Molecular characteristics of carbapenem-resistant Acinetobacter spp. from clinical infection samples and fecal survey samples in Southern China

Li, Si; Duan, Xiaonv; Peng, Yuan; Rui, Yongyu

doi:10.1186/s12879-019-4423-3

Table 1 Gene primers used for PCR amplification of genes associated with antimicrobial resistance

From: Molecular characteristics of carbapenem-resistant Acinetobacter spp. from clinical infection samples and fecal survey samples in Southern China

Gene.	Primer sequence(5′-3′)		Product (bp)	T_m(°C)	Reference
Gene.	Forward	Resever	Product (bp)	T_m(°C)	Reference
Identification
recA	CCTGAATCTTCTGGTAAAAC	GTTTCTGGGCTGCCAAACATTAC	405	56	[23]
16S rRNA	CCAGCAGCCGCGGTAATACG	ATCGGYTACCTTGTTACGACTTC	approximately 996	55
16-23S rRNA ITS	GTCGTAACAAGGTAGCCGTA	GGGTTYCCCCRTTCRGAAAT	variable	60	[24]
ERIC-PCR	AAGTAAGTGACTGGGGTGAGCG		/	58
class A β-lactamases
bla_KPC	CGT CTA GTT CTG CTG TCT TG	CTT GTC ATC CTT GTT AGG CG	798	60	[25]
Class B metallob-β-lactamases
bla_IMP	GGA ATA GAG TGG CTT AAY TCT C	GGT TTA AYA AAA CAA CCA CC	232	50	[25]
bla_VIM	GAT GGT GTT TGG TCG CAT A	CGA ATG CGC AGC ACC AG	390	58	[25]
bla_SPM	AAA ATC TGG GTA CGC AAA CG	ACA TTA TCC GCT GGA ACA GG	271	55	[25]
bla_NDM	GGT TTG GCG ATC TGG TTT TC	CGG AAT GGC TCA TCA CGA TC	621	60	[25]
class D oxacillinases
bla_OXA-23-like	GAT CGG ATT GGA GAA CCA GA	ATT TCT GAC CGC ATT TCC AT	501	53	[26]
bla_OXA-24-like	GGT TAG TTG GCC CCC TTA AA	AGT TGA GCG AAA AGG GGA TT	246	53	[26]
bla_OXA-51-like	TAA TGC TTT GAT CGG CCT TG	TGG ATT GCA CTT CAT CTT GG	353	54	[26]
bla_OXA-58-like	AAG TAT TGG GGC TTG TGC TG	CCC CTC TGC GCT CTA CAT AC	599	54	[26]
Colistin-related resistance gene
mcr-1	AGTCCGTTTGTTCTTGTGGC	AGATCCTTGGTCTCGGCTTG	320	58	[27]
mcr-2	CAAGTGTGTTGGTCGCAGTT	TCTAGCCCGACAAGCATACC	715	58	[27]
mcr-3	AAATAAAAATTGTTCCGCTTATG	AATGGAGATCCCCGTTTTT	929	58	[27]
mcr-4	TCACTTTCATCACTGCGTTG	TTGGTCCATGACTACCAATG	1116	58	[27]
mcr-5	ATGCGGTTGTCTGCATTTATC	TCATTGTGGTTGTCCTTTTCTG	1644	58	[27]
porins
carO	ATT GTA GAA AGC TGA GAC AT	ATT TCT YTA TGC TCA CCT GA	variable^a	50	[28]
drug efflux pumps
adeA	GCTGAGCCACCACCGGCTAAAG	ACCTTCAACAACGACTCTGTCACC	990	56	[29]
adeB	CTTGCATTTACGTGTGGTGT	GCTTTTCTACTGCACCCAAA	168	54	[30]
adeC	CCCAACCATTGGTGTAACG	GAACATCCGTGCTTTAGC	626	52	[30]
adeI	CAAATGCAAATGTAGATCTTGG	AAACTGCCTTTACTTAGTTG	210	51	[30]
adeJ	GGTCATTAATATCTTTGGC	GGTACGAATACCGCTGTCA	221	55	[30]
adeK	TTGATAGTTACTTGACTGTTC	GGTTGGTGAACCACTGTATC	162	51	[30]
integrase
intI1	GCA TCC TCG GTT TTC TGG	GGT GTG GCG GGC TTC GTG	457	60	[32]
variable region	GGCATCCAAGCAGCAAG	AAGCAGACTTGACCTGA	variable	52	[33]
intI2	CAC GGA TAT GCG ACA AAA AGG T	GTA GCA AAC GAG TGA CGA AAT G	789	54	[32]
variable region	GTAGCAAACGAGTGACGAAATG	GAATTCGACATGTTTGGACGCCTTGGC	variable	52	[33]
intI3	ATC TGC CAA ACC TGA CTG	CGA ATG CCC CAA CAA CTC	922	60	[32]
transposon
tnpU	CCAACTGATGGCGGTGCCTT	CGGTATGGTGGCTTTCGC	403	59	[35]
tnp513	ATGTCGCTGGCAAGGAACGC	GGGTTCGCTGCGAGGATTGT	240	59	[35]
Insertion sequence
IS26	AGCGGTAAATCGTGGAGTGA	CAAAGTTAGCGATGAGGCAG	619	58	[36]
ISAba1	CACGAATGCAGAAGTTG	CGACGAATACTATGACAC	550	55	[37]
ISAba125	GGGTAATGCTCGTATCGT	TAGACGTAGACGTGGTCA	184	51	[37]

^aThe forward primer hybridizes to a region located 294 bp upstream of the 5′ end of the carO initiation codon, while the reverse primer anneals to a sequence located 131 bp downstream of the carO termination codon

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ISSN: 1471-2334

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