TABLE 1.
Bacterial strains and plasmids
| Strain or plasmid | Descriptiona | Source or reference |
|---|---|---|
| Strains | ||
| Escherichia coli WM3064 | thrB1004 pro thi rpsL hsdS lacZΔM15 RP4-1360 (araBAD)567 dapA1341::[erm pir(wt)] | W. Metcalf |
| E. coli TOP10 | F− mcrA Δ(mrr-hsdRMS-mcrBC) Φ80lacZΔM15 ΔlacX74 deoR recA1 araD139 Δ(ara-leu)7697 galU galK rpsL (Smr) endA1 nupG | Invitrogen |
| E. coli BL21(DE3) | F− ompT gal dcm lon hsdSB (rB−mB−) λ(DE3 [lacI lacUV5-T7 gene 1 ind1 sam7 nin5]) | Novogene |
| E. coli DH5α | F− endA1 glnV44 thi-1 recA1 relA1 gyrA96 deoR nupG Φ80dlacZΔM15 Δ(lacZYA-argF) U169, hsdR17(rK− mK+) phoA λ− | TaKaRa |
| Modified Shewanella loihica PV-4 | pstI (Shew_0993) and pstM (Shew_0992) double deletion mutant derived from PV-4 | 14 |
| Shewanella loihica PV-4 | Iron-rich microbial mat at a hydrothermal vent of Loihi Seamount, Pacific Ocean | 15 |
| PV-4 Δcrp2 | In-frame deletion mutant of crp2 gene (Shew_3331) derived from the modified PV-4 | This study |
| PV-4 ΔnirK | In-frame deletion mutant of nirK gene (Shew_3335) derived from modified PV-4 | This study |
| PV-4 Δcrp ΔnirK | In-frame deletion double mutant of crp (Shew_0585) and nirK (Shew_3335) derived from modified PV-4 | This study |
| Plasmids | ||
| pDS3.0 | Suicide vector derived from pCDV224; Ampr, Gmr, sacB | 18 |
| pDS3.0-PV-crpko | Suicide plasmid for deletion of crp derived from PV-4 | This study |
| pDS3.0-PV-nirKko | Suicide plasmid for deletion of nirK derived from PV-4 | This study |
| pET28a | Expression vector with T7 lac promoter | Novogene |
| pHERD30T | Shuttle vector with pBAD promoter, Gmr | 44 |
| pET28a-crp1 | Overexpression construct of crp | This study |
a
Gmr, gentamycin resistance; Ampr, ampicillin resistance; Smr, streptomycin resistance.