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1. SSR Analysis

1.1. Data Source and SSR mining: The whole genome sequences of M. acuminata and M. balbisiana were downloaded from the Banana Genome Hub (http://banana-genome.cirad.fr/). GSS, EST sequences were retrieved from NCBI, ESTTIK databases (http://esttik.cirad.fr/) and cDNA library sequencing of Cavendish. The est_trimmer.pl was used to remove poly-A repeats, low-quality sequences and low-complexity regions at the 5' and 3' ends. Cleaned and high-quality EST sequences were then assembled by the CAP3 assembler (http://mobyle.pasteur.fr/cgi-bin/portal.py#forms::cap3) using the default parameters. GSS sequences were also assembled by CAP3. Microsatellites were searched using the 3GMAT program (Third Generation Microsatellite Analysis Tools). The search was restricted to perfect di-, tri-, tetra-, penta- and hexanucleotide motifs with a minimum of six, five, five, four and four repeat units, respectively. For compound SSRs, no interrupting nucleotide sequences were permitted between the two SSRs. Forward and reverse primers were designed for the identified SSR using primer3 software with the default parameters. Redundant primer sets were removed by an in-house Perl script called non-redudantSSR.pl.

1.2. SSR frequency and distribution in Musa:

SSR-Frequecy

Figure 1. SSR frequency in the genome of Musa and other plant species.

musa-rice

Figure 2. Distribution of Musa SSR in different category

1.3. In silico transferability of Musa SSR to the other plant species:

SSR-Frequecy

Figure 3. In silico cross taxon transferability and polymorphism of the non-redundant Musa SSR markers to 23 plant genomes (References: Biswas et al 2015 Plos One)