Metabolic dynamics of Desulfovibrio vulgaris biofilm grown on a steel surface

References

• Beale D, Dunn M, Marney D. 2010. Application of GC–MS metabolic profiling to ‘blue-green water’from microbial influenced corrosion in copper pipes. Corros Sci. 52:3140–3145. doi:10.1016/j.corsci.2010.04.039
   Web of Science ®Google Scholar
• Beale D, Dunn M, Marney D, Marlow D. 2012. Metabolomic footprinting and MIC within water supply networks. Corros Mater. 37:69–77.
   Google Scholar
• Beale D, Dunn M, Morrison PD, Porter NA, Marlow DR. 2012. Characterisation of bulk water samples from copper pipes undergoing microbially influenced corrosion by diagnostic metabolomic profiling. Corros Sci. 55:272–279. doi:10.1016/j.corsci.2011.10.026
   Web of Science ®Google Scholar
• Beale D, Barratt R, Marlow D, Dunn M, Palombo E, Morrison P, Key C. 2013. Application of metabolomics to understanding biofilms in water distribution systems: a pilot study. Biofouling. 29:283–294. doi:10.1080/08927014.2013.772140
   PubMed Web of Science ®Google Scholar
• Beale D, Morrison P, Key C, Palombo E. 2014. Metabolic profiling of biofilm bacteria known to cause microbial influenced corrosion. Water Sci Technol. 69:1–8.
   PubMed Web of Science ®Google Scholar
• Boon C, Deng Y, Wang L-H, He Y, Xu J-L, Fan Y, Pan SQ, Zhang L-H. 2008. A novel DSF-like signal from Burkholderia cenocepacia interferes with Candida albicans morphological transition. ISME Journal. 2:27–36. doi:10.1038/ismej.2007.76
   PubMed Web of Science ®Google Scholar
• Boopathy R, Daniels L. 1991. Effect of pH on anaerobic mild steel corrosion by methanogenic bacteria. Appl Environ Microbiol. 57:2104–2108.
   PubMed Web of Science ®Google Scholar
• Booth SC, Workentine ML, Wen J, Shaykhutdinov R, Vogel HJ, Ceri H, Turner RJ, Weljie AM. 2011. Differences in metabolism between the biofilm and planktonic response to metal stress. J Proteome Res. 10:3190–3199. doi:10.1021/pr2002353
   PubMed Web of Science ®Google Scholar
• Bradford MM. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 72:248–254. doi:10.1016/0003-2697(76)90527-3
   PubMed Web of Science ®Google Scholar
• Chatterjee S, Newman KL, Lindow SE. 2008. Cell-to-cell signaling in Xylella fastidiosa suppresses movement and xylem vessel colonization in grape. Mol Plant-Microbe Interact. 21:1309–1315. doi:10.1094/MPMI-21-10-1309
   PubMed Web of Science ®Google Scholar
• Choi Y, Morgenroth E. 2003. Monitoring biofilm detachment under dynamic changes in shear stress using laser-based particle size analysis and mass fractionation. Water Sci Technol. 47:69–76.
   PubMed Web of Science ®Google Scholar
• Clark ME, He Z, Redding AM, Joachimiak MP, Keasling JD, Zhou JZ, Arkin AP, Mukhopadhyay A, Fields MW. 2012. Transcriptomic and proteomic analyses of Desulfovibrio vulgaris biofilms: carbon and energy flow contribute to the distinct biofilm growth state. BMC Genomics. 13:1–17. doi:10.1186/1471-2164-13-138
   PubMed Web of Science ®Google Scholar
• Cornelis P. 2010. Iron uptake and metabolism in pseudomonads. Appl Microbiol Biotechnol. 86:1637–1645. doi:10.1007/s00253-010-2550-2
   PubMed Web of Science ®Google Scholar
• Cui X, Churchill GA. 2003. Statistical tests for differential expression in cDNA microarray experiments. Genome Biol. 4:1–10. doi:10.1186/gb-2003-4-4-210
   Web of Science ®Google Scholar
• Davies DG, Marques CN. 2009. A fatty acid messenger is responsible for inducing dispersion in microbial biofilms. J Bacteriol. 191:1393–1403. doi:10.1128/JB.01214-08
   PubMed Web of Science ®Google Scholar
• Dettmer K, Hammock BD. 2004. Metabolomics – a new exciting field within the ‘omics’ sciences. Environ Health Perspect. 112:A396.
