Microbiota and Host Nutrition across Plant and Animal Kingdoms

Cell Host & Microbe, Journal Year: 2015, Volume and Issue: 17(5), P. 603 - 616

Published: May 1, 2015

Language: Английский

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Geobacter

Advances in microbial physiology/Advances in Microbial Physiology, Journal Year: 2011, Volume and Issue: unknown, P. 1 - 100

Published: Jan. 1, 2011

Language: Английский

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Revisiting life strategy concepts in environmental microbial ecology

FEMS Microbiology Ecology, Journal Year: 2017, Volume and Issue: unknown, P. fix006 - fix006

Published: Jan. 22, 2017

Microorganisms are physiologically diverse, possessing disparate genomic features and mechanisms for adaptation (functional traits), which reflect on their associated life strategies determine at least to some extent prevalence distribution in the environment. Unlike animals plants, there is an unprecedented diversity intractable metabolic versatility among bacteria, making classification or grouping these microorganisms based functional traits as has been done animal plant ecology challenging. Nevertheless, representative pure cultures, microbial distinguishing different had proposed, focus of previous reviews. In environment, however, vast majority naturally occurring have yet be isolated, restricting association broad phylogenetic groups and/or physiological characteristics. Here, we reviewed literature how strategy concepts (i.e. copio- oligotrophic strategists, competitor-stress tolerator-ruderals framework) applied complex communities. Because scarcity direct empirical evidence elucidating communities, rely heavily observational studies determining response (a)biotic cues (e.g. resource availability) infer strategies. Although our parallels were drawn from fungal community. Our search showed inconsistency community proposed copiotrophic- oligotrophic-associated (phyla level) changing environmental conditions. This suggests that tracking finer taxonomic resolution family level lower) may more effective capture changes edaphic factors exert a stronger effect response. We discuss limitations provide recommendations future research applying studies.

Language: Английский

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Microbial Ecology of Methanogens and Methanotrophs

Advances in agronomy, Journal Year: 2007, Volume and Issue: unknown, P. 1 - 63

Published: Jan. 1, 2007

Language: Английский

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The Planctomycetes, Verrucomicrobia, Chlamydiae and sister phyla comprise a superphylum with biotechnological and medical relevance

Current Opinion in Biotechnology, Journal Year: 2006, Volume and Issue: 17(3), P. 241 - 249

Published: May 16, 2006

Language: Английский

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Ammonia‐oxidizing archaea: important players in paddy rhizosphere soil?

Environmental Microbiology, Journal Year: 2008, Volume and Issue: 10(8), P. 1978 - 1987

Published: April 22, 2008

The diversity (richness and community composition) of ammonia-oxidizing archaea (AOA) bacteria (AOB) in paddy soil with different nitrogen (N) fertilizer amendments for 5 weeks were investigated using quantitative real-time polymerase chain reaction, denaturing gradient gel electrophoresis (DGGE) jand clone library analysis based on the ammonia monooxygenase alpha-subunit (amoA) gene. Ammonia-oxidizing predominated among prokaryotes soil, AOA:AOB DNA-targeted amoA gene ratios ranged from 1.2 to 69.3. more abundant rhizosphere than bulk soil. Rice cultivation led greater abundance AOA AOB copies differences composition. These results show that is dominant this study, we assume influenced by exudation rice root (e.g. oxygen, carbon dioxide) AOB.

Language: Английский

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Advances in the use of terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes to characterize microbial communities

Applied Microbiology and Biotechnology, Journal Year: 2008, Volume and Issue: 80(3), P. 365 - 380

Published: July 21, 2008

Language: Английский

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Effects of organic–inorganic compound fertilizer with reduced chemical fertilizer application on crop yields, soil biological activity and bacterial community structure in a rice–wheat cropping system

Applied Soil Ecology, Journal Year: 2015, Volume and Issue: 99, P. 1 - 12

Published: Nov. 28, 2015

Language: Английский

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Metatranscriptomic Evidence for Direct Interspecies Electron Transfer between Geobacter and Methanothrix Species in Methanogenic Rice Paddy Soils

Applied and Environmental Microbiology, Journal Year: 2017, Volume and Issue: 83(9)

Published: March 4, 2017

ABSTRACT The possibility that Methanothrix (formerly Methanosaeta ) and Geobacter species cooperate via direct interspecies electron transfer (DIET) in terrestrial methanogenic environments was investigated rice paddy soils. Genes with high sequence similarity to the gene for PilA pilin monomer of electrically conductive pili (e-pili) sulfurreducens accounted over half sequences metagenomic libraries 42% mRNA transcripts RNA sequencing (RNA-seq) libraries. This abundance e-pilin genes is significant because e-pili can serve as conduits DIET. Most were affiliated species, but most closely related putative from genera such Desulfobacterium , Deferribacter Geoalkalibacter Desulfobacula also detected. Approximately 17% all metatranscriptomic bacterial clustered finding spp. actively transcribing growth-related indicated they metabolically active coding among highly transcribed genes. In addition, homologs encoding OmcS, a c -type cytochrome associated G. required DIET, expressed soils enzymes involved reduction carbon dioxide methane. DIET only donor known support CO 2 . Thus, these results are consistent model which providing electrons methane production through electrical connections e-pili. IMPORTANCE some important microbial contributors global production, surprisingly little about their physiology ecology. source it demonstrates contribution makes may extend beyond conversion acetate Furthermore, defined coculture studies have suggested when receive energy grow faster than sole source. growth metabolism be more robust generally considered. suggest reason repeatedly found microorganisms syntrophically cooperation spp., possibly other methanogens,

Language: Английский

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Direct interspecies electron transfer accelerates syntrophic oxidation of butyrate in paddy soil enrichments

Environmental Microbiology, Journal Year: 2014, Volume and Issue: 17(5), P. 1533 - 1547

Published: July 25, 2014

Summary Syntrophic interaction occurs during anaerobic fermentation of organic substances forming methane as the final product. H 2 and formate are known to serve electron carriers in this process. Recently, it has been shown that direct interspecies transfer ( DIET ) for syntrophic CH 4 production from ethanol acetate. Here, we constructed paddy soil enrichments determine involvement butyrate oxidation production. The results showed was significantly accelerated presence nano Fe 3 O all continuous transfers. This acceleration increased with increase concentration but dismissed when coated silica insulated mineral electrical conduction. Nano particles were found closely attached cell surfaces different morphology, thus bridging connections. Molecular approaches, including DNA ‐based stable isotope probing, revealed bacterial S yntrophomonadaceae G eobacteraceae , archaeal M ethanosarcinaceae ethanocellales ethanobacteriales involved Among them, growth strictly relied on its conductivity particular. Other organisms, except present regardless amendment. Collectively, our study demonstrated ‐facilitated occurred butyrate, eobacter species played key role process enrichments.

Language: Английский

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