Food selection by bacterivorous protists: insight from the analysis of the food vacuole content by means of fluorescence in situ hybridization.


:A modified fluorescence in situ hybridization (FISH) method was used to analyze bacterial prey composition in protistan food vacuoles in both laboratory and natural populations. Under laboratory conditions, we exposed two bacterial strains (affiliated with beta- and gamma-Proteobacteria -- Aeromonas hydrophila and Pseudomonas fluorescens, respectively) to grazing by three protists: the flagellates Bodo saltans and Goniomonas sp., and the ciliate Cyclidium glaucoma. Both flagellate species preferably ingested A. hydrophila over P. fluorescens, while C. glaucoma showed no clear preferences. Differences were found in the digestion of bacterial prey with B. saltans digesting significantly faster P. fluorescens compared to two other protists. The field study was conducted in a reservoir as part of a larger experiment. We monitored changes in the bacterial prey composition available compared to the bacteria ingested in flagellate food vacuoles. Bacteria detected by probe HGC69a (Actinobacteria) and R-BT065 were negatively selected by flagellates. Bacteria detected by probe CF319a were initially positively selected but along with a temporal shift in bacterial cell size, this trend changed to negative selection during the experiment. Overall, our analysis of protistan food vacuole content indicated marked effects of flagellate prey selectivity on bacterioplankton community composition.


FEMS Microbiol Ecol


Jezbera J,Hornák K,Simek K




Has Abstract


2005-05-01 00:00:00














  • Reassessing PCR primers targeting nirS, nirK and nosZ genes for community surveys of denitrifying bacteria with DGGE.

    abstract::We re-evaluated PCR primers targeting nirS, nirK and nosZ genes for denaturing gradient gel electrophoresis as a tool to survey denitrifying community composition in environmental samples. New primers for both nirS and nosZ were combined with existing primers, while for nirK the previously published F1aCu:R3Cu set was...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Throbäck IN,Enwall K,Jarvis A,Hallin S

    更新日期:2004-09-01 00:00:00

  • Siderophore-mediated cooperation and virulence in Pseudomonas aeruginosa.

    abstract::Why should organisms cooperate with each other? Helping close relatives that are likely to share the same genes (kin selection) is one important explanation that is likely to apply across taxa. The production of metabolically costly extracellular iron-scavenging molecules (siderophores) by microorganisms is a cooperat...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章,评审


    authors: Buckling A,Harrison F,Vos M,Brockhurst MA,Gardner A,West SA,Griffin A

    更新日期:2007-11-01 00:00:00

  • Ice formation and growth shape bacterial community structure in Baltic Sea drift ice.

    abstract::Drift ice, open water and under-ice water bacterial communities covering several developmental stages from open water to thick ice were studied in the northern Baltic Sea. The bacterial communities were assessed with 16S rRNA gene terminal-restriction fragment length polymorphism and cloning, together with bacterial a...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Eronen-Rasimus E,Lyra C,Rintala JM,Jürgens K,Ikonen V,Kaartokallio H

    更新日期:2015-02-01 00:00:00

  • Increased growth and pigment content of Chromera velia in mixotrophic culture.

    abstract::The alveolate microalga Chromera velia is an evolutionarily significant organism, representing the closest photosynthetic relative of the parasitic Apicomplexa. Chromera velia has been detected in and isolated from several stony corals and can be readily cultured in vitro under strictly autotrophic conditions. However...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Foster C,Portman N,Chen M,Šlapeta J

    更新日期:2014-04-01 00:00:00

  • An improved electroelution method for separation of DNA from humic substances in marine sediment DNA extracts.

    abstract::We present a method for the rapid and simple extraction of DNA from marine sediments using electroelution. It effectively separates DNA from compounds, including humic substances, that interfere with subsequent DNA quantification and amplification. After extraction of the DNA from the sediment into an aqueous solution...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Kallmeyer J,Smith DC

    更新日期:2009-07-01 00:00:00

  • Different diversity-functioning relationship in lake and stream bacterial communities.

    abstract::Biodiversity patterns have been successfully linked to many ecosystem functions, and microbial communities have been suspected to harbour a large amount of functionally redundant taxa. We manipulated the diversity of stream and lake water column bacterial communities and investigated how the reduction in diversity aff...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Ylla I,Peter H,Romaní AM,Tranvik LJ

