Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

• Comparative Genomics Provides Insight into the Function of Broad-Host Range Sponge Symbionts.

  PMID 34519538 · PMC8546597 · mBio · 2021 · 8 claims · 8 setups

  Has reproduction · 90

  Eleven new genomes were added to the Tethybacterales order and a novel family (Polydorabacteraceae) was identified

  tsitsikamma tethybacterales putative bin genome 16s multi-locus

• Functional differentiation determines the molecular basis of the symbiotic lifestyle of Ca. Nanohaloarchaeota.

  PMID 36242054 · PMC9563170 · Microbiome · 2022 · 8 claims · 8 setups

  Has reproduction · 99

  Three MAGs from a stratified salt crust represent a novel order, Nucleotidisoterales, within Ca. Nanohaloarchaeota

  stratified salt nanohaloarchaeota reconstructed 16s metagenomic phylogenomic

• High-resolution metagenomic reconstruction of the freshwater spring bloom.

  PMID 36698172 · PMC9878933 · Microbiome · 2023 · 8 claims · 8 setups

  Has reproduction · 69

  High-frequency metagenomic sampling (57 samples, 3 filter sizes, 2 depths, 37 days) recovers thousands of prokaryotic, eukaryotic, and viral genomes tracking spring bloom succession in fine detail

  freshwater phytoplankton heterotrophic reservoir 16s 18s shotgun

• Metabolic features that select for Bathyarchaeia in modern ferruginous lacustrine subsurface sediments.

  PMID 39660009 · PMC11631310 · ISME communications · 2024 · 8 claims · 8 setups

  Has reproduction · 50

  Microbial assemblages shift with depth from iron- and sulfate-reducing bacteria to fermentative anaerobes and methanogens, with Bathyarchaeia selected below the sulfate reduction zone as cell densities exponentially decrease

  sediment freeze-dried pore fixed 16s shotgun bulk

• GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring.

  PMID 35087491 · PMC8787282 · Frontiers in microbiology · 2021 · 8 claims · 8 setups

  Has reproduction · 50

  GAL08 is a dominant bacterial clade in Dewar Creek hot spring sediment, comprising up to 29.2% of the microbial community by relative read abundance

  hot 16s gal08 16s qpcr single-cell

• Large-scale quality assessment of prokaryotic genomes with metashot/prok-quality.

  PMID 35136576 · PMC8804904 · F1000Research · 2021 · 8 claims · 6 setups

  Has reproduction · 98

  metashot/prok-quality is a container-enabled Nextflow pipeline for quality assessment and dereplication of draft prokaryotic genomes

  draft filtered chimeric genome chimerism ribosomal

• Genomic Description of 'Candidatus Abyssubacteria,' a Novel Subsurface Lineage Within the Candidate Phylum Hydrogenedentes.

  PMID 30210471 · PMC6121073 · Frontiers in microbiology · 2018 · 8 claims · 7 setups

  Has reproduction · 91

  SURF_5 and SURF_17 are the first full genomes of a novel bacterial lineage, 'Candidatus Abyssubacteria,' within the candidate phylum Hydrogenedentes

  deep co-assembled surf_17 surf_5 whole-genome novo 16s

• Comparative Metagenomic Analysis of Biosynthetic Diversity across Sponge Microbiomes Highlights Metabolic Novelty, Conservation, and Diversification.

  PMID 35862823 · PMC9426513 · mSystems · 2022 · 8 claims · 5 setups

  Has reproduction · 56

  The vast majority of recovered gene cluster families (GCFs) in sponge microbiomes show no similarity to any characterized BGC, revealing extreme biosynthetic novelty

  microbiomes sponge shotgun nonpareil 16s

• Mining the equine gut metagenome: poorly-characterized taxa associated with cardiovascular fitness in endurance athletes.

  PMID 36192523 · PMC9529974 · Communications biology · 2022 · 8 claims · 8 setups

  Has reproduction · 68

  Built an integrated horse gut microbiome gene catalog (~25 million unique genes) and 372 metagenome-assembled genomes (MAGs) spanning 4179 genera and 95 phyla

  fecal horse dominant plasma shotgun taxonomic functional

• pmid-41860897

  PMID 41860897 · PMC13029773 · 8 claims · 6 setups

  Full-text index only

  Noma oral microbiomes show marked dysbiosis with significant enrichment of Treponema, Porphyromonas, and Bacteroides, and depletion of Streptococcus and Rothia, compared to healthy controls

  oral saliva noma previously shotgun comparative metagenome

• Comparative Genome Analysis of 16SrXII-A 'Candidatus Phytoplasma solani' POT Transmitted by Hyalesthes obsoletus.

  PMID 41597744 · PMC12843639 · Microorganisms · 2026 · 8 claims · 8 setups

  Has reproduction · 95

  The complete 832,614 bp circular genome of H. obsoletus-transmitted 'Ca. P. solani' 16SrXII-A strain POT was assembled and annotated

  hyalesthes pot long insect genome taxonomic