   PubMed Web of Science ®Google Scholar
• Flemming H-C, Wingender J. 2010. The biofilm matrix. Nat Rev Microbiol. 8:623–633.
   PubMed Web of Science ®Google Scholar
• Gjersing EL, Herberg JL, Horn J, Schaldach CM, Maxwell RS. 2007. NMR metabolomics of planktonic and biofilm modes of growth in Pseudomonas aeruginosa. Anal Chem. 79:8037–8045. doi:10.1021/ac070800t
   PubMed Web of Science ®Google Scholar
• Halket JM, Waterman D, Przyborowska AM, Patel RK, Fraser PD, Bramley PM. 2005. Chemical derivatization and mass spectral libraries in metabolic profiling by GC/MS and LC/MS/MS. J Exp Bot. 56:219–243.
   PubMed Web of Science ®Google Scholar
• Huang T-P, Wong ACL. 2007. A cyclic AMP receptor protein-regulated cell-cell communication system mediates expression of a FecA homologue in Stenotrophomonas maltophilia. Appl Environ Microbiol. 73:5034–5040. doi:10.1128/AEM.00366-07
   PubMed Web of Science ®Google Scholar
• Hunt SM, Werner EM, Huang B, Hamilton MA, Stewart PS. 2004. Hypothesis for the role of nutrient starvation in biofilm detachment. Appl Environ Microbiol. 70:7418–7425. doi:10.1128/AEM.70.12.7418-7425.2004
   PubMed Web of Science ®Google Scholar
• Karatan E, Watnick P. 2009. Signals, regulatory networks, and materials that build and break bacterial biofilms. Microbiol Mol Biol Rev. 73:310–347. doi:10.1128/MMBR.00041-08
   PubMed Web of Science ®Google Scholar
• Keller KL, Wall JD. 2011. Genetics and molecular biology of the electron flow for sulfate respiration in Desulfovibrio. Front Microbil. 2:1–17.
   PubMed Web of Science ®Google Scholar
• Keller KL, Rapp-Giles BJ, Semkiw ES, Porat I, Brown SD, Wall JD. 2014. New model for electron flow for sulfate reduction in Desulfovibrio alaskensis G20. Appl Environ Microbiol. 80:855–868. doi:10.1128/AEM.02963-13
   PubMed Web of Science ®Google Scholar
• Kouremenos KA, Beale DJ, Antti H, Palombo EA. 2014. Liquid chromatography time of flight mass spectrometry based environmental metabolomics for the analysis of Pseudomonas putida bacteria in potable water. J Chromatogr B. 966:179–186. doi:10.1016/j.jchromb.2014.02.058
   PubMed Web of Science ®Google Scholar
• Kuchma SL, O’Toole GA. 2000. Surface-induced and biofilm-induced changes in gene expression. Curr Opin Biotechnol. 11:429–433. doi:10.1016/S0958-1669(00)00123-3
   PubMed Web of Science ®Google Scholar
• Lappin-Scott H, Costerton J, Marrie T 1992. Biofilms and biofouling. Encycl Microbiol. 1:277–284.
