Table 1. Current Status of Genome Sequencing for Salmonellae.
Sequences Completed | Method | Sequencing Center | GenBank Accession # | Citation |
---|---|---|---|---|
* Arizonae 62:z4,z23:-- | ABI | WU | CP000880.1 | |
Agona SL483 | ABI | JCVI | CP001138.1 | |
Choleraesuis SC-B67 | ABI | Taiwan | AE017220.1 | [7] |
Dublin CT_02021853 | ABI | TIGR | CP001144.1 | |
Enteritidis P125109 | ABI | Sanger | AM933172.1 | [8] |
Gallinarum 287/91 | ABI | Sanger | AM933173.1 | [8] |
Heidelberg SL476 | ABI | JCVI | CP001120.1 | |
Newport SL254 | ABI | TIGR/JCVI | CP001113.1 | |
Paratyphi A ATCC 9150 | ABI | WU | CP000026.1 | [5] |
Paratyphi B SPB7 SGSC4150 | ABI | WU | CP000886.1 | |
Schwarzengrund CVM19633 | ABI | TIGR | CP001127.1 | |
Typhi E98-0664/Kenya 1998i | 454 | Sanger | NZ_CAAU00000000 | [9] |
Typhi 150(98)S/Vietnam 2004 | Illumina GS | Sanger | [9] | |
Typhi 404ty/Indonesia 1983 | 454/Illumina GS | Sanger | NZ_CAAQ00000000 | [9] |
Typhi 8(04)N/Vietnam 2004 | Illumina GS | Sanger | [9] | |
Typhi AG3/Vietnam 1998 | 454/Illumina GS | Sanger | NZ_CAAY00000000 | [9] |
Typhi CT18/Vietnam 1993 | ABI Illumina GS |
Sanger | AL513382.1 | [4] [9] |
Typhi E00-7866/Morocco 2000 | 454 | Sanger | NZ_CAAR00000000 | [9] |
Typhi E01-6750/Senegal 2001 | 454 | Sanger | NZ_CAAS00000000 | [9] |
Typhi E02-1180/India 2002 | 454 | Sanger | NZ_CAAT00000000 | [9] |
Typhi E02-2759/India 2002 | Illumina GS | Sanger | [9] | |
Typhi E03-4983/Indonesia 2003 | Illumina GS | Sanger | [9] | |
Typhi E03-9804/Nepal 2003 | Illumina GS | Sanger | [9] | |
Typhi E98-2068/Bangladesh 1998 | 454 | Sanger | NZ_CAAV00000000 | [9] |
Typhi E98-3139/Mexico 1998 | 454/Illumina GS | Sanger | NZ_CAAZ00000000 | [9] |
Typhi ISP-03-07467/Morocco 2003 | Illumina GS | Sanger | [9] | |
Typhi ISP-04-06979/Africa 2004 | Illumina GS | Sanger | [9] | |
Typhi J185SM/Indonesia 1985 | 454 | Sanger | NZ_CAAW00000000 | [9] |
Typhi M223/Unknown 1939 | 454 | Sanger | NZ_CAAX00000000 | [9] |
Typhi Ty2 Russia 1916 | ABI Illumina GS |
U Wisconsin Sanger |
AE014613.1 | [6] [9] |
Typhimurium LT2 | ABI | WU | AE006468.1 | [3] |
Sequencing In Progress | ||||
* Arizonae 05-0715 ATCC BAA-1577 | 454 | WU | - | |
* Diarizonae 61:1,v:1,5 | ABI | WU | - | |
* Diarizonae ATCC BAA-1579 05-0625 48:i:z | 454 | WU | - | |
* Houtenae SARC13 ATCC BAA-1580 45:a:e,n,x | 454 | WU | - | |
* Houtenae SARC14 ATCC BAA-1581 11:b:e,n,x | 454 | WU | - | |
* Indica ATCC BAA-1576 | ABI | WU | - | |
* Indica ATCC BAA-1578 | ABI | WU | - | |
* Salamae ATCC BAA-1583 (05-0626) 47:b:1,5 | 454 | WU | - | |
* Salamae SARC3 58:d:z6 | 454 | WU | - | |
* Salmonella bongori 12149 | ABI | Sanger | - | |
4,[5],12:i:- CVM23701 | ABI | TIGR | NZ_ABAO00000000 | |
Abortusovis SSM0041 | 454 | WU | - | |
Bovismorbificans 01-05481 PT13 | 454 | WU | - | |
Braenderup S-500 | 454 | WU | - | |
