Microbial whole genome sequencing Download Spotlight FULLY PHASED FUNGAL GENOMES FUEL INSIGHTS INTO VIRULENCE A fully phased, 18-chromosome reference for the oat crown rust fungal pathogenPaccinia coronate f. sp. avenae(Pca203) shares high homology with the two other cereal rust fungi for which ph...
microbial whole‐genome sequencingnext‐generation sequencingnovel antibioticspublic health microbiologyThe genomic era of bacteriology began in 1995 when the first bacterial genome (Haemophilus influenzae) was sequenced using the Sanger sequencing method (1). A decade later, the introduction of high-...
RNA(rRNA), which is a unique RNA region that is specific for each microbe. This technique was rapid but missed the identification of previously unknown microbiota[4,5]. Whole-genome shotgun sequencing can identify all microbiota, their DNA, the species, and genes present in a sample[6–8]...
Whole-genome shotgun sequencing A process in which the genomic DNA from a pure culture is randomly fragmented and sequenced, and the sequences obtained are then assembled through bioinformatics to a whole microbial genome. Genome bins The population genomes (also called ‘metagenome-assembled genomes...
Identification and whole genome sequencing analysis of M. guilliermondii GXDK6. a The genomic DNA verification map of the Pichia strain; b Quality scores of the Pichia strain across all bases; c The sequence length distribution of the third-generation sequencing data; d The spliced genome informat...
One of the pioneering techniques in genome sequencing is whole-genome shotgun sequencing which involves the random fragmentation of microbial DNA followed by sequencing of overlapping fragments to reconstruct the entire genome sequence. The importance of genome sequencing approaches in microbial genomics ...
et al. Evaluation of Oxford Nanopore’s MinION Sequencing Device for Microbial Whole Genome Sequencing Applications. Scientific reports 8, 10931, https://doi.org/10.1038/s41598-018-29334-5 (2018). Article ADS CAS PubMed PubMed Central Google Scholar Landis, J. R. & Koch, G. G. The ...
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The pan-genome analysis focuses on the genomes of a group of species. The genomes can be a collection of sequences obtained by the whole-genome assembly after whole-genome sequencing, or the complete genomic sequences of a species downloaded from a public database. Series of microbial pan-...
We next evaluated Centrifuger, Centrifuge, Kraken2, Ganon, and KMCP on real bacterial whole-genome sequencing (WGS) data using the same database indexes as the simulated data evaluation. The true taxonomy IDs for each WGS sample were extracted in corresponding SRA RunInfo entries. We considered...