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List of works by Jan Dirk van Elsas

A multi-substrate approach for functional metagenomics-based screening for (hemi)cellulases in two wheat straw-degrading microbial consortia unveils novel thermoalkaliphilic enzymes

scientific article

A novel inducible prophage from the mycosphere inhabitant Paraburkholderia terrae BS437.

scientific article published on 22 August 2017

A novel salt-tolerant chitobiosidase discovered by genetic screening of a metagenomic library derived from chitin-amended agricultural soil

scientific article published on 4 June 2015

A polyphasic approach for studying the interaction between Ralstonia solanacearum and potential control agents in the tomato phytosphere

scientific article published on 01 January 2002

A putative genomic island, PGI-1, in Ralstonia solanacearum biovar 2 revealed by subtractive hybridization

scientific article published on 14 May 2010

A ribosomal RNA gene intergenic spacer based PCR and DGGE fingerprinting method for the analysis of specific rhizobial communities in soil

scientific article published on 12 July 2005

Abundance and genetic diversity of nifH gene sequences in anthropogenically affected Brazilian mangrove sediments

scientific article

Adaptation and heterogeneity of Escherichia coli MC1000 growing in complex environments

scientific article published on 30 November 2012

Adaptative transcriptional response of Dietzia cinnamea P4 strain to sunlight simulator

scientific article published on 15 April 2020

Advantages of the metagenomic approach for soil exploration: reply from Vogel et al

scientific article published in 2009

Analysis of bacterial communities in soil by use of denaturing gradient gel electrophoresis and clone libraries, as influenced by different reverse primers

scientific article

Application of a novel Paenibacillus-specific PCR-DGGE method and sequence analysis to assess the diversity of Paenibacillus spp. in the maize rhizosphere

scientific article

Assessment of transformability of bacteria associated with tomato and potato plants

scientific article published in January 2007

Back to the Future of Soil Metagenomics

scientific article

Back to the basics: The need for ecophysiological insights to enhance our understanding of microbial behaviour in the rhizosphere

Bacterial - Fungal Interactions: ecology, mechanisms and challenges.

scientific article published on 19 February 2018

Bacterial Synergism in Lignocellulose Biomass Degradation - Complementary Roles of Degraders As Influenced by Complexity of the Carbon Source

scientific article published on 10 October 2017

Bacterial chitinolytic communities respond to chitin and pH alteration in soil

scientific article published on 26 October 2012

Bacterial communities in soil become sensitive to drought under intensive grazing

scientific article published on 17 October 2017

Bacterial genomes: habitat specificity and uncharted organisms

scientific article

Bacterial soil community in a Brazilian sugarcane field

article

Bacterial structure and characterization of plant growth promoting and oil degrading bacteria from the rhizospheres of mangrove plants

scientific article published in August 2011

Broadcast Spawning Coral Mussismilia hispida Can Vertically Transfer its Associated Bacterial Core

scientific article

Burkholderia humi sp. nov., Burkholderia choica sp. nov., Burkholderia telluris sp. nov., Burkholderia terrestris sp. nov. and Burkholderia udeis sp. nov.: Burkholderia glathei-like bacteria from soil and rhizosphere soil

scientific article

Burkholderia terrae BS001 migrates proficiently with diverse fungal hosts through soil and provides protection from antifungal agents

scientific article published on 11 November 2014

Characterisation of the effect of a simulated hydrocarbon spill on diazotrophs in mangrove sediment mesocosm

scientific article

Characterization of a collection of plasmid-containing bacteria isolated from an on-farm biopurification system used for pesticide removal

scientific article

Characterization of the Microbial Community Involved in the Suppression of Pythium aphanidermatum in Cucumber Grown on Rockwool.

scientific article

Characterization of three plant biomass-degrading microbial consortia by metagenomics- and metasecretomics-based approaches.

