Genome-Wide SNP-genotyping array to study the evolution of the human pathogen Vibrio vulnificus Biotype 3

Vibrio vulnificus is an aquatic bacterium and an important human pathogen. Strains Of V. vulnificus are classified into three different biotypes. The newly emerged biotype 3 has been found to be clonal and restricted to Israel. In the family Vibrionaceae , horizontal gene transfer is the main mechanism responsible for the emergence of new pathogen groups. To better understand the evolution of the bacterium, and in particular to trace the evolution of biotype 3, we performed genome-wide SNP genotyping of 254 clinical and environmental V. vulnificus isolates with worldwide distribution recovered over a 30-year period, representing all phylogeny groups. A custom single-nucleotide polymorphism (SNP) array implemented on the Illumina GoldenGate platform was developed based on 570 SNPs randomly distributed throughout the genome. In general, the genotyping results divided the V. vulnificus species into three main phylogenetic lineages and an additional subgroup, clade B, consisting of environmental and clinical isolates from Israel. Data analysis suggested that 69% of biotype 3 SNPs are similar to SNPs from clade B, indicating that biotype 3 and clade B have a common ancestor. The rest of the biotype 3 SNPs were scattered along the biotype 3 genome, probably representing multiple chromosomal segments that may have been horizontally inserted into the clade B recipient core genome from other phylogroups or bacterial species sharing the same ecological niche. Results emphasize the continuous evolution of V. vulnificus and support the emergence of new pathogenic groups within this species as a recurrent phenomenon. Our findings contribute to a broader understanding of the evolution of this human pathogen

Asteroid breakup linked to the Great Ordovician Biodiversification Event

Author Posting. © Nature Publishing Group, 2007. This is the author's version of the work. It is posted here by permission of Nature Publishing Group for personal use, not for redistribution. The definitive version was published in Nature Geoscience 1 (2008): 49-53, doi:10.1038/ngeo.2007.37.The rise and diversification of shelled invertebrate life in the early Phanerozoic took place in two major steps. During the Cambrian Explosion at ca. 540 Ma a large number of new phyla appeared over a short time interval. Biodiversity at the family, genus and species level, however, remained low until the Great Ordovician Biodiversification Event (GOBE) in the mid-Ordovician. This event represents the most intense phase of species radiation during the Paleozoic and the biological component of planet's seafloors was irreversibly changed. The causes of the GOBE remain elusive mainly because of a lack of detailed data relating faunal to environmental change. Here we show that the onset of the major phase of the GOBE coincides at ca. 470 Ma with the disruption in the asteroid belt of the L chondrite parent body, the largest documented asteroid breakup event during the last few billion years. The precise coincidence between an event in space and on Earth is established by bed-by-bed records of extraterrestrial chromite, osmium isotopes and invertebrate fossils in mid- Ordovician strata in Baltoscandia and China. We argue that frequent impacts on Earth of kilometer-sized asteroids accelerated the biodiversification. This is supported also by abundant mid-Ordovician fossil meteorites and impact craters.This study was supported by funds to B.S. from the National Geographic Society, Swedish Research Council (VR) and Crafoord Foundation and to D.A.T.H. from the Carlsberg Foundation