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Genome-Wide Analysis of Simple Sequence Repeats in Marine Animals—a Comparative Approach

Jiang, Qun, Li, Qi, Yu, Hong, Kong, Lingfeng·2014·Marine Biotechnology
DOI 10.1007/s10126-014-9580-1
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Abstract

Tandem simple sequence repeats (SSRs) are one of the most popular molecular markers in genetic analysis owing to their ubiquitous occurrence,high reproducibility, multiallelic nature, and codominant mode. High mutability makes SSRs play a role in genome evolution and correspondingly show different patterns. Comparative analysis of genomic SSRs in different taxonomic groups usually focuses on land species, while marine animals have been neglected. This study examined the abundance of genomic SSRs with repeated unit lengths of 1-6 bp in 30 marine animals including nine taxonomic groups and further compared with the land species. More than thousands of SSRs were discovered in every organism which provided a huge resource for the development of molecular markers. Thirty marine animals showed profound differences in SSR characteristics, but some group-specific trends were also found. Both similarities and differences of repeat patterns were discovered between the land and marine species. Two taxon-specific SSR types were discovered: the pentanucleotides motif AGAGG in Euteleostei and the hexanucleotide repeats of ATGTAC in Porifera and Echinodermata. Gene ontology (GO) enrichment analysis of two representative species (Amphimedon queenslandica for Porifera and Strongylocentrotus purpuratus for Echinodermata) revealed functional preference of the ATGTAC motif associated genes, and this might hint at evolutionary significance.

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Metadata

Authors
Jiang, Q., Li, Q., Yu, H., & Kong, L.
Venue
Marine Biotechnology
Publisher
Springer Science and Business Media LLC
Published
2014-06-19
Volume
16
Issue
5
Pages
604-619
ISSN
  • 1436-2228
  • 1436-2236
DOI
10.1007/s10126-014-9580-1
Cited by
32
References
2
Language
en
Licence
www.springer.com/tdm (tdm)

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Jiang, Q., Li, Q., Yu, H., & Kong, L. (2014). Genome-Wide Analysis of Simple Sequence Repeats in Marine Animals—a Comparative Approach. Marine Biotechnology. https://doi.org/10.1007/s10126-014-9580-1