title: Characteristics of the microbial community associated with ammonia oxidation in a full-scale rockwool biofilter treating malodors from livestock manure composting.
abstract: The relationship between the activity and community structure of microbes associated with the oxidation of ammonia in a full-scale rockwool biofilter was examined by kinetic, denaturing gradient gel electrophoresis (DGGE), and sequence analyses. The packing materials were sampled from two different depths at 3 sites. Estimated K(m) values were similar among depths at same sampling sites, while V(max) differed in the mid-point sample. The lower depth of this site had the highest V(max). A correspondence analysis showed the DGGE profile of ammonia-oxidizing bacterial amoA of the lower depth of the mid-point sample to be distinguishable from the others. Banding patterns at other sites were similar among depths. Banding patterns of ammonia-oxidizing archaeal amoA of the mid-point sample were also similar among depths. The results suggested an association between the ammonia-oxidizing bacterial community's composition and ammonium oxidation kinetics in samples. Sequence analysis indicated that the ammonia-oxidizing bacterial community mainly belonged to the Nitrosomonas europaea lineage and Nitrosospira cluster 3. The ammonia-oxidizing archaeal amoA-like sequences were related to those belonging to soil and sediment groups, including one with 84% nucleotide similarity with Nitrosopumilus maritimus.
authors.affiliation: National Institute of Livestock and Grassland Science, Pollution Control Research Team, 2, Ikenodai, Tsukuba, Ibaraki 305–0901, Japan. tomokoya@affrc.go.jp
authors.forename: Tomoko
authors.initials: T
authors.lastname: Yasuda
authors.forename: Kazutaka
authors.initials: K
authors.lastname: Kuroda
authors.forename: Dai
authors.initials: D
authors.lastname: Hanajima
authors.forename: Yasuyuki
authors.initials: Y
authors.lastname: Fukumoto
authors.forename: Miyoko
authors.initials: M
authors.lastname: Waki
authors.forename: Kazuyoshi
authors.initials: K
authors.lastname: Suzuki
mesh_terms: D000641:Ammonia / Q000378:metabolism*; D000818:Animals; D001105:Archaea / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D001419:Bacteria / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D001483:Base Sequence; D019641:DNA, Archaeal / Q000302:isolation & purification; D004269:DNA, Bacterial / Q000302:isolation & purification; D058645:Denaturing Gradient Gel Electrophoresis / Q000379:methods*; D005374:Filtration / Q000295:instrumentation*; D019015:Geologic Sediments / Q000382:microbiology*; D007700:Kinetics; D058751:Livestock; D008372:Manure / Q000382:microbiology; D008969:Molecular Sequence Data; D010084:Oxidation-Reduction; D010088:Oxidoreductases / Q000235:genetics; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D012335:RNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA; D012987:Soil
chemical_list: D019641:DNA, Archaeal; D004269:DNA, Bacterial; D008372:Manure; D012335:RNA, Ribosomal; D012336:RNA, Ribosomal, 16S; D012987:Soil; D000641:Ammonia; D010088:Oxidoreductases; C045582:ammonia monooxygenase