Whole-Genome Sequence of Salmonella enterica subsp. diarizonae Serovar 61:k:1,5,(7) Strain 1569 (14PM0011), Isolated from German Sheep.

Published on Sep 19, 2019
路 DOI :10.1128/MRA.00539-19
Anne Busch6
Estimated H-index: 6
,
Herbert Tomaso40
Estimated H-index: 40
,
Ulrich Methner22
Estimated H-index: 22
Sources
Abstract
ABSTRACT Here, we report the draft genome sequence of Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) strain 1569, alternatively named 14PM0011, which is a common serovar in German sheep that is unrepresented in the databases and considered and described as being host adapted with low virulence.
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Abstract The European and International Standard method for the detection of Salmonella spp. in samples from the primary production stage, EN ISO 6579:2002/Amd.1:2007, was validated by an interlaboratory study in the frame of Mandate M/381, ordered by the European Commission and accepted by the European Standardisation Organisation (CEN). In addition to this study, results from two interlaboratory studies organised earlier by the European Union Reference Laboratory (EURL) for Salmonella were use...
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#1Ulrich Methner (Friedrich Loeffler Institute)H-Index: 22
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#1Torsten Seemann (Victorian Life Sciences Computation Initiative)H-Index: 52
Summary: The multiplex capability and high yield of current day DNAsequencing instruments has made bacterial whole genome sequencing a routine affair. The subsequent de novo assembly of reads into contigs has been well addressed. The final step of annotating all relevant genomic features on those contigs can be achieved slowly using existing web- and email-based systems, but these are not applicable for sensitive data or integrating into computational pipelines. Here we introduce Prokka, a comma...
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Summary: Limitations of genome sequencing techniques have led to dozens of assembly algorithms, none of which is perfect. A number of methods for comparing assemblers have been developed, but none is yet a recognized benchmark. Further, most existing methods for comparing assemblies are only applicable to new assemblies of finished genomes; the problem of evaluating assemblies of previously unsequenced species has not been adequately considered. Here, we present QUAST鈥攁 quality assessment tool f...
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Objectives Identification of antimicrobial resistance genes is important for understanding the underlying mechanisms and the epidemiology of antimicrobial resistance. As the costs of whole-genome sequencing (WGS) continue to decline, it becomes increasingly available in routine diagnostic laboratories and is anticipated to substitute traditional methods for resistance gene identification. Thus, the current challenge is to extract the relevant information from the large amount of generated data.
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