Genome sequencing and annotation of Proteus sp. SAS71.

We report draft genome sequence of Proteus sp. strain SAS71, isolated from water spring in Aljouf region, Saudi Arabia. The draft genome size is 3,037,704 bp with a G + C content of 39.3% and contains 6 rRNA sequence (single copies of 5S, 16S & 23S rRNA). The genome sequence can be accessed at DDBJ/EMBL/GenBank under the accession no. LDIU00000000.

Direct link to deposited data

http://www.ncbi.nlm.nih.gov/bioproject/?term=LDIU00000000.

Experimental design, materials and methods

Proteus sp. is a Gram-negative, facultatively anaerobic, rod-shaped bacterium. It shows swarming motility and urease activity. In humans, Proteus is found as part of the normal flora of the gut. Its main pathological role is in infections of the urinary tract, but it can also cause wound infections and septicemia. It is widely distributed in soil and water [1].

Genomic DNA was extracted from pure culture of bacterial strain and subsequently sequenced using Roche 454 GS (FLX Titanium) pyrosequencing. All of the reads were assembled using GS De Novo Assembler version 2.8 (454 life science), which generated 1796 contigs with N50 2082 bp. The G + C content was calculated using the draft genome sequence. The G + C content for the draft genome is 39.3%. The genome contains 40 tRNA genes and 6 rRNA genes (5S–23S–16S) predicted by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP).

A total of 3420 protein coding sequences in 353 subsystems were functionally annotated by Rapid Annotation using the Subsystems Technology (RAST) [2] server (Fig. 1). Genome analysis revealed that the genome of Proteus sp. stain SAS71 contains various gene clusters for biosynthesis of secondary metabolites and antimicrobial peptides. Genome analysis revealed that the genome of Proteus sp. SAS71 contains various gene clusters for biosynthesis of biotin and antimicrobial peptides. The genome information displays several virulence genes encoding adhesion, flagellin and hemagglutinin.

Fig. 1

Subsystem distribution of Proteus strain SAS71 (based on RAST annotation server).

Functional comparison of genome sequences in the RAST server revealed the closest neighbors of Proteus mirabilis ATCC 29906 (score 516) followed by P. mirabilis HI 4320 (score 505), Proteus penneri ATCC 35198 (score 482), P. mirabilis WGLW4 (score 445) and P. mirabilis WGLW6 (score 436). On the other hand, the analysis of the complete 16S rRNA sequence in EzTaxonserver (http://www.ezbiocloud.net/eztaxon; [3]) under default settings (with matches only against cultured strains) identified P. mirabilis. Overall the various in silico results confirmed that the present environmental isolate is a member of the genus Proteus, though further characterization work is required to determine its species.

Nucleotide sequence accession number

The Proteus sp. SAS71 whole genome shotgun project has been deposited in DDBJ/EMBL/GenBank under the accession no LDIU00000000.

Conflict of interest

The authors declare that there is no conflict of interests on the work published in this paper.

Specifications
Organism/cell line/tissue	Proteus sp.
Strain(s)	SAS71
Sequencer or array type	Sequencer; Roche 454
Data format	Processed
Experimental factors	Microbial strains
Experimental features	Draft genome sequence ofProteus sp. SAS71Assembly and annotation
Consent	N/A
Sample Source location	Water spring in Aljouf, Saudi Arabia