Table 2 Strains and plasmids used
Strains or plasmids | Genotype and relevant characteristics a | Reference or source |
|---|---|---|
E. coli | ||
 MG1655 | F−, λ−, rph-1 | Type strain |
 HIT-JM109 | endA1, recA1, gyrA96, thi, hsdR17 (rk–, mk+), relA1, supE44, Δ(lac-proAB), [F´ traD36, proAB, laqIqZΔM15] | Real Biotech Corp., Taipei, Taiwan |
 DH5α | F−, λ−, recA1, endA1, relA1,gyrA96, deoR, supE44, thi-1, hsdR17(rk–, mk+), Φ80dlacZ ΔM15, Δ(lacZYA-argF)U169 | Nippon Gene Co.Ltd |
 W3110Rif | λ−, IN(rrnD-rrnE)1, rph-1; spontaneous rifampicin-resistance mutant of W3110, Rifr | [66] |
 EC100pir +  | F−mcrA Δ(mrr-hsdRMS-mcrBC) φ80dlacZΔM15 ΔlacX74 recA1 endA1 araD139 Δ(ara, leu)7697 galU galK λ−rpsL nupG pir + (DHFR); Smr | Lucigen, Middleton, WI, USA |
 β3914 | F− RP4-2-Tc::Mu ΔdapA::(erm-pir) gyrA462 zei-298::Tn10; Tcr, Kmr, Emr | [67] |
Vibrio alfacsensis | ||
 04Ya108 | Aquaculture isolate, carrying SE-6283 and SE-6945 in both chromosome 1 and plasmid pSEA1; Tcr, Apr, Cmr, Ermr | [19] |
 BHY606 | pSEA1-free derivative of 04Ya108; Apr | This study |
 BID1 | BHY606ΔintASE-6283; Apr | This study |
 BID2 | BHY606ΔintBSE-6283; Apr | This study |
 BID3 | BHY606ΔsrapSE-6283; Apr | This study |
Vibrio alginolyticus | ||
 ATCC 17749 | Spoiled horse mackerel isolate, carrying SE-ValAT17749 | ATCC |
Vibrio anguillarum | ||
 ATCC 68554 | Unknown isolate source, carrying SE-LanAT68554 | ATCC |
Shewanella putrefaciens | ||
 ATCC 51753 | Oil pipeline isolate, carrying SE-SpuAT1753 (inactive SE) | ATCC |
Plasmids | ||
 pAQU1 | MobH family multi-drug resistance plasmid derived from Photobacterium damselae subsp. damselae strain 04Ya311, SE-Pda04Ya311; Cmr, Ermr, Tcr, Apr | [66] |
 pBBR1MCS | Broad host range cloning vector; Cmr | [68] |
 pBBR-intA | pBBR1MCS carrying intASE-6283; Cmr | This study |
 pBBR-intB | pBBR1MCS carrying intBSE-6283; Cmr | This study |
 pBBR-srap | pBBR1MCS carrying srapSE-6283; Cmr | This study |
 pGEM-T | Cloning vector for TA cloning | Promega, Middleton, WI USA |
 pGEM-attS (23 clones) | pGEM-T derivative carrying 1.0 kb segment derived from SE-6945 circular form; Apr | This study |
 pHY1603 | pSTV28 derivative carrying 4.2 kb E. coli chromosomal segment | This study |
 pIDO1 | pSW7848 carrying 0.9 kb upstream and downstream of intASE-6283; Cmr | This study |
 pIDO2 | pSW7848 carrying 0.9 kb upstream and downstream of tfpSE-6283; Cmr | This study |
 pIDO3 | pSW7848 carrying 0.9 kb upstream and downstream of intBSE-6283; Cmr | This study |
 pIDO4 | pSW7848 carrying 0.9 kb upstream and downstream of srapSE-6283; Cmr | This study |
 pSTV28 | Cloning vector; p15A oriV; Cmr | Takara Bio, Inc |
 pSW7848 | Allele exchange vector for Vibrio; R6K replicon, Cmr | [69] |