Lista de obras - Paul Wilmes - Dominio Público Uruguay

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

artículo científico publicado en 2016

A biomolecular isolation framework for eco-systems biology.

artículo científico publicado en 2012

A decade of metaproteomics: where we stand and what the future holds

artículo científico publicado en 2015

A hundred years of activated sludge: time for a rethink

artículo científico publicado en 2014

A microfluidics-based in vitro model of the gastrointestinal human-microbe interface

artículo científico publicado en 2016

A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes

artículo científico publicado en 2011

A year of monitoring 20 mesophilic full-scale bioreactors reveals the existence of stable but different core microbiomes in bio-waste and wastewater anaerobic digestion systems

artículo científico publicado en 2018

Alignment-free visualization of metagenomic data by nonlinear dimension reduction.

artículo científico publicado en 2014

Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms

artículo científico publicado en 2018

Birth mode is associated with earliest strain-conferred gut microbiome functions and immunostimulatory potential

scientific article published in Nature Communications

Building an International Consortium for Tracking Coronavirus Health Status

artículo científico publicado en 2020

Building an international consortium for tracking coronavirus health status

artículo científico publicado en 2020

Characterization of extracellular polymeric substances from acidophilic microbial biofilms

artículo científico publicado en 2010

Colonization and Succession within the Human Gut Microbiome by Archaea, Bacteria, and Microeukaryotes during the First Year of Life

artículo científico publicado en 2017

Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal

artículo científico publicado en 2008

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage

artículo científico publicado en 2014

Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks

artículo científico publicado en 2015

Condensing the omics fog of microbial communities.

artículo científico publicado en 2013

Connecting environmental exposure and neurodegeneration using cheminformatics and high resolution mass spectrometry: potential and challenges

artículo científico publicado en 2019

Correlative TEM/FISH Imaging of Microbial Communities

Correlative microscopy for phylogenetic and ultrastructural characterization of microbial communities

artículo científico publicado en 2011

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

artículo científico publicado en 2021

Dark matter in host-microbiome metabolomics: Tackling the unknowns–A review

scholarly article by B.Y. Loulou Peisl et al published December 2017 in Analytica Chimica Acta

Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities

Dichloromethane Degradation Pathway from Unsequenced <i>Hyphomicrobium</i> sp. MC8b Rapidly Explored by Pan-Proteomics

artículo científico publicado en 2020

Ecological distribution and population physiology defined by proteomics in a natural microbial community.

artículo científico publicado en 2010

Engineering Solutions for Representative Models of the Gastrointestinal Human-Microbe Interface

Evolution of the murine gut resistome following broad-spectrum antibiotic treatment

artículo científico publicado en 2022

Expanding the use of spectral libraries in proteomics

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

Extensive transmission of microbes along the gastrointestinal tract

article

Extraction and Analysis of RNA Isolated from Pure Bacteria-Derived Outer Membrane Vesicles

artículo científico publicado en 2018

First draft genome sequence of a strain belonging to the Zoogloea genus and its gene expression in situ.

artículo científico publicado en 2017

From meta-omics to causality: experimental models for human microbiome research.

artículo científico publicado en 2013

Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota.

artículo científico publicado en 2016

Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant.

artículo científico publicado en 2012

Genomic and metabolic adaptations of biofilms to ecological windows of opportunity in glacier-fed streams

artículo científico publicado en 2022

Glacier shrinkage will accelerate downstream decomposition of organic matter and alters microbiome structure and function

artículo científico publicado en 2022

Human Gut Microbiome: Function Matters

artículo científico publicado en 2017

ICoVeR - an interactive visualization tool for verification and refinement of metagenomic bins.

artículo científico publicado en 2017

IMP: a pipeline for reproducible metagenomic and metatranscriptomic analyses

IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses.

artículo científico publicado en 2016

Identification, Recovery, and Refinement of Hitherto Undescribed Population-Level Genomes from the Human Gastrointestinal Tract.

scientific article published on 21 June 2016

In situ phenotypic heterogeneity among single cells of the filamentous bacterium Candidatus Microthrix parvicella

artículo científico publicado en 2015

Integrated in Vitro and in Silico Modelling Delineates the Molecular Effects of a Symbiotic Regimen on Colorectal Cancer-Derived Cells

Integrated meta-omic analyses of the gastrointestinal tract microbiome in patients undergoing allogeneic hematopoietic stem cell transplantation

artículo científico publicado en 2017

Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes

artículo científico publicado en 2016

Integrated omics for the identification of key functionalities in biological wastewater treatment microbial communities

artículo científico publicado en 2015

Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance

artículo científico publicado en 2020

Isolation of nucleic acids from low biomass samples: detection and removal of sRNA contaminants

Lipid-based biofuel production from wastewater.

