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References from Comparative genomics and transcriptomic response to root exudates of six rice root-associated Burkholderia sensu lato species. Local targets link to admitted publications; unresolved targets remain external evidence.
FastQC: A Quality Control Tool for High Throughput Sequence Data
2010 · External reference
Genome Sequencing and Transposon Mutagenesis of <span class="italique">Burkholderia seminalis</span> TC3.4.2R3 Identify Genes Contributing to Suppression of Orchid Necrosis Caused by <span class="italique">B. gladioli</span>
10.1094/mpmi-02-16-0047-r · 2016 · External reference
Induction of resistance in rice plants using bioproducts produced from Burkholderia pyrrocinia BRM 32113
10.1007/s11356-019-05238-3 · 2019 · External reference
Regulation and function of root exudates
10.1111/j.1365-3040.2009.01926.x · 2009 · External reference
Burkholderia brasilensis sp. nov., uma nova espécie de bactéria diazotrófica endofítica
1997 · External reference
Burkholderia strains go it alone
10.24072/pci.microbiol.100002 · 2023 · External reference
Draft Genome Sequence of <span class="italique">Burkholderia ambifaria</span> RZ2MS16, a Plant Growth-Promoting Rhizobacterium Isolated from Guarana, a Tropical Plant
10.1128/genomea.00125-16 · 2016 · External reference
The Entner-Doudoroff pathway empowers<span class="italique">Pseudomonas putida</span> KT2440 with a high tolerance to oxidative stress
10.1111/1462-2920.12069 · 2013 · External reference
Inhibition of Rhizoctonia solani RhCh-14 and Pythium ultimum PyFr-14 by Paenibacillus polymyxa NMA1017 and Burkholderia cenocepacia CACua-24: A proposal for biocontrol of phytopathogenic fungi
10.1016/j.micres.2019.126347 · 2020 · External reference
Local Regression Models
10.1201/9780203738535-8 · 2017 · External reference
Plant-Influenced Gene Expression in the Rice Endophyte <span class="italique">Burkholderia kururiensis</span> M130
10.1094/mpmi-07-14-0225-r · 2015 · External reference
Protein Disulfide Bond Formation in the Cytoplasm during Oxidative Stress
10.1074/jbc.m312267200 · 2004 · External reference
Genetic diversity of symbiotic Paraburkholderia species isolated from nodules of Mimosa pudica (L.) and Phaseolus vulgaris (L.) grown in soils of the Brazilian Atlantic Forest (Mata Atlântica)
10.1093/femsec/fix027 · 2017 · External reference
Involvement of a Plasmid-Encoded Type IV Secretion System in the Plant Tissue Watersoaking Phenotype of <span class="italique">Burkholderia cenocepacia</span>
10.1128/jb.186.18.6015-6024.2004 · 2004 · External reference
Draft Genome Sequence of Burkholderia reimsis BE51, a Plant-Associated Bacterium Isolated from Agricultural Rhizosphere
10.1128/mra.00978-18 · 2018 · External reference
Whole Genome Analyses Suggests that Burkholderia sensu lato Contains Two Additional Novel Genera (Mycetohabitans gen. nov., and Trinickia gen. nov.): Implications for the Evolution of Diazotrophy and Nodulation in the Burkholderiaceae
10.3390/genes9080389 · 2018 · External reference
Transcriptomic profiling of Bacillus amyloliquefaciens FZB42 in response to maize root exudates
10.1186/1471-2180-12-116 · 2012 · External reference
Molecular Insights into <span class="italique">Burkholderia pseudomallei</span> and <span class="italique">Burkholderia mallei</span> Pathogenesis
10.1146/annurev.micro.112408.134030 · 2010 · External reference
Polyphasic Taxonomy in the Genus Burkholderia Leading to an Emended Description of the Genus and Proposition of Burkholderia vietnamiensis sp. nov. for N2-Fixing Isolates from Rice in Vietnam
10.1099/00207713-45-2-274 · 1995 · External reference
Effects of the Inoculation of Burkholderia vietnamensis and Related Endophytic Diazotrophic Bacteria on Grain Yield of Rice
10.1007/s00248-007-9247-9 · 2007 · External reference
Package ‘multcompView’. Vis. Paired Comp.
