Isolation and identification of culturable bacteria, capable of heterotrophic growth, from rapid sand filters of drinking water treatment plants

Research in Microbiology - Tập 168 - Trang 594-607 - 2017
Johanna Vandermaesen1, Bart Lievens2, Dirk Springael1
1Division of Soil and Water Management, KU Leuven, Kasteelpark Arenberg 20 Bus 2459, B-3001, Heverlee, Belgium
2Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM), Department of Microbial and Molecular Systems (M2S), KU Leuven, Campus De Nayer, Fortsesteenweg 30A, B-2860 Sint-Katelijne-Waver, Belgium

Tài liệu tham khảo

Albers, 2015, Groundwater chemistry determines the prokaryotic community structure of waterworks sand filters, Environ Sci Technol, 49, 839, 10.1021/es5046452 Feld, 2016, Establishment of bacterial herbicide degraders in a rapid sand filter for bioremediation of phenoxypropionate polluted groundwater, Appl Environ Microbiol, 82, 878, 10.1128/AEM.02600-15 Gülay, 2016, Ecological patterns, diversity and core taxa of microbial communities in groundwater-fed rapid gravity filters, ISME J, 10, 2209, 10.1038/ismej.2016.16 Gülay, 2013, Neutrophilic iron-oxidizing bacteria: occurrence and relevance in biological drinking water treatment, Water Sci Technol Water Supply, 13, 1295, 10.2166/ws.2013.113 Palomo, 2016, Metagenomic analysis of rapid gravity sand filter microbial communities suggests novel physiology of Nitrospira spp, ISME J, 10, 2569, 10.1038/ismej.2016.63 Proctor, 2015, Drinking water microbiology — from measurement to management, Curr Opin Biotechnol, 33, 87, 10.1016/j.copbio.2014.12.014 Vandermaesen, 2016, Mineralization of the common groundwater pollutant 2,6-dichlorobenzamide (BAM) and its metabolite 2,6-dichlorobenzoic acid (2,6-DCBA) in sand filter units of drinking water treatment plants, Environ Sci Technol, 50, 10114, 10.1021/acs.est.6b01352 Zearley, 2012, Removal of trace organic micropollutants by drinking water biological filters, Environ Sci Technol, 46, 9412, 10.1021/es301428e Pinto, 2012, Bacterial community structure in the drinking water microbiome is governed by filtration processes, Environ Sci Technol, 46, 8851, 10.1021/es302042t Benner, 2013, Is biological treatment a viable alternative for micropollutant removal in drinking water treatment processes?, Water Res, 47, 5955, 10.1016/j.watres.2013.07.015 Lehtola, 2002, Changes in content of microbially available phosphorus, assimilable organic carbon and microbial growth potential during drinking water treatment processes, Water Res, 36, 3681, 10.1016/S0043-1354(02)00100-8 Polanska, 2005, Investigation of assimilable organic carbon (AOC) in flemish drinking water, Water Res, 39, 2259, 10.1016/j.watres.2005.04.015 Eichler, 2006, Composition and dynamics of bacterial communities of a drinking water supply system as assessed by RNA- and DNA-based 16S rRNA gene fingerprinting, Appl Environ Microbiol, 72, 1858, 10.1128/AEM.72.3.1858-1872.2006 Bai, 2013, Integrated metagenomic and physiochemical analyses to evaluate the potential role of microbes in the sand filter of a drinking water treatment system, PLoS One, 8, e61011, 10.1371/journal.pone.0061011 Lautenschlager, 2014, Abundance and composition of indigenous bacterial communities in a multi-step biofiltration-based drinking water treatment plant, Water Res, 62, 40, 10.1016/j.watres.2014.05.035 Lin, 2014, Diversity and dynamics of microbial communities at each step of treatment plant for potable water generation, Water Res, 52, 218, 10.1016/j.watres.2013.10.071 Liu, 2015, Effects of assimilable organic carbon and free chlorine on bacterial growth in drinking water, PLoS One, 10, e0128825, 10.1371/journal.pone.0128825 White, 2012, Microbial survey of a full-scale, biologically active filter for treatment of drinking water, Appl Environ Microbiol, 78, 6390, 10.1128/AEM.00308-12 Albers, 2015, Degradation of trace concentrations of the persistent groundwater pollutant 2,6-dichlorobenzamide (BAM) in bioaugmented rapid sand filters, Water Res, 83, 61, 10.1016/j.watres.2015.06.023 Kinnunen, 2016, A conceptual framework