Effects of Secondary Plant Metabolites on Microbial Populations: Changes in Community Structure and Metabolic Activity in Contaminated Environments

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Effects of Secondary Plant Metabolites on Microbial Populations: Changes in Community Structure and Metabolic Activity in Contaminated Environments is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

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P356DOI10.3390/IJMS17081205
P3181OpenCitations bibliographic resource ID4231971
P932PMC publication ID5000603
P698PubMed publication ID27483244

P50authorTomas MacekQ54852007
Ondrej UhlikQ56635677
P2093author name stringLucie Musilova
Jakub Ridl
Marketa Polivkova
P2860cites workUse of a lux-marked rhizobacterium as a biosensor to assess changes in rhizosphere C flow due to pollutant stressQ73138966
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Flagella-driven chemotaxis towards exudate components is an important trait for tomato root colonization by Pseudomonas fluorescensQ78492024
Novel approach using substrate-mediated radiolabelling of RNA to link metabolic function with the structure of microbial communitiesQ80523376
Technical note monitoring native vegetation on a dumpsite of PCB-contaminated soilQ80624160
Carbon deposition in soil rhizosphere following amendments with compost and its soluble fractions, as evaluated by combined soil-plant rhizobox and reporter gene systemsQ81924034
Actinomycetes and Lignin DegradationQ82856887
Pyochelin, a siderophore of Pseudomonas aeruginosa: physicochemical characterization of the iron(III), copper(II) and zinc(II) complexesQ83287736
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Plant secondary metabolite-induced shifts in bacterial community structure and degradative ability in contaminated soilQ85723807
Chemical intervention in bacterial lignin degradation pathways: Development of selective inhibitors for intradiol and extradiol catechol dioxygenasesQ87328839
The rhizosphere revisited: root microbiomicsQ21129210
Rhodococcus erythropolis DCL14 contains a novel degradation pathway for limoneneQ24550564
Regulation of manganese peroxidase gene transcription by hydrogen peroxide, chemical stress, and molecular oxygenQ24674623
The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouseQ24679239
Flavonoid biosynthesis. A colorful model for genetics, biochemistry, cell biology, and biotechnologyQ24679382
Applications of Fourier Transform Ion Cyclotron Resonance (FT-ICR) and Orbitrap Based High Resolution Mass Spectrometry in Metabolomics and LipidomicsQ26745581
Recent Developments in Using Advanced Sequencing Technologies for the Genomic Studies of Lignin and Cellulose Degrading MicroorganismsQ26765356
Signaling in the phytomicrobiome: breadth and potentialQ26781207
Stable isotope probing in the metagenomics era: a bridge towards improved bioremediationQ26827562
Transparent soil for imaging the rhizosphereQ27320875
Sequencing technologies - the next generationQ27860568
Prevention and therapy of cancer by dietary monoterpenesQ28139063
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The shikimate pathway and aromatic amino Acid biosynthesis in plantsQ28265882
Quantitative divergence of the bacterial root microbiota in Arabidopsis thaliana relativesQ28660491
Metagenomics: application of genomics to uncultured microorganismsQ29617480
Engineering root exudation of Lotus toward the production of two novel carbon compounds leads to the selection of distinct microbial populations in the rhizosphereQ44982956
Biodegradation of lindane by Pleurotus ostreatus via central composite design.Q45231546
Isopropylbenzene (cumene)--a new substrate for the isolation of trichloroethene-degrading bacteriaQ45274400
Plant exudates promote PCB degradation by a rhodococcal rhizobacteria.Q45327952
Design and initial performance of PlanTIS: a high-resolution positron emission tomograph for plants.Q45363216
Biotransformations of (+/-)-geosmin by terpene-degrading bacteria.Q45939172
Bioremediation of polychlorinated biphenyl-contaminated soil using carvone and surfactant-grown bacteria.Q46003396
Repeated application of carvone-induced bacteria to enhance biodegradation of polychlorinated biphenyls in soil.Q46013620
Improved Cytoplasmic pH Regulation, Increased Lactate Efflux, and Reduced Cytoplasmic Lactate Levels Are Biochemical Traits Expressed in Root Tips of Whole Maize Seedlings Acclimated to a Low-Oxygen EnvironmentQ46133031
Concentrations of foliar quercetin in natural populations of white birch (Betula pubescens) increase with latitudeQ46301153
Biogenic volatile organic compounds as a potential stimulator for organic contaminant degradation by soil microorganismsQ46344846