scientific article

Chemical and biological dispersants differently affect the bacterial communities of uncontaminated and oil-contaminated marine water

scientific article published on 14 October 2019

Chemotaxis and adherence to fungal surfaces are key components of the behavioral response of Burkholderia terrae BS001 to two selected soil fungi

scientific article published on 4 August 2016

Chitin amendment increases soil suppressiveness toward plant pathogens and modulates the actinobacterial and oxalobacteraceal communities in an experimental agricultural field

scientific article

Climate change affects key nitrogen-fixing bacterial populations on coral reefs

scientific article

Comparative Analysis of Bacterial Communities in a Potato Field as Determined by Pyrosequencing ⬇️

scientific article published on August 19, 2011

Comparative Genome Analysis of the Lignocellulose Degrading Bacteria Citrobacter freundii so4 and Sphingobacterium multivorum w15

scientific article published on 03 March 2020

Comparative genomics and transcriptomics analysis of experimentally evolved Escherichia coli MC1000 in complex environments

scientific article

Comparative genomics of the pIPO2/pSB102 family of environmental plasmids: sequence, evolution, and ecology of pTer331 isolated from Collimonas fungivorans Ter331.

scientific article

Comparison of deep-sea sediment microbial communities in the Eastern Mediterranean

scientific article

Compositional profile of α / β-hydrolase fold proteins in mangrove soil metagenomes: prevalence of epoxide hydrolases and haloalkane dehalogenases in oil-contaminated sites

scientific article

Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution.

scientific article

Cultivation-independent screening revealed hot spots of IncP-1, IncP-7 and IncP-9 plasmid occurrence in different environmental habitats

scientific article

Defining the eco-enzymological role of the fungal strain Coniochaeta sp. 2T2.1 in a tripartite lignocellulolytic microbial consortium

scientific article published on 26 November 2019

Deliberate introduction of invisible invaders: A critical appraisal of the impact of microbial inoculants on soil microbial communities

scientific article published on 25 June 2020

Delineation of a subgroup of the genus Paraburkholderia, including P. terrae DSM 17804T, P. hospita DSM 17164T and four soil-isolated fungiphiles, reveals remarkable genomic and ecological features - Proposal for the definition of a P. hospita speci

scientific article published on 18 February 2020

Denitrifying bacterial communities display different temporal fluctuation patterns across Dutch agricultural soils.

scientific article published on 12 June 2017

Different effects of transgenic maize and nontransgenic maize on nitrogen-transforming archaea and bacteria in tropical soils

scientific article

Different inocula produce distinctive microbial consortia with similar lignocellulose degradation capacity

scientific article

Different selective effects on rhizosphere bacteria exerted by genetically modified versus conventional potato lines.

scientific article published on 03 July 2013

Differential Response of Potato Toward Inoculation with Taxonomically Diverse Plant Growth Promoting Rhizobacteria

scientific article published on 17 February 2016

Differential stress resistance and metabolic traits underlie coexistence in a sympatrically evolved bacterial population

scientific article published on 21 July 2014

Disentangling mechanisms that mediate the balance between stochastic and deterministic processes in microbial succession

scientific article

Dispersal-competition tradeoff in microbiomes in the quest for land colonization.

scientific article

Diversity of endophytic bacterial populations and their interaction with Xylella fastidiosa in citrus plants

scientific article

Draft Genome Sequence of Bacillus mycoides M2E15, a Strain Isolated from the Endosphere of Potato

scientific article published on 25 February 2016

Draft Genome Sequence of Coniochaeta ligniaria NRRL 30616, a Lignocellulolytic Fungus for Bioabatement of Inhibitors in Plant Biomass Hydrolysates

scientific article published on 26 January 2017

Draft genome sequence of the soil bacterium Burkholderia terrae strain BS001, which interacts with fungal surface structures

scientific article published on August 2012

Draft genome sequences of three fungal-interactive Paraburkholderia terrae strains, BS007, BS110 and BS437.

