Microsatellite abundance across the Anthozoa and Hydrozoa in the phylum Cnidaria.
| Autor: | Ruiz-Ramos DV; Department of Biology, Pennsylvania State University, 208 Mueller Laboratory, University Park, PA 16802, USA. dvr116@psu.edu., Baums IB |
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| Jazyk: | angličtina |
| Zdroj: | BMC genomics [BMC Genomics] 2014 Oct 27; Vol. 15, pp. 939. Date of Electronic Publication: 2014 Oct 27. |
| DOI: | 10.1186/1471-2164-15-939 |
| Abstrakt: | Background: Microsatellite loci have high mutation rates and thus are indicative of mutational processes within the genome. By concentrating on the symbiotic and aposymbiotic cnidarians, we investigated if microsatellite abundances follow a phylogenetic or ecological pattern. Individuals from eight species were shotgun sequenced using 454 GS-FLX Titanium technology. Sequences from the three available cnidarian genomes (Nematostella vectensis, Hydra magnipapillata and Acropora digitifera) were added to the analysis for a total of eleven species representing two classes, three subclasses and eight orders within the phylum Cnidaria. Results: Trinucleotide and tetranucleotide repeats were the most abundant motifs, followed by hexa- and dinucleotides. Pentanucleotides were the least abundant motif in the data set. Hierarchical clustering and log likelihood ratio tests revealed a weak relationship between phylogeny and microsatellite content. Further, comparisons between cnidaria harboring intracellular dinoflagellates and those that do not, show microsatellite coverage is higher in the latter group. Conclusions: Our results support previous studies that found tri- and tetranucleotides to be the most abundant motifs in invertebrates. Differences in microsatellite coverage and composition between symbiotic and non-symbiotic cnidaria suggest the presence/absence of dinoflagellates might place restrictions on the host genome. |
| Databáze: | MEDLINE |
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