Occurrence of Acinetobacter baumannii genomic resistance islands (AbGRIs) in Acinetobacter baumannii strains belonging to global clone 2 obtained from COVID-19 patients

Naderi, Ghazal; Asadian, Mahla; Khaki, Pegah Afarinesh; Salehi, Mohammadreza; Abdollahi, Alireza; Douraghi, Masoumeh

doi:10.1186/s12866-023-02961-3

Table 4 Primer pairs used for mapping of AbGRI1

From: Occurrence of Acinetobacter baumannii genomic resistance islands (AbGRIs) in Acinetobacter baumannii strains belonging to global clone 2 obtained from COVID-19 patients

PCR	Primer	Sequence (5’-3’)	Annealing temperature (° C)	Amplicon length (bp)	Reference
comM	RH927 RH928	CAACCCTGTCTTTGCATTTG GCCAGCAAGCTCAGCATAA	59	880	[8]
comM–AbGRI1 (J1)	RH927 RH792	CAACCCTGTCTTTGCATTTG TTCGAGCTTGAAAACTGCAC	60	846	[23]
AbGRI1–comM (J2)	RH928 RH916	GCCAGCAAGCTCAGCATAA CCCAAATACTGCCATGTTGA	60	796	[23]
orf4b- comM	RH594 RH928	GGCGGATTATCAGTTGTTTCA GCCAGCAAGCTCAGCATAA	60	1844	[8]
Backbone transposon
tniE-tniB	RH910 RH587	GCGATAGTGAACGGATTGAGA TTGCCCATTAAGCACAACAG	60	560^a	[24]
tniD-tniB	RH910 RH584	GCGATAGTGAACGGATTGAGA TCAATATGCCTCGCTCCACT	60	2010	[8]
uspA- tniD	RH583 RH919	TCCTGTCTCTCGTGTAGCAAT TGTCAAAAATTATTGCATGT	60	3577	[8]
comM-Tn	RH791 RH909	TGCTGCAATGAGCTGAAAGT GCGATTCAAAATATCGGTCAA	60	3119	[23]
uspA	RH919 RH793	TGTCAAAAATTATTGCATGT CCCAAGAGAGCTGATTTTGC	58	632	[23]
sup	RH2523 RH2509	CCCACTTTAGGATCAACGCC GTGGTGTAGTCGCTTGTGTG	60	209	[9]
uspA-sup	RH793 RH771	CCCAAGAGAGCTGATTTTGC TGTAAAATCTGGTGGTCGTAC	60	3267	[8]
Resistance region
sul2	sul2-F sul2-R	GGCAGATGTGATCGACCTCG ATGCCGGGATCAAGGACAAG	60	407	[25]
ISAba1-sul2	ISAba1B sul2-R	CATGTAAACCAATGCTCACC ATGCCGGGATCAAGGACAAG	60	1125	[8]
strA	strA-F strA-R	CTTGGTGATAACGGCAATTC CCAATCGCAGATAGAAGGC	58	548	[26]
strB	strB-F strB-R	ATCGTCAAGGGATTGAAACC GGATCGTAGAACATATTGGC	58	509	[26]
strA-strB	strA-F strB-R	CTTGGTGATAACGGCAATTC GGATCGTAGAACATATTGGC	58	1190	[26]
strA-comM	strA-R RH928	CCAATCGCAGATAGAAGGC GCCAGCAAGCTCAGCATAA	60	3509	[8]
strB-orf4b	strB-R RH599	GGATCGTAGAACATATTGGC ATACTGTTTCAAAAACTGATGAA	60	2620	[8]
oxa23	oxa23F oxa23R	GATCGGATTGGAGAACCAGA ATTTCTGACCGCATTTCCAT	60	501	[27]
CR2	LECR2 RECR2	CACTGGCTGGCAATGTCTAG CTTTGGACCGCAGTTGACTC	60	1793	[8]
CR2 *- strB*	strB-F RECR2	ATCGTCAAGGGATTGAAACC CTTTGGACCGCAGTTGACTC	60	2962	[8]
tetA(B)	tetB-F tetB-R	TTGGTTAGGGGCAAGTTTTG GTAATGGGCCAATAACACCG	60	658	[28]
tetR(B)	RH892 RH893	ACAGCGCATTAGAGCTGCTT AGAAGGCTGGCTCTGCACCT	60	528	[8]
*tetA(B)- tetR(B)*	tetB-R RH893	GTAATGGGCCAATAACACCG AGAAGGCTGGCTCTGCACCT	60	1693	[8]
tetA(B)-strB	tetB-R strBout	GTAATGGGCCAATAACACCG AGAGGAGCAACGCGATCTAGC	60	4616	[8]
*tetR(B)-* CR2	RH892 LECR2	ACAGCGCATTAGAGCTGCTT CACTGGCTGGCAATGTCTAG	60	2812	[8]
orf region
orf6-orf7	RH1302 RH1303	CAAATCGGGAAGGTTCAAAA CGGGAAAATTACTGCGATTG	60	1573	[8]
int-orf11	RH1306 RH1307	GCATACTCATGTGGTTTAAGACTTG TTAATTGCTTCATCATTTGAGC	60	1638	[8]
orf9-tniCb	RH597 RH792	TTTGAAGAAATTGAGCATGAGG TTCGAGCTTGAAAACTGCAC	60	1566	[8]

a.Predicted sizes based on Tn6022Δ1. For Tn6022 is 3410 bp
PCRs in bold are the linkage PCRs that were performed for the identification of AbGRI1s in this study

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