for invasion in microbial communities, ISME J, 1 Revetta, 2010, Identification of bacterial populations in drinking water using 16S rRNA-based sequence analyses, Water Res, 44, 1353, 10.1016/j.watres.2009.11.008 Vartoukian, 2010, Strategies for culture of ’unculturable’ bacteria, FEMS Microbiol Lett, 309, 1 Davis, 2005, Effects of growth medium, inoculum size, and incubation time on culturability and isolation of soil bacteria, Appl Environ Microbiol, 71, 826, 10.1128/AEM.71.2.826-834.2005 George, 2011, Recovery of as-yet-uncultured soil Acidobacteria on dilute solid media, Appl Environ Microbiol, 77, 8184, 10.1128/AEM.05956-11 Jackson, 1998, Changes in bacterial species composition in enrichment cultures with various dilutions of inoculum as monitored by denaturing gradient gel electrophoresis, Appl Environ Microbiol, 64, 5046, 10.1128/AEM.64.12.5046-5048.1998 Reasoner, 1985, A new medium for the enumeration and subculture of bacteria from potable water, Appl Environ Microbiol, 49, 1, 10.1128/aem.49.1.1-7.1985 Dejonghe, 2003, Synergistic degradation of linuron by a bacterial consortium and isolation of a single linuron-degrading Variovorax strain, Appl Environ Microbiol, 69, 1532, 10.1128/AEM.69.3.1532-1541.2003 Koeuth, 1995, Differential subsequence conservation of interspersed repetitive Streptococcus pneumoniae box elements in diverse bacteria, Genome Res, 5, 408, 10.1101/gr.5.4.408 Weisburg, 1991, 16S ribosomal DNA amplification for phylogenetic study, J Bacteriol, 173, 697, 10.1128/jb.173.2.697-703.1991 Muyzer, 1993, Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, Appl Environ Microbiol, 59, 695, 10.1128/aem.59.3.695-700.1993 Turner, 1999, Investigating deep phylogenetic relationships among cyanobacteria and plastids by small subunit rRNA sequence analysis, J Eukaryot Microbiol, 46, 327, 10.1111/j.1550-7408.1999.tb04612.x Pruesse, 2012, SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes, Bioinformatics, 28, 1823, 10.1093/bioinformatics/bts252 Rosenzweig, 2012, Microbial communities associated with potato common scab-suppressive soil determined by pyrosequencing analyses, Plant Dis, 96, 718, 10.1094/PDIS-07-11-0571 Vandermeeren, 2014, Diversity of dechlorination pathways and organohalide respiring bacteria in chlorobenzene dechlorinating enrichment cultures originating from river sludge, Biodegradation, 25, 757, 10.1007/s10532-014-9697-y Schloss, 2009, Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Appl Environ Microbiol, 75, 7537, 10.1128/AEM.01541-09 Waud, 2014, Impact of primer choice on characterization of orchid mycorrhizal communities using 454 pyrosequencing, Mol Ecol Resour, 14, 679, 10.1111/1755-0998.12229 Stackebrandt, 1994, Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology, Int J Syst Evol Microbiol, 44, 846, 10.1099/00207713-44-4-846 Ronquist, 2012, MrBayes 3.2: efficient bayesian phylogenetic inference and model choice across a large model space, Syst Biol, 61, 539, 10.1093/sysbio/sys029 Rambaut, 2007 Větrovský, 2013, The variability of the 16S rRNA gene in bacterial genomes and its consequences for bacterial community analyses, PLoS One, 8, 1, 10.1371/journal.pone.0057923 Kaden, 2014, Int J Syst Evol Microbiol, 64, 1186, 10.1099/ijs.0.054031-0 Finneran, 2003, Rhodoferax ferrireducens sp. nov., a psychrotolerant, facultatively anaerobic bacterium that oxidizes acetate with the reduction of Fe(III), Int J Syst Evol Microbiol, 53, 669, 10.1099/ijs.0.02298-0 Kalmbach, 1997, Isolation of new bacterial species from drinking water biofilms and proof of their in situ dominance with highly specific 16S rRNA probes, Appl Environ Microbiol, 63, 4164, 10.1128/aem.63.11.4164-4170.1997 Kalmbach, 1999, Aquabacterium gen. nov., with description of Aquabacterium citratiphilum sp. nov., Aquabacterium parvum sp. nov. and Aquabacterium commune sp. nov., three in situ dominant bacterial species from the Berlin drinking water system, Int J Syst Bacteriol, 49, 769, 10.1099/00207713-49-2-769 Handley, 2013, Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community, ISME J, 7, 