
                        SEQUENCE LISTING - Rule 13ter

<110> Becton, Dickinson and Company

<120> SEQUENCE-SPECIFIC METHODS FOR HOMOGENOUS, REAL-TIME 
      DETECTION OF LAMP PRODUCTS
  
<130> 11612-060-228

<140> pct/us2010/055392   
<141> 2010-11-04  

<150> 61/258,414          
<151> 2009-11-05  

<160> 39

<170> FastSEQ for Windows Version 4.0

<210> 1
<211> 45
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward LAMP primer, FLP 

<400> 1
accaccggcc ggatgttgga tgaccaccca ggacgtggag gcgat                 45

<210> 2
<211> 44
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse LAMP primer, RLP 

<400> 2
ccggcggtct gtcacgtgaa ggccgtagtg tgacgggtgc acgt                  44

<210> 3
<211> 25
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward outer primer, F3 

<400> 3
cgggtcggca tgtcgcggat ggagc                                       25

<210> 4
<211> 26
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse outer primer, R3 

<400> 4
ccctcagggg tttcgatcgg gcacat                                      26

<210> 5
<211> 22
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward signal primer, FSP 

<400> 5
cgccgcgatc aaggagttct tc                                          22

<210> 6
<211> 17
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward loop primer, FLoop(F4) 

<400> 6
atcaacgtct gcggtgt                                                17

<210> 7
<211> 17
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse loop primer, RLoop (R4) 

<400> 7
ccgggctgga ggtccgc                                                17

<210> 8
<211> 49
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward LAMP primer for katG (FLP-kat)

<400> 8
cagcccaagc ccatctgctc cacatggcgc cggcccggcc gatctggtc             49

<210> 9
<211> 50
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse LAMP primer fo katG (RLP-kat)

<400> 9
tatggacgaa caccccgacg aaagctccca ctcgtagccg tacaggatct            50

<210> 10
<211> 31
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Outer primer for katG (F3-kat)

<400> 10
acagcggcgc tgatcgtcgg cggtcacact t                                31

<210> 11
<211> 26
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse Outer primer for katG (R3-kat)

<400> 11
gcgccgtcct tggcggtgta ttgcca                                      26

<210> 12
<211> 16
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Loop  primer for katG (F4-kat)

<400> 12
gagcagcctc gggttc                                                 16

<210> 13
<211> 18
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse Loop primer for katG (R4-kat)

<400> 13
atgggacaac agtttcct                                               18

<210> 14
<211> 25
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward signal primer for katG (FSP-kat)

<400> 14
gtatggcacc ggaaccggta aggac                                       25

<210> 15
<211> 27
<212> DNA
<213> Artificial Sequence

<220> 
<223> Molecular beacon for katG (MBP-kat)

<220>
<221> misc_feature   
<222> 1
<223> n = dye1-C

<220>
<221> misc_feature   
<222> 27
<223> n = G-dabcyl

<400> 15
ncgaggcacc agcggcatcg acctggn                                     27

<210> 16
<211> 43
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward LAMP primer for inhA (FLP-inh)

<400> 16
acgtggctgc gatttccgga ccgacaaacg tcacgagcgt aac                   43

<210> 17
<211> 43
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse LAMP primer for inhA (RLP-inh)

<400> 17
cacagccact gaaggggcca tcctccggta accaggactg aac                   43

<210> 18
<211> 20
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Outer primer for inhA (F3-inh)

<400> 18
atccgtcatg gtcgaagtgt                                             20

<210> 19
<211> 20
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse Outer primer for inhA (R3-inh)

<400> 19
gagccagccg ctgtgcgatc                                             20

<210> 20
<211> 15
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Loop primer for inhA (F4-inh)

<400> 20
gggaactttc gcact                                                  15

<210> 21
<211> 15
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse Loop primer for inhA (R4-inh)

<400> 21
acccccattc gtatc                                                  15

<210> 22
<211> 23
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Signal primer for inhA (FSP-inh)

<400> 22
acgctcgtgg acataccgat ttc                                         23

<210> 23
<211> 28
<212> DNA
<213> Artificial Sequence

<220> 
<223> Molecular beacon inhA (MBP-inh)

<220> 
<221> misc_feature   
<222> 1
<223> n = dye2-C

<220> 
<221> misc_feature   
<222> 28
<223> n = G-dabcyl

<400> 23
ngaggccgac aacctatcgt ctccctcn                                    28

<210> 24
<211> 39
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward LAMP primer for gyrB (FLP-gyr)

<220> 
<221> misc_feature   
<222> 1
<223> n = dye3-A

<400> 24
ngaccactcg tacccgtcgc cggtggttaa cgcgctatc                        39

<210> 25
<211> 20
<212> DNA
<213> Artificial Sequence

<220> 
<223> Quencher probe for gyrB (QP-gyr)

<220>
<221> misc_feature   
<222> 20
<223> n = T-dabcyl

<400> 25
gcgacgggta cgagtggtcn                                             20

<210> 26
<211> 40
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse LAMP primer for gyrB (RLP-gyr)

<400> 26
atgagaagtc ggaacccctg ggaccgttga ccccgtcttc                       40

<210> 27
<211> 19
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Outer primer for gyrB (F3-gyr)

<400> 27
gcgatatctg gtggtctgc                                              19

<210> 28
<211> 18
<212> DNA
<213> Artificial Sequence

<220> 
<223> Reverse Outer primer for gyrB (R3-gyr)

<400> 28
cgtggtttcg aaaacagc                                               18

<210> 29
<211> 19
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Loop primer for gyrB (F4-gyr)