Biostimulation of PAH degradation with plants containing high concentrations of linoleic acidQ46393538
Degradation of PAHs by ligninolytic enzymes of Irpex lacteus.Q46402086
Hydroxy-PCBs, methoxy-PCBs and hydroxy-methoxy-PCBs: metabolites of polychlorinated biphenyls formed in vitro by tobacco cells.Q46406177
Adaptation of Rhodococcus erythropolis DCL14 to growth on n-alkanes, alcohols and terpenes.Q46459437
Benzo[a]pyrene co-metabolism in the presence of plant root extracts and exudates: Implications for phytoremediationQ46464341
Changes in rhizosphere bacterial gene expression following glyphosate treatmentQ46592132
Biphenyl-utilizing bacteria and their functional genes in a pine root zone contaminated with polychlorinated biphenyls (PCBs).Q46878662
Breakdown products on metabolic pathway of degradation of benz[a]anthracene by a ligninolytic fungus.Q46887362
Identification of active methylotroph populations in an acidic forest soil by stable-isotope probingQ48287891
Long-term Effects of Nutrient Addition and Phytoremediation on Diesel and Crude Oil Contaminated Soils in subarctic AlaskaQ37540718
Stimulation of nitrogen removal in the rhizosphere of aquatic duckweed by root exudate components.Q37592051
Bioconversion of R-(+)-limonene to perillic acid by the yeast Yarrowia lipolyticaQ37644194
Rhizosphere microbiome assemblage is affected by plant developmentQ37650428
Microbial degradation of lignin: how a bulky recalcitrant polymer is efficiently recycled in nature and how we can take advantage of thisQ37831986
Targeted metagenomics: a high-resolution metagenomics approach for specific gene clusters in complex microbial communitiesQ37848918
Glutathione in plants: an integrated overview.Q37903382
Fungal biodegradation and enzymatic modification of lignin.Q37942032
New trends in fluorescence in situ hybridization for identification and functional analyses of microbesQ37955523
Whole-cell fluorescent biosensors for bioavailability and biodegradation of polychlorinated biphenyls.Q37972130
Role of proline under changing environments: a reviewQ38040983
Xenomic networks variability and adaptation traits in wood decaying fungiQ38070932
Soil abiotic factors influence interactions between belowground herbivores and plant rootsQ38090606
Metaproteomics to unravel major microbial players in leaf litter and soil environments: challenges and perspectives.Q38124844
The role of root exuded low molecular weight organic anions in facilitating petroleum hydrocarbon degradation: current knowledge and future directionsQ38169533
Exploring bacterial lignin degradationQ38208091
Challenges and opportunities for quantifying roots and rhizosphere interactions through imaging and image analysis.Q38248319
In situ aerobic cometabolism of chlorinated solvents: a reviewQ38259228
Versatile transcription of biphenyl catabolic bph operon in Pseudomonas pseudoalcaligenes KF707.Q38310463
The holistic rhizosphere: integrating zones, processes, and semantics in the soil influenced by rootsQ38394761
Biodegradation: Updating the concepts of control for microbial cleanup in contaminated aquifersQ38497761
Bioconversion of limonene to increased concentrations of perillic acid by Pseudomonas putida GS1 in a fed-batch reactorQ38497832
New Methods To Unravel Rhizosphere ProcessesQ38699707
Stable isotope probing of carbon flow in the plant holobiontQ38791067
Changes in crested wheatgrass root exudation caused by flood, drought, and nutrient stressQ39064302
Mapping of sugar and amino acid availability in soil around roots with bacterial sensors of sucrose and tryptophanQ39482195
Bulk and rhizosphere soil bacterial communities studied by denaturing gradient gel electrophoresis: plant-dependent enrichment and seasonal shifts revealedQ39492924
Recovering complete plant root system architectures from soil via X-ray μ-Computed TomographyQ39570548
Plants Rather than Mineral Fertilization Shape Microbial Community Structure and Functional Potential in Legacy Contaminated SoilQ39572457
RooTrak: automated recovery of three-dimensional plant root architecture in soil from x-ray microcomputed tomography images using visual trackingQ39673160
BSD: the Biodegradative Strain DatabaseQ39790274
Degradation of polychlorinated biphenyl mixtures (Aroclors 1242, 1254, and 1260) by the white rot fungus Phanerochaete chrysosporium as evidenced by congener-specific analysis.Q39797962
Availability of iron to Pseudomonas fluorescens in rhizosphere and bulk soil evaluated with an ice nucleation reporter gene.Q39801336
Plant compounds that induce polychlorinated biphenyl biodegradation by Arthrobacter sp. strain B1B.Q39802135
