Comparative genome analysis of Prevotella intermedia strain isolated from infected root canal reveals features related to pathogenicity and adaptation

BMC Genomics
Yunfeng RuanShengying Qin

Abstract

Many species of the genus Prevotella are pathogens that cause oral diseases. Prevotella intermedia is known to cause various oral disorders e.g. periodontal disease, periapical periodontitis and noma as well as colonize in the respiratory tract and be associated with cystic fibrosis and chronic bronchitis. It is of clinical significance to identify the main drive of its various adaptation and pathogenicity. In order to explore the intra-species genetic differences among strains of Prevotella intermedia of different niches, we isolated a strain Prevotella intermedia ZT from the infected root canal of a Chinese patient with periapical periodontitis and gained a draft genome sequence. We annotated the genome and compared it with the genomes of other taxa in the genus Prevotella. The raw data set, consisting of approximately 65X-coverage reads, was trimmed and assembled into contigs from which 2165 ORFs were predicted. The comparison of the Prevotella intermedia ZT genome sequence with the published genome sequence of Prevotella intermedia 17 and Prevotella intermedia ATCC25611 revealed that ~14% of the genes were strain-specific. The Preveotella intermedia strains share a set of conserved genes contributing to its adaptation and p...Continue Reading

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Citations

Aug 15, 2015·Environmental Microbiology·Kimberly A Dill-McFarlandGarret Suen
Oct 25, 2016·Journal of Periodontology·Paula Juliana Pérez-ChaparroMagda Feres
Feb 16, 2017·Journal of Applied Oral Science : Revista FOB·Tamires Szeremeske MirandaPoliana Mendes Duarte
Nov 26, 2015·Antimicrobial Agents and Chemotherapy·Eun-Young JangJin-Yong Lee
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Oct 14, 2020·Clinical Oral Investigations·Tabata P SatoAlexandre L S Borges
Oct 9, 2021·NPJ Biofilms and Microbiomes·Vishnu Prasoodanan P KVineet K Sharma

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Datasets Mentioned

BETA
PRJNA208776
PRJNA163151
CP003502.1
CP003503.1
PRJNA185645

Methods Mentioned

BETA
PCR

Software Mentioned

SeqClean
MEROPS
KEGG Automatic Annotation Server ( KAAS )
rpsblast
BLAST
Pan
Genomes Analysis Pipeline ( PGAP )
RNAmmer1
PGAP
ClustalW2

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