ArticleFrontiers in microbiology2017
GAMOLA2, a Comprehensive Software Package for the Annotation and Curation of Draft and Complete Microbial Genomes.
Article in Frontiers in microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- RumenApplied and environmental microbiology · 2023Article
- Characterization of two novel lytic bacteriophages having lysis potential against MDR avian pathogenic Escherichia coli strains of zoonotic potential.Scientific reports · 2023Article
- Genome sequence of the entomopathogenic Serratia entomophila isolate 626 and characterisation of the species specific itaconate degradation pathway.BMC genomics · 2022Article
- Genomic insights into the physiology of Quinella, an iconic uncultured rumen bacterium.Nature communications · 2022Article
- Draft Genome Sequence of Clostridium bowmanii DSM 14206Microbiology resource announcements · 2022Article
- Culture and genome-based analysis of four soil Clostridium isolates reveal their potential for antimicrobial production.BMC genomics · 2021Article
- Genome-resolved metagenomics using environmental and clinical samples.Briefings in bioinformatics · 2021Review
- Complete Genome Sequence of Campylobacter hepaticus USA52, Associated with Chicken Spotty Liver Disease.Microbiology resource announcements · 2021Article
- Mobile Colistin Resistance GeneMicroorganisms · 2021Article
- Distinct clonal lineages and within-host diversification shape invasive Staphylococcus epidermidis populations.PLoS pathogens · 2021Article
- Complete Annotated Genome Sequence of Limosilactobacillus fermentum AGR1487.Microbiology resource announcements · 2021Article
- First Report of anAntibiotics (Basel, Switzerland) · 2020Article
- Complete Genome Sequence ofMicrobiology resource announcements · 2020Article
- Complete Genome Sequence of Lactobacillus fermentum Strain AGR1485, a Human Oral Isolate.Microbiology resource announcements · 2020Article
- Draft Genome Sequence of Clostridium estertheticum-Like Strain FP3, Isolated from Spoiled Uncooked Lamb.Microbiology resource announcements · 2020Article
- Draft Genome Sequence ofMicrobiology resource announcements · 2020Article
- Draft Genome Sequence of PsychrotolerantMicrobiology resource announcements · 2020Article
- Draft Genome Sequence of a New Zealand Isolate of Mycoplasma ovipneumoniae.Microbiology resource announcements · 2020Article
- Comparative Genomics of RumenApplied and environmental microbiology · 2019Article
- Draft Genome Sequence of Clostridium estertheticum subsp.Microbiology resource announcements · 2019Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Expert curated annotation remains one of the critical steps in achieving a reliable biological relevant annotation. Here we announce the release of GAMOLA2, a user friendly and comprehensive software package to process, annotate and curate draft and complete bacterial, archaeal, and viral genomes. GAMOLA2 represents a wrapping tool to combine gene model determination, functional Blast, COG, Pfam, and TIGRfam analyses with structural predictions including detection of tRNAs, rRNA genes, non-coding RNAs, signal protein cleavage sites, transmembrane helices, CRISPR repeats and vector sequence contaminations. GAMOLA2 has already been validated in a wide range of bacterial and archaeal genomes, and its modular concept allows easy addition of further functionality in future releases. A modified and adapted version of the Artemis Genome Viewer (Sanger Institute) has been developed to leverage the additional features and underlying information provided by the GAMOLA2 analysis, and is part of the software distribution. In addition to genome annotations, GAMOLA2 features, among others, supplemental modules that assist in the creation of custom Blast databases, annotation transfers between genome versions, and the preparation of Genbank files for submission via the NCBI Sequin tool. GAMOLA2 is intended to be run under a Linux environment, whereas the subsequent visualization and manual curation in Artemis is mobile and platform independent. The development of GAMOLA2 is ongoing and community driven. New functionality can easily be added upon user requests, ensuring that GAMOLA2 provides information relevant to microbiologists. The software is available free of charge for academic use.
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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.