[1]
|
Mohnen, D. (2008) Pectin structure and biosynthesis. Current Opinion in Plant Biology, 11, 266-277.
http://dx.doi.org/10.1016/j.pbi.2008.03.006
|
[2]
|
Abbott, D.W. and Boraston, A.B. (2008) Structural biology of pectin degradation by Enterobacteriaceae. Microbiology and Molecular Biology Reviews, 72, 301-316.
http://dx.doi.org/10.1128/MMBR.00038-07
|
[3]
|
Richard, P. and Hilditch, S. (2009) D-galacturonic acid catabolism in microorganisms and its biotechnological relevance. Applied Microbiology and Biotechnology, 82, 597-604. http://dx.doi.org/10.1007/s00253-009-1870-6
|
[4]
|
Yadav, S., Yadav, P., Yadav, D. and Yadav, K. (2009) Pectin lyase: A review. Process Biochemistry, 44, 1-10.
http://dx.doi.org/10.1016/j.procbio.2008.09.012
|
[5]
|
Hugouvieux-Cotte-Pattat, N. and Robert-Baudouy, J. (1987) Hexuronate catabolism in Erwinia chrysanthemi. Journal of Bacteriology, 169, 1223-1231.
|
[6]
|
Entcheva-Dimitrov, P. and Spormann, A.M. (2004) Dynamics and control of biofilms of the oligotrophic bacterium Caulobacter crescentus. Journal of Bacteriology, 186, 8254-8266.
http://dx.doi.org/10.1128/JB.186.24.8254-8266.2004
|
[7]
|
Poindexter, J. (1964) Biological properties and classification of the Caulobacter group. Bacteriology Reviews, 28, 231-295.
|
[8]
|
Nierman, W.C., Feldblyum, T.V., Laub, M.T., Paulsen, I.T., Nelson, K.E., Eisen, J., et al. (2001) Complete genome sequence of Caulobacter crescentus. Proceedings of the National Academy of Sciences of USA, 98, 4136-4141.
http://dx.doi.org/10.1073/pnas.061029298
|
[9]
|
Mannisto, M.K., Tiirola, M.A., Salkinoja-Salonen, M.S., Kulomaa, M.S. and Puhakka, J.A. (1999) Diversity of chlorophenol-degrading bacteria isolated from contaminated boreal groundwater. Archives of Microbiology, 171, 189-197. http://dx.doi.org/10.1007/s002030050698
|
[10]
|
Luo, Y., Xu, X., Ding, Z., Liu, Z., Zhang, B., Yan, Z., Sun, J., Hu, S. and Hu, X. (2008) Complete genome of Phenylobacterium zucineum, a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562. BioMed Central Genomics, 9, 386.
http://dx.doi.org/10.1186/1471-2164-9-386
|
[11]
|
Hottes, A.K., Meewan, M., Yang, D., Arana, N., Romero, P., McAdams, H.H. and Stephens, C. (2004) Transcriptional profiling of Caulobacter crescentus during growth on complex and minimal media. Journal of Bacteriology, 186, 1448-1461.
http://dx.doi.org/10.1128/JB.186.5.1448-1461.2004
|
[12]
|
Stephens, C., Christen, B., Fuchs, T., Sundaram, V., Watanabe, K. and Jenal, U. (2007) Genetic analysis of a novel pathway for D-xylose metabolism in Caulobacter crescentus. Journal of Bacteriology, 189, 2181-2185.
http://dx.doi.org/10.1128/JB.01438-06
|
[13]
|
Stephens, C., Christen, B., Watanabe, K., Fuchs, T. and Jenal, U. (2008) Regulation of D-xylose metabolism in Caulobacter crescentus by a LacI-type repressor. Journal of Bacteriology, 189, 8828-8834.
http://dx.doi.org/10.1128/JB.01342-07
|
[14]
|
Meisenzahl, A.C., Shapiro, L. and Jenal, U. (1997) Isolation and characterization of a xylose-dependent promoter from Caulobacter crescentus. Journal of Bacteriology, 179, 592-600.
|
[15]
|
Ely, B. (1991) Genetics of Caulobacter crescentus. Methods in Enzymology, 204, 372-384.
http://dx.doi.org/10.1016/0076-6879(91)04019-K
|
[16]
|
Bochner, B.R. (2003) New technologies to assess genotype-phenotype relationships. Nature Reviews Genetics, 4, 309-314. http://dx.doi.org/10.1038/nrg1046
|
[17]
|
West, L., Yang, D. and Stephens, C. (2002) Use of the Caulobacter crescentus genome sequence to develop a method for systematic genetic mapping. Journal of Bacteriology, 184, 2155-2166.
http://dx.doi.org/10.1128/JB.184.8.2155-2166.2002
|
[18]
|
Zuker, M. (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research, 31, 3406-3415. http://dx.doi.org/10.1093/nar/gkg595
|
[19]
|
Stephens, C. and Shapiro, L. (1993) An unusual promoter controls cell-cycle regulation and dependence on DNA replication of the Caulobacter fliLM early flagellar operon. Molecular Microbiology, 9, 1169-1179.
http://dx.doi.org/10.1111/j.1365-2958.1993.tb01246.x
|
[20]
|
Hruz, T., Wyss, M., Docquier, M., Pfaffl, M., Masanetz, S., Borghi, L., et al. (2011) RefGenes: identification of reliable and condition specific reference genes for RTqPCR data normalization. BMC Genomics, 12, 156.
