Bacterial Strains
|
|
|
Variovorax paradoxus EPS |
Wild type strain collected at CSUSB |
this study |
V. paradoxus EPS mut86 |
Tn5 insertion in wbuB at nt24 |
this study |
V. paradoxus EPS mut223 |
Tn5 insertion in pilY1 at nt1347 |
this study |
V. paradoxus EPS mut99 |
Tn5 insertion in shkS at nt413 |
this study |
E. coli DH5α |
F− endA1 glnV44 thi-1 recA1 relA1 gyrA96 deoR nupG Φ80dlacZΔM15 Δ(lacZYA-argF)U169, hsdR17(rK
− mK
+), λ– |
[40]
|
E. coli S17-1λpir |
thi pro hsdR
−
hsdM+
recA RP4 2-Tc::Mu-Km::Tn7(TpR SmR) λ-pir |
[41]
|
Plasmids
|
|
|
pOT182 |
pSUP102::Tn5 |
[33]
|
pCR2.1 |
TA vector |
Invitrogen |
pBBR1MCS-2 |
Broad host range vector |
[42]
|
pWbuB |
pBBR1MCS2:Varpa_4680 |
This study |
pPilY1 |
pBBR1MCS2:Varpa_5900 |
This study |
pShkR |
pBBR1MCS2:Varpa_4664 |
This study |
pShkS |
pBBR1MCS2:Varpa_4665 |
This study |
Primers
|
|
|
Erc2 |
ACAGATTTAGCCCAGTCGG
|
Sequencing rescue clones |
Hgal |
GTCAGCACCGTTTCTG
|
|
Wbub n-term |
CCATGGGTCTTTGGAGATGATTATCCA
|
NcoI at 5′ end |
Wbub c-term |
GAGCTCCCCCAATAGAACTGAGAAAT
|
SacI at 5′ end |
PilY1 n-term |
AAATCCCATTTGAACCAGAG
|
|
PilY1 c-term |
GTTAACGACTGGACAGAGAAAAGG
|
|
shkR forward |
GAATTCCGCTGGAGGCATTGGCGGAA
|
EcoRI at 5′ end |
shkR reverse |
ACTAGTGACGAGGCGGTGGCACAGG
|
SpeI at 5′ end |
shkS forward |
GAATTCGCCGGTGCCGTCGAACTTGA
|
EcoRI at 5′ end |
shkS reverse |
ACTAGTCTGCACTACGCCCGCACCAA
|
SpeI at 5′ end |
Lucfor |
TACAACACCCCAACATCTTCGA
|
[22]
|
Lucrev |
GGAAGTTCACCGGCGTCAT
|
[22]
|
Wbub for |
GGCGTCTCTGTGGCCTGCG
|
|
Wbub rev |
GCGGCCAAATATACGCGCACC
|
|
PilY1 for |
GCAGCTCGAGCCTTGGCAACT
|
|
PilY1 rev |
CGCCCCTGTATAGCGCCGTG
|
|