scientific article published on 18 December 2017

Dynamics of bacterial community succession in a salt marsh chronosequence: evidences for temporal niche partitioning

scientific article

Dynamics of seed-borne rice endophytes on early plant growth stages

scientific article

Ecological Insights into the Dynamics of Plant Biomass-Degrading Microbial Consortia

scientific article

Ecological succession reveals potential signatures of marine-terrestrial transition in salt marsh fungal communities

scientific article published on 29 January 2016

Ecology of Bacillaceae

scientific article published on April 2015

Effect of DNA extraction method on the apparent microbial diversity of soil

scientific article

Effect of culture conditions on the performance of lignocellulose-degrading synthetic microbial consortia

scientific article published on 01 October 2021

Effect of the IncP-1β plasmid pHB44 on the population dynamics of Burkholderia terrae BS001 in the Lyophyllum sp. strain Karsten mycosphere under different iron conditions

scientific article published on 23 December 2015

Effects of agronomical measures on the microbial diversity of soils as related to the suppression of soil-borne plant pathogens

scientific article

Effects of plant genotype and growth stage on the betaproteobacterial communities associated with different potato cultivars in two fields.

scientific article

Effects of plant genotype and growth stage on the structure of bacterial communities associated with potato (Solanum tuberosum L.).

scientific article

Endophytic bacterial communities in three arctic plants from low arctic fell tundra are cold-adapted and host-plant specific ⬇️

scientific article published on August 29, 2012

Endophytic colonization of potato (Solanum tuberosum L.) by a novel competent bacterial endophyte, Pseudomonas putida strain P9, and its effect on associated bacterial communities

scientific article

Evaluation of soil bioremediation techniques in an aged diesel spill at the Antarctic Peninsula

scientific article published on 20 August 2015

Evidence for selective bacterial community structuring in the freshwater sponge Ephydatia fluviatilis

scientific article

Evolutionary History of Bacteriophages in the Genus Paraburkholderia.

scientific article

Exploration of hitherto-uncultured bacteria from the rhizosphere

scientific article published on 06 June 2009

Exploring bacterial functionality in mangrove sediments and its capability to overcome anthropogenic activity

scientific article published on 13 March 2019

Expressed protein profile of a Tectomicrobium and other microbial symbionts in the marine sponge Aplysina aerophoba as evidenced by metaproteomics

scientific article published in Scientific Reports

Fast identification of Escherichia coli in urinary tract infections using a virulence gene based PCR approach in a novel thermal cycler

scientific article published on 30 November 2019

Fluctuations in ammonia oxidizing communities across agricultural soils are driven by soil structure and pH ⬇️

scientific article published on March 2, 2012

Gene mobility in microbiomes of the mycosphere and mycorrhizosphere -role of plasmids and bacteriophages

scientific article published on 01 May 2019

Genetic and phenotypic diversity of Ralstonia solanacearum biovar 2 strains obtained from Dutch waterways

scientific article published on 4 December 2009

Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery

scientific article published on 23 September 2019

Genomics of high molecular weight plasmids isolated from an on-farm biopurification system

scientific article published on 20 June 2016

Genomics of pyrrolnitrin biosynthetic loci: evidence for conservation and whole-operon mobility within gram-negative bacteria

scientific article published on 12 September 2008

Halotolerant microbial consortia able to degrade highly recalcitrant plant biomass substrate

scientific article published on 3 February 2018

High incidence of acquiring methicillin-resistant Staphylococcus aureus in Brazilian children with Atopic Dermatitis and associated risk factors

scientific article published on 21 March 2019

Host Specificity for Bacterial, Archaeal and Fungal Communities Determined for High- and Low-Microbial Abundance Sponge Species in Two Genera

scientific article published on 20 December 2017

Impact of oil spills on coral reefs can be reduced by bioremediation using probiotic microbiota.

scientific article published on 14 December 2015

IncP-1 and PromA group plasmids are major providers of horizontal gene transfer capacities across bacteria in the mycosphere of different soil fungi.

