Community Structure Analyses Are More Sensitive to Differences in Soil Bacterial Communities than Anonymous Diversity Indices

Applied and Environmental Microbiology, Год журнала: 2006, Номер 72(12), С. 7804 - 7812

Опубликована: Дек. 1, 2006

ABSTRACT Changes in the diversity and structure of soil microbial communities may offer a key to understanding impact environmental factors on quality agriculturally managed systems. Twenty-five years biodynamic, bio-organic, or conventional management DOK long-term experiment Switzerland significantly altered bacterial community structures, as assessed by terminal restriction fragment length polymorphism (T-RFLP) analysis. To evaluate these results, relation between structures their discrimination potential were investigated sequence T-RFLP analyses 1,904 16S rRNA gene clones derived from soils. Standard anonymous indices such Shannon, Chao1, ACE rarefaction analysis did not allow detection management-dependent influences community. Bacterial determined three libraries substantiated changes previously observed level profiling. This supported value high-throughput monitoring tools for assessment differences communities. The library approach also allowed identification management-specific indicator taxa, which nine different phyla. These results clearly demonstrate advantages over those based when analyzing complex

Язык: Английский

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Characterization of primary biogenic aerosol particles in urban, rural, and high-alpine air by DNA sequence and restriction fragment analysis of ribosomal RNA genes

Biogeosciences, Год журнала: 2007, Номер 4(6), С. 1127 - 1141

Опубликована: Дек. 20, 2007

Abstract. This study explores the applicability of DNA analyses for characterization primary biogenic aerosol (PBA) particles in atmosphere. Samples fine particulate matter (PM2.5) and total suspended particulates (TSP) have been collected on different types filter materials at urban, rural, high-alpine locations along an altitude transect south Germany (Munich, Hohenpeissenberg, Mt. Zugspitze). From segments loaded with about one milligram air matter, could be extracted sequences determined bacteria, fungi, plants animals. Sequence were used to determine identity biological organisms, terminal restriction fragment length polymorphism (T-RFLP) applied estimate diversities relative abundances bacteria. Investigations blank background samples showed that decontaminated prior use, sampling handling procedures carefully controlled avoid artifacts analyses. Mass fractions PM2.5 found around 0.05% aerosols. The average concentration urban was order ~7 ng m−3, indicating human adults may inhale microgram per day (corresponding ~108 haploid bacterial genomes or ~105 genomes, respectively). Most from Proteobacteria (42) some Actinobacteria (10) Firmicutes (1). fungal characteristic Ascomycota (3) Basidiomycota (1), which are known actively discharge spores into plant attributed green (2) moss (2), while animal only unicellular eukaryote (protist). Over 80% 53 matched 19 T-RF peaks samples, but 40% did correspond detected sequences. results demonstrate T-RFLP analysis covered more diversity than sequence analysis. Shannon-Weaver indices calculated both data indicate rural higher alpine samples. Two (Gammaproteobacteria) five all locations.

Язык: Английский

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Impact of Plant Functional Group, Plant Species, and Sampling Time on the Composition of nirK -Type Denitrifier Communities in Soil

Applied and Environmental Microbiology, Год журнала: 2007, Номер 73(21), С. 6876 - 6884

Опубликована: Сен. 1, 2007

We studied the influence of eight nonleguminous grassland plant species belonging to two functional groups (grasses and forbs) on composition soil denitrifier communities in experimental microcosms over consecutive years. Denitrifier community was analyzed by terminal restriction fragment length polymorphism (T-RFLP) PCR-amplified nirK gene fragments coding for copper-containing nitrite reductase. The impact factors (plant group, species, sampling time, interactions between them) structure (i.e., T-RFLP patterns) canonical correspondence analysis. While group a did not affect nirK-type communities, identity their composition. This effect changed with indicating changes due seasonal conditions development plants microcosms. Differences total nitrogen carbon, pH, root biomass were observed at end experiment. However, statistical analysis revealed that affected directly, e.g., through exudates. Assignment abundant T-RFs cloned sequences from subsequent phylogenetic indicated dominance yet-unknown genotypes genes related denitrifiers order Rhizobiales. In conclusion, individual directly influenced soil, but environmental had additional significant effects.

Язык: Английский

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Conductive iron oxides accelerate thermophilic methanogenesis from acetate and propionate

Journal of Bioscience and Bioengineering, Год журнала: 2014, Номер 119(6), С. 678 - 682

Опубликована: Дек. 2, 2014

Язык: Английский

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High Diversity of Diazotrophs in the Forefield of a Receding Alpine Glacier

Microbial Ecology, Год журнала: 2008, Номер 57(1), С. 179 - 190

Опубликована: Июнь 17, 2008

Язык: Английский

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