    更新日期:2013-07-01 00:00:00

  • Genomic characterisation of environmental Pseudomonas aeruginosa isolated from dental unit waterlines revealed the insertion sequence ISPa11 as a chaotropic element.

    abstract::The bacterium Pseudomonas aeruginosa is well known to have a remarkable adaptive capacity allowing it to colonise many environments. A recent study on environmental isolates from dental unit waterlines (DUWLs) hinted at a genetic clustering into two groups. Isolates from one of these groups, named cluster III, were sh...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Vincent AT,Freschi L,Jeukens J,Kukavica-Ibrulj I,Emond-Rheault JG,Leduc A,Boyle B,Jean-Pierre F,Groleau MC,Déziel E,Barbeau J,Charette SJ,Levesque RC

    更新日期:2017-09-01 00:00:00

  • Drivers of richness and community composition of fungal endophytes of tree seeds.

    abstract::Recent studies revealed a high diversity of fungal endophytes in traded tree seeds, including potential plant pathogens. The factors determining richness and composition of seed mycobiomes are poorly understood, but might be an important determinant for tree health. We assessed the relative impact of host identity, si...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Franić I,Eschen R,Allan E,Hartmann M,Schneider S,Prospero S

    更新日期:2020-09-01 00:00:00

  • Effects of autochthonous microbial community on the die-off of fecal indicators in tropical beach sand.

    abstract::The recently observed high levels of fecal indicators in beach sand confound beach water monitoring efforts. The high levels of fecal indicators may be caused by the loss or the reduced activities of common environmental stresses controlling die-off in the sand. Microcosm experiments were conducted to compare the effe...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Feng F,Goto D,Yan T

    更新日期:2010-10-01 00:00:00

  • Genomic characterization of Dehalococcoides mccartyi strain 11a5 reveals a circular extrachromosomal genetic element and a new tetrachloroethene reductive dehalogenase gene.

    abstract::Dehalococcoides mccartyi exhibits versatile capabilities to respire halogenated compounds under anaerobic conditions. In this study, we report the assembly and annotation of the complete genome of a chloroethene dechlorinating D. mccartyi strain 11a5. Bearing a 1461 973 base-pair chromosome, strain 11a5 distinguishes ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Zhao S,Ding C,He J

    更新日期:2017-04-01 00:00:00

  • Salinity as a structuring factor for the composition and performance of bacterioplankton degrading riverine DOC.

    abstract::Abstract The impact of salinity on the composition and functional performance (biomass production, growth efficiency and growth rates) of bacterial communities was investigated using batch cultures growing on dissolved organic carbon from a river draining into the Northern Baltic Sea. The cultures were adjusted to riv...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Langenheder S,Kisand V,Wikner J,Tranvik LJ

    更新日期:2003-07-01 00:00:00

  • Soil microbial composition varies in response to coffee agroecosystem management.

    abstract::Soil microbes are essential to the continued productivity of sustainably managed agroecosystems. In shade coffee plantations, the relationship between soil microbial composition, soil nutrient availability and coffee productivity have been demonstrated, but the effects of management on the composition of the soil micr...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Jurburg SD,Shek KL,McGuire K

    更新日期:2020-09-01 00:00:00

  • The influence of bacteria-dominated diets on Daphnia magna somatic growth, reproduction, and lipid composition.

    abstract::We explored how dietary bacteria affect the life history traits and biochemical composition of Daphnia magna, using three bacteria taxa with very different lipid composition. Our objectives were to (1) examine whether and how bacteria-dominated diets affect Daphnia survival, growth, and fecundity, (2) see whether bact...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Taipale SJ,Brett MT,Pulkkinen K,Kainz MJ

    更新日期:2012-10-01 00:00:00

  • Growth and chemosensory behavior of sulfate-reducing bacteria in oxygen-sulfide gradients.

    abstract::Growth and chemotactic behavior in oxic-anoxic gradients were studied with two freshwater and four marine strains of sulfate-reducing bacteria related to the genera Desulfovibrio, Desulfomicrobium or Desulfobulbus. Cells were grown in oxygen-sulfide counter-gradients within tubes filled with agar-solidified medium. Th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Sass AM,Eschemann A,Kühl M,Thar R,Sass H,Cypionka H

