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BMC Genomics

, 15:939

Comparative and evolutionary genomics

Abstract

BackgroundMicrosatellite 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.

ResultsTrinucleotide 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.

ConclusionsOur 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.

KeywordsCnidaria Microsatellites Ancestral metazoan Simple sequence repeats Comparative genomics AbbreviationsSSRsSimple Sequence Repeats

WGSWhole genome sequenced

PGSPartial genome sequenced

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-15-939 contains supplementary material, which is available to authorized users.

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Autor: Dannise V Ruiz-Ramos - Iliana B Baums

Fuente: https://link.springer.com/



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