Title: Genome sequencing underlying Schäfer et al., 2022

Description: Reads obtained from genome resequencing of Aeromicrobium sp. Leaf245 ethyl-methansulfonate (EMS) mutagenized clones to map mutations manifesting in loss of inhibition of Nocardioides sp. Leaf374.

Year: 2022

Permanent identifierPRJEB47688

Responsible PI: J. Vorholt (ETHZ)

Research articleMapping phyllosphere microbiota interactions in planta to establish genotype–phenotype relationships

 

 

Title: Amplicon sequencing reads underlying Schäfer et al., 2022

Description: 16S rRNA gene amplicon sequencing reads

Year: 2022

Permanent identifier: PRJEB50894

Responsible PI: J. Vorholt (ETHZ)

Research articleMapping phyllosphere microbiota interactions in planta to establish genotype–phenotype relationships

 

 

Title: Proteomics data underlying Hemmerle et al., 2022

Description: MS-based proteomics data

Year: 2022

Permanent identifier: 10.6019/PXD026619 

Responsible PI: J. Vorholt (ETHZ)

Research article: Dynamic character displacement among a pair of bacterial phyllosphere commensals in situ

 

Title: amplicon sequencing data underlying Causevic et al., 2022

Description: NatCom and SynCom 16S rRNA gene amplicon sequencing data – raw sequence reads

Year: 2022

Permanent identifier: PRJNA767350

Responsible PI: J. R. van der Meer (UNIL)

Research article: Reproducible Propagation of Species-Rich Soil Bacterial Communities Suggests Robust Underlying Deterministic Principles of Community Formation

 

Title: Pivotal role of O-antigenic polysaccharide display in the sensitivity against phage tail-like particles in environmental Pseudomonas kin competition

Description: Tn-Seq raw data

Year: 2022

Permanent identifier: 10.5061/dryad.1zcrjdft6

Responsible PI: C. Keel (UNIL)

Research article: Pivotal role of O-antigenic polysaccharide display in the sensitivity against phage tail-like particles in environmental Pseudomonas kin competition

 

Title: Meta-omics-aided isolation of elusive anaerobic arsenic-methylating soil bacteria

Description: Metagenomic, metatranscriptomics, metaproteomics analyses

Year: 2022

Permanent identifier: 10.5281/zenodo.4605527

Responsible PI: R. Bernier-Latmani (EPFL)

Research article: Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium

 

Title: Genome sequencing of Arabidopsis phyllosphere isolates underlying Vogel et al., 2021

Description: Bacterial genomic data for seventeen bacterial leaf isolates belonging to the At-LSPHERE strain collection

Year: 2021

Permanent identifier: PRJEB47672

Responsible PI: J. Vorholt (ETH Zurich)

Research article: Protective role of the Arabidopsis leaf microbiota against a bacterial pathogen

 

 

Title: Raw reads of demultiplexed 16S rDNA amplicon samples underlying Pfeilmeier et al., 2021

Description: 16S rRNA amplicon sequencing raw data

Year: 2021

Permanent identifier: European Nucleotide Archive (ENA) – identifier: PRJEB44158

Responsible PI: J. Vorholt (ETHZ)

Research article: The plant NADPH oxidase RBOHD is required for microbiota homeostasis in leaves

 

Title: Metabolomics raw data (together with relevant metadata) underlying Maier et al., 2021

Description: Metabolomics raw data

Year: 2021

Permanent identifier: MetaboLights (EMBL-EBI) – identifier: MTBLS2522

Responsible PI: J. Vorholt (ETHZ)

Research article: A General Non-Self Response as Part of Plant Immunity

Title: Transcriptomics raw data underlying Maier et al., 2021

Description: Transcriptomics raw data

Year: 2021

Permanent identifier: European Nucleotide Archive (ENA) – identifier: PRJEB40488

Responsible PI: J. Vorholt (ETHZ)

Research article: A General Non-Self Response as Part of Plant Immunity

Title: mOTUs v2 database

Description: Database for the marker gene-based OTU (mOTU) profiler. The mOTUs profiler is a computational tool that estimates relative abundance of known and currently unknown microbial community members using metagenomic shotgun sequencing data.

Year: 2021

DOI: 10.5281/zenodo.4721452

Responsible PI: S. Sunagawa (ETHZ)

Research article: Microbial abundance, activity and population genomic profiling with mOTUs2

Title: Soil Community Growth and Diversity Simulations under Low and High Connectivity Conditions (version MATLAB 2016a)

Description: MATLAB community simulations, MATLAB imaging script, and MATLAB dataset

Year: 2021

DOI: 10.5281/zenodo.4568347

Responsible PI: J. R. van der Meer (UNIL)

Research article: Environmental Connectivity Controls Diversity in Soil Microbial Communities.”

Title: 16S rRNA amplicon sequencing raw data underlying Dubey et al., 2021

Description: 16S rRNA amplicon sequencing raw data

Year: 2021

Permanent identifier: NCBI Short Read Archive –  PRJNA661487

Responsible PI: J. R. van der Meer (UNIL)

Research article: Environmental Connectivity Controls Diversity in Soil Microbial Communities

Title: CellCognize: a neural network pipeline for cell type classification from flow cytometry data

Description: Flow cytometry data; neural network data; 16S sequencing data

Year: 2020

DOI: 10.5281/zenodo.3822094

Responsible PI: J. R. van der Meer (UNIL)

Research article: Rapid detection of microbiota cell type diversity using machine-learned classification of flow cytometry data