Molecular identification and dynamics of microbial communities in reactor treating organic household waste

The prokaryotic diversity associated with organic household waste (OHW), leachate (start-up inoculum), and mesophilic anaerobic digestion processes in the degradation of OHW for 44 and 90 days was investigated using a culture-independent approach. Bacterial and archaeal 16S rRNA and mcrA gene clone libraries were constructed from community DNA preparations. Bacterial clones were affiliated with 13 phyla, of which Firmicutes, Proteobacteria, and Bacteroidetes were represented in all libraries, whereas Actinobacteria, Thermotogae, Lentisphaerae, Acidobacteria, Chloroflexi, Cyanobacteria, Synergistetes, Spirochaetes, Deferribacteres, and Deinococcus-Thermus were exclusively identified in a single library. Within the Archaea domain, the Euryarchaeota phylum was the only one represented. Corresponding sequences were associated with the following orders of hydrogenotrophic methanogens: Methanomicrobiales (Methanoculleus genus) and Methanobacteriales (Methanosphaera and Methanobacterium genera). One archaeal clone was not affiliated with any order and may represent a novel taxon. Diversity indices showed greater diversity of Bacteria when compared to methanogenic Archaea.

[1]  B L Maidak,et al.  The RDP-II (Ribosomal Database Project) , 2001, Nucleic Acids Res..

[2]  Kengo Sasaki,et al.  Archaeal population on supporting material in methanogenic packed-bed reactor. , 2006, Journal of bioscience and bioengineering.

[3]  R. Freitag,et al.  Diversity of the resident microbiota in a thermophilic municipal biogas plant , 2008, Applied Microbiology and Biotechnology.

[4]  J Keller,et al.  Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactors , 1995, Applied and environmental microbiology.

[5]  J. D. Elsas,et al.  Molecular Microbial Ecology Manual , 2013, Springer Netherlands.

[6]  Sudhir Kumar,et al.  MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment , 2004, Briefings Bioinform..

[7]  D. Kelly,et al.  The prokaryotes: an evolving electronic resource for the microbiological community - , 2002 .

[8]  A. Slobodkin.  Thermophilic Microbial Metal Reduction , 2005, Microbiology.

[9]  Hansruedi Siegrist,et al.  Biological nutrient removal in a small-scale MBR treating household wastewater. , 2008, Water research.

[10]  Anna Schnürer,et al.  Effect of process temperature on bacterial and archaeal communities in two methanogenic bioreactors treating organic household waste. , 2007, FEMS microbiology ecology.

[11]  T. R. Sreekrishnan,et al.  Enhancement of biogas production from solid substrates using different techniques--a review. , 2004, Bioresource technology.

[12]  R. Speece.  Anaerobic biotechnology for industrial wastewater treatment. , 1983, Environmental science & technology.

[13]  D. Sales,et al.  Evolution of microorganisms in thermophilic-dry anaerobic digestion. , 2008, Bioresource technology.

[14]  K. Kida,et al.  The effects of micro-aeration on the phylogenetic diversity of microorganisms in a thermophilic anaerobic municipal solid-waste digester. , 2004, Water research.

[15]  Irini Angelidaki,et al.  Influence of Environmental Conditions on Methanogenic Compositions in Anaerobic Biogas Reactors , 2022 .

[16]  Marion Leclerc,et al.  Diversity of the archaeal community in 44 anaerobic digesters as determined by single strand conformation polymorphism analysis and 16S rDNA sequencing. , 2004, Environmental microbiology.

[17]  P. Luton,et al.  The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. , 2002, Microbiology.

[18]  Kengo Sasaki,et al.  Microbial population in the biomass adhering to supporting material in a packed-bed reactor degrading organic solid waste , 2007, Applied Microbiology and Biotechnology.

[19]  J. Lalman,et al.  Anaerobic degradation and methanogenic inhibitory effects of oleic and stearic acids. , 2001, Water research.

[20]  V. Vavilin,et al.  Combined monitoring of changes in delta13CH4 and archaeal community structure during mesophilic methanization of municipal solid waste. , 2009, FEMS microbiology ecology.

[21]  R. Amils,et al.  Analysis of Microbial Community during Biofilm Development in an Anaerobic Wastewater Treatment Reactor , 2008, Microbial Ecology.

