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Table 1 Sequence datasets used to construct the Douglas-fir reference transcriptome*

From: A SNP resource for Douglas-fir: de novotranscriptome assembly and SNP detection and validation

Plant materials (dataset ID) Collection information MethodcDNA library Total reads in dataset (%) Number of reads filtered from the input dataset (% of library total)
    Short or low-quality Adapter or vector Chloro-plast Mitochon-drial rRNA Retro-transposon
Multi-genotype #1 (MG1 SANG ) Sanger 12,157 (100) 57 (0.47) 0 (0.00) 2 (0.02) 2 (0.02) 0 (0.00) 1 (0.01)
 Cold season Normalized
 Greenhouse Non-normalized
Multi-genotype #2 (MG2 454 ) GS-FLX Titanium 1,709,211 (100) 6649 (0.39) 1893 (0.11) 8570 (0.50) 5519 (0.32) 7264 (0.42) 11,114 (0.65)
 Cold and warm seasons Normalized
Single-genotype (SG 454 ) GS-FLX Titanium 1,241,260 (100) 6582 (0.53) 1826 (0.15) 11,070 (0.89) 10,463 (0.84) 86,828 (7.00) 21,849 (1.76)
 July 8, 2008 Non-normalized
All datasets   2,962,628 (100) 13,288 (0.45) 3719 (0.13) 19,642 (0.66) 15,984 (0.54) 94,092 (3.18) 32,964 (1.11)
  1. * For each dataset, the numbers of reads filtered using the SnoWhite pipeline (Figure 1, Step 3) are shown by sequence type.
  2. GS-FLX Titanium is the Roche 454 sequencing platform.