http://dx.doi.org/10.1186/1471-2164-12-156
|
[21]
|
Lohmiller, S., Hantke, K., Patzer, S.I. and Braun, V. (2008) TonB-dependent maltose transport by Caulobacter crescentus. Microbiology, 154, 1748-1754.
http://dx.doi.org/10.1099/mic.0.2008/017350-0
|
[22]
|
Livak, K.J. and Schmittgen, T.D. (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2[-Δ Δ C[T]] method]. Methods, 25, 402-408.
http://dx.doi.org/10.1006/meth.2001.1262
|
[23]
|
Williams, K.P., Sobral, B. and Dickerman, A. (2007) A robust species tree for the Alphaproteobacteria. Journal of Bacteriology, 189, 4578-4586.
http://dx.doi.org/10.1128/JB.00269-07
|
[24]
|
Boer, H., Maaheimo, H., Koivula, A., Penttila, M. and Richard, P. (2009) Identification in Agrobacterium tumefaciens of the galacturonic acid dehydrogenase gene. Applied Microbiology and Biotechnology, 86, 901-909.
http://dx.doi.org/10.1007/s00253-009-2333-9
|
[25]
|
Riley, R.G. and Kolodziej, B.J. (1976) Pathway of glucose catabolism in Caulobacter crescentus. Microbios, 1, 219-226.
|
[26]
|
Bailey, T., Bodén, M., Buske, F.A., Frith, M., Grant, C.E., Clementi, L., et al. (2009) MEME SUITE: Tools for motif discovery and searching. Nucleic Acids Research, 37, W202-W208. http://dx.doi.org/10.1093/nar/gkp335
|
[27]
|
Fischer, M., Zhang, Q.Y., Hubbard, R.E. and Thomas, G.H. (2010) Caught in a TRAP: Substrate-binding proteins in secondary transport. Trends in Microbiology, 18, 471-478. http://dx.doi.org/10.1016/j.tim.2010.06.009
|
[28]
|
Haseloff, B.J., Freeman, T.L., Valmeekam, V., Melkus, M.W., Oner, F., Valachovic, M.S. and San Francisco, M.J. (1998) The exuT gene of Erwinia chrysanthemi EC16: Nucleotide sequence, expression, localization, and relevance of the gene product. Molecular Plant-Microbe Interactions, 11, 270-276.
http://dx.doi.org/10.1094/MPMI.1998.11.4.270
|
[29]
|
Collmer, A., Whalen, C., Beer, S. and Bateman, D. (1982) An exo-poly-α-D-galacturonosidase implicated in the regulation of extracellular pectatelyase production in Erwiniachrystanthemi. Journal of Bacteriology, 149, 626-634.
|
[30]
|
Swint-Kruse, L. and Matthews, K. (2009) Allostery in the LacI/GalR family: Variations on a theme. Current Opinions in Microbiology, 12, 129-137.
http://dx.doi.org/10.1016/j.mib.2009.01.009
|
[31]
|
Lin, J.-S. and Shaw, G.-C. (2007) Regulation of the kduID operon of Bacillus subtilis by the KdgR repressor and the ccpA gene: Identification of two KdgR-binding sites within the kdgR-kduI intergenic region. Microbiology, 153, 701-710. http://dx.doi.org/10.1099/mic.0.2006/002253-0
|
[32]
|
Blanvillain, S., Meyer, D., Boulanger, A., Lautier, M., Guynet, C., Denanc, A.N., Vasse, J., Lauber, E. and Arlat, M. (2007) Plant carbohydrate scavenging through TonB-dependent receptors: A feature shared by phytopathogenic and aquatic bacteria. PLoS One, 2, e224.
http://dx.doi.org/10.1371/journal.pone.0000224
|
[33]
|
Hugouvieux-Cotte-Pattat, N., Condemine, G., Nassar, W. and Reverchon, S. (1996) Regulation of pectinolysis in Erwinia chrysanthemi. Annual Review of Microbiology, 50, 213-257.
http://dx.doi.org/10.1146/annurev.micro.50.1.213
|
[34]
|
Rodionov, D.A., Gelfand, M.S. and Hugouvieux-Cotte-Pattat, N. (2004) Comparative genomics of the KdgR regulon in Erwinia chrysanthemi 3937 and other gamma-proteobacteria. Microbiology, 150, 3571-3590.
http://dx.doi.org/10.1099/mic.0.27041-0
|
[35]
|
Rodionov, D.A., Mironov, A.A., Rakhmaninova, A.B. and Gelfand, M.S. (2000) Transcriptional regulation of transport and utilization systems for hexuronides, hexuronates and hexonates in gamma purple bacteria. Molecular Microbiology, 38, 673-683.
http://dx.doi.org/10.1046/j.1365-2958.2000.02115.x
|
[36]
|
Da Silva, A.C., Ferro, J.A., Reinach, F.C., Farah, C.S., Furlan, L.R., Quaggio, R.B., et al. (2002) Comparison of the genomes of two Xanthomonas pathogens with differing host specificities. Nature, 417, 459-463.
http://dx.doi.org/10.1038/417459a
|
[37]
|
Price, M.N., Dehal, P. and Arkin, A. (2008) Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli. Genome Biology, 9, R4.
http://dx.doi.org/10.1186/gb-2008-9-1-r4
|