    更新日期:2002-04-01 00:00:00

  • Dryland soil microbial communities display spatial biogeographic patterns associated with soil depth and soil parent material.

    abstract::Biological soil crusts (biocrusts) are common to drylands worldwide. We employed replicated, spatially nested sampling and 16S rRNA gene sequencing to describe the soil microbial communities in three soils derived from different parent material (sandstone, shale, and gypsum). For each soil type, two depths (biocrusts,...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Steven B,Gallegos-Graves LV,Belnap J,Kuske CR

    更新日期:2013-10-01 00:00:00

  • Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus).

    abstract::Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Xing M,Hou Z,Yuan J,Liu Y,Qu Y,Liu B

    更新日期:2013-12-01 00:00:00

  • Abiotic autumnal organic matter deposition and grazing disturbance effects on epilithic biofilm succession.

    abstract::Stream epilithic biofilm community assembly is influenced in part by environmental factors. Autumn leaf deposition is an annual resource subsidy to streams, but the physical effects of leaves settling on epilithic biofilms has not been investigated.We hypothesized that bacterial and microeukaryotic community assembly ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Lang JM,McEwan RW,Benbow ME

    更新日期:2015-06-01 00:00:00

  • Structure and activity of the denitrifying community in a maize-cropped field fertilized with composted pig manure or ammonium nitrate.

    abstract::One alternative to mineral fertilization is to use organic fertilizers. Our aim was to compare the impacts of 7-year applications of composted pig manure and ammonium nitrate on the structure and activity of the denitrifying community. Mineralization and organization of N, denitrification rates and N2O/N2 ratio were a...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Dambreville C,Hallet S,Nguyen C,Morvan T,Germon JC,Philippot L

    更新日期:2006-04-01 00:00:00

  • The vertical distribution of tetA and intI1 in a deep lake is rather due to sedimentation than to resuspension.

    abstract::Lakes are exposed to anthropogenic pollution including the release of allochthonous bacteria into their waters. Antibiotic resistance genes (ARGs) stabilize in bacterial communities of temperate lakes, and these environments act as long-term reservoirs of ARGs. Still, it is not clear if the stabilization of the ARGs i...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Di Cesare A,Eckert EM,Cottin C,Bouchez A,Callieri C,Cortesini M,Lami A,Corno G

    更新日期:2020-02-01 00:00:00

  • The soil microbial community of turf: linear and nonlinear changes of taxa and N-cycling gene abundances over a century-long turf development.

    abstract::Turf, consisting of closely spaced grasses and the subtending soil, is a unique ecosystem subject to intense management. Yet soil organic matter accumulates quickly and reaches equilibrium after 20 to 50 years. Resource availability is an important driver of species richness and theoretically their relationship is exp...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Chen H,Xia Q,Yang T,Bowman D,Shi W

    更新日期:2019-02-01 00:00:00

  • Bacterial community assembly in Atlantic cod larvae (Gadus morhua): contributions of ecological processes and metacommunity structure.

    abstract::Many studies demonstrate the importance of the commensal microbiomes to animal health and development. However, the initial community assembly process is poorly understood. It is unclear to what extent the hosts select for their commensal microbiota, whether stochastic processes contribute, and how environmental condi...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Vestrum RI,Attramadal KJK,Vadstein O,Gundersen MS,Bakke I

    更新日期:2020-09-01 00:00:00

  • Transcriptional response of Desulfatibacillum alkenivorans AK-01 to growth on alkanes: insights from RT-qPCR and microarray analyses.

    abstract::Microbial transformation of n-alkanes in anaerobic ecosystems plays a pivotal role in biogeochemical carbon cycling and bioremediation, but the requisite genetic machinery is not well elucidated.Desulfatibacillum alkenivorans AK-01 utilizes n-alkanes (C13 to C18) and contains two genomic loci encoding alkylsuccinate s...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Herath A,Wawrik B,Qin Y,Zhou J,Callaghan AV

    更新日期:2016-05-01 00:00:00

  • Abundance and community structure of ammonia-oxidizing Archaea and Bacteria in response to fertilization and mowing in a temperate steppe in Inner Mongolia.

