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. 2012 Dec;50(12):3853–3861. doi: 10.1128/JCM.01499-12

TABLE 2.

Metadata on the isolates used for SNP analysis

Isolate group and no. Isolate IDa Host—yr of isolation State, city, or countryd Spoligotype VNTR profile No. of IS6110 bands
M. bovis isolates from APHIS-USDA, Ames, IA (n = 57)
    1 HC2045T Cattle TX SB0673 25237452534
    2 08-5055 Cattle CA SB0140 25215452534
    3 08-4513 Cattle TX SB0971 25237452534
    4 08-2906 Cattle TX SB0121 23326442232
    5 08-2630 Cattle MN SB0271 25237452534
    6 08-2431 Cattle CA SB0121 23326442232
    7 08-0955 Cattle MI SB0815 23237552533
    8 08-0168 Cattle OK SB0673 25237452534
    9 07-6182 Cattle SD SB0152 25336442635
    10 07-5545 Cattle NM SB0673 25237452534
    11 07-3557 Cattle MI SB0145 23237552533
    12 07-3280 Deer MN SB0271 25237452534
    13 07-1437 Cattle OK SB0327 25134452323
    14 07-0608 Cattle MN SB0271 25237452534
    15 06-8471 Cattle TX SB0121 23326442232
    16 06-6855 Cattle MI SB0145 23237552533
    17 06-3641 Deer MN SB0271 25237452534
    18 06-4034 Cattle MI SB0145 23237572533
    19 06-2501 Cattle TX SB0265 23335432534
    20 04-0901 Cattle MX SB0673 25245452534
    21 04-3121 Cattle TX SB1040 25237552533
    22 03-5025 Cattle TX SB0140 25234452534
    23 03-2620 Cattle CA SB1345 25336442542
    24 03-0196 Cattle CA SB0673 25237452432
    25 95-1315 Deer MI SB0145 23237552533
    26 91-2299 Deer NY SB1069 25337441535
    27 09-4591 Deer MN SB0271 25237452534
    28 Hbo-5 Environment CA SB1040 25237552533
    29 Hbo-7 Human CA SB0145 25237472533
    30 Hbo-11 Human CA SB1040 25238352533
    31 Hbo-13 Human CA Unregisteredb 25336442642
    32 92-3043 Elk NY SB0265 23335432534
    33 94-0704 Elk MT SB0265 23335432534
    34 94-2161 Elk MT SB0265 23335432534
    35 95-0059 Elk MO SB1069 25337441535
    36 97-2516 Feral swine HI SB0145 25247542533
    37 97-3839 Elk WI SB0265 23335432534
    38 98-1511 Elk KS SB0265 23335432534
    39 99-3877 Feral swine HI SB0815 25247542533
    40 00-0121 Elk WI SB0265 23335432534
    41 00-2550 Elk WI SB0265 23335432534
    42 00-5477 Elephant DC SB0134 25432422535
    43 00-5480 Elephant DC SB0134 25435422535
    44 02-1372 Feral swine HI SB0145 25247542533
    45 03-5734 Feral swine HI SB0145 25247542533
    46 05-5341 Human NY SB0673 25237442534
    47 05-5354 Human NY SB0673 25237442534
    48 06-4387 Feral swine HI SB0145 25247542533
    49 07-6292 Cattle MX SB0673 25237452534
    50 09-3461 Elk NE SB0265 23335432534
    51 09-6071 Elk NE SB0265 23335432534
    52 07-6293 Cattle MX SB0121 23336442535
    53 07-7253 Cattle MX SB0145 25237551533
    54 07-7901 Human MX SB1828 26336442635
    55 07-11680 Feral swine HI SB0145 25247542533
    56 08-5155 Feral swine HI SB0145 25247542533
    57 08-8559 Deer NY SB1069 25337441534
M. tuberculosis sensu stricto isolates from APHIS-USDA, Ames, IA (n = 10)
    58 09-0453 Primate PA SB1622 24438452534
    59 09-0454 Primate PA SB1622 24438452534
    60 09-0455 Primate PA SB1622 24438452534
    61 09-3381 Avian TX Unregisteredb 44344221637
    62 06-8534 Monkey WI Unregisteredb 74354421658
    63 09-4348 Primate NV Unregisteredb 24257242256
    64 05-4400 Elephant TX Unregisteredb 34242121527
    65 09-8103 Primate SC Unregisteredb 54343421858
    66 09-7906 Primate NV Unregisteredb 44332221537
