ArticlePLoS computational biology2023
GenoVi, an open-source automated circular genome visualizer for bacteria and archaea.
Article in PLoS computational biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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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.
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Who cites it
80 citing papers in PubMed, 111 citations in OpenAlex.
- BeyondEmerging microbes & infections · 2026Article
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- VicMAG, an open-source tool for visualizing circular metagenome-assembled genomes highlighting bacterial virulence and antimicrobial resistance.NAR genomics and bioinformatics · 2026Article
- The 3D genome of Gigaspora margarita unveils stable chromatin and nucleolar organization and symbiont-dependent genome dynamics.The New phytologist · 2026Article
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- HERA: a web server for host element reference-based aligner.Nucleic acids research · 2026Article
- Phenotypic and genomic insights into Stenotrophomonas sepilia SMBL8: metabolic versatility, antibiotic resistance and pathogenic potential.World journal of microbiology & biotechnology · 2026Article
- Draft genome sequence ofMicrobiology resource announcements · 2026Article
- Genomic Insights Into Antimicrobial Resistance and Virulence of Enterococcus avium Strains From Bovine Mastitis in Some Selected Dairy Farms of Bangladesh.Veterinary medicine and science · 2026Article
- Genomic and Functional Characterization of the Calcite-Precipitating BacteriumMicroorganisms · 2026Article
- Characterization of facultative yet endohyphal interaction between Umbelopsis and Paraburkholderia.BMC genomics · 2026Article
- Sphingomonas incarnata sp. nov., an endophytic bacterium with bioactive potential isolated from passionfruit leaves.BMC microbiology · 2026Article
- Genome-based insights into metal co-resistance in Amazonian mercury-resistant bacteria: ecological lifestyle and biosafety implications for bioremediation.Microbiology spectrum · 2026Article
- Article
- Exploring the Probiotic and Antimicrobial Potential of Pediococcus Pentosaceus Isolates from Fish: Genomic and Functional Perspectives.Probiotics and antimicrobial proteins · 2026Article
- Bacterial inoculation drives microbiome-mediated resistance to a soil-borne pathogen in wheat.NPJ biofilms and microbiomes · 2026Article
- Genomic and experimental characterization of unique Antarctic temperate phage Perkons reveals multiple integrases and complex lysogenic dynamics in Psychrobacillus sp. L4.BMC microbiology · 2026Article
- Draft genome sequence of soil isolateMicrobiology resource announcements · 2026Article
20 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
9 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The increase in microbial sequenced genomes from pure cultures and metagenomic samples reflects the current attainability of whole-genome and shotgun sequencing methods. However, software for genome visualization still lacks automation, integration of different analyses, and customizable options for non-experienced users. In this study, we introduce GenoVi, a Python command-line tool able to create custom circular genome representations for the analysis and visualization of microbial genomes and sequence elements. It is designed to work with complete or draft genomes, featuring customizable options including 25 different built-in color palettes (including 5 color-blind safe palettes), text formatting options, and automatic scaling for complete genomes or sequence elements with more than one replicon/sequence. Using a Genbank format file as the input file or multiple files within a directory, GenoVi (i) visualizes genomic features from the GenBank annotation file, (ii) integrates a Cluster of Orthologs Group (COG) categories analysis using DeepNOG, (iii) automatically scales the visualization of each replicon of complete genomes or multiple sequence elements, (iv) and generates COG histograms, COG frequency heatmaps and output tables including general stats of each replicon or contig processed. GenoVi's potential was assessed by analyzing single and multiple genomes of Bacteria and Archaea. Paraburkholderia genomes were analyzed to obtain a fast classification of replicons in large multipartite genomes. GenoVi works as an easy-to-use command-line tool and provides customizable options to automatically generate genomic maps for scientific publications, educational resources, and outreach activities. GenoVi is freely available and can be downloaded from https://github.com/robotoD/GenoVi.
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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.