scientific article published on 23 August 2014

IncP-1β Plasmids Are Important Carriers of Fitness Traits for Variovorax Species in the Mycosphere--Two Novel Plasmids, pHB44 and pBS64, with Differential Effects Unveiled

scientific article published on 28 December 2014

Inhibition of mushroom formation and induction of glycerol release-ecological strategies of Burkholderia terrae BS001 to create a hospitable niche at the fungus Lyophyllum sp. strain Karsten

scientific article published on 23 August 2012

Insight from the draft genome of Dietzia cinnamea P4 reveals mechanisms of survival in complex tropical soil habitats and biotechnology potential

scientific article published on 7 September 2011

Isolation and characterization of a β-propeller gene containing phosphobacterium Bacillus subtilis strain KPS-11 for growth promotion of potato (Solanum tuberosum L.).

scientific article published on 9 June 2015

Land use intensity controls actinobacterial community structure

scientific article

Legacy Effects on the Recovery of Soil Bacterial Communities from Extreme Temperature Perturbation

scientific article published on 25 September 2017

Mangrove bacterial diversity and the impact of oil contamination revealed by pyrosequencing: bacterial proxies for oil pollution

scientific article

Mangrove soil as a source for novel xylanase and amylase as determined by cultivation-dependent and cultivation-independent methods

scientific article published on 18 November 2019

Mechanisms that promote bacterial fitness in fungal-affected soil microhabitats

scientific article

Metasecretome analysis of a lignocellulolytic microbial consortium grown on wheat straw, xylan and xylose

scientific article published on December 2015

Metataxonomic profiling and prediction of functional behaviour of wheat straw degrading microbial consortia

scientific article

Microbial community networks

scientific article published in October 2008

Microbial community response to a simulated hydrocarbon spill in mangrove sediments

scientific article

Microbial diversity determines the invasion of soil by a bacterial pathogen

scientific article

Microbial indicators for soil quality

Microbial invasions: the process, patterns, and mechanisms

scientific article published on 9 September 2015

Migration of Paraburkholderia terrae BS001 Along Old Fungal Hyphae in Soil at Various pH Levels

scientific article published on 10 January 2018

Mining of unexplored habitats for novel chitinases--chiA as a helper gene proxy in metagenomics

scientific article published on 25 April 2012

Model plants for studying the interaction between Methylobacterium mesophilicum and Xylella fastidiosa

scientific article published on 01 May 2006

Molecular cloning, expression, and characterization of four novel thermo-alkaliphilic enzymes retrieved from a metagenomic library

scientific article

Molecular method to assess the diversity of Burkholderia species in environmental samples

scientific article

Multivariate analyses of Burkholderia species in soil: effect of crop and land use history

scientific article published on July 2004

Normal operating range of bacterial communities in soil used for potato cropping

scientific article

Novel multispecies microbial consortia involved in lignocellulose and 5-hydroxymethylfurfural bioconversion

scientific article

Optimized fluorescent proteins for the rhizosphere-associated bacterium Bacillus mycoides with endophytic and biocontrol agent potential

scientific article

Oxidative damage induced by H2O2 reveals SOS adaptive transcriptional response of Dietzia cinnamea strain P4

scientific article published on 21 March 2019

Paenibacillus brasilensis sp. nov., a novel nitrogen-fixing species isolated from the maize rhizosphere in Brazil

scientific article

Peanut allergy as a trigger for the deterioration of atopic dermatitis and precursor of staphylococcal and herpetic associated infections - case report

scientific article published on September 2015

Physical-chemical and microbiological changes in Cerrado Soil under differing sugarcane harvest management systems

scientific article (publication date: 8 August 2012)

Plants Assemble Species Specific Bacterial Communities from Common Core Taxa in Three Arcto-Alpine Climate Zones

scientific article

Plants impact structure and function of bacterial communities in Arctic soils

scientific article

Prevalence of streptomycin-resistance genes in bacterial populations in European habitats.

