Colon cancer-associated B2 Escherichia coli colonize gut mucosa and promote cell proliferation

doi:10.3748/wjg.v20.i21.6560

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World Journal of Gastroenterology

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1007-9327

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Baishideng Publishing Group Inc, 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA

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Evidence-Based Medicine

World J Gastroenterol. Jun 7, 2014; 20(21): 6560-6572
Published online Jun 7, 2014. doi: 10.3748/wjg.v20.i21.6560

Table 1 List of primers used for PCR assays

Primer name	Sequence (5’-3’)	Region specific for	Ref.
afa-f	CGGCTTTTCTGCTGAACTGGCAGGC	afaC	[49]
afa-r	CCGTCAGCCCCCACGGCAGACC	afaC
afa1	GCTGGGCAGCAAACTGATAACTCTC	afaBC
afa2	CATCAAGCTGTTTGTTCGTCCGCCG	afaBC
afaE-f¹	TTAGACCGTACTGTTGTGTTACCCCC
afaE1-r	CATCGCCCGTCGCAGAGCCCAT	afaE1
afaE2-r	GTTTCCCAGTAGACTGGAATGAAGC	afaE2
afaE3-r	CCCTATTGTTGTCGCTGATCAGGAAG	afaE3
daaE-r	CGGCTAGTCATATATAGATTTGTCGC	daaE
afaE5-f	TCAACTCACCCAGTAGCCCCAG	afaE5
afaE5-r	AGGAAGTGGTAGCACCGGTACG	afaE5
afaE7-f	GCTAAATCAACTGTTGATGTT	afaE7
afaE7-r	GGACAATCCAAATGGCGAATTA	afaE7
afaE8-f	CTAACTTGCCATGCTGTGACAGTA	afaE8
afaE8-r	TTATCCCCTGCGTAGTTGTGAATC	afaE8
aggR1	CTAATTGTACAATCGATGTA	aggR	[50]
aggR2	CTGAAGTAATTCTTGAA	aggR	[50]
pksORF9-10.1KJ	ATTCGATAGCGTCACCCAAC	clbK-clbJ	[51]
pksORF9-10.2KJ	TAAGCGTCTGGAATGCAGTG	clbK-clbJ	[51]
CNF-1s	GGGGGAAGTACAGAAGAATTA	cnf1	[51]
CNF-1as	TTGCCGTCCACTCTCACCAGT	cnf1	[51]
CNF-2s	TATCATACGGCAGGAGGAAGCACC	cnf2
CNF-2as	GTCACAATAGACAATAATTTTCCG	cnf2
CNF3-3D	TAACGTAATTAGCAAAGA	cnf3
CNF-3as	GTCTTCATTACTTACAGT	cnf3
CDT-s1	GAAAGTAAATGGAATATAAATGTCCG	cdtB-II, cdtB-III, cdtB-V	[51]
CDT-as1	AAATCACCAAGAATCATCCAGTTA	cdtB-II, cdtB-III, cdtB-V	[51]
CDT-IIas²	TTTGTGTTGCCGCCGCTGGTGAAA	cdtB-II
CDT-IIIas²	TTTGTGTCGGTGCAGCAGGGAAAA	cdtB-II
CDT-s2	GAAAATAAATGGAACACACATGTCCG	cdtB-I, cdtB-IV
CDT-as2	AAATCTCCTGCAATCATCCAGTTA	cdtB-I, cdtB-IV
CDT-Is	CAATAGTCGCCCACAGGA	cdtB-I
CDT-Ias	ATAATCAAGAACACCACCAC	cdtB-I
CDT-IVs	CCTGATGGTTCAGGAGGCTGGTTC	cdtB-IV
CDT-IVas	TTGCTCCAGAATCTATACCT	cdtB-IV
P105	GTCAACGAACATTAGATTAT	cdtC-V
c2767r	ATGGTCATGCTTTGTTATAT	cdtC-V
cif-int-s	AACAGATGGCAACAGACTGG	cif	[51]
cif-int-as	AGTCAATGCTTTATGCGTCAT	cif	[51]
clbQ-F	TTGTATAGTTACACAACTATTTC
clbQ-R	CCTGTTAGCTTTCGTTC		This study
MIclbQaadA7-F	CATTAAATCATCAAATTAAACGAATTCTATTACACAACAAGGAGTGGGACGCACTGGCATTTAATAACGCGTC
MIClbQaadA7-R	GATGATGGAACAGCCATATCTATTGCTCCTTGTATAGTTACACAACTATTTTTAATCACTTTACTTTTATC

¹The afa-f and afa-r primers detect all afa-positive strains, irrespective of the afaE subtype and the binding properties of the adhesins (Afa/Dr+ and Afa/Dr-). Specific detection of strains encoding Afa/Dr+ adhesins was performed using afa-1 and afa-2 primers;

²Primers used with CDT-s1 primer.

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Citation: Raisch J, Buc E, Bonnet M, Sauvanet P, Vazeille E, de Vallée A, Déchelotte P, Darcha C, Pezet D, Bonnet R, Bringer MA, Darfeuille-Michaud A. Colon cancer-associated B2 Escherichia coli colonize gut mucosa and promote cell proliferation. World J Gastroenterol 2014; 20(21): 6560-6572
URL: https://www.wjgnet.com/1007-9327/full/v20/i21/6560.htm
DOI: https://dx.doi.org/10.3748/wjg.v20.i21.6560

Raisch J, Buc E, Bonnet M, Sauvanet P, Vazeille E, de Vallée A, Déchelotte P, Darcha C, Pezet D, Bonnet R, Bringer MA, Darfeuille-Michaud A. Colon cancer-associated B2 Escherichia coli colonize gut mucosa and promote cell proliferation. World J Gastroenterol 2014; 20(21): 6560-6572 [PMID: 24914378 DOI: 10.3748/wjg.v20.i21.6560]

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