Microbial Genomics

Papers
(The H4-Index of Microbial Genomics is 21. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)
ArticleCitations
Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification247
ResFinder – an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes173
Kaptive 2.0: updated capsule and lipopolysaccharide locus typing for the Klebsiella pneumoniae species complex72
Phylogenomics of Mycobacterium africanum reveals a new lineage and a complex evolutionary history66
RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-1242
Recovery of small plasmid sequences via Oxford Nanopore sequencing39
RFPlasmid: predicting plasmid sequences from short-read assembly data using machine learning34
Comparison of R9.4.1/Kit10 and R10/Kit12 Oxford Nanopore flowcells and chemistries in bacterial genome reconstruction33
A comprehensive and high-quality collection of Escherichia coli genomes and their genes32
ECTyper: in silico Escherichia coli serotype and species prediction from raw and assembled whole-genome sequence data32
From genotype to phenotype: adaptations of Pseudomonas aeruginosa to the cystic fibrosis environment28
Comprehensive genome analyses of Sellimonas intestinalis, a potential biomarker of homeostasis gut recovery27
Mutations in the gdpP gene are a clinically relevant mechanism for β-lactam resistance in meticillin-resistant Staphylococcus aureus lacking mec determinants24
Epigenomics, genomics, resistome, mobilome, virulome and evolutionary phylogenomics of carbapenem-resistant Klebsiella pneumoniae clinical strains24
Hackflex: low-cost, high-throughput, Illumina Nextera Flex library construction24
Genomic evolution of the globally disseminated multidrug-resistant Klebsiella pneumoniae clonal group 14724
Population-level deep sequencing reveals the interplay of clonal and sexual reproduction in the fungal wheat pathogen Zymoseptoria tritici23
bla OXA-48-like genome architecture among carbapenemase-producing Escherichia coli and Klebsiella pneumoniae in the Netherlands22
Diminutive, degraded but dissimilar: Wolbachia genomes from filarial nematodes do not conform to a single paradigm21
Kill and cure: genomic phylogeny and bioactivity of Burkholderia gladioli bacteria capable of pathogenic and beneficial lifestyles21
Meta-analysis of the Ralstonia solanacearum species complex (RSSC) based on comparative evolutionary genomics and reverse ecology21
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