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The final plasmid series containing only the Km-resistance cassette was named pSN nK, and the plasmid series containing the cassette with the two selective markers was named pSN nKS.
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Markers were named by adding KG to the original indel information ID, R*** (Shen et al. 2004) or S**** (Monna et al. 2006).
Markers were named as follows: BAC clone name where the polymorphisms locate and marker type abbreviation; i for insertion/deletion (IN/DEL) marker, c for cleaved amplified polymorphic sequences (CAPS) marker and d for derived CAPS (dCAPS) marker (Figure 6A).
Markers were named after the closest psi-BLAST hit.
*Gene markers are named following annotations in ENSEMBLE.
The EST-based SNP markers
The SNP markers were named with their gene index name and an allele number.
The markers are named using the NCBI dbSNP accessions and their positions are indicated in centiMorgan.
New microsatellite markers were named in accordance with the convention outlined by [ 30].
All SSR markers are named using the same convention as in [ 15].
All mapped markers were named after aligning to the reference genome sequence of apple.
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