AzeR, a transcriptional regulator that responds to azelaic acid in Pseudomonas nitroreducens

References

1. Shine MB, Xiao X, Kachroo P, Kachroo A. Signaling mechanisms underlying systemic acquired resistance to microbial pathogens. Plant Sci 2019; 279:81–86 [View Article]
   [Google Scholar]
2. Siebers M, Brands M, Wewer V, Duan Y, Hölzl G et al. Lipids in plant-microbe interactions. Biochim Biophys Acta 2016; 1861:1379–1395 [View Article]
   [Google Scholar]
3. Khakimov B, Jespersen BM, Engelsen SB. Comprehensive and comparative metabolomic profiling of wheat, barley, oat and rye using gas chromatography-mass spectrometry and advanced chemometrics. Foods 2014; 3:569–585 [View Article]
   [Google Scholar]
4. Cecchini NM, Roychoudhry S, Speed DJ, Steffes K, Tambe A et al. Underground Azelaic Acid–Conferred Resistance to Pseudomonas syringae in Arabidopsis . Mol Plant Microbe Interact 2019; 32:86–94 [View Article]
   [Google Scholar]
5. Jung HW, Tschaplinski TJ, Wang L, Glazebrook J, Greenberg JT. Priming in systemic plant immunity. Science 2009; 324:89–91 [View Article]
   [Google Scholar]
6. Javvadi SG, Cescutti P, Rizzo R, Lonzarich V, Navarini L et al. The spent culture supernatant of Pseudomonas syringae contains azelaic acid. BMC Microbiol 2018; 18:199 [View Article]
   [Google Scholar]
7. Chapman PJ, Duggleby RG. Dicarboxylic acid catabolism by bacteria. Biochem J 1967; 103:7contd-9c7C–9 [View Article]
   [Google Scholar]
8. Harrison FH, Harwood CS. The pimFABCDE operon from Rhodopseudomonas palustris mediates dicarboxylic acid degradation and participates in anaerobic benzoate degradation. Microbiology 2005; 151:727–736 [View Article]
   [Google Scholar]
9. Parke D, Garcia MA, Ornston LN. Cloning and genetic characterization of dca genes required for beta-oxidation of straight-chain dicarboxylic acids in Acinetobacter sp. strain ADP1. Appl Environ Microbiol 2001; 67:4817–4827 [View Article]
   [Google Scholar]
10. Janota-Bassalik L, Wright LD. Pimelic Acid as a by-Product of Azelaic Acid Degradation by Pseudomonas sp. Nature 1964; 204:501–502 [View Article]
    [Google Scholar]
11. Janota-Bassalik L, Wright LD. Azelaic acid utilization by a Pseudomonas . J Gen Microbiol 1964; 36:405–414 [View Article]
    [Google Scholar]
12. Lang E, Griese B, Spröer C, Schumann P, Steffen M et al. Characterization of 'Pseudomonas azelaica' DSM 9128, leading to emended descriptions of Pseudomonas citronellolis Seubert 1960 (Approved Lists 1980) and Pseudomonas nitroreducens Iizuka and Komagata 1964 (Approved Lists 1980), including Pseudomonas multiresinivorans as its later heterotypic synonym. Int J Syst Evol Microbiol 2007; 57:878–882 [View Article]
    [Google Scholar]
13. Hanahan D. Studies on transformation of Escherichia coli with plasmids. J Mol Biol 1983; 166:557–580 [View Article]
    [Google Scholar]
14. Alexeyev MF. The pKNOCK series of broad-host-range mobilizable suicide vectors for gene knockout and targeted DNA insertion into the chromosome of gram-negative bacteria. Biotechniques 1999; 26:828828 [View Article]
    [Google Scholar]
15. Sambrook J, Fritsch EF, Maniatis T. Molecular Cloning: a Laboratory Manual, 2nd ed. N.Y: Cold Spring Harbor; 1989
    [Google Scholar]
16. Miller JH. Experiments in Molecular Genetics N.Y: Cold Spring Harbor; 1972
    [Google Scholar]
17. Better M, Lewis B, Corbin D, Ditta G, Helinski DR. Structural relationships among Rhizobium meliloti symbiotic promoters. Cell 1983; 35:479–485 [View Article]
    [Google Scholar]
18. Figurski DH, Helinski DR. Replication of an origin-containing derivative of plasmid RK2 dependent on a plasmid function provided in trans . Proc Natl Acad Sci U S A 1979; 76:1648–1652 [View Article]
    [Google Scholar]
19. Reeve WG, Tiwari RP, Worsley PS, Dilworth MJ, Glenn AR et al. Constructs for insertional mutagenesis, transcriptional signal localization and gene regulation studies in root nodule and other bacteria. Microbiology 1999; 145:1307–1316 [View Article]
    [Google Scholar]
