Table 2

SNPs identified in the eight pools of C. melo genotypes resequenced with SOLiD
Pool Sequence length1 Total N° SNPs2 SNPs/kb N° SNPs with MAF < 0.7 (%)3
C. melo subespecies agrestis
 1) African agrestis 13,230,637 bp 117,204 8.9 9,133 (7.8)
 2) Asian agrestis-acidulus 14,275,353 bp 96,460 6.8 10,197 (10.6)
 3) Far East conomon 13,218,638 bp 81,807 6.2 1,305 (1.6)
Intermediate types
 4) Middle East and Indian momordica-dudaim-flexuosus 15,745,206 bp 132,792 8.4 13,826 (10.1)
C. melo subespecies melo
 5) Group cantalupensis 13,982,666 bp 102,565 7.3 6,317 (6.2)
 6) Group melo Europe-Asia inodorus-chandalak-ameri 4,430,082 bp 40,762 9.2 2,417 (5.9)
 7) inodorus Spanish landraces 12,505,399 bp 79,551 6.4 3,210 (4.0)
 8) inodorus group market class Piel de Sapo 8,680,064 bp 43,363 4.9 1,396 (3.2)

1 Number of nucleotides sequenced at least 6 times used for SNP mining in each pool.

2 Total number of SNPs detected within each pool (SNPs with two or more alleles within the corresponding group).

3 Total number of highly variable SNPs (those with a frequency of the major allele, MAF, <0.7). In parentheses the percentage over the total number of SNPs is indicated.

Blanca et al.

Blanca et al. BMC Genomics 2012 13:280   doi:10.1186/1471-2164-13-280

Open Data