   Google Scholar
• Little B, Staehle R, Davis R. 2001. Fungal influenced corrosion of post-tensioned cables. Int Biodeterior Biodegrad. 47:71–77. doi:10.1016/S0964-8305(01)00039-7
   Web of Science ®Google Scholar
• Liu Y, Lin Y-M, Yang S-F, Tay J-H. 2003. A balanced model for biofilms developed at different growth and detachment forces. Process Biochem. 38:1761–1765. doi:10.1016/S0032-9592(02)00260-1
   Web of Science ®Google Scholar
• Liu H, Huang L, Huang Z, Zheng J. 2007. Specification of sulfate reducing bacteria biofilms accumulation effects on corrosion initiation. Mater Corros. 58:44–48. doi:10.1002/(ISSN)1521-4176
   Web of Science ®Google Scholar
• Nawawi M, Sahrani FK, Azizan KA, Ali M, Ahmad A, Usup G. 2014. Sulfate-reducing bacteria metabolite detection using GC-MS. Malays Appl Biol 43:41–51.
   Google Scholar
• Neria-González I, Wang ET, Ramírez F, Romero JM, Hernández-Rodríguez C. 2006. Characterization of bacterial community associated to biofilms of corroded oil pipelines from the southeast of Mexico. Anaerobe. 12:122–133. doi:10.1016/j.anaerobe.2006.02.001
   PubMed Web of Science ®Google Scholar
• Niu X, Zhu Y, Pei G, Wu L, Chen L, Zhang W. 2015. Elucidating butanol tolerance mediated by a response regulator Sll0039 in Synechocystis sp. PCC 6803 using a metabolomic approach. Appl Microbiol Biotechnol. 99:1845–1857. doi:10.1007/s00253-015-6374-y
   PubMed Web of Science ®Google Scholar
• Putri SP, Yamamoto S, Tsugawa H, Fukusaki E. 2013. Current metabolomics: technological advances. J Biosci Bioeng. 116:9–16. doi:10.1016/j.jbiosc.2013.01.004
   PubMed Web of Science ®Google Scholar
• Roe JH. 1954. The determination of dextran in blood and urine with anthrone reagent. J Biol Chem. 208:889–896.
   PubMed Web of Science ®Google Scholar
• Roe JH. 1955. The determination of sugar in blood and spinal fluid with anthrone reagent. J Biol Chem. 212:335–343.
   PubMed Web of Science ®Google Scholar
• Roessner U, Luedemann A, Brust D, Fiehn O, Linke T, Willmitzer L, Fernie AR. 2001. Metabolic profiling allows comprehensive phenotyping of genetically or environmentally modified plant systems. The Plant Cell. 13:11–29. doi:10.1105/tpc.13.1.11
   PubMed Web of Science ®Google Scholar
• Ryan RP, Dow JM. 2008. Diffusible signals and interspecies communication in bacteria. Microbiology. 154:1845–1858. doi:10.1099/mic.0.2008/017871-0
   PubMed Web of Science ®Google Scholar
• Sand W, Gehrke T. 2006. Extracellular polymeric substances mediate bioleaching/biocorrosion via interfacial processes involving iron (III) ions and acidophilic bacteria. Res Microbiol. 157:49–56. doi:10.1016/j.resmic.2005.07.012
   PubMed Web of Science ®Google Scholar
• Schwarz D, Orf I, Kopka J, Hagemann M. 2013. Recent applications of metabolomics toward cyanobacteria. Metabolites. 3:72–100. doi:10.3390/metabo3010072
   PubMedGoogle Scholar
• Stein SE. 1999. An integrated method for spectrum extraction and compound identification from gas chromatography/mass spectrometry data. J Am Soc Mass Spectrom. 10:770–781. doi:10.1016/S1044-0305(99)00047-1
   Web of Science ®Google Scholar
• Su Y, Wang J, Shi M, Niu X, Yu X, Gao L, Zhang X, Chen L, Zhang W. 2014. Metabolomic and network analysis of astaxanthin-producing Haematococcus pluvialis under various stress conditions. Bioresour Technol. 170:522–529. doi:10.1016/j.biortech.2014.08.018
   PubMed Web of Science ®Google Scholar
• Tang Y, Pingitore F, Mukhopadhyay A, Phan R, Hazen TC, Keasling JD. 2007. Pathway confirmation and flux analysis of central metabolic pathways in desulfovibrio vulgaris hildenborough using gas chromatography-mass spectrometry and fourier transform-ion cyclotron resonance mass spectrometry. J Bacteriol. 189:940–949. doi:10.1128/JB.00948-06
   PubMed Web of Science ®Google Scholar
• Usher K, Kaksonen A, MacLeod I. 2014. Marine rust tubercles harbour iron corroding archaea and sulphate reducing bacteria. Corros Sci. 83:189–197. doi:10.1016/j.corsci.2014.02.014
   Web of Science ®Google Scholar
• Videla HA. 1996. Manual of biocorrosion. Boca Raton, FL: CRC Press.