20. Simon R, Priefer U, Pühler A. A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in Gram negative bacteria. Biotechnology 1983; 1:784–791 [View Article]
    [Google Scholar]
21. O'Toole GA, Kolter R. Initiation of biofilm formation in Pseudomonas fluorescens WCS365 proceeds via multiple, convergent signalling pathways: a genetic analysis. Mol Microbiol 1998; 28:449–461 [View Article]
    [Google Scholar]
22. Stachel SE, An G, Flores C, Nester EW. A Tn3 lacZ transposon for the random generation of beta-galactosidase gene fusions: application to the analysis of gene expression in Agrobacterium . EMBO J 1985; 4:891–898 [View Article]
    [Google Scholar]
23. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article]
    [Google Scholar]
24. Chen I-MA, Chu K, Palaniappan K, Pillay M, Ratner A et al. IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes. Nucleic Acids Res 2019; 47:D666–D677 [View Article]
    [Google Scholar]
25. Creevey CJ, Doerks T, Fitzpatrick DA, Raes J, Bork P. Universally distributed single-copy genes indicate a constant rate of horizontal transfer. PLoS One 2011; 6:e22099 [View Article]
    [Google Scholar]
26. Capella-Gutiérrez S, Silla-Martínez JM, Gabaldón T. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 2009; 25:1972–1973 [View Article]
    [Google Scholar]
27. Price MN, Dehal PS, Arkin AP. FastTree 2-approximately maximum-likelihood trees for large alignments. PLoS One 2010; 5:e9490 [View Article]
    [Google Scholar]
28. Letunic I, Bork P. Interactive tree of life (iTOL) V3: an online tool for the display and annotation of phylogenetic and other trees. Nucleic Acids Res 2016; 44:W242–W245 [View Article]
    [Google Scholar]
29. Chen H-J, Guo G-L, Tseng D-H, Cheng C-L, Huang S-L. Growth factors, kinetics and biodegradation mechanism associated with Pseudomonas nitroreducens TX1 grown on octylphenol polyethoxylates. J Environ Manage 2006; 80:279–286 [View Article]
    [Google Scholar]
30. Molina-Henares AJ, Krell T, Eugenia Guazzaroni M, Segura A, Ramos JL. Members of the IclR family of bacterial transcriptional regulators function as activators and/or repressors. FEMS Microbiol Rev 2006; 30:157–186 [View Article]
    [Google Scholar]
31. Fathepure BZ. Recent studies in microbial degradation of petroleum hydrocarbons in hypersaline environments. Front Microbiol 2014; 5:173 [View Article]
    [Google Scholar]
32. Bikkina S, Kawamura K, Miyazaki Y, Fu P. High abundances of oxalic, azelaic, and glyoxylic acids and methylglyoxal in the open Ocean with high biological activity: implication for secondary oa formation from isoprene. Geophys Res Lett 2014; 41:3649–3657 [View Article]
    [Google Scholar]
33. Weimar JD, DiRusso CC, Delio R, Black PN. Functional role of fatty acyl-coenzyme A synthetase in the transmembrane movement and activation of exogenous long-chain fatty acids. Amino acid residues within the ATP/AMP signature motif of Escherichia coli FadD are required for enzyme activity and fatty acid transport. J Biol Chem 2002; 277:29369–29376 [View Article]
    [Google Scholar]
34. Klein K, Steinberg R, Fiethen B, Overath P. Fatty acid degradation in Escherichia coli. An inducible system for the uptake of fatty acids and further characterization of old mutants. Eur J Biochem 1971; 19:442–450 [View Article]
    [Google Scholar]
35. My L, Rekoske B, Lemke JJ, Viala JP, Gourse RL et al. Transcription of the Escherichia coli fatty acid synthesis operon fabHDG is directly activated by FadR and inhibited by ppGpp. J Bacteriol 2013; 195:3784–3795 [View Article]
    [Google Scholar]
36. Dolan SK, Welch M. The glyoxylate shunt, 60 years on. Annu Rev Microbiol 2018; 72:309–330 [View Article]
    [Google Scholar]
37. Staskawicz B, Dahlbeck D, Keen N, Napoli C. Molecular characterization of cloned avirulence genes from race 0 and race 1 of Pseudomonas syringae pv. glycinea. J Bacteriol 1987; 169:5789–5794 [View Article]
    [Google Scholar]
38. Spaink HP, Okker RJ, Wijffelman CA, Pees E, Lugtenberg BJ. Promoters in the nodulation region of the Rhizobium leguminosarum Sym plasmid pRL1JI. Plant Mol Biol 1987; 9:27–39 [View Article]
    [Google Scholar]