A new set of microsatellite loci (simple sequence repeats, SSRs) from the
overexploited mangrove crab Ucides cordatus is described in this study.
Microsatellite isolation used a highly simplified and inexpensive protocol
based on (i) multiple enzyme digestion/ligation; (ii) mixed biotin-labeled
probes and streptavidin-coated magnetic bead hybridization capture strategy,
and (iii) a double-repeat-enrichment procedure. A genomic library,
double-enriched for inserts containing tetranucleotide repeat motifs
[(GACA)6, (GATA)7, (GGAT)5 and (GTAT)5], was constructed to increase the
chance of recovering SSR-containing sequences within DNA fragments. Amplified
enriched DNA was cloned and transformed into competent E. coli. Then,
positive clones were identified by 'white/blue plaque selection?. One hundred
and five colonies were PCR-screened for sequencing, and 72 of these were
found to have unique SSR inserts. Microsatellite motifs contained more than
five repeats, and most loci were found to have perfect tandem repeats
(51.4%), of which 94.4% were dinucleotide and 5.5% trinucleotide. Only 20% of
all loci were compound and 28.6% were imperfect repeats containing di-, tri-
and/or tetranucleotides. The high frequency of perfect repeat motifs after
enrichment is additional evidence of the importance of adopting this
procedure for the isolation of SSR. The novel 34 SSRs described in this study
are expected to be highly polymorphic and, therefore, useful in
population/stocks discrimination of this valuable mangrove species throughout
its range, currently subjected to excessive fishing efforts.