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Table 1

Primers and probes used in this study

AssayPrimer and probe sequences (5′–3′)Reference
Human mtDNA Forward: CAGCAGCCATTCAAGCAATGC
Reverse: GGTGGAGACCTAATTGGGCTGATTAG
Probe: TATCGGCGATATCGGTTTCATCCTCG 
Caldwell et al. (2007)  
Human-associated Bacteroidales (HF183) HF183-1: ATCATGAGTTCACATGTCCG
BthetR1: CGTAGGAGTTTGGACCGTGT
BthetP1: 6-FAM-CTGAGAGGAAGGTCCCCCACATTGGA-TAMRA 
Haugland et al. (2010)  
Human-associated Bacteroidales (BacHum) BacHum-160f: TGAGTTCACATGTCCGCATGA
BacHum-241r: CGTTACCCCGCCTACTATCTAATG
BacHum-193p: 6-FAM-TCCGGTAGACGATGGGGATGCGTT-TAMRA 
Kildare et al. (2007)  
E. coli (EC23S857) Forward: GGTAGAGCACTGTTTtGGCAa
Reverse: TGTCTCCCGTGATAACtTTCTCa
Probe: 6-FAM-TCATCCCGACTTACCAACCCG-TAMRA 
Chern et al. (2011)  
AssayPrimer and probe sequences (5′–3′)Reference
Human mtDNA Forward: CAGCAGCCATTCAAGCAATGC
Reverse: GGTGGAGACCTAATTGGGCTGATTAG
Probe: TATCGGCGATATCGGTTTCATCCTCG 
Caldwell et al. (2007)  
Human-associated Bacteroidales (HF183) HF183-1: ATCATGAGTTCACATGTCCG
BthetR1: CGTAGGAGTTTGGACCGTGT
BthetP1: 6-FAM-CTGAGAGGAAGGTCCCCCACATTGGA-TAMRA 
Haugland et al. (2010)  
Human-associated Bacteroidales (BacHum) BacHum-160f: TGAGTTCACATGTCCGCATGA
BacHum-241r: CGTTACCCCGCCTACTATCTAATG
BacHum-193p: 6-FAM-TCCGGTAGACGATGGGGATGCGTT-TAMRA 
Kildare et al. (2007)  
E. coli (EC23S857) Forward: GGTAGAGCACTGTTTtGGCAa
Reverse: TGTCTCCCGTGATAACtTTCTCa
Probe: 6-FAM-TCATCCCGACTTACCAACCCG-TAMRA 
Chern et al. (2011)  

6-FAM, 6-carboxyfluorescein, fluorescence reporter dye; TAMRA, 6-carboxytetramethylrhodamine, fluorescence quencher dye.

aLower case ‘t’ denotes deliberately a mismatched base.

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