scientific article published in November 2002

Properties of bacterial endophytes and their proposed role in plant growth

scientific article

Ralstonia solanacearum ΔPGI-1 strain KZR-5 is affected in growth, response to cold stress and invasion of tomato ⬇️

scientific article published on 18 August 2010

Real-time PCR detection of Holophagae (Acidobacteria) and Verrucomicrobia subdivision 1 groups in bulk and leek (Allium porrum) rhizosphere soils

scientific article published on 27 August 2010

Reconstructing the Genetic Potential of the Microbially-Mediated Nitrogen Cycle in a Salt Marsh Ecosystem

scientific article

Resource pulses can alleviate the biodiversity-invasion relationship in soil microbial communities

scientific article published on April 2015

Response of the bacterial community in oil-contaminated marine water to the addition of chemical and biological dispersants

scientific article

Rhizosphere bacteria affected by transgenic potatoes with antibacterial activities compared with the effects of soil, wild-type potatoes, vegetation stage and pathogen exposure

scientific article published in May 2006

Rice root-associated bacteria: insights into community structures across 10 cultivars

scientific article

Role of flagella and type four pili in the co-migration of Burkholderia terrae BS001 with fungal hyphae through soil ⬇️

scientific article published on 7 June 2017

Root colonization and growth promotion of sunflower (Helianthus annuus L.) by phosphate solubilizing Enterobacter sp. Fs-11 ⬇️

scientific article published on June 20, 2012

Seasonal variations in the diversity and abundance of diazotrophic communities across soils

scientific article

Selection of Sphingomonadaceae at the base of Laccaria proxima and Russula exalbicans fruiting bodies

scientific article

Selection of bacterial populations in the mycosphere of Laccaria proxima: is type III secretion involved?

scientific article

Soil and cultivar type shape the bacterial community in the potato rhizosphere

scientific article

Soil-Derived Microbial Consortia Enriched with Different Plant Biomass Reveal Distinct Players Acting in Lignocellulose Degradation

scientific article published on 20 October 2015

Soil-specific limitations for access and analysis of soil microbial communities by metagenomics ⬇️

scientific article published on June 28, 2011

Spatial and temporal variation of archaeal, bacterial and fungal communities in agricultural soils

scientific article

Specific plasmid patterns and high rates of bacterial co-occurrence within the coral holobiont

scientific article published on 11 January 2018

Strong Regionality and Dominance of Anaerobic Bacterial Taxa Characterize Diazotrophic Bacterial Communities of the Arcto-Alpine Plant Species Oxyria digyna and Saxifraga oppositifolia

scientific article published on 13 October 2017

Structural characteristics and plant-beneficial effects of bacteria colonizing the shoots of field grown conventional and genetically modified T4-lysozyme producing potatoes

article

Structural diversity of microbial communities in arable soils of a heavily industrialised area determined by PCR-DGGE fingerprinting and FAME profiling

scientific article published in 2001

Succession of lignocellulolytic bacterial consortia bred anaerobically from lake sediment

scientific article published on 15 February 2016

Successional patterns of key genes and processes involved in the microbial nitrogen cycle in a salt marsh chronosequence

article

Survival of in the environment: fundamental and public health aspects

scientific article published in 2011

Survival of Escherichia coli in the environment: fundamental and public health aspects

scientific article

Survival of genetically marked Escherichia coli O157:H7 in soil as affected by soil microbial community shifts

scientific article

Sympatric metabolic diversification of experimentally evolved Escherichia coli in a complex environment

scientific article published on 10 July 2014

Temporal dynamics of abundance and composition of nitrogen-fixing communities across agricultural soils

scientific article

Temporal dynamics of microbial communities in the rhizosphere of two genetically modified (GM) maize hybrids in tropical agrosystems ⬇️

scientific article published on November 3, 2012

Temporal dynamics of the soil bacterial community following Bacillus invasion

scientific article published on 01 April 2022

TerraGenome: a consortium for the sequencing of a soil metagenome

scientific article published in 2009

The 'Neglected' Soil Virome - Potential Role and Impact

scientific article published on 3 January 2018

The Complete Sequences and Ecological Roles of Two IncP-1β Plasmids, pHB44 and pBS64, Isolated from the Mycosphere of Laccaria proxima

scientific article published on 21 June 2016

The Ecological Role of Type Three Secretion Systems in the Interaction of Bacteria with Fungi in Soil and Related Habitats Is Diverse and Context-Dependent

scientific article published on 31 January 2017

The Low-Temperature-Induced Viable-But-Nonculturable State Affects the Virulence of Ralstonia solanacearum Biovar 2.

