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Table 1 Strawberry accessions and sequence data used for variant discovery in the respective filtration panels

From: Development and preliminary evaluation of a 90 K Axiom® SNP array for the allo-octoploid cultivated strawberry Fragaria × ananassa

Name Taxon NCBI SRX numbers Total trimmed reads (Million) Mean coverage depth ( x ) GDP HD-16 HD-20
‘Winter Dawn’ F. ×ananassa SRX651592 394.5 48.7
‘Sweet Charlie’ F. ×ananassa SRX651582 407.8 37.0
‘Fenella’ F. ×ananassa SRX651547 397.7 34.9
HolKor 2321 F. ×ananassa SRX651548 221.6 32.3
‘Emily’ F. ×ananassa SRX651546 400.4 31.2
HolKor 2637 1 F. ×ananassa SRX651574 220.1 30.0
HolKor 2557 F. ×ananassa SRX651553 208.6 26.0
HolKor 2549 F. ×ananassa SRX651551 204.7 24.9
Dover × Camarosa F 2 _34 2 F. ×ananassa SRX651599 76.9 19.7 -
HolKor 2637 3 F. ×ananassa SRX651567 113.4 16.7 -
HolKor 2580 F. ×ananassa SRX651558 192.2 15.1 - -
‘Korona’ F. ×ananassa SRX651580 194.2 14.2 - -
HolKor 2529 F. ×ananassa SRX651549 125.1 5.7 - -
‘Holiday’ F. ×ananassa SRX651579 123.1 4.6 - -
CA65.65-601 F. ×ananassa SRX651545 126.1 4.3 - -
NH SB480 4 F. ×ananassa - 107.9 2.7 - -
CFRA 1992 (BC6) F. virginiana SRX651527 101.8 2.0 - -
CFRA 1691 F. chiloensis SRX651521 142.1 5.6 - -
CFRA 743 F. chiloensis SRX651520 397.5 4.1 - -
Fc 4 F. chiloensis - 359.7 4.0 - -
CFRA 480 (‘Yellow Wonder’) 5 F. vesca SRX651526 38.3 9.5 - - -
CFRA 1984 (‘Pawtuckaway’) 5 F. vesca SRX651525 39.3 9.1 - - -
CFRA 985 (‘Baron Solemacher’) 5 F. vesca SRX651524 30.9 6.6 - - -
CFRA 1947 6 F. mandshurica SRX651523 31.8 7.1 - - -
CFRA 1849 6 F. iinumae SRX651522 35.5 4.6 - - -
F1D 4 F. iinumae - 171.0 36.0 - - -
  1. 1Sequenced at the Center for Genome Research and Biocomputing at Oregon State University.
  2. 2150 bp paired-end sequencing and use of GAIIx for sequencing.
  3. 3Sequenced by Illumina Inc.
  4. 4Sequences provided upon request from Thomas Davis.
  5. 5Illumina index adaptors were added and samples were pooled in equimolar amounts for sequencing in one lane.
  6. 680 bp paired-end sequencing with GAIIx.
  7. The octoploid Global Discovery Panel (GDP) and F. iinumae F1D sample were used for variant discovery. Filtration subpanels consisted of octoploid HD-16 and HD-20 subpanels described in the Methods. Total trimmed reads, mean coverage depth and NCBI SRX numbers are listed. Note that the HolKor 2637 seedling was sequenced twice, and so is listed twice in this table.