1965 | Kazakhstan | subsp. mediasiatica | Gerbil | A | C | G | A | C | G | A | G | C | C | T | C | NA | NA |
| U112** | 1950 | Utah, United States | F. novicida | Water | A | C | G | A | C | G | A | G | C | C | T | C | NA | NA |
*Clade designations are underlined. Gray shading indicates derived SNPs; other SNPs are ancestral. ID, Identification; UNK, unknown; NA, not applicable; SNP, single-nucleotide polymorphism.
†SNP from (10). SNP position based on the reference Schu S4 (NC_006570)
‡Canonical SNP from (7). SNP position based on the reference Schu S4 (NC_006570).
§Canonical SNP from (6), SNP position based on the reference Schu S4 (NC_006570).
¶Major subgroup based on (6).
#Subgroup based on (6,7).
**Reference strain genome published in the National Center for Biotechnology Information (www.ncbi.nlm.nih.gov/genome/genomes/511).
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