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Original Research ARTICLE

Front. Microbiol., 29 December 2011 | http://dx.doi.org/10.3389/fmicb.2011.00261

Two strains of Crocosphaera watsonii with highly conserved genomes are distinguished by strain-specific features

Shellie R. Bench, Irina N. Ilikchyan, H. James Tripp and Jonathan P. Zehr*
  • Department of Ocean Sciences, University of California, Santa Cruz, Santa Cruz, CA, USA

Unicellular nitrogen-fixing cyanobacteria are important components of marine phytoplankton. Although non-nitrogen-fixing marine phytoplankton generally exhibit high gene sequence and genomic diversity, gene sequences of natural populations and isolated strains of Crocosphaera watsonii, one of the two most abundant open ocean unicellular cyanobacteria groups, have been shown to be 98–100% identical. The low sequence diversity in Crocosphaera is a dramatic contrast to sympatric species of Prochlorococcus and Synechococcus, and raises the question of how genome differences can explain observed phenotypic diversity among Crocosphaera strains. Here we show, through whole genome comparisons of two phenotypically different strains, that there are strain-specific sequences in each genome, and numerous genome rearrangements, despite exceptionally low sequence diversity in shared genomic regions. Some of the strain-specific sequences encode functions that explain observed phenotypic differences, such as exopolysaccharide biosynthesis. The pattern of strain-specific sequences distributed throughout the genomes, along with rearrangements in shared sequences is evidence of significant genetic mobility that may be attributed to the hundreds of transposase genes found in both strains. Furthermore, such genetic mobility appears to be the main mechanism of strain divergence in Crocosphaera which do not accumulate DNA microheterogeneity over the vast majority of their genomes. The strain-specific sequences found in this study provide tools for future physiological studies, as well as genetic markers to help determine the relative abundance of phenotypes in natural populations.

Keywords: comparative genomics, Crocosphaera, exopolysaccharide biosynthesis, genome conservation, mobile genetic elements, nitrogen fixation

Citation: Bench SR, Ilikchyan IN, Tripp HJ and Zehr JP (2011) Two strains of Crocosphaera watsonii with highly conserved genomes are distinguished by strain-specific features. Front. Microbio. 2:261. doi: 10.3389/fmicb.2011.00261

Received: 22 September 2011; Paper pending published: 23 October 2011;
Accepted: 06 December 2011; Published online: 29 December 2011.

Edited by:

Julie LaRoche, Leibniz Institute of Marine Sciences, Germany

Reviewed by:

Katherine McMahon, University of Wisconsin-Madison, USA
Martin W. Hahn, Austrian Academy of Sciences, Austria

Copyright: © 2011 Bench, Ilikchyan, Tripp and Zehr. This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License, which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited.

*Correspondence: Jonathan P. Zehr, Department of Ocean Sciences, University of California, Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA. e-mail: zehrj@ucsc.edu