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Table 4 Bacterial strains, plasmids, and primers used in this study.

From: Rhizobium leguminosarum bv. trifolii rosR is required for interaction with clover, biofilm formation and adaptation to the environment

Strain, plasmid or oligonucleotide primers Relevant characteristics Reference
R. leguminosarum bv. trifolii 24.2 Wild type, Rifr, Nxr [23]
Rt2440 Rt24.2 derivative carrying rosR with one nucleotide deletion (ΔC177) [23]
Rt5819 Rt24.2 derivative carrying the mini-Tn5 between 363-364 bp position of pssA [30]
Rt2472 Rt24.2 derivative carrying the mini-Tn5 between 151-152 bp position of rosR [30]
Rt2441 Rt24.2 with additional rosR upstream region introduced by pM41 integration, Kmr, Nxr This work
E. coli   
DH5α supE 44 Δlac U169 (φ80 lacZ Δ M15) hsdR 17 recA 1endA 1gyrA 96 thi-1 relA 1 [67]
S17-1 294 derivative RP4-2Tc::Mu-Km::Tn7 chromosomally integrated [79]
Plasmids   
pK19mobGII mob, lacZ α, gusA, Kmr [80]
pBBR1MCS-2 mob, lacZ α, Kmr [81]
pB31 pUC19 with 1174-bp Bam HI fragment containing Rt24.2 rosR [23]
pM41 pK19mobGII with 586-bp Eco RI-Pst I fragment from pB31 containing the rosR upstream region This work
pRC24 pRK7813 with 1174-bp Bam HI fragment containing rosR of Rt24.2 [23]
pBR24 pBBR1MCS-5 with 1174-bp Bam HI fragment containing rosR of Rt24.2 [23]
pEX1 pBBR1MCS-2 with 586-bp Eco RI-Pst I fragment containing the upstream region and the first 60 codons for RosR This work
pEX8 pBBR1MCS-2 with 372-bp Eco RI-Xba I fragment containing the -403 bp to -32 bp rosR upstream region This work
pEX9 pBBR1MCS-2 with 219-bp Eco RI-Xba I fragment containing the -403 bp to -185 bp rosR upstream region This work
pEX60 pBBR1MCS-2 with 278-bp (-96 bp to +182 bp) Eco RI-Pst I fragment containing the first 60 codons for RosR cloned downstream the vector promoter This work
pBR28 pBBR1MCS-2 with 820-bp (-96 bp to +724 bp) Eco RI-Bam HI fragment containing the full-length rosR cloned downstream the vector promoter This work
pHC60 Vector with gfp and RK2 stabilization fragment, Tcr [39]
Oligonucleotide primers Sequence (5'-3') *  
pEP1 ATGCAAGAATTC TGCACAGGAAGC [23]
pEP5 CGGTCAGGAATTC TAAGAACAGGT [23]
pEP6 TCGAAACAGGAATTC GATTCCTGC [23]
pRR1 CGCATTCTAGA CATGTGATCTGCT [23]
pEP8 AACGGCTCTAGA CTGACACGCCAAA [23]
pEP9 TCATGCTCTAGA CGATGGCCTCAGT [23]
rosA GCGGATCC GCGACTTTACCAGATTTA [23]
rosB GTCACGCTCTTCGGAATTC AGGGGT [23]
rosC AGGGATCC ATTCTAAACCTGTCGGCA [23]
rosD TCGGATCC TGTCGGCAAAGCATAAGA [23]
rosG1 GACGATCGAATTC GGCCGTCTCTT This work
rosD4 TTGCGGATCC GCAGATGCCGGT This work
rosD5 ACCACGCCTGGGATCC AGGAAAA This work
  1. * Sequences for Eco RI, Bam HI and Xba I restriction sites are underlined.