J Genomics 2019; 7:46-49. doi:10.7150/jgen.35061

Short Research Paper

Genome Sequence of Kordia sp. Strain SMS9 Identified in a Non-Axenic Culture of the Diatom Skeletonema marinoi

Matthew I.M. Pinder1, Oskar N. Johansson2, Alvar Almstedt1,3, Olga Kourtchenko1, Adrian K. Clarke2, Anna Godhe1, Mats Töpel1,4✉

1. Department of Marine Sciences, University of Gothenburg, Göteborg, Sweden;
2. Department of Biological and Environmental Sciences, University of Gothenburg, Göteborg, Sweden;
3. Clinical Genomics Göteborg, SciLifeLab, Göteborg, Sweden;
4. Gothenburg Global Biodiversity Centre, Göteborg, Sweden.

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Citation:
Pinder MIM, Johansson ON, Almstedt A, Kourtchenko O, Clarke AK, Godhe A, Töpel M. Genome Sequence of Kordia sp. Strain SMS9 Identified in a Non-Axenic Culture of the Diatom Skeletonema marinoi. J Genomics 2019; 7:46-49. doi:10.7150/jgen.35061. Available from http://www.jgenomics.com/v07p0046.htm

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Abstract

Initial efforts to sequence the genome of the marine diatom Skeletonema marinoi were hampered by the presence of genetic material from bacteria, and there was sufficient material from some of these bacteria to enable the assembly of full chromosomes. Here, we report the genome of strain SMS9, one such bacterial species identified in a non-axenic culture of S. marinoi strain ST54. Its 5,482,391 bp circular chromosome contains 4,641 CDSs, and has a G+C content of 35.6%. Based on 16S rRNA comparison, phylotaxonomic analysis, and the genome similarity metrics dDDH and OrthoANI, we place this strain in the genus Kordia, and to the best of our knowledge, this is the first Kordia species to be initially described from European waters. As attempts to culture this strain have failed, however, the specifics of its relationship with S. marinoi are still uncertain.

Keywords: Whole Genome Sequencing, Kordia, Diatom, Skeletonema, Microbiome, Marine sediment