800, 10.1038/ismej.2012.148 Kostanjšek, 2013, Structure and community composition of sprout-like bacterial aggregates in a Dinaric Karst subterranean stream, Microb Ecol, 66, 5, 10.1007/s00248-012-0172-1 Salcher, 2008, Spatio-temporal niche separation of planktonic Betaproteobacteria in an oligo-mesotrophic lake, Environ Microbiol, 10, 2074, 10.1111/j.1462-2920.2008.01628.x Douterelo, 2014, Bacterial community dynamics during the early stages of biofilm formation in a chlorinated experimental drinking water distribution system: implications for drinking water discolouration, J Appl Microbiol, 117, 286, 10.1111/jam.12516 Lin, 2013, Molecular characterization of natural biofilms from household taps with different materials: PVC, stainless steel, and cast iron in drinking water distribution system, Appl Microbiol Biotechnol, 97, 8393, 10.1007/s00253-012-4557-3 Magic-Knezev, 2009, Polaromonas and Hydrogenophaga species are the predominant bacteria cultured from granular activated carbon filters in water treatment, J Appl Microbiol, 107, 1457, 10.1111/j.1365-2672.2009.04337.x Kojima, 2009, Community structure of microorganisms associated with reddish-brown iron-rich snow, Syst Appl Microbiol, 32, 429, 10.1016/j.syapm.2009.06.003 Larouche, 2012, Microbial biogeography of arctic streams: exploring influences of lithology and habitat, Front Microbiol, 3, 10.3389/fmicb.2012.00309 Peeters, 2011, Culturable diversity of heterotrophic bacteria in Forlidas Pond (Pensacola Mountains) and Lundström Lake (Shackleton Range), Antarctica, Microb Ecol, 62, 399, 10.1007/s00248-011-9842-7 Van Trappen, 2002, Diversity of 746 heterotrophic bacteria isolated from microbial mats from ten Antarctic lakes, Syst Appl Microbiol, 25, 603, 10.1078/07232020260517742 Zhou, 2013, Diversity of both the cultivable protease-producing bacteria and bacterial extracellular proteases in the coastal sediments of King George Island, Antarctica, PLoS One, 8, e79668, 10.1371/journal.pone.0079668 Sahay, 2013, Cold-active hydrolases producing bacteria from two different sub-glacial Himalayan lakes, J Basic Microbiol, 53, 703 Vardhan Reddy, 2009, Bacterial diversity and bioprospecting for cold-active enzymes from culturable bacteria associated with sediment from a melt water stream of Midtre Lovenbreen glacier, an Arctic glacier, Res Microbiol, 160, 538, 10.1016/j.resmic.2009.08.008 Madigan, 2000, Rhodoferax antarcticus sp. nov., a moderately psychrophilic purple nonsulfur bacterium isolated from an Antarctic microbial mat, Arch Microbiol, 173, 269, 10.1007/s002030000140 Ding, 2010, Curvibacter fontana sp. nov., a microaerobic bacteria isolated from well water, J Gen Appl Microbiol, 56, 267, 10.2323/jgam.56.267 Ding, 2004, Int J Syst Evol Microbiol, 54, 2223, 10.1099/ijs.0.02975-0 Falcone-Dias, 2012, Bottled mineral water as a potential source of antibiotic resistant bacteria, Water Res, 46, 3612, 10.1016/j.watres.2012.04.007 Li, 2012, Backwash intensity and frequency impact the microbial community structure and function in a fixed-bed biofilm reactor, Appl Microbiol Biotechnol, 96, 815, 10.1007/s00253-011-3838-6 Leifson, 1962, The bacterial flora of distilled and stored water. III. new species of the genera Corynebacterium, Flavobacterium, Spirillum and Pseudomonas, Int J Syst Evol Microbiol, 12, 161 Loy, 2005, Diversity of bacteria growing in natural mineral water after bottling, Appl Environ Microbiol, 71, 3624, 10.1128/AEM.71.7.3624-3632.2005 Zeng, 2013, Analysis of the bacterial communities associated with different drinking water treatment processes, World J Microbiol Biotechnol, 29, 1573, 10.1007/s11274-013-1321-5 Du, 2015, Undibacterium aquatile sp. nov., isolated from a waterfall, Int J Syst Evol Microbiol, 10.1099/ijsem.0.000545 Kim, 2014, Undibacterium jejuense sp. nov. and Undibacterium seohonense sp. nov., isolated from soil and freshwater, respectively, Int J Syst Evol Microbiol, 64, 236, 10.1099/ijs.0.056846-0 Kämpfer, 2007, Undibacterium pigrum gen. nov., sp. nov., isolated from drinking water, Int J Syst Evol Microbiol, 57, 1510, 