Manual and expert annotation of the nearly complete genome sequence of Staphylococcus sciuri strain ATCC 29059: a reference for the oxidase-positive staphylococci that supports the atypical phenotypic features of the species group

Autor: Tatiana Vallaeys, Dominique Clermont, Alexis Criscuolo, Cécile Wandersman, Catherine Dauga, Josef Deutscher, Eugene Christo-Foroux, Elie Dassa, Valentin Loux, Olivier Chesneau, Aurélien Livernois, Chloé Hot
Přispěvatelé: Institut Pasteur [Paris], Université de Montpellier (UM), Mathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] (MaIAGE), Institut National de la Recherche Agronomique (INRA), Expression Génétique Microbienne (EGM (UMR_8261 / FRE_3630)), Institut de biologie physico-chimique (IBPC (FR_550)), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Centre de Bioinformatique, Biostatistique et Biologie Intégrative (C3BI), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), International Group of Data Analysis (IGDA), Collection de l'Institut Pasteur (CIP), This work is dedicated to the memory of Pr. Cécile Wandersman and was in part supported by the ANR 12-BSV3-022/2012/2014. A.L. was an Interreg SUDOE 'ENERMASS' fellowship recipient. All authors are indebted to Dr. Nicolas Berthet for critically reading the manuscript before publication., ANR-05-PADD-0012,PRODDIG,Promotion du Développement Durable par les Indications Géographiques(2005), Institut Pasteur [Paris] (IP), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Institut de biologie physico-chimique (IBPC), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Institut de biologie physico-chimique (IBPC)
Jazyk: angličtina
Rok vydání: 2017
Předmět:
0301 basic medicine
MESH: Sequence Analysis
DNA
Operon
Staphylococcus
[SDV]Life Sciences [q-bio]
Oxidase-positive Staphylococcus
MESH: Base Sequence
medicine.disease_cause
MESH: Genome
Bacterial
Applied Microbiology and Biotechnology
Genome
MESH: Terpenes
MESH: High-Throughput Nucleotide Sequencing
Genetics
biology
MESH: Novobiocin
High-Throughput Nucleotide Sequencing
MESH: Sigma Factor
MESH: Staphylococcus
MESH: Mevalonic Acid
Phosphoenolpyruvate:carbohydrate phosphotransferase systems
Phenotype
MESH: ATP-Binding Cassette Transporters
Oxidoreductases
Novobiocin
030106 microbiology
Virulence
Mevalonic Acid
Sigma Factor
Two-component regulatory systems
MESH: Phosphoenolpyruvate Sugar Phosphotransferase System
MESH: Phenotype
Microbiology
03 medical and health sciences
Drug Resistance
Bacterial
MESH: Drug Resistance
Bacterial
Staphylococcus sciuri
medicine
Humans
MESH: Oxidoreductases
prokaryote complete genome
Phosphoenolpyruvate Sugar Phosphotransferase System
Iron transport
Gene
Ecology
Evolution
Behavior and Systematics
Whole genome sequencing
Bacillaceae
MESH: Humans
Base Sequence
Terpenes
Mevalonate
Sequence Analysis
DNA
biology.organism_classification
ATP-Binding Cassette Transporters
ATP-binding cassette systems
Genome
Bacterial
Zdroj: Systematic and Applied Microbiology
Systematic and Applied Microbiology, Elsevier, 2017, 40 (7), pp.401-410. ⟨10.1016/j.syapm.2017.07.002⟩
Systematic and Applied Microbiology, 2017, 40 (7), pp.401-410. ⟨10.1016/j.syapm.2017.07.002⟩
ISSN: 0723-2020
Popis: Accepted Manuscript :3-7-2017; Staphylococcus sciuri is considered to be one of the most ancestral species in the natura history of the Staphylococcus genus that consists of 48 validly described species. It belongs to the basal group of oxidase-positive and novobiocin-resistant staphylococci that diverged from macrococci approximately 250 million years ago. Contrary to other groups, the S. sciuri species group has not developed host-specific colonization strategies. In this current study, the genome analysis of S. sciuri ATCC 29059 provided the first genetic basis for atypical traits that would support the switch between the free-living style and the infective state in animals and humans. From among the most remarkable features, it was noticed in this extensive study that there were a number of phosphoenolpyruvate:carbohydrate phosphotransferase systems (PTS), almost twice as many as any other staphylococci, and the co-occurrence of mevalonate and non-mevalonate pathways for isoprenoid synthesis. The sequenced strain was devoid of the main virulence factors present in Staphylococcus aureus, although it exhibited numerous heme and iron acquisition systems, as well as crt and aldH genes necessary for gold pigment synthesis. The sensing and signaling networks, exemplified by a large and typical repertoire of two-component regulatory systems and a complete panel of master regulators, such as agr, rex, mgrA, rot, sarA and sarR genes, depicted the background in which S. aureus virulence genes were later acquired. An additional sigma factor, a distinct set of electron transducer elements and many gene operons similar to those found in Bacillus spp. would constitute the most visible remnant links with Bacillaceae organisms.
Databáze: OpenAIRE
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