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Table 1 Oligonucleotides and optimized PCR conditions of the pathogen panel applied in this study

From: No distinction in the gut microbiota between diarrhea predominant-irritable bowel syndrome and healthy subjects: matched case–control study in Thailand

PCR test (Amplicon Size, Mg2+, Tm, detection) Sequence (5′ → 3′) References
Bacteroides-Prevotella-Porphyromonas (140 bp, 3 mM,55 °C, SYBR) F:5′-GGTGTCGGCTTAAGTGCCAT-3′
R:5′-CGGA(C/T)GTAAGGGCCGTGC-3′
[15]
Bifidobacterium spp. (243 bp, 3 mM, 55 °C, SYBR) F:5′-TCGCGTC(C/T)GGTGTGAAAG-3′
R:5′-CCACATCCAGC(A/G)TCCAC-3′
[15]
Campylobacter spp. (246 bp, 3 mM, 55 °C, SYBR) F:5′-GGATGACACTTTTCGGAG-3′
R:5′-AATTCCATCTGCCTCTCC-3′
[15]
C. difficile (157 bp, 3 mM, 55 °C, SYBR) F:5′-TTGAGCGATTTACTTCGGTAAAGA-3′
R:5′CCATCCTGTACTGGCTCACCT-3′
[15]
C. perfringens group (120 bp, 3 mM, 55 °C, SYBR) F:5′-ATGCAAGTCGAGCGA(G/T)G-3′
R:5′-TATGCGGTATTAATCT(C/T)CCTTT-3′
[15]
Enterococcus spp. (144 bp, 3 mM, 55 °C, SYBR) F:5′-CCCTTATTGTTAGTTGCCATCATT-3′
R:5′-ACTCGTTGTACTTCCCATTGT-3′
[15]
Veillonella spp. (343 bp, 3 mM, 55 °C, SYBR) F:5′-A(C/T)CAACCTGCCCTTCAGA-3′
R:5′-CGTCCCGATTAACAGAGCTT-3′
[15]
B. fragilis (176 bp, 3 mM, 55 °C, SYBR) F:5′-GAAAGCATTAAGTATTCCACCTG-3′
R:5′-CGGTGATTGCTCACTGACA-3′
[16]
E. coli subgroup (340 bp, 3 mM, 61 °C, SYBR) F:5′-GTTAATACCTTTGCTCATTGA-3′
R:5′-ACCAGGGTATCTAATCCTGTT-3′
[16]
Lactobacillus spp. (341 bp, 2 mM, 55 °C, SYBR) F:5′-AGCAGTAGGGAATCTTCCA-3′
R:5′-CACCGCTACACATGGAG-3′
[17]
B. bifidum (278 bp, 2 mM, 55 °C, SYBR) F:5′-CCACATGATCGCATGTGATTG-3′
R:5′-CCGAAGGCTTGCTCCCAAA-3′
[18]
B. longum group (106 bp, 4 mM, 55 °C, SYBR) F:5′-CAGTTGATCGCATGGTCTT-3′
R:5′-TACCCGTCGAAGCCAC-3′
[18]
L. acidophillus (575 bp, 55 °C, SYBR) F:5′-CACTTCGGTGATGACGTTGG-3′
R: 5′-CGATGCAGTTCCTCGGTTAAGC-3′
[19]
  1. PCR polymerase chain reaction, C. difficile Clostridioides difficile, C. perfringens Clostridium perfringens, B. fragilis: Bacteroides fragilis, E. coli Escherichia coli, B. bifidum Bifidobacterium bifidum, B. longum Bifidobacterium longum, L. acidophilus Lactobacillus acidophilus