10.1099/ijs.0.64785-0 Eder, 2011, Int J Syst Evol Microbiol, 61, 384, 10.1099/ijs.0.018648-0 Song, 2008, Perlucidibaca piscinae gen. nov., sp. nov., a freshwater bacterium belonging to the family Moraxellaceae, Int J Syst Evol Microbiol, 58, 97, 10.1099/ijs.0.65039-0 Navarro-Noya, 2013, Pyrosequencing analysis of the bacterial community in drinking water wells, Microb Ecol, 66, 19, 10.1007/s00248-013-0222-3 Gomila, 2007, Description of Pelomonas aquatica sp. nov. and Pelomonas puraquae sp. nov., isolated from industrial and haemodialysis water, Int J Syst Evol Microbiol, 57, 2629, 10.1099/ijs.0.65149-0 Stackebrandt, 2009, Int J Syst Evol Microbiol, 59, 2552, 10.1099/ijs.0.008383-0 Grabovich, 2006, Int J Syst Evol Microbiol, 56, 569, 10.1099/ijs.0.64027-0 Kämpfer, 2005, Hydrogenophaga defluvii sp. nov. and Hydrogenophaga atypica sp. nov., isolated from activated sludge, Int J Syst Evol Microbiol, 55, 341, 10.1099/ijs.0.03041-0 Willems, 1989, Int J Syst Evol Microbiol, 39, 319 Li, 2011, Acidovorax radicis sp. nov., a wheat-root-colonizing bacterium, Int J Syst Evol Microbiol, 61, 2589, 10.1099/ijs.0.025296-0 Janda, 2010, The genus Aeromonas: taxonomy, pathogenicity, and infection, Clin Microbiol Rev, 23, 35, 10.1128/CMR.00039-09 Hoang, 2014, Brachybacterium ginsengisoli sp. nov., isolated from soil of a ginseng field, Int J Syst Evol Microbiol, 64, 3063, 10.1099/ijs.0.058388-0 Gűrtler, 2010, Systematics of members of the genus Rhodococcus (Zopf 1891) emend Goodfellow et al. 1998, vol. 16, 1 Eaton, 2010, Biotransformations of (+/-)-geosmin by terpene-degrading bacteria, Biodegradation, 21, 71, 10.1007/s10532-009-9282-y Manage, 2009, Isolation and identification of novel microcystin-degrading bacteria, Appl Environ Microbiol, 75, 6924, 10.1128/AEM.01928-09 Rapala, 2005, Paucibacter toxinivorans gen. nov., sp. nov., a bacterium that degrades cyclic cyanobacterial hepatotoxins microcystins and nodularin, Int J Syst Evol Microbiol, 55, 1563, 10.1099/ijs.0.63599-0 Ho, 2012, Biological treatment options for cyanobacteria metabolite removal - a review, Water Res, 46, 1536, 10.1016/j.watres.2011.11.018 Yam, 2010, Catabolism of aromatic compounds and steroids by Rhodococcus, vol. 16, 133 Busse, 1992, Identification of xenobiotic-degrading isolates from the beta subclass of the Proteobacteria by a polyphasic approach including 16S rRNA partial sequencing, Int J Syst Evol Microbiol, 42, 19 Jabeen, 2015, Biodegradation of chlorpyrifos and 3,5,6-trichloro-2-pyridinol by a novel rhizobial strain Mesorhizobium sp. HN3, Water Environ J, 29, 151, 10.1111/wej.12081 Jiménez, 2011, Polyphasic approach for assessing changes in an autochthonous marine bacterial community in the presence of Prestige fuel oil and its biodegradation potential, Appl Microbiol Biotechnol, 91, 823, 10.1007/s00253-011-3321-4 Jones, 2011, Stable-isotope probing of the polycyclic aromatic hydrocarbon-degrading bacterial guild in a contaminated soil, Environ Microbiol, 13, 2623, 10.1111/j.1462-2920.2011.02501.x Ning, 2010, Functional assembly of bacterial communities with activity for the biodegradation of an organophosphorus pesticide in the rape phyllosphere, FEMS Microbiol Lett, 306, 135, 10.1111/j.1574-6968.2010.01946.x Ohtsubo, 2006, Identification of a response regulator gene for catabolite control from a PCB-degrading beta-proteobacteria, Acidovorax sp. KKS102, Mol Microbiol, 60, 1563, 10.1111/j.1365-2958.2006.05197.x Teng, 2016, Isolation of the PCB-degrading bacteria Mesorhizobium sp. ZY1 and its combined remediation with Astragalus sinicus L. for contaminated soil, Int J Phytoremediation, 18, 141, 10.1080/15226514.2015.1073667 Zhang, 2011, Changes in bacterial community of anthracene bioremediation in municipal solid waste composting soil, J Zhejiang Univ Sci B, 12, 760, 10.1631/jzus.B1000440 Bohu, 2015, Characterization of pH dependent Mn(II) oxidation strategies and formation of a bixbyite-like phase by Mesorhizobium australicum T-G1, Front Microbiol, 6, 10.3389/fmicb.2015.00734 Willems, 1990, Int J Syst Bacteriol, 40, 384, 10.1099/00207713-40-4-384