[22]  G. Cornacchia,et al.  Anaerobic digestion of semi-solid organic waste: biogas production and its purification , 2002 .

[23]  N. Banning,et al.  Investigation of the methanogen population structure and activity in a brackish lake sediment. , 2005, Environmental microbiology.

[24]  Y. Shouche,et al.  Investigation of methanogen population structure in biogas reactor by molecular characterization of methyl-coenzyme M reductase A (mcrA) genes. , 2008, Bioresource technology.

[25]  I. Fi̇lya.  The effect of Lactobacillus buchneri and Lactobacillus plantarum on the fermentation, aerobic stability, and ruminal degradability of low dry matter corn and sorghum silages. , 2003, Journal of dairy science.

[26]  M. Lozada,et al.  Bacterial community shifts in nonylphenol polyethoxylates-enriched activated sludge. , 2004, Water research.

[27]  Andreas Tauch,et al.  Taxonomic composition and gene content of a methane-producing microbial community isolated from a biogas reactor. , 2008, Journal of biotechnology.

[28]  Eugene Rosenberg,et al.  Introduction to the Proteobacteria , 2004 .

[29]  E. Delong.  Archaea in coastal marine environments. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[30]  Jo Handelsman,et al.  Integration of Microbial Ecology and Statistics: a Test To Compare Gene Libraries , 2004, Applied and Environmental Microbiology.

[31]  B. Schink,et al.  Clostridium ultunense sp. nov., a mesophilic bacterium oxidizing acetate in syntrophic association with a hydrogenotrophic methanogenic bacterium. , 1996, International journal of systematic bacteriology.

[32]  Stephen L. Rathbun,et al.  Quantitative Comparisons of 16S rRNA Gene Sequence Libraries from Environmental Samples , 2001, Applied and Environmental Microbiology.

[33]  F. Rainey,et al.  An Introduction to the Family Clostridiaceae , 2006 .

[34]  Kelly P. Nevin,et al.  Dissimilatory Fe(III) and Mn(IV) reduction. , 1991, Advances in microbial physiology.

[35]  D. Karl,et al.  Estimation of diversity and community structure through restriction fragment length polymorphism distribution analysis of bacterial 16S rRNA genes from a microbial mat at an active, hydrothermal vent system, Loihi Seamount, Hawaii , 1994, Applied and environmental microbiology.

[36]  N. Saitou,et al.  The neighbor-joining method: a new method for reconstructing phylogenetic trees. , 1987, Molecular biology and evolution.

[37]  L. Erijman,et al.  Bacterial taxa abundance pattern in an industrial wastewater treatment system determined by the full rRNA cycle approach. , 2007, Environmental microbiology.

[38]  A. Chao.  Nonparametric estimation of the number of classes in a population , 1984 .

[39]  J. Handelsman,et al.  Introducing DOTUR, a Computer Program for Defining Operational Taxonomic Units and Estimating Species Richness , 2005, Applied and Environmental Microbiology.

[40]  E Topp,et al.  Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors. , 2008, Water research.

[41]  B. Svensson,et al.  Mesophilic syntrophic acetate oxidation during methane formation in biogas reactors , 1999 .

[42]  E. Stackebrandt,et al.  Nucleic acid techniques in bacterial systematics , 1991 .

[43]  I. Good.  THE POPULATION FREQUENCIES OF SPECIES AND THE ESTIMATION OF POPULATION PARAMETERS , 1953 .

[44]  Largus T Angenent,et al.  Methanogenic population dynamics during startup of a full-scale anaerobic sequencing batch reactor treating swine waste. , 2002, Water research.

[45]  Y. Kamagata,et al.  Involvement of formate as an interspecies electron carrier in a syntrophic acetate-oxidizing anaerobic microorganism in coculture with methanogens. , 2001, Journal of bioscience and bioengineering.

[46]  Erko Stackebrandt,et al.  Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology , 1994 .

[47]  A. N. Pettitt.  Cramér‐Von Mises Statistic , 2006 .

[48]  S. Giovannoni,et al.  Kinetic Bias in Estimates of Coastal Picoplankton Community Structure Obtained by Measurements of Small-Subunit rRNA Gene PCR Amplicon Length Heterogeneity , 1998, Applied and Environmental Microbiology.

[49]  J. Hughes,et al.  Section 7 update: Application of ecological diversity statistics in microbial ecology , 2004 .