artículo científico publicado en 2014

Measuring soil sustainability via soil resilience

artículo científico publicado en 2017

Mechanisms of Persistence of the Ammonia-Oxidizing Bacteria Nitrosomonas to the Biocide Free Nitrous Acid.

artículo científico publicado en 2018

Metabolome-proteome differentiation coupled to microbial divergence

artículo científico publicado en 2010

Metaproteomics provides functional insight into activated sludge wastewater treatment

artículo científico publicado en 2008

Metaproteomics: studying functional gene expression in microbial ecosystems

artículo científico publicado en 2006

Method Optimization for Fecal Sample Collection and Fecal DNA Extraction

scientific article published on 01 April 2015

Microbial Community Proteomics

Microbial community proteomics: elucidating the catalysts and metabolic mechanisms that drive the Earth's biogeochemical cycles

artículo científico publicado en 2009

Microdiversity characterizes prevalent phylogenetic clades in the glacier-fed stream microbiome

artículo científico publicado en 2021

Multi-omics reveal the lifestyle of the acidophilic, mineral-oxidizing model species Leptospirillum ferriphilum(T).

artículo científico publicado en 2017

Natural acidophilic biofilm communities reflect distinct organismal and functional organization

artículo científico publicado en 2008

Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation

artículo científico publicado en 2017

Optimised biomolecular extraction for metagenomic analysis of microbial biofilms from high-mountain streams

artículo científico publicado en 2020

PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data

artículo científico publicado en 2021

Patterns and Drivers of Extracellular Enzyme Activity in New Zealand Glacier-Fed Streams

artículo científico publicado en 2020

Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires

artículo científico publicado en 2015

Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities.

artículo científico publicado en 2010

Publisher Correction: Building an international consortium for tracking coronavirus health status

artículo científico publicado en 2020

RNA in Circulation: Sources and Functions of Extracellular Exogenous RNA in the Blood

Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations

scientific article published on 21 January 2020

Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics ⬇️

artículo científico publicado en 2020

Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome

scientific article published on 19 September 2019

Sequential Isolation of DNA, RNA, Protein, and Metabolite Fractions from Murine Organs and Intestinal Contents for Integrated Omics of Host–Microbiota Interactions

artículo científico publicado en 2018

Sequential isolation of metabolites, RNA, DNA, and proteins from the same unique sample.

artículo científico publicado en 2013

Small RNA profiling of low biomass samples: identification and removal of contaminants.

artículo científico publicado en 2018

Sources and Functions of Extracellular Small RNAs in Human Circulation

artículo científico publicado en 2016

Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia

artículo científico publicado en 2014

Systems Biology of Acidophile Biofilms for Efficient Metal Extraction

The Gut Microbiota and Hematopoietic Stem Cell Transplantation: Challenges and Potentials

scientific article published on 04 October 2018

The RNA Complement of Outer Membrane Vesicles From Serovar Typhimurium Under Distinct Culture Conditions

article

The application of two-dimensional polyacrylamide gel electrophoresis and downstream analyses to a mixed community of prokaryotic microorganisms

artículo científico publicado en 2004

The complex exogenous RNA spectra in human plasma: an interface with human gut biota?

artículo científico publicado en 2012

The dynamic genetic repertoire of microbial communities

artículo científico publicado en 2009

The extracellular RNA complement of Escherichia coli

artículo científico publicado en 2015

The gut microbial metabolite formate exacerbates colorectal cancer progression

artículo científico publicado en 2022

The human gut microbiome in health: establishment and resilience of microbiota over a lifetime

artículo científico publicado en 2016

The microbiome of cryospheric ecosystems

artículo científico publicado en 2022

The nasal and gut microbiome in Parkinson's disease and idiopathic rapid eye movement sleep behavior disorder

artículo científico

The sequential isolation of metabolites, RNA, DNA, and proteins from a single, undivided mixed microbial community sample

Three-Dimensional Analysis of Microbial Communities

Towards exposure of elusive metabolic mixed-culture processes: the application of metaproteomic analyses to activated sludge

Towards the Identification of Condition-Specific Microbial Populations from Human Metagenomic Data

Unification of functional annotation descriptions using text mining

scientific article published in 2021

Using metabolic networks to resolve ecological properties of microbiomes

artículo científico publicado en 2018

VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data

artículo científico publicado en 2015

Weak Iron Oxidation by Maintains a Favorable Redox Potential for Chalcopyrite Bioleaching

artículo científico publicado en 2018

Lista de obras de Paul Wilmes

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

A biomolecular isolation framework for eco-systems biology.

A decade of metaproteomics: where we stand and what the future holds

A hundred years of activated sludge: time for a rethink

A microfluidics-based in vitro model of the gastrointestinal human-microbe interface

A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes

A year of monitoring 20 mesophilic full-scale bioreactors reveals the existence of stable but different core microbiomes in bio-waste and wastewater anaerobic digestion systems

Alignment-free visualization of metagenomic data by nonlinear dimension reduction.

Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms

Birth mode is associated with earliest strain-conferred gut microbiome functions and immunostimulatory potential

Building an International Consortium for Tracking Coronavirus Health Status

Building an international consortium for tracking coronavirus health status

Characterization of extracellular polymeric substances from acidophilic microbial biofilms

Colonization and Succession within the Human Gut Microbiome by Archaea, Bacteria, and Microeukaryotes during the First Year of Life

Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage

Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks

Condensing the omics fog of microbial communities.

Connecting environmental exposure and neurodegeneration using cheminformatics and high resolution mass spectrometry: potential and challenges

Correlative TEM/FISH Imaging of Microbial Communities

Correlative microscopy for phylogenetic and ultrastructural characterization of microbial communities

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

Dark matter in host-microbiome metabolomics: Tackling the unknowns–A review

Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities

Dichloromethane Degradation Pathway from Unsequenced <i>Hyphomicrobium</i> sp. MC8b Rapidly Explored by Pan-Proteomics

Ecological distribution and population physiology defined by proteomics in a natural microbial community.

Engineering Solutions for Representative Models of the Gastrointestinal Human-Microbe Interface

Evolution of the murine gut resistome following broad-spectrum antibiotic treatment

Expanding the use of spectral libraries in proteomics

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

Extensive transmission of microbes along the gastrointestinal tract

Extraction and Analysis of RNA Isolated from Pure Bacteria-Derived Outer Membrane Vesicles

First draft genome sequence of a strain belonging to the Zoogloea genus and its gene expression in situ.

From meta-omics to causality: experimental models for human microbiome research.

Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota.

Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant.

Genomic and metabolic adaptations of biofilms to ecological windows of opportunity in glacier-fed streams

Glacier shrinkage will accelerate downstream decomposition of organic matter and alters microbiome structure and function

Human Gut Microbiome: Function Matters

ICoVeR - an interactive visualization tool for verification and refinement of metagenomic bins.

IMP: a pipeline for reproducible metagenomic and metatranscriptomic analyses

IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses.

Identification, Recovery, and Refinement of Hitherto Undescribed Population-Level Genomes from the Human Gastrointestinal Tract.

In situ phenotypic heterogeneity among single cells of the filamentous bacterium Candidatus Microthrix parvicella

Integrated in Vitro and in Silico Modelling Delineates the Molecular Effects of a Symbiotic Regimen on Colorectal Cancer-Derived Cells

Integrated meta-omic analyses of the gastrointestinal tract microbiome in patients undergoing allogeneic hematopoietic stem cell transplantation

Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes

Integrated omics for the identification of key functionalities in biological wastewater treatment microbial communities

Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance

Isolation of nucleic acids from low biomass samples: detection and removal of sRNA contaminants

Lipid-based biofuel production from wastewater.

Measuring soil sustainability via soil resilience

Mechanisms of Persistence of the Ammonia-Oxidizing Bacteria Nitrosomonas to the Biocide Free Nitrous Acid.

Metabolome-proteome differentiation coupled to microbial divergence

Metaproteomics provides functional insight into activated sludge wastewater treatment

Metaproteomics: studying functional gene expression in microbial ecosystems

Method Optimization for Fecal Sample Collection and Fecal DNA Extraction

Microbial Community Proteomics

Microbial community proteomics: elucidating the catalysts and metabolic mechanisms that drive the Earth's biogeochemical cycles

Microdiversity characterizes prevalent phylogenetic clades in the glacier-fed stream microbiome

Multi-omics reveal the lifestyle of the acidophilic, mineral-oxidizing model species Leptospirillum ferriphilum(T).

Natural acidophilic biofilm communities reflect distinct organismal and functional organization

Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation

Optimised biomolecular extraction for metagenomic analysis of microbial biofilms from high-mountain streams

PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data

Patterns and Drivers of Extracellular Enzyme Activity in New Zealand Glacier-Fed Streams

Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires

Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities.

Publisher Correction: Building an international consortium for tracking coronavirus health status

RNA in Circulation: Sources and Functions of Extracellular Exogenous RNA in the Blood

Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations

Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics ⬇️

Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome

Sequential Isolation of DNA, RNA, Protein, and Metabolite Fractions from Murine Organs and Intestinal Contents for Integrated Omics of Host–Microbiota Interactions

Sequential isolation of metabolites, RNA, DNA, and proteins from the same unique sample.

Small RNA profiling of low biomass samples: identification and removal of contaminants.

Sources and Functions of Extracellular Small RNAs in Human Circulation

Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia

Systems Biology of Acidophile Biofilms for Efficient Metal Extraction