<400> 29
ttgatctcga cttcgagcc                                              19

<210> 30
<211> 16
<212> DNA
<213> Artificial Sequence

<220> 
<223> Forward Loop primer for gyrB (R3-gyr)

<400> 30
cctcaagcaa ggggcg                                                 16

<210> 31
<211> 24
<212> DNA
<213> Artificial Sequence

<220> 
<223> Probe A for detecting mutations in the rpoB 
      sequence contained in LAMP secondary products

<220> 
<221> misc_feature   
<222> 1
<223> n = Texas red-TTTTTT-fluoresescein-C

<220> 
<221> misc_feature   
<222> 24
<223> n = G-dabcyl

<400> 31
ngagctcagc tggctggtgc ctcn                                        24

<210> 32
<211> 31
<212> DNA
<213> Artificial Sequence

<220> 
<223> Probe B for detecting mutations in the rpoB 
      sequence contained in LAMP secondary products

<220> 
<221> misc_feature   
<222> 1
<223> n = tetrachlorofluorescein-G

<220> 
<221> misc_feature   
<222> 31
<223> n = C-dabcyl

<400> 32
nctacgagcc aattcatgga ccagacgtag n                                31

<210> 33
<211> 28
<212> DNA
<213> Artificial Sequence

<220> 
<223> Probe C for detecting mutations in the rpoB 
      sequence contained in LAMP secondary products

<220> 
<221> misc_feature   
<222> 1
<223> n = tetramethylrhodamine-TTTTTT-fluorescein-C

<220> 
<221> misc_feature   
<222> 28
<223> n = G-dabcyl

<400> 33
ncgacgccga cagcgggttg ttcgtcgn                                    28

<210> 34
<211> 26
<212> DNA
<213> Artificial Sequence

<220> 
<223> Probe D for detecting mutations in the rpoB 
      sequence contained in LAMP secondary products

<220> 
<221> misc_feature   
<222> 1
<223> n = rhodamine-TTTTTT-fluorescein-C

<220> 
<221> misc_feature   
<222> 26
<223> n = G-dabcyl

<400> 34
ncacgcttgt gggtcaaccc ccgtgn                                      26

<210> 35
<211> 28
<212> DNA
<213> Artificial Sequence

<220> 
<223> Probe E for detecting mutations in the rpoB 
      sequence contained in LAMP secondary products

<220> 
<221> misc_feature   
<222> 1
<223> n = fluorescein-C

<220> 
<221> misc_feature   
<222> 28
<223> n = G-dabcyl

<400> 35
nctgccgccg actgtcggcg ctggcagn                                    28

<210> 36
<211> 332
<212> DNA
<213> M. tuberculosis

<220> 
<223> sequence of rpoB target for LAMP (corresponds to Fig.7)

<400> 36
gagctgatcc aaaaccagat ccgggtcggc atgtcgcgga tggagcgggt ggtccgggag 60
cggatgacca cccaggacgt ggaggcgatc acaccgcaga cgttgatcaa catccggcgt 120
ggtcgccgcg atcaaggagt tcttcggcac cagccagctg agccaattca tggaccagca 180
acccgctgtc ggggttgacc cacaagcgcc gactgtcggc gctggggccc ggcggtctgt 240
cacgtgagcg tgccgggctg gaggtccgcg acgtgcaccc gtcgcactac ggccggatgt 300
gcccgatcga aacccctgag gggcccaaca tc                               332

<210> 37
<211> 342
<212> DNA
<213> M. tuberculosis

<220> 
<223> sequence of katG target for LAMP (corresponds to Fig.8)

<400> 37
gaacgacgtc gaaacagcgg cgctgatcgt cggcggtcac actttcggta agacccatgg 60
cgccggcccg gccgatctgg tcggccccga acccgaggct gctccgctgg agcagatggg 120
cttgggctgg aagagctcgt atggcaccgg aaccggtaag gacgcgatca ccagcggcat 180
cgaggtcgta tggacgaaca ccccgacgaa atgggacaac agtttcctcg agatcctgta 240
cggctacgag tgggagctga cgaagagccc tgctggcgct tggcaataca ccgccaagga 300
cggcgccggt gccggcacca tcccggaccc gttcggcggg cc                    342

<210> 38
<211> 300
<212> DNA
<213> M. tuberculosis

<220> 
<223> sequence of inhA target for LAMP (corresponds to Fig.9)

<400> 38
ccagaaaggg atccgtcatg gtcgaagtgt gctgagtcac accgacaaac gtcacgagcg 60
taaccccagt gcgaaagttc ccgccggaaa tcgcagccac gttacgctcg tggacatacc 120
gatttcggcc cggccgcggc gagacgatag gttgtcgggg tgactgccac agccactgaa 180
ggggccaaac ccccattcgt atcccgttca gtcctggtta ccggaggaaa ccgggggatc 240
gggctggcga tcgcacagcg gctggctgcc gacggccaca aggtggccgt cacccaccgt 300


<210> 39
<211> 300
<212> DNA
<213> M. tuberculosis

<220> 
<223> sequence of gyrB target for LAMP (corresponds to Fig.10)

<400> 39
caactacatg ccggcggcaa gttcgactcg gacgcgtatg cgatatctgg tggtctgcac 60
ggcgtcggcg tgtcggtggt taacgcgcta tccacccggc tcgaagtcga gatcaagcgc 120
gacgggtacg agtggtctca ggtttatgag aagtcggaac ccctgggcct caagcaaggg 180
gcgccgacca agaagacggg gtcaacggtg cggttctggg ccgaccccgc tgttttcgaa 240
accacggaat acgacttcga aaccgtcgcc cgccggctgc aagagatggc gttcctcaac 300