Lignin peroxidase gene family of Phanerochaete chrysosporium: complex regulation by carbon and nitrogen limitation and identification of a second dimorphic chromosomeQ39935574
Cloning of a gene cluster encoding biphenyl and chlorobiphenyl degradation in Pseudomonas pseudoalcaligenesQ39965430
Quantitative 3D Analysis of Plant Roots Growing in Soil Using Magnetic Resonance ImagingQ40146759
Recent advances on the molecular genetics of ligninolytic fungiQ41492503
Induction of aromatic ring: cleavage dioxygenases in Stenotrophomonas maltophilia strain KB2 in cometabolic systemsQ41904184
The glutathione-deficient mutant pad2-1 accumulates lower amounts of glucosinolates and is more susceptible to the insect herbivore Spodoptera littoralisQ42029316
Disentangling who is who during rhizosphere acidification in root interactions: combining fluorescence with optode techniques.Q42119993
Sensitive whole-cell biosensor suitable for detecting a variety of N-acyl homoserine lactones in intact rhizosphere microbial communitiesQ42432778
Molecular cloning and functional characterization of the genes encoding benzoate and p-hydroxybenzoate degradation by the halophilic Chromohalobacter sp. strain HS-2.Q43024068
In vivo and in vitro polycyclic aromatic hydrocarbons degradation by Lentinus (Panus) tigrinus CBS 577.79.Q43200058
Concentration-dependent activity of antibiotics in natural environmentsQ43245583
Enhanced biotransformation of TCE using plant terpenoids in contaminated groundwater.Q43258221
Enzyme activities during degradation of polycyclic aromatic hydrocarbons by white rot fungus Phanerochaete chrysosporium in soilsQ43276923
The effect of terpenes on the biodegradation of polychlorinated biphenyls by Pseudomonas stutzeriQ43729939
Impact of the plant rhizosphere and augmentation on remediation of polychlorinated biphenyl contaminated soilQ43852480
Root turnover: an important source of microbial substrates in rhizosphere remediation of recalcitrant contaminantsQ43985218
Ability of bacterial biphenyl dioxygenases from Burkholderia sp. LB400 and Comamonas testosteroni B-356 to catalyse oxygenation of ortho-hydroxychlorobiphenyls formed from PCBs by plants.Q44614544
Effect of root-derived substrates on the expression of nah-lux genes in Pseudomonas fluorescens HK44: implications for PAH biodegradation in the rhizosphereQ44837530
Biphenyl-metabolizing bacteria in the rhizosphere of horseradish and bulk soil contaminated by polychlorinated biphenyls as revealed by stable isotope probingQ30491111
Quantitative imaging of rhizosphere pH and CO2 dynamics with planar optodesQ30541082
Belowground plant development measured with magnetic resonance imaging (MRI): exploiting the potential for non-invasive trait quantification using sugar beet as a proxyQ30587055
Direct comparison of MRI and X-ray CT technologies for 3D imaging of root systems in soil: potential and challenges for root trait quantificationQ30910781
GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes.Q31137978
The contribution of species richness and composition to bacterial servicesQ33222231
Purification of a new manganese peroxidase of the white-rot fungus Irpex lacteus, and degradation of polycyclic aromatic hydrocarbons by the enzymeQ33226196
Fungal bioremediation of the creosote-contaminated soil: influence of Pleurotus ostreatus and Irpex lacteus on polycyclic aromatic hydrocarbons removal and soil microbial community composition in the laboratory-scale studyQ33368324
Selective progressive response of soil microbial community to wild oat rootsQ33384110
When metagenomics meets stable-isotope probing: progress and perspectivesQ33536929
Metagenomic analysis of the rhizosphere soil microbiome with respect to phytic acid utilizationQ33805734
The natural functions of secondary metabolites.Q33921955
Matrix-assisted laser desorption ionization (MALDI)-time of flight mass spectrometry- and MALDI biotyper-based identification of cultured biphenyl-metabolizing bacteria from contaminated horseradish rhizosphere soilQ33984597
Selection of specific endophytic bacterial genotypes by plants in response to soil contaminationQ33989580
Structure and functions of the bacterial microbiota of plantsQ34035373
Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural productsQ34067905
Screening for basidiomycetous fungi capable of degrading 2,7-dichlorodibenzo-p-dioxinQ34143389
Assessing the potential for rhizoremediation of PCB contaminated soils in northern regions using native tree species.Q34186234
Perillyl alcohol dehydrogenase from a soil pseudomonadQ34205624
Two novel bacterial biosensors for detection of nitrate availability in the rhizosphere.Q34232799
