TABLE 4.

Primers used in this work^a

Primer no.	Primer name	Primer sequence
1	kan_check_knockout	CCGTGATATTGCTGAAGAGC
2	kan_check_knockout_2	GTTTCTGCGGACTGGCTTTC
3	check_acrA_knockout_fw	GTATGTACCATAGCACGACG
4	check_acrA_knockout_rv	CATGATGATAATGGCGATCAC
5	check_zur_knockout_fw	CATTACGGCAACAATAAGGG
6	check_zur_knockout_rv	AACCCGCAATGAATATCGC
7	check_zinT_knockout_fw	CTGAGAAAGCCATGCTCTCG
8	check_zinT_knockout_rv	TAGCTTGCGTTCAGTGGC
9	check_znuA_knockout_fw	CGGGCTATCTGTTGCACG
10	check_znuA_knockout_rv	CCAGCGACACATCAGAGA
11	check_znuB_knockout_fw	GGTGCTGAACAACTGGGT
12	check_znuB_knockout_rv	AGGTCGGATAAGGCGCTC
13	check_znuC_knockout_fw	TTGCACCTCCCCAGAGAG
14	check_znuC_knockout_rv	CAAACGAACCCAGCGGAC
15	ydcI fw	TTCTTGACGCCATCAACACTGCCG
16	ydcI rv	GCAAGGTCGTCTCTTTTTGTTGCTG
17	yccJ fw	GCTCATCACGTCGGTGAATGGG
18	yccJ rv	CCTTCTTCCCAAATCTTTTCCGCC
19	yjcZ fw	GGCACTGACGCAGATCGC
20	yjcZ rv	ACCTGCCTGCACCAGTAGG
21	znuA fw	GCGGACTTAGTCGTTTGGGTTGG
22	znuA rv	GCGTGGTCGTGATCATCATCATCG

^aPrimers 1 to 14 were used to check the correctness of the knockout strains from the Keio Collection (57) utilized in this work. Primers 3 to 14 were used to amplify the region expected to have the deletion according to the scheme shown in Fig. S2 in the supplemental material (primer PCR). Primers 1 and 2 (primer sequences) were used independently to verify the correct insertion of the kanamycin resistance gene and the deletion of the gene acrA, zur, zinT, znuA, znuB, or znuC in the strains. Primers 15 to 22 were used for quantitative PCR validation of the DNA sequencing data. See also Fig S3 in the supplemental material. fw, forward; rv, reverse.