Author details

Full Name

Thomas Rattei

Affiliation

ORCID

Career Start Year

2004

Papers

176

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37500801	A predicted CRISPR-mediated symbiosis between uncultivated archaea.	Nat Microbiol	2023
36399505	eggNOG 6.0: enabling comparative genomics across 12Â 535 organisms.	Nucleic Acids Res	2023
37615694	The Fish Pathogen "Candidatus Clavichlamydia salmonicola"-A Missing Link in the Evolution of Chlamydial Pathogens of Humans.		2023
36830277	Metagenomic Antimicrobial Susceptibility Testing from Simulated Native Patient Samples.		2023
36512705	Cytoscape stringApp 2.0: Analysis and Visualization of Heterogeneous Biological Networks.	J Proteome Res	2023
37338855	Food systems microbiome-related educational needs.		2023
36650275	Thermal acclimation of methanotrophs from the genus Methylobacter.		2023
36757767	One to host them all: genomics of the diverse bacterial endosymbionts of the spider .		2023
36697862	Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies.	Nature	2023
37007485	Antiviral immune response reveals host-specific virus infections in natural ant populations.	Front Microbiol	2023
36728429	Secondary Metabolite Production Potential in a Microbiome of the Freshwater Sponge Spongilla lacustris.		2023
37515591	Genome Dynamics and Temperature Adaptation During Experimental Evolution of Obligate Intracellular Bacteria.		2023
35835784	A time-resolved multi-omics atlas of Acanthamoeba castellanii encystment.	Nat Commun	2022
36314940	Targeted Metabolomics and High-Throughput RNA Sequencing-Based Transcriptomics Reveal Massive Changes in the Streptomyces venezuelae NRRL B-65442 Metabolism Caused by Ethanol Shock.	Microbiology spectrum	2022
34648730	Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period.	Curr Biol	2021
34127845	Genomic insights into diverse bacterial taxa that degrade extracellular DNA in marine sediments.	Nature Microbiology	2021
34282310	Publisher Correction: Genomic insights into diverse bacterial taxa that degrade extracellular DNA in marine sediments.	Nature Microbiology	2021
33790426	Sulfoquinovose is a select nutrient of prominent bacteria and a source of hydrogen sulfide in the human gut.	ISME J	2021
33785629	Regulation of the Mitochondrion-Fatty Acid Axis for the Metabolic Reprogramming of Chlamydia trachomatis during Treatment with Î²-Lactam Antimicrobials.	mBio	2021
33622477	Isolate-Based Surveillance of Bordetella pertussis, Austria, 2018-2020.	Emerging Infectious Diseases	2021
33932979	Tamock: simulation of habitat-specific benchmark data in metagenomics.	BMC Bioinformatics	2021
33659219	Learning From Limited Data: Towards Best Practice Techniques for Antimicrobial Resistance Prediction From Whole Genome Sequencing Data.	Frontiers in Cellular and Infection Microbiology	2021
33981000	Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling.	ISME Journal	2021
33925452	ITN-VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics.	Viruses	2021
33367584	DeepNOG: fast and accurate protein orthologous group assignment.		2021
33385702	Dahlia variabilis cultivar 'Seattle' as a model plant for anthochlor biosynthesis.	Plant Physiology and Biochemistry	2021
34440114	Predictive Antibiotic Susceptibility Testing by Next-Generation Sequencing for Periprosthetic Joint Infections: Potential and Limitations.	Biomedicines	2021
34884852	Genome-Wide Mutation Scoring for Machine-Learning-Based Antimicrobial Resistance Prediction.	International Journal of Molecular Sciences	2021
33008461	Viral ecogenomics across the Porifera.	Microbiome	2020
32354152	Prebiotic Effects of Partially Hydrolyzed Guar Gum on the Composition and Function of the Human Microbiota-Results from the PAGODA Trial.	Nutrients	2020
32538095	Revealing the Venomous Secrets of the Spider's Web.	Journal of Proteome Research	2020
32817434	Molecular causes of an evolutionary shift along the parasitism-mutualism continuum in a bacterial symbiont.	Proceedings of the National Academy of Sciences of the United States of America	2020
33304331	Functional Seasonality of Free-Living and Particle-Associated Prokaryotic Communities in the Coastal Adriatic Sea.	Frontiers in Microbiology	2020
30988347	The horse Y chromosome as an informative marker for tracing sire lines.	Scientific Reports	2019
31781058	Exploring Actinobacteria Associated With Rhizosphere and Endosphere of the Native Alpine Medicinal Plant Subspecies .	Frontiers in Microbiology	2019
31775622	Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts.	BMC Genomics	2019
31708944	A Bioinformatics Guide to Plant Microbiome Analysis.	Frontiers in Plant Science	2019
31754290	in ancient human remains.		2019
31607556	The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations.	Cell Host Microbe	2019
30556814	Minimum Information about an Uncultivated Virus Genome (MIUViG).	Nat Biotechnol	2019
30418610	eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses.	Nucleic Acids Res	2019
31035717	Conserved Secondary Structures in Viral mRNAs.	Viruses	2019
31283094	Thermal stress modifies the marine sponge virome.	Environ Microbiol Rep	2019
30755506	Long-Term Transcriptional Activity at Zero Growth of a Cosmopolitan Rare Biosphere Member.	mBio	2019
30814504	Man-made microbial resistances in built environments.	Nature Communications	2019
31271506	Characterization of a thaumarchaeal symbiont that drives incomplete nitrification in the tropical sponge Ianthella basta.	Environmental Microbiology	2019
31268449	A proteotranscriptomic study of silk-producing glands from the orb-weaving spiders.	Molecular Omics	2019
30733546	Plasmid DNA contaminant in molecular reagents.	Scientific Reports	2019
31115157	Proteome Changes Paralleling the Olfactory Conditioning in the Forager Honey Bee and Provision of a Brain Proteomics Dataset.	Proteomics	2019
31298776	Highly variable mRNA half-life time within marine bacterial taxa and functional genes.	Environmental Microbiology	2019