scholarly journals Novel Staphylococcal Cassette Chromosome composite island (SCC-CI) with a new subtype ofSCCmecVI cassette found in ST5 MRSA in France

2018 ◽  
Author(s):  
Olivier Barraud ◽  
Frédéric Laurent ◽  
Virginie Dyon-Tafani ◽  
Céline Dupieux-Chabert ◽  
Michèle Bes ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Recombination Rate ◽  
Mosaic Structure ◽  
Whole Genome ◽  
High Recombination Rate ◽  
Staphylococcal Cassette Chromosome

ABSTRACTAn emergent kanamycin-susceptible ST5-MRSA lineage has been identified in France. Whole genome sequencing revealed a 40 kb SCC composite island with a mosaic structure including 3 SCC elements: a ΨSCCcop/ars, a SCCLim88Awith accrC recombinase, and a novel subtype of SCCmectype VI (VIb). This mosaic structure suggests a high recombination rate of SCC elements from distinct staphylococci species.

scholarly journals A Staphylococcus xylosus Isolate with a NewmecCAllotype

2012 ◽  
Vol 57 (3) ◽  
pp. 1524-1528 ◽  
Author(s):  
Ewan M. Harrison ◽  
Gavin K. Paterson ◽  
Matthew T. G. Holden ◽  
Fiona J. E. Morgan ◽  
Anders Rhod Larsen ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Whole Genome ◽  
Content Type ◽  
Staphylococcus Xylosus ◽  
Novel Variant ◽  
Staphylococcal Cassette Chromosome ◽  
Class E

ABSTRACTRecently, a novel variant ofmecAknown asmecC(mecALGA251) was identified inStaphylococcus aureusisolates from both humans and animals. In this study, we identified aStaphylococcus xylosusisolate that harbors a new allotype of themecCgene,mecC1. Whole-genome sequencing revealed thatmecC1forms part of a class Emeccomplex (mecI-mecR1-mecC1-blaZ) located at theorfXlocus as part of a likely staphylococcal cassette chromosomemecelement (SCCmec) remnant, which also contains a number of other genes present on the type XI SCCmec.

scholarly journals In vivorecombination ofSaccharomyces eubayanusmaltose-transporter genes yields a chimeric transporter that enables maltotriose fermentation

2018 ◽  
Author(s):  
Nick Brouwers ◽  
Arthur R. Gorter de Vries ◽  
Marcel van den Broek ◽  
Susan M. Weening ◽  
Tom D. Elink Schuurman ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Tertiary Structure ◽  
Mosaic Structure ◽  
Whole Genome ◽  
Transporter Gene ◽  
Laboratory Evolution ◽  
Saccharomyces Pastorianus ◽  
Maltose Transporter ◽  
Flavor Profile

AbstractSaccharomyces pastorianuslager-brewing yeasts are aneuploidS. cerevisiaexS. eubayanushybrids, whose genomes have been shaped by domestication in brewing-related contexts. In contrast to mostS. cerevisiaeandS. pastorianusstrains,S. eubayanuscannot utilize maltotriose, a major carbohydrate in brewer’s wort. Accordingly,S. eubayanusCBS 12357⊤harbors fourSeMALTmaltose-transporter genes, but no genes resembling theS. cerevisiaemaltotriose-transporter geneScAGT1or theS. pastorianusmaltotriose-transporter geneSpMTY1. To study the evolvability of maltotriose utilization inS. eubayanusCBS 12357⊤, maltotriose-assimilating mutants obtained after UV mutagenesis were subjected to laboratory evolution in carbon-limited chemostat cultures on maltotriose-enriched wort. An evolved strain showed improved maltose and maltotriose fermentation, as well as an improved flavor profile, in 7-L fermenter experiments on industrial wort. Whole-genome sequencing revealed a novel mosaicSeMALT413gene, resulting from repeated gene introgressions by non-reciprocal translocation of at least threeSeMALTgenes. The predicted tertiary structure of SeMalt413 was comparable to the original SeMalt transporters, but overexpression ofSeMALT413sufficed to enable growth on maltotriose, indicating gene neofunctionalization had occurred. The mosaic structure ofSeMALT413resembles the structure ofS. pastorianusmaltotriose-transporter geneSpMTY1, which has sequences with high similarity to alternatinglyScMALx1andSeMALT3. Evolution of the maltotriose-transporter landscape in hybridS. pastorianuslager-brewing strains is therefore likely to have involved mechanisms similar to those observed in the present study.Author SummaryFermentation of the wort sugar maltotriose is critical for the flavor profile obtained during beer brewing. The recently discovered yeastSaccharomyces eubayanusis gaining popularity as an alternative toS. pastorianusandS. cerevisiaefor brewing, however it is unable to utilize maltotriose. Here, a combination of non-GMO mutagenesis and laboratory evolution of theS. eubayanustype strain CBS 12357⊤was used to enable maltotriose fermentation in brewer’s wort. A resultingS. eubayanusstrain showed a significantly improved brewing performance, including improved maltose and maltotriose consumption and a superior flavor profile. Whole genome sequencing identified a novel transporter gene,SeMALT413, which was formed by recombination between three differentSeMALTmaltose-transporter genes. Overexpression ofSeMALT413in CBS 12357⊤confirmed its neofunctionalization as a maltotriose transporter. The mosaic structure of the maltotriose transporter SpMty1 inS. pastorianusresembles that of SeMalt413, suggesting that maltotriose utilization likely emerged through similar recombination events during the domestication of current lager brewing strains.

Utility of Whole Genome Sequencing in diagnosing complex disorders: lesson from renal tubular disorders

2018 ◽  
Author(s):  
Mark Stevenson ◽  
Alistair T Pagnamenta ◽  
Heather G Mack ◽  
Judith A Savige ◽  
Kate E Lines ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Whole Genome ◽  
Complex Disorders ◽  
Tubular Disorders ◽  
Renal Tubular Disorders ◽  
Renal Tubular

0306 Exploring the feasibility of using copy number variants as genetic markers through large-scale whole genome sequencing experiments

2016 ◽  
Vol 94 (suppl_5) ◽  
pp. 146-146
Author(s):  
D. M. Bickhart ◽  
L. Xu ◽  
J. L. Hutchison ◽  
J. B. Cole ◽  
D. J. Null ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genetic Markers ◽  
Genome Sequencing ◽  
Copy Number ◽  
Large Scale ◽  
Copy Number Variants ◽  
Whole Genome

Evaluation of Whole Genome Sequencing for outbreak detection of Salmonella enterica serovar Enteritidis

2020 ◽  
Author(s):  
Ainhoa Arrieta-Gisasola ◽  
Aitor Atxaerandio Landa ◽  
Javier Garaizar ◽  
Joseba Bikandi ◽  
José Karkamo ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Salmonella Enterica ◽  
Outbreak Detection ◽  
Whole Genome ◽  
Salmonella Enterica Serovar Enteritidis
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