    abstract::Based on a 6-year field trial in a temperate steppe in Inner Mongolia, we investigated the effects of nitrogen (N) and phosphorus (P) fertilization and mowing on the abundance and community compositions of ammonia-oxidizing Bacteria (AOB) and Archaea (AOA) upon early (May) and peak (August) plant growth using quantita...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Chen YL,Hu HW,Han HY,Du Y,Wan SQ,Xu ZW,Chen BD

    更新日期:2014-07-01 00:00:00

  • Salinity drives archaeal distribution patterns in high altitude lake sediments on the Tibetan Plateau.

    abstract::Archaeal communities and the factors regulating their diversity in high altitude lakes are poorly understood. Here, we provide the first high-throughput sequencing study of Archaea from Tibetan Plateau lake sediments. We analyzed twenty lake sediments from the world's highest and largest plateau and found diverse arch...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Liu Y,Priscu JC,Xiong J,Conrad R,Vick-Majors T,Chu H,Hou J

    更新日期:2016-03-01 00:00:00

  • Evaluation of terminal-restriction fragment length polymorphism analysis in contrasting marine environments.

    abstract::Terminal-restriction fragment length polymorphism (T-RFLP) analysis is widely used in microbial ecology studies. In the present study, T-RFLP analysis of PCR products digested by five restriction enzymes (AluI, HaeIII, MspI, Sau3AI and TaqI) was applied for 20 samples from three contrasting coastal environments to ass...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Zhang R,Thiyagarajan V,Qian PY

    更新日期:2008-07-01 00:00:00

  • Three types of phenol and p-cresol catabolism in phenol- and p-cresol-degrading bacteria isolated from river water continuously polluted with phenolic compounds.

    abstract::A total of 39 phenol- and p-cresol-degraders isolated from the river water continuously polluted with phenolic compounds of oil shale leachate were studied. Species identification by BIOLOG GN analysis revealed 21 strains of Pseudomonas fluorescens (4, 8 and 9 of biotypes A, C and G, respectively), 12 of Pseudomonas m...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Heinaru E,Truu J,Stottmeister U,Heinaru A

    更新日期:2000-03-01 00:00:00

  • The enrichment of an alkaliphilic biofilm consortia capable of the anaerobic degradation of isosaccharinic acid from cellulosic materials incubated within an anthropogenic, hyperalkaline environment.

    abstract::Anthropogenic hyperalkaline sites provide an environment that is analogous to proposed cementitious geological disposal facilities (GDF) for radioactive waste. Under anoxic, alkaline conditions cellulosic wastes will hydrolyze to a range of cellulose degradation products (CDP) dominated by isosaccharinic acids (ISA). ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Charles CJ,Rout SP,Garratt EJ,Patel K,Laws AP,Humphreys PN

    更新日期:2015-08-01 00:00:00

  • In vitro suppression of fungi caused by combinations of apparently non-antagonistic soil bacteria.

    abstract::We hypothesized that apparently non-antagonistic soil bacteria may contribute to suppression of fungi during competitive interactions with other bacteria. Four soil bacteria (Brevundimonas sp., Luteibacter sp., Pedobacter sp. and Pseudomonas sp.) that exhibited little or no visible antifungal activity on different aga...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: de Boer W,Wagenaar AM,Klein Gunnewiek PJ,van Veen JA

    更新日期:2007-01-01 00:00:00

  • Specialized microbiome of the cave-dwelling sponge Plakina kanaky (Porifera, Homoscleromorpha).

    abstract::The recent description of the polychromatic sponge Plakina kanaky revealed original microsymbionts, with some morphotypes recorded for the first time in Homoscleromorpha and others never before observed in other sponge groups. Illumina 16S amplicon sequencing was used to characterize this microbial community by compar...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Ruiz C,Villegas-Plazas M,Thomas OP,Junca H,Pérez T

    更新日期:2020-04-01 00:00:00

  • Characterization of methanogenic Archaea in the leachate of a closed municipal solid waste landfill.

    abstract::Cultivation-independent molecular approaches were used to investigate the phylogenetic composition of Archaea and the relative abundance of phylogenetically defined groups of methanogens in the leachate of a closed municipal solid waste landfill. Cloning and phylogenetic analysis of archaeal 16S rRNA gene sequences (1...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章


    authors: Huang LN,Chen YQ,Zhou H,Luo S,Lan CY,Qu LH

    更新日期:2003-11-01 00:00:00