Biodegradation of PCBs by ligninolytic fungi and characterization of the degradation products.Q34271919
Microbial metaproteomics: identifying the repertoire of proteins that microorganisms use to compete and cooperate in complex environmental communities.Q34282936
PHYTOREMEDIATION.Q34304476
Natural products and plant disease resistanceQ34311181
Transcriptomic profiling of Bacillus amyloliquefaciens FZB42 in response to maize root exudatesQ34312626
Identification of bacteria utilizing biphenyl, benzoate, and naphthalene in long-term contaminated soilQ34342232
Normal operating range of bacterial communities in soil used for potato croppingQ34503764
Polychlorinated biphenyl (PCB)-degrading bacteria associated with trees in a PCB-contaminated siteQ34570615
Chemotaxis is required for virulence and competitive fitness of the bacterial wilt pathogen Ralstonia solanacearumQ34696759
Metaproteomic analysis of ratoon sugarcane rhizospheric soilQ34775005
Comparative metatranscriptomics reveals kingdom level changes in the rhizosphere microbiome of plantsQ34830182
Microbial expression profiles in the rhizosphere of willows depend on soil contaminationQ34997843
Secondary plant metabolites in phytoremediation and biotransformationQ35082182
A MotN mutant of Ralstonia solanacearum is hypermotile and has reduced virulenceQ35096174
???Q60356866
Stable-isotope probing of nucleic acids: a window to the function of uncultured microorganismsQ35172620
Structure and function of the bacterial root microbiota in wild and domesticated barley.Q35185946
Functional soil microbiome: belowground solutions to an aboveground problemQ35212738
Abundance and diversity of functional genes involved in the degradation of aromatic hydrocarbons in Antarctic soils and sediments around Syowa StationQ35356463
Metabolism of 2,2'- and 3,3'-dihydroxybiphenyl by the biphenyl catabolic pathway of Comamonas testosteroni B-356Q35540088
Biodegradation of nitro-substituted explosives 2,4,6-trinitrotoluene, hexahydro-1,3,5-trinitro-1,3,5-triazine, and octahydro-1,3,5,7-tetranitro-1,3,5-tetrazocine by a phytosymbiotic Methylobacterium sp. associated with poplar tissues (Populus deltoiQ35540158
Exploitation of plants for the removal of organics in environmental remediationQ35555208
Rhizodeposition of nitrogen and carbon by mungbean (Vigna radiata L.) and its contribution to intercropped oats (Avena nuda L.).Q35589782
Optimizing Polychlorinated Biphenyl Degradation by Flavonoid-Induced Cells of the Rhizobacterium Rhodococcus erythropolis U23A.Q35602191
Fungal invasion of the rhizosphere microbiomeQ35646022
Root anatomical phenes predict root penetration ability and biomechanical properties in maize (Zea Mays).Q35666797
The tritrophic trinity: a source of pollutant-degrading enzymes and its implications for phytoremediationQ35804667
Genome sequence of the biocontrol strain Pseudomonas fluorescens F113.Q35805967
O2 dynamics in the rhizosphere of young rice plants (Oryza sativa L.) as studied by planar optodesQ35829659
Biphenyl dioxygenases: functional versatilities and directed evolutionQ35855080
Characterization of a cold-active and salt tolerant esterase identified by functional screening of Arctic metagenomic librariesQ35897314
Metabolomics in the Rhizosphere: Tapping into Belowground Chemical CommunicationQ35911296
The Soil-Borne SupremacyQ35916927
Remarkable ability of Pandoraea pnomenusa B356 biphenyl dioxygenase to metabolize simple flavonoidsQ35940792
Metabolism of Doubly para-Substituted Hydroxychlorobiphenyls by Bacterial Biphenyl DioxygenasesQ36000286
Utilising the synergy between plants and rhizosphere microorganisms to enhance breakdown of organic pollutants in the environmentQ36071503
The role of root exudates in rhizosphere interactions with plants and other organismsQ36466505
Biodegradation of mono-hydroxylated PCBs by Burkholderia xenovoransQ36669233
(11)C-PET imaging reveals transport dynamics and sectorial plasticity of oak phloem after girdling.Q36935338
Plant-derived natural products as sources of anti-quorum sensing compoundsQ36947996
Differential Impacts of Willow and Mineral Fertilizer on Bacterial Communities and Biodegradation in Diesel Fuel Oil-Contaminated SoilQ36957997
Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communitiesQ36966339
Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques.Q37139309
Early changes in apoplast composition associated with defence and disease in interactions between Phaseolus vulgaris and the halo blight pathogen Pseudomonas syringae Pv. phaseolicola.Q37261767
Hydroxylated polychlorinated biphenyls in the environment: sources, fate, and toxicitiesQ37265895
Regulation and function of root exudatesQ37368463
