Table 1.
Strains, reference sequences, and plasmids used in this studya.
| Strain or plasmid | Relevant characteristics | References or source |
|---|---|---|
| Pseudomonas STRAINS | ||
| P. protegens CHA0 | Orfamide+, derived from rhizosphere of tobacco, Switzerland | Stutz et al., 1986 |
| P. protegens Pf-5 | Orfamide+, derived from rhizosphere of cotton, Texas, USA | Howell and Stipanovic, 1979 |
| CMR12a | Orfamide+, sessilin+, wild type derived from rhizosphere of red cocoyam, Cameroon | Perneel et al., 2007 |
| CMR12a-Clp1 | Orfamide+, sessilin−; mutant with insertion in sessilin (CLP1) biosynthesis genes, GmR | D'aes et al., 2011 |
| CMR5c | Orfamide+, wild type derived from rhizosphere of red cocoyam, Cameroon | Perneel et al., 2007 |
| CMR5cΔofa | Orfamide−, mutant with deletion in ofaB and ofaC genes | This study |
| CMR5cΔluxRup | Orfamide−, mutant with deletion in luxR type transcriptional regulator gene located upstream of orfamide biosynthetic genes | This study |
| CMR5cΔluxRdown | Orfamide−, mutant with deletion in luxR type transcriptional regulator gene located downstream of orfamide biosynthetic genes | This study |
| Pseudomonas SEQUENCES | ||
| P. protegens Cab57 | Orfamide+, derived from rhizosphere of shepherd's purse, Japan | Takeuchi et al., 2014 |
| PH1b | Derived from the phytotelma of a carnivorous plant, Malaysia | NCBI database |
| CMAA1215 | Derived from Brazilian mangroves, Brazil | Vasconcellos et al., 2013 |
| Wayne1R | Biological control strain derived from rhizosphere of corn, Wayne, Pennsylvania, USA | Rong et al., 2012 |
| Saccharomyes cerevisiae InvSc1 | Yeast strain for in vivo recombination (ura3-52/ura3-52 mutation) | Invitrogen |
| E. coli WM3064 | Donor strain for conjugation; DAP− | Saltikov and Newman, 2003 |
| PLASMID | ||
| PMQ30 | Gene replacement vector for Pseudomonas species; sacB, URA3, GmR | Shanks et al., 2006 |
| PMQ30-Δofa | Vector for site specific mutagenesis of orfamide biosynthesis genes | This study |
| PMQ30-ΔluxRup | Vector for site specific mutagenesis of luxRup biosynthesis gene | This study |
| PMQ30-ΔluxRdown | Vector for site specific mutagenesis of luxRdown biosynthesis gene | This study |
| Magnaporthe oryzae isolate VT5M1 | Causal agent of rice blast disease | Thuan et al., 2006 |
| Rhizoctonia solani AG 4-HGI CuLT-Rs36 | Causal agent of root rot disease on bean | Nerey et al., 2010 |
| Phytophthora porri CBS 127099 | Oomycete pathogen causing white tip disease on leek | Bertier et al., 2013 |
| Pythium ultimum | Oomycete pathogen causing root rot on cucumber | Lab stock |
a
GmR, gentamicin resistance; DAP, 2, 6-diaminopimelic acid; DAP−, DAP auxotroph; CLP1, sessilin type lipopeptide.