   Google Scholar
• Wang LH, He Y, Gao Y, Wu JE, Dong YH, He C, Wang SX, Weng LX, Xu JL, Tay L. 2004. A bacterial cell–cell communication signal with cross-kingdom structural analogues. Mol Microbiol. 51:903–912.
   PubMed Web of Science ®Google Scholar
• Wang J, Zhang C, Rong H. 2014a. Analysis and succession of nitrifying bacteria community structure in sequencing biofilm batch reactor. Appl Microbiol Biotechnol. 98:4581–4587. doi:10.1007/s00253-014-5537-6
   PubMed Web of Science ®Google Scholar
• Wang Y, Shi M, Niu X, Zhang X, Gao L, Chen L, Wang J, Zhang W. 2014b. Metabolomic basis of laboratory evolution of butanol tolerance in photosynthetic Synechocystis sp. PCC 6803. Microb Cell Factories.13:1–12. doi:10.1186/s12934-014-0151-y
   PubMed Web of Science ®Google Scholar
• Wäsche S, Horn H, Hempel DC. 2002. Influence of growth conditions on biofilm development and mass transfer at the bulk/biofilm interface. Water Res. 36:4775–4784. doi:10.1016/S0043-1354(02)00215-4
   PubMed Web of Science ®Google Scholar
• Wikieł AJ, Datsenko I, Vera M, Sand W. 2014. Impact of Desulfovibrio alaskensis biofilms on corrosion behaviour of carbon steel in marine environment. Bioelectrochemistry. 97:52–60. doi:10.1016/j.bioelechem.2013.09.008
   PubMed Web of Science ®Google Scholar
• Zane GM, Yen H.-c. B., Wall JD. 2010. Effect of the deletion of qmoABC and the promoter-distal gene encoding a hypothetical protein on sulfate reduction in Desulfovibrio vulgaris Hildenborough. Appl Environ Microbiol. 76:5500–5509. doi:10.1128/AEM.00691-10
   PubMed Web of Science ®Google Scholar
• Zhang B, Horvath S. 2005. A general framework for weighted gene co-expression network analysis. Stat Appl Genet Mol Biol. 4:1544–6115.
   PubMed Web of Science ®Google Scholar
• Zhang W, Culley DE, Scholten JC, Hogan M, Vitiritti L, Brockman FJ. 2006. Global transcriptomic analysis of Desulfovibrio vulgaris on different electron donors. Antonie van Leeuwenhoek. 89:221–237. doi:10.1007/s10482-005-9024-z
   PubMed Web of Science ®Google Scholar
• Zhang W, Culley DE, Nie L, Scholten JC. 2007. Comparative transcriptome analysis of Desulfovibrio vulgaris grown in planktonic culture and mature biofilm on a steel surface. Appl Microbiol Biotechnol. 76:447–457. doi:10.1007/s00253-007-1014-9
   PubMed Web of Science ®Google Scholar
• Zhang P, Xu D, Li Y, Yang K, Gu T. 2015. Electron mediators accelerate the microbiologically influenced corrosion of 304 stainless steel by the Desulfovibrio vulgaris biofilm. Bioelectrochemistry. 101:14–21. doi:10.1016/j.bioelechem.2014.06.010
   PubMed Web of Science ®Google Scholar