Brandenburg KMR12 | ABI | Korea | - | |
Dublin | ABI | U Illinois | - | |
Enteritidis 48-0811 | Illumina GS | WU | - | |
Enteritidis LK5 | ABI | U Illinois | - | |
Enteritidis SARB17 | 454 | WU | - | |
Enteritidis SARB19 | Illumina GS | WU | - | |
Hadar | ABI | Sanger | ||
Hadar RI_05P066 | ABI | TIGR/JCVI | NZ_ABFG00000000 | |
Heidelberg SL486 | ABI | TIGR/JCVI | NZ_ABEL00000000 | |
Indiana KMR53 | ABI | Korea | - | |
Infantis | ABI | Sanger | ||
Infantis SARB27 | 454 | WU | - | |
Javiana GA_MM04042433 | ABI | JCVI | NZ_ABEH00000000 | |
Kentucky CDC 191 | ABI | JCVI | NZ_ABEI00000000 | |
Kentucky CVM29188 | ABI | TIGR | NZ_ABAK00000000 | |
Miami ATCC BAA-1586 (02-3341) | 454 | WU | - | |
Montevideo SARB30 | 454 | WU | - | |
Muenchen SARB32 | 454 | WU | - | |
Muenchen SARB34 | 454 | WU | - | |
Muenster ATCC BAA-1575 (0065-00) | ABI | WU | - | |
Newport CVM36720 | ABI | UMIGS | - | |
Newport SL317 | ABI | JCVI | NZ_ABEW00000000 | |
Panama KMR64 | ABI | Korea | - | |
Paratyphi A AKU_12601 | ABI | Sanger | FM200053.1 | |
Paratyphi B ATCC BAA-1585 | ABI | WU | - | |
Paratyphi B SARB47 | 454 | WU | - | |
Paratyphi B tartrate (+) [Java] ATCC BAA-1584 (S-1241) | 454 | WU | - | |
Paratyphi C RKS4594, SARB49 | ABI Illumina GS |
Peking University WU |
- - |
|
Poona SGSC4934 | 454 | WU | - | |
Pullorum | ABI | U Illinois | - | |
Saintpaul SARA23 | ABI | TIGR | NZ_ABAM00000000 | |
Saintpaul SARA29 | ABI | TIGR | NZ_ABAN00000000 | |
Schwarzengrund KMR78 | ABI | Korea | - | |
Schwarzengrund SL480 | ABI | JCVI | NZ_ABEJ00000000 | |
Sendai 55-2461 | 454 | WU | - | |
Senftenberg SARB59 | 454 | WU | - | |
Stanley SARB60 | 454 | WU | - | |
Tennessee CDC07-0191 | ABI | CDC | NZ_ACBF00000000 | |
Thompson SARB62 | 454 | WU | - | |
Typhi SGSC2661 | Illumina GS | WU | - | |
Typhi Ty21a | ABI | Naval Med. Res. Center | - | |
Typhimurium 14028s | 454 | WU | - | |
Typhimurium D23580 | ABI | Sanger | - | |
Typhimurium DT104 | ABI | Sanger | - | |
Typhimurium DT2 | ABI | Sanger | - | |
Typhimurium SL1344 | ABI | Sanger | - | |
Virchow SL491 | ABI | TIGR/JCVI | NZ_ABFH00000000 | |
Weltevreden HI_N05-537 | ABI | TIGR/JCVI | NZ_ABFF00000000 |
All sequences are from Salmonella enterica subspecies enterica except the marked strains, which are from other subspecies and Salmonella bongori.
WU = Washington University, St. Louis. Sanger = Wellcome Trust Sanger Institute. JCVI = J. Craig Venter Institute, UMIGS = University of Maryland
ABI – Sequencing of large fragments by the Sanger Method, using automated detection of an ABI DNA sequencer.
454- 454 Sequencing- (Roche) – sequencing of short fragments attached to beads by sequencing based on synthesis.
Illumina GS- Massively parallel sequencing of millions of fragments using proprietary terminator based sequencing chemistry.