scientific article

The Response of Paraburkholderia terrae Strains to Two Soil Fungi and the Potential Role of Oxalate.

scientific article published on 29 May 2018

The Role of Hydrophobicity and Surface Receptors at Hyphae of Lyophyllum sp. Strain Karsten in the Interaction with Burkholderia terrae BS001 - Implications for Interactions in Soil

scientific article published on 27 October 2016

The Selection Exerted by Oil Contamination on Mangrove Fungal Communities

scholarly article by Cristiane Cipola Fasanella et al published 6 May 2012 in Water, Air and Soil Pollution

The Significance of Mutualistic Phages for Bacterial Ecology and Evolution

scientific article published on 27 January 2016

The capacity to comigrate with Lyophyllum sp. strain Karsten through different soils is spread among several phylogenetic groups within the genus Burkholderia

scholarly article by R Nazir et al published July 2012 in Soil Biology and Biochemistry

The complete nucleotide sequence and environmental distribution of the cryptic, conjugative, broad-host-range plasmid pIPO2 isolated from bacteria of the wheat rhizosphere

scientific article

The ecology of transfer of mobile genetic elements

scientific article

The first acidobacterial laccase-like multicopper oxidase revealed by metagenomics shows high salt and thermo-tolerance

scientific article

The freshwater sponge Ephydatia fluviatilis harbours diverse Pseudomonas species (Gammaproteobacteria, Pseudomonadales) with broad-spectrum antimicrobial activity

scientific article published in 2014

The genome of the fungal-interactive soil bacterium Burkholderia terrae BS001-a plethora of outstanding interactive capabilities unveiled

scientific article

The great screen anomaly—a new frontier in product discovery through functional metagenomics ⬇️

scientific article published on December 22, 2011

The interactions of bacteria with fungi in soil: emerging concepts

scientific article

The metagenomics of disease-suppressive soils - experiences from the METACONTROL project

scientific article

The multi-omics promise in context: from sequence to microbial isolate

scientific article (publication date: 31 May 2017)

The mycosphere constitutes an arena for horizontal gene transfer with strong evolutionary implications for bacterial-fungal interactions

scientific article published on 25 June 2014

The new species Enterobacter oryziphilus sp. nov. and Enterobacter oryzendophyticus sp. nov. are key inhabitants of the endosphere of rice

scientific article

The parA Region of Broad-Host-Range PromA Plasmids Is a Carrier of Mobile Genes

scientific article published on 5 September 2017

The putative α/β-hydrolases of Dietzia cinnamea P4 strain as potential enzymes for biocatalytic applications

scientific article

The rhizosphere selects for particular groups of acidobacteria and verrucomicrobia

scientific article

The type three secretion system facilitates migration of Burkholderia terrae BS001 in the mycosphere of two soil-borne fungi

Transcriptional Responses of the Bacterium Burkholderia terrae BS001 to the Fungal Host Lyophyllum sp. Strain Karsten under Soil-Mimicking Conditions

scientific article

Transcriptional profiling of genes involved in n-hexadecane compounds assimilation in the hydrocarbon degrading Dietzia cinnamea P4 strain

scientific article published on 30 October 2013

Two- and three-domain bacterial laccase-like genes are present in drained peat soils

scientific article published in 2011

Unveiling the metabolic potential of two soil-derived microbial consortia selected on wheat straw

scientific article published on 7 September 2015

Use of 16S rRNA gene based clone libraries to assess microbial communities potentially involved in anaerobic methane oxidation in a Mediterranean cold seep

scientific article

Verrucomicrobia subdivision 1 strains display a difference in the colonization of the leek (Allium porrum) rhizosphere ⬇️

scientific article published on July 18, 2011

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