    67 97-0352 Elephant IL Unregisteredb 34314221639
M. bovis isolates from PHRI, NJ (n = 9)
    68 21540 Human—2006 NYC SB0173 1
    69 24489 Human—2009 NYC SB1157 1
    70 20701 Human—2006 NYC SB0242 1
    71 23244 Human—2008 NYC SB0172 1
    72 23396 Human—2008 NJ SB0333 2
    73 26515 Human—2009 NYC SB0509 1
    74 16862 Human—2003 NYC SB0846 1
    75 23217 Human—2008 NYC SB1847 1
    76 16158 Human—2002 Egyptc SB1160 2
Isolates of M. bovis from PHRI, NJ, typed as strain BCG by SNP analysis (n = 9)
    77 20658 Human—2005 NYC SB0025 1
    78 21068 Human—2006 NYC SB0025 2
    79 24644 Human—2009 NYC SB0025 1
    80 20051 Human—2005 NY SB0025 1
    81 9682 Human—1999 Russiac SB0025 2
    82 9680 Human—1999 Russiac SB0025 2
    83 7768 Human—1997 NH SB0025 1
    84 22666 Human—2007 NYC SB0025 1
    85 20502 Human—2005 NYC SB0025 1
M. tuberculosis isolates from PHRI, NJ, typed by SNP analysis and previously identified as M. bovis (n = 2)
    86 24282 Human—2008 NYC SB0228 3
    87 18463 Human—2003 NYC SB0242 3
M. tuberculosis sensu stricto isolates from PHRI, NJ (n = 49)
    88 6401 Human—1997 NJ SB0075 1
    89 6519 Human—1997 NJ SB0075 1
    90 7396 Human—1997 NYC SB0075 1
    91 8072 Human—1998 NJ SB0075 1
    92 9723 Human—1999 NJ SB0075 1
    93 10225 Human—1999 NJ SB0075 1
    94 10425 Human—1999 NJ SB0075 1
    95 13260 Human—2001 NJ SB0075 1
    96 14435 Human—2002 NYC SB0075 1
    97 17147 Human—2003 NYC SB0075 1
    98 17781 Human—2003 NYC SB0075 1
    99 17996 Human—2003 NYC SB0075 1
    100 22813 Human—2007 NYC SB0075 1
    101 23257 Human—2008 NYC SB0075 1
    102 24091 Human—2008 NJ SB0075 1
    103 18928 Human—2004 NYC SB0030 1
    104 6365 Human—1997 NY SB0030 3
    105 8423 Human—1998 NYC SB0030 3
    106 9688 Human—1999 NYC SB0030 3
    107 13602 Human—2001 NYC SB0030 3
    108 19733 Human—2005 NYC SB0030 3
    109 21946 Human—2007 NYC SB0030 3
    110 23771 Human—2008 NYC SB0030 3
    111 25703 Human—2009 NYC SB0030 3
    112 913 Human—1992 NYC SB0030 3
    113 5401 Human—1996 NJ SB0009 3
    114 9319 Human—1998 NJ SB0075 3
    115 9904 Human—1999 NJ SB0075 3
    116 6478 Human—1997 NJ SB0009 2
    117 9136 Human—1998 NYC SB0009 2
    118 12721 Human—2000 NJ SB0009 2
    119 13571 Human—2001 NYC SB0009 2
    120 18104 Human—2003 NYC SB0009 2
    121 19711 Human—2005 NYC SB0009 2
    122 22665 Human—2007 NYC SB0009 2
    123 26033 Human—2010 NYC SB0009 2
    124 11064 Human—1997 NJ SB0030 2
    125 24991 Human—2009 NYC SB0075 2
    126 5855 Human—1997 NJ SB0075 2
    127 7061 Human—1997 NJ SB0075 2
    128 8433 Human—1998 NJ SB0075 2
    129 9140 Human—1998 NJ SB0075 2
    130 9898 Human—1999 NJ SB0075 2
    131 10296 Human—1999 NJ SB0075 2
    132 10443 Human—1999 NJ SB0075 2
    133 11055 Human—1999 NJ SB0075 2
    134 21307 Human—2006 NYC SB0075 2
    135 24810 Human—2009 NJ SB0075 2
    136 15069 Human—2002 NJ SB0075 2
a

For isolates 1 to 67, the first two digits represent the year of isolation, except for isolate 1 (early 1990s) and isolates 28 to 31 (not known).

b

For isolates with newly identified, unregistered spoligotypes, the octal codes are (in order of appearance in the table) 676713676777600, 000000000003771, 000000000003771, 777777774413771, 777774077560731, 000000000003761, 777717607760771, and 776377777760771.

c

One of three isolates from locations outside the United States.

d

NYC, New York City.