ArticleScientific reports2020
Standardized phylogenetic and molecular evolutionary analysis applied to species across the microbial tree of life.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
78 citing papers in PubMed.
- A Simplified Guide to Whole-Genome Sequence Analysis of Salmonella on the Command Line.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Combining Annotation Software to Identify Orthologous Genes (CASIO) Provides a New Dataset of Orthologous Genes for Swallowtail Butterflies.Molecular ecology resources · 2026Article
- Pseudomonas aeruginosa ST4936 with extensive antibacterial drug resistance and virulence determinants from ureteral stent biofilms: whole-genome insights.Naunyn-Schmiedeberg's archives of pharmacology · 2026Article
- A comparative analysis of the clinical and genomic characteristics of Panton-Valentine leukocidin-positive methicillin-resistantMicrobiology spectrum · 2026Article
- Article
- Revisiting Algorithms, Tools, and Applications for Sequence and Phylogenetic Analyses in the NGS-Based Omics Era.Biochemical genetics · 2026Review
- Benchmarking genomic variant calling tools in inbred mouse strains: recommendations and considerations.Genetics · 2026Article
- Hospital-Based Cross-Sectional Study ofGeoHealth · 2026Article
- A transcriptional atlas of early Arabidopsis seed development suggests mechanisms for inter-tissue coordination.Nature plants · 2026Article
- Imported, not invented, genes prevail amongProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Expanding the molecular epidemiology of melioidosis in North Central Vietnam.PLoS neglected tropical diseases · 2026Article
- The fungal pathogen Rhizoctonia solani AG-8 has 2 nuclear haplotypes that differ in abundance.G3 (Bethesda, Md.) · 2026Article
- Genome sequences of distinct genotypes of bacterial pathogen Xanthomonas euvesicatoria pv. euvesicatoria from pepper (Capsicum annuum L.) in Serbia.Access microbiology · 2026Article
- Long-term fungicide exposure promotes bacterial adaptation and increases virulence of foodborne pathogenCurrent research in food science · 2026Article
- Strain-Level Differences ofJournal of microbiology and biotechnology · 2025Article
- Isolation and characterization of Agrobacterium vacciniicorymbosi sp. nov. originating from crown galls in blueberry (Vaccinium corymbosum) in Serbia.Scientific reports · 2025Article
- Collectors, not hoarders: Complex gene structures in Amphidinium carterae revealed through nanopore sequencing.BMC genomics · 2025Article
- Genomic Surveillance and Resistance Profiling of Multidrug-ResistantMicroorganisms · 2025Article
- Machine Learning-Based Characterization ofPathogens (Basel, Switzerland) · 2025Article
- Food-derived bioactive peptides: health benefits, structure‒activity relationships, and translational prospects.Journal of Zhejiang University. Science. B · 2025Review
18 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
There is growing interest in reconstructing phylogenies from the copious amounts of genome sequencing projects that target related viral, bacterial or eukaryotic organisms. To facilitate the construction of standardized and robust phylogenies for disparate types of projects, we have developed a complete bioinformatic workflow, with a web-based component to perform phylogenetic and molecular evolutionary (PhaME) analysis from sequencing reads, draft assemblies or completed genomes of closely related organisms. Furthermore, the ability to incorporate raw data, including some metagenomic samples containing a target organism (e.g. from clinical samples with suspected infectious agents), shows promise for the rapid phylogenetic characterization of organisms within complex samples without the need for prior assembly.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.