2015 · External reference
Draft genome sequence reveals co-occurrence of multiple antimicrobial resistance and plant probiotic traits in rice root endophytic strain Burkholderia sp. LS-044 affiliated to Burkholderia cepacia complex
10.1016/j.jgar.2019.11.017 · 2020 · External reference
Heading to the Origins – Rice Microbiome as Functional Extension of the Host
10.4172/2375-4338.1000133 · 2015 · External reference
The role of flavonoids in root-rhizosphere signalling: opportunities and challenges for improving plant-microbe interactions
10.1093/jxb/err430 · 2012 · External reference
Low Nitrogen Fertilization Adapts Rice Root Microbiome to Low Nutrient Environment by Changing Biogeochemical Functions
10.1264/jsme2.me13110 · 2014 · External reference
Identification and Onion Pathogenicity of <span class="italique">Burkholderia cepacia</span> Complex Isolates from the Onion Rhizosphere and Onion Field Soil
10.1128/aem.01941-07 · 2008 · External reference
Mutation of the cyclic di-GMP phosphodiesterase gene in Burkholderia lata SK875 attenuates virulence and enhances biofilm formation
10.1007/s12275-017-7374-7 · 2017 · External reference
Isolation and characterization of a novel silicate-solubilizing bacterial strain<span class="italique">Burkholderia eburnea</span> CS4-2 that promotes growth of japonica rice (<span class="italique">Oryza sativa</span>L. cv. Dongjin)
10.1080/00380768.2017.1314829 · 2017 · External reference
rstatix: Pipe-friendly framework for basic statistical tests. R package version 0.6. 0
2020 · External reference
The In Vitro and In Planta Interspecies Interactions Among Rice-Pathogenic <span class="italique">Burkholderia</span> Species
10.1094/pdis-06-20-1252-re · 2021 · External reference
Monitoring of Rice Transcriptional Responses to Contrasted Colonizing Patterns of Phytobeneficial Burkholderia s.l. Reveals a Temporal Shift in JA Systemic Response
10.3389/fpls.2019.01141 · 2019 · External reference
Transcriptomic profiling of Burkholderia phymatum STM815, Cupriavidus taiwanensis LMG19424 and Rhizobium mesoamericanum STM3625 in response to Mimosa pudica root exudates illuminates the molecular basis of their nodulation competitiveness and symbiotic evolutionary history
10.1186/s12864-018-4487-2 · 2018 · External reference
Increased Uptake of Putrescine in the Rhizosphere Inhibits Competitive Root Colonization by <span class="italique">Pseudomonas fluorescens</span> Strain WCS365
10.1094/mpmi.2001.14.9.1096 · 2001 · External reference
Quorum Sensing-Independent Cellulase-Sensitive Pellicle Formation Is Critical for Colonization of Burkholderia glumae in Rice Plants
10.3389/fmicb.2019.03090 · 2020 · External reference
A Genome-Wide Screen Identifies Genes in Rhizosphere-Associated <span class="italique">Pseudomonas</span> Required to Evade Plant Defenses
10.1128/mbio.00433-18 · 2018 · External reference
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
10.1186/s13059-014-0550-8 · 2014 · External reference
Nitrate Sensing and Metabolism Inhibit Biofilm Formation in the Opportunistic Pathogen Burkholderia pseudomallei by Reducing the Intracellular Concentration of c-di-GMP
10.3389/fmicb.2017.01353 · 2017 · External reference
Transcriptome profiling of bacterial responses to root exudates identifies genes involved in microbe-plant interactions
10.1073/pnas.0506407102 · 2005 · External reference
Cutadapt removes adapter sequences from high-throughput sequencing reads
10.14806/ej.17.1.200 · 2011 · External reference
Endophytic colonization of rice (Oryza sativa L.) by the diazotrophic bacterium Burkholderia kururiensis and its ability to enhance plant growth
10.1590/s0001-37652008000300009 · 2008 · External reference
Comparative genome analysis of Burkholderia phytofirmans PsJN reveals a wide spectrum of endophytic lifestyles based on interaction strategies with host plants
10.3389/fpls.2013.00120 · 2013 · External reference
Burkholderia orbicola sp. nov., a novel species within the Burkholderia cepacia complex
10.1007/s00203-022-02778-0 · 2022 · External reference
Script Article Wallner et al (Version 1). Zenodo
10.5281/zenodo.7447236 · 2022 · External reference
Genome mining identifies cepacin as a plant-protective metabolite of the biopesticidal bacterium Burkholderia ambifaria
10.1038/s41564-019-0383-z · 2019 · External reference
Bioactive Compounds Produced by Biocontrol Agents Driving Plant Health
10.1007/978-981-13-8495-0_15 · 2019 · External reference
Mash: fast genome and metagenome distance estimation using MinHash
10.1186/s13059-016-0997-x · 2016 · External reference
