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Open Access Short Report

Intragenic tandem repeats in Daphnia magna: structure, function and distribution

Isabelle Colson, Louis Du Pasquier and Dieter Ebert*

Author Affiliations

Basel University, Zoological Institute, Vesalgasse 1, CH-4051 Basel, Switzerland

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BMC Research Notes 2009, 2:206  doi:10.1186/1756-0500-2-206

Published: 6 October 2009

Additional files

Additional file 1:

PCR conditions for polymorphic VNTR loci. Label: F-primer fluorescent label used. [MgCl2]: Concentration of MgCl2 used in the PCR buffer. An asterisk following MgCl2 concentration indicates hot start PCR.

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Additional file 2:

Description of the 74 polymorphic VNTR loci. EST locus: locus containing the VNTR; Size: size of the repeated motif; Sequence: repeat consensus sequence. N: number of repeats, [the number of perfect repeatsm with exact consensus sequence, is shown in brackets]; A: number of alleles. *: total number of alleles in loci with more than one repeated motif. He: Gene diversity.

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Open Data

Additional file 3:

Results of homology searches and putative functions of EST loci. TM: transmembrane regions. Function categories: DEF: defense; MET: metabolism; OTH: other; SIG: signaling and gene expression regulation; SUR: surface and integumental proteins; UNK: unknown function. No hit: no significant homolog found (cut-off E-value 0.0001).

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Open Data

Additional file 4:

Distribution of allele sizes of polymorphic loci in each sampled location.

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Open Data