Open Access Research article

Comparative genome analysis of Streptococcus infantarius subsp. infantarius CJ18, an African fermented camel milk isolate with adaptations to dairy environment

Christoph Jans, Rainer Follador, Mira Hochstrasser, Christophe Lacroix, Leo Meile* and Marc J A Stevens

Author Affiliations

Laboratory of Food Biotechnology, Institute of Food, Nutrition and Health, Schmelzbergstrasse 7, ETH Zurich, Zurich, CH, 8092, Switzerland

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BMC Genomics 2013, 14:200  doi:10.1186/1471-2164-14-200

Published: 22 March 2013

Additional files

Additional file 1:

Complete table of CDS in Sii genome CJ18 in comparison with reference strain genomes. Description of data: This table contains all CDS of the African Sii genome CJ18 (excluding the plasmid) in comparison with reference strain genomes used in this study. A reverse comparison of CDS present in Sii ATCC BAA-102T versus CJ18 is included. The CDS of the plasmid pSICJ18-1 are included in a separate tab with their highest NCBI Blast database gene match.

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Additional file 2:

Synteni plot of genome Sii CJ18 (x) vs. (A) S. gallolyticus subsp. macedonicus ACA-DC 198 (y), (B) S. gallolyticus subsp. gallolyticus UCN34 (y) and (C) S. gallolyticus subsp. gallolyticus ATCC BAA-2069 (y). Description of data: Similar to the genome of Sii ATCC BAA-102T, Sii CJ18 and S. gallolyticus strains ACA-DC 198, ATCC BAA-2069 and UCN34 display a high degree of conservation indicated by the alignment near the diagonal line. The same major insertion sites as in ATCC BAA-102T can be identified as R4 (34.2 kb) consisting largely of phage-related genes; R6 (25.6 kb) encompassing a 13.2-kb S. thermophilus-gene cluster comprising the additional gal-lac operon; and R9 (26.1 kb) containing among others an HTH-type transcriptional regulator rgg, primosomal protein N’ (replication factor Y) – superfamily II helicase and an FtsK/SpoIIIE family protein. The dairy isolate S. gallolyticus subsp. macedonicus ACA-DC 198 features an additional unique region R12 comprising bacteriocin-related structures of macedocin, salavaricin, lantibiotic modifying enzymes and transporters.

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Additional file 3:

Unique 13.2-kb gene locus with high DNA sequence identity to S. thermophilus in Sii genome CJ18. Description of data: The African Sii CJ18 harbors an approximately 13.2-kb insert of DNA with high sequence identity to S. thermophilus LMD-9 (white arrows) within a 25.6-kb insert (R6, Sinf_0915-Sinf_0939). The 18.4-kb gap between Sinf_0910 to Sinf_0928 was largely occupied with hypothetical proteins of unknown origin, few transporters and phage-related genes. Genes are not drawn to scale. Gene numbering corresponds to CDS region Sinf_0910-Sinf_0938. Black arrows indicate S. infantarius identity; grey other streptococci and white S. thermophilus identity.

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Additional file 4:

Phenotypes of CJ18WT and mutant KO derivatives on BHI/X-Gal/IPTG agar media. Description of data: Confirmation of phenotypes of wild type, reference and KO strains on BHI/X-Gal/IPTG agar media yielding blue colonies for CJ18WT, CJ18ΔlacIIC, CJ18ΔlacS and white colonies for CJ18ΔlacZ and CCUG 43820T.

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Additional file 5:

Growth kinetics of wild type and knock-out strains of Sii CJ18 in glucose medium. Description of data: Growth kinetics of CJ18 wild type (A), CJ18ΔlacIIC (B), CJ18ΔlacS (C) and CJ18ΔlacZ (D) were compared in Elliker-based glucose medium for optical density (OD600 ■) and for metabolites glucose (∇),lactate (○) and galactose (ᐃ) in cell-free supernatant. Representative curves of two independent repetitions per strain are shown.

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