Strain | Method | type DU2 | DU2 resolved | Accession numbers | Reference | Year of publication |
---|---|---|---|---|---|---|
BCG Pasteur 1173P2 | Sanger sequencing (ABI 3700) of a pUC19, two pMAQ1b, a M13 and a cloned shotgun library, earlier analysis of BAC clones had already identified the DU1 and DU2 [13] | IV | yes | PRJEA18059, AM408590 | [11] | 2007 |
BCG Tokyo 172 | SOLiD (Agencourt Bioscience Corporation) sequencing of pAGEN vector library (about 4 kb and 800 bp inserts) and a fosmid insert library (about 40 kb) | I | yes (2x) | PRJDA31211, AP010918 | [9] | 2009 |
BCG Moreau RDJ | Sanger (ABI 3730) sequencing of 2 pBluescript libraries, gap closure via PCR | I | no | PRJEA70285, AM412059 | [43] | 2011 |
BCG Tice ATCC 35743 | Illumina genome sequencing, multiplex PCR and primer walking | IV | no | PRJNA63839, CP003494 | [7] | 2011 |
BCG Mexico 1931 | Roche 454 pyrosequencing, Sanger sequencing of fos-end sequences of 250 fosmids, sequencing of three fosmids and 110 PCR end reads | IV | yes | PRJNA45811, CP002095 | [44] | 2011 |
BCG Korea 1168P | Roche 454 (GS-FLX) and Illumina (HiSeq) sequencing, gap closure via PCR and primer walking | IV | yes (2x) | PRJNA170028, CP003900 | [45] | 2013 |
BCG Russia 368 | Roche 454 (GS Junior) sequencing on a shotgun and a 3 kb paired-end library, gap closure via PCR and Sanger sequencing | I | yes (2x) | PRJNA256163, CP009243 | 2014 | |
BCG 3281 (clinical isolate) | Roche 454 (GS-FLX) and Illumina (Hiseq2500) sequencing, gap closure via PCR | III | yes | PRJNA251957, CP008744 | [27] | 2015 |
BCG Russia BCG-1 | Roche 454 (GS-FLX) sequencing of a shotgun library, Ion Torrent PGM sequencing of a mate-pair library | I | yes (2x) | PRJNA306822, CP013741 | [48] | 2016 |
BCG Danish 1331 (07/270) | PacBio (RSII) (long read) sequencing (235x coverage) and Illumina (MiSeq) (short read) sequencing | III | yes | PRJNA494982, CP039850 | this study | 2019 |