Research Article
Development of Pineapple Microsatellite Markers and Germplasm Genetic Diversity Analysis
Table 6
Comparisons of different search criteria and software for SSR development.
| | References | |
Wöhrmann and Weising [6] | Ong et al. [19] | In this study |
| Software to assemble ESTs | Geneious 5.0 software | SeqMan software | StackPACK v2.2 program | Software to search SSRs | SciROKO | SynaRex tool | MISA | Search criteria | Mono- ≥ 15, di- ≥ 7, tri-, tetra-, penta-, hexa- ≥ 5 | Di- ≥ 8, tri- ≥ 6, tetra- ≥ 5 | Mono- ≥ 10, di-, tri- ≥ 6, tetra-, penta-, hexa- ≥ 5 | No. of ESTs analysised | 5659 Moyle et al. [20] | 5931 Moyle et al. [20], Ong et al. [19] | 5659 Moyle et al. [20] | No. of SSRs identified | 581 | 416 | 588 | No. of SSR motif types | 42 | 5 | 44 | Frequency of SSRs | 1/4.1 KB | Not mentioned | 1/3.73 KB | SSRs for primerdesign | 537 | 133 | 588 | No. of di- | 240 | 203 | 381 | No. of tri- | 251 | 213 | 158 | No. of (CG)n | 2 | 0 | 1 |
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Mono-, di-, tri-, tetra-, penta- and hexa- represent mononucleotide repeats, dinucleotide repeats, trinucleotide repeats, tetranucleotide repeats and hexanucleotide repeats, respectively.
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