Plant species and soil type cooperatively shape the structure and function of microbial communities in the rhizosphereQ37401400
Phytoremediation: plant-endophyte partnerships take the challengeQ37425547
Transcriptional profiling of Gram-positive Arthrobacter in the phyllosphere: induction of pollutant degradation genes by natural plant phenolic compounds.Q51483277
Root colonization by Pseudomonas sp. DSMZ 13134 and impact on the indigenous rhizosphere bacterial community of barley.Q51625369
Production of substances by Medicago truncatula that affect bacterial quorum sensing.Q52100395
Bisphenol a degradation by bacteria isolated from river water.Q52547178
Induction and carbon catabolite repression of phenol degradation genes in Rhodococcus erythropolis and Rhodococcus jostii.Q53041294
Identification of DypB from Rhodococcus jostii RHA1 as a lignin peroxidase.Q53250896
Genetics and biochemistry of secondary metabolites in plants: an evolutionary perspectiveQ56016841
Rhizosphere interactions between microorganisms and plants govern iron and phosphorus acquisition along the root axis – model and research methodsQ56031237
Organic acids in the rhizosphere – a critical reviewQ56069273
The priming effect of organic matter: a question of microbial competition?Q56483632
Shifts in bacterial community structure associated with inputs of low molecular weight carbon compounds to soilQ56999210
Plant-driven selection of microbesQ57003525
Biodiversity and Plant Litter: Experimental Evidence Which Does Not Support the View That Enhanced Species Richness Improves Ecosystem FunctionQ57056276
Developing X-ray Computed Tomography to non-invasively image 3-D root systems architecture in soilQ57209429
Nitrogen fertilization affects bacteria utilizing plant-derived carbon in the rhizosphere of beech seedlingsQ57260041
Root exudation and rhizoplane bacterial abundance of barley (Hordeum vulgare L.) in relation to nitrogen fertilization and root growthQ57265146
Transcriptional response of Pseudomonas aeruginosa to a phosphate-deficient Lolium perenne rhizosphereQ57273459
Root growth dynamics inside and outside of soil biopores as affected by crop sequence determined with the profile wall methodQ58217551
Water limitation and plant inter-specific competition reduce rhizosphere-induced C decomposition and plant N uptakeQ58264974
Characterisation of antagonisticBacillusandPseudomonasstrains for biocontrol potential and suppression of damping-off and root rot diseasesQ58656158
Endophytic bacterial diversity in poplar trees growing on a BTEX-contaminated site: The characterisation of isolates with potential to enhance phytoremediationQ58797085
Visualisation of gradients in arsenic concentrations around individual roots of Zea mays L. using agar-immobilized bioreporter bacteriaQ58841391
Adaptation mechanisms of bacteria during the degradation of polychlorinated biphenyls in the presence of natural and synthetic terpenes as potential degradation inducersQ59258650
The Dynamics of Plant-Mediated Sediment Oxygenation in Spartina anglica Rhizospheres—a Planar Optode StudyQ59402130
In Situ Root System Architecture Extraction from Magnetic Resonance Imaging for Water Uptake ModelingQ59402690
Carbon flow in the rhizosphere: carbon trading at the soil–root interfaceQ60163696
Microbial utilization of rice root exudates: 13C labeling and PLFA compositionQ60355762
Estimation of rhizodeposition at field scale: upscaling of a 14C labeling studyQ60356170
Carbon allocation in grassland communities under drought stress followed by 14C pulse labelingQ60356229
Plant and mycorrhizal regulation of rhizodepositionQ60356847
The role of root exudates and allelochemicals in the rhizosphereQ60430571
Enhanced biotransformation of mononitrophenols by Stenotrophomonas maltophilia KB2 in the presence of aromatic compounds of plant originQ60631347
Quantitative Imaging of Infiltration, Root Growth, and Root Water Uptake via Neutron RadiographyQ61847607
Functional genomics analysis of plant growth-promoting rhizobacterial traits involved in rhizosphere competenceQ61983559
P275copyright licenseCreative Commons AttributionQ6905323
P6216copyright statuscopyrightedQ50423863
P433issue8
P407language of work or nameEnglishQ1860
P921main subjectplantQ756
soil microbiologyQ7554937
polychlorinated biphenylQ211171
bacteriaQ10876
environmental biodegradationQ70439700
soil pollutantsQ50430163
P577publication date2016-01-01
2016-07-29
P1433published inInternational Journal of Molecular SciencesQ3153277
P1476titleEffects of Secondary Plant Metabolites on Microbial Populations: Changes in Community Structure and Metabolic Activity in Contaminated Environments
P478volume17

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