Diazotrophic <span class="italique">Burkholderia</span> Species Associated with Field-Grown Maize and Sugarcane
10.1128/aem.72.5.3103-3110.2006 · 2006 · External reference
Thermoregulation of Biofilm Formation in Burkholderia pseudomallei Is Disrupted by Mutation of a Putative Diguanylate Cyclase
10.1128/jb.00780-16 · 2017 · External reference
Key Players and Individualists of Cyclic-di-GMP Signaling in Burkholderia cenocepacia
10.3389/fmicb.2018.03286 · 2019 · External reference
Cyclic di-GMP: the First 25 Years of a Universal Bacterial Second Messenger
10.1128/mmbr.00043-12 · 2013 · External reference
High intracellular c-di-GMP levels antagonize quorum sensing and virulence gene expression in Burkholderia cenocepacia H111
10.1099/mic.0.000452 · 2017 · External reference
A Burkholderia endophyte of the ancient maize landrace Chapalote utilizes c-di-GMP-dependent and independent signaling to suppress diverse plant fungal pathogen targets
10.1093/femsle/fnx138 · 2017 · External reference
Putrescine Is an Intraspecies and Interkingdom Cell-Cell Communication Signal Modulating the Virulence of Dickeya zeae
10.3389/fmicb.2019.01950 · 2019 · External reference
Transcriptomic analysis of responses to exudates reveal genes required for rhizosphere competence of the endophyte<span class="italique">Azoarcus</span>sp. strain BH72
10.1111/j.1462-2920.2012.02777.x · 2012 · External reference
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
10.1093/bioinformatics/btv351 · 2015 · External reference
Rapid Neighbour-Joining
10.1007/978-3-540-87361-7_10 · External reference
Complete genome sequence of Burkholderia sp. JP2-270, a rhizosphere isolate of rice with antifungal activity against Rhizoctonia solani
10.1016/j.micpath.2018.11.024 · 2019 · External reference
<span class="italique">Burkholderia cepacia</span>Complex: Emerging Multihost Pathogens Equipped with a Wide Range of Virulence Factors and Determinants
10.1155/2011/607575 · 2011 · External reference
Characterization of plant growth-promoting bacteria associated with rice cropped in iron-stressed soils
10.1007/s13213-014-0939-3 · 2014 · External reference
Gas chromatography–mass spectrometry associated global analysis of rice root exudates under aseptical conditions
10.1111/j.1747-0765.2009.00390.x · 2009 · External reference
The roles of polyamines during the lifespan of plants: from development to stress
10.1007/s00425-014-2055-9 · 2014 · External reference
10.1023/a:1014986916913
10.1023/a:1014986916913 · 2000 · External reference
MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis
10.1093/nar/gkz926 · 2019 · External reference
Arabidopsis thaliana and Pisum sativum models demonstrate that root colonization is an intrinsic trait of Burkholderia cepacia complex bacteria
10.1099/mic.0.074351-0 · 2014 · External reference
Unresolved reference
1970 · External reference
Differential Genetic Strategies of Burkholderia vietnamiensis and Paraburkholderia kururiensis for Root Colonization of Oryza sativa subsp. <span class="italique">japonica</span> and O. sativa subsp. <span class="italique">indica</span> , as Revealed by Transposon Mutagenesis Sequencing
10.1128/aem.00642-22 · 2022 · External reference
Comparative genomics and transcriptomic response to root exudates of six rice root-associated Burkholderia sensu lato species
10.1101/2022.10.04.510755 · 2022 · External reference
Genomic analyses of Burkholderia cenocepacia reveal multiple species with differential host-adaptation to plants and humans
10.1186/s12864-019-6186-z · 2019 · External reference
Indole-3-Acetic Acid Produced by Burkholderia heleia Acts as a Phenylacetic Acid Antagonist to Disrupt Tropolone Biosynthesis in Burkholderia plantarii
10.1038/srep22596 · 2016 · External reference
Occidiofungin is an important component responsible for the antifungal activity of <span class="italique">Burkholderia pyrrocinia</span> strain Lyc2
10.1111/jam.13036 · 2016 · External reference
Data Analysis
10.1007/978-3-319-24277-4_9 · 2016 · External reference
Comparative Transcriptomics of Bacillus mycoides Strains in Response to Potato-Root Exudates Reveals Different Genetic Adaptation of Endophytic and Soil Isolates
10.3389/fmicb.2017.01487 · 2017 · External reference
Divergent Responses of the Diazotrophic Microbiome to Elevated CO2 in Two Rice Cultivars
10.3389/fmicb.2018.01139 · 2018 · External reference
Whole transcriptomic analysis of the plant-beneficial rhizobacterium Bacillus amyloliquefaciens SQR9 during enhanced biofilm formation regulated by maize root exudates
10.1186/s12864-015-1825-5 · 2015 · External reference