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Table 1 Copy number of rRNA genes in E. lucius determined from NGS reads and Southern blot hybridisation

From: Higher-order organisation of extremely amplified, potentially functional and massively methylated 5S rDNA in European pikes (Esox sp.)

rDNA Platforma/method Read Archive accession Total reads Mapped readsb/BLAST hits GPc (%) GSd rDNA (Mb) Copiese (1C)
5S IL SRR1197513 166,395,976 366,676 0.22 2.42 ~20,200
PB SRR1930096 555,762 29,151 0.16 1.81 ~18,000
S.blot f     5 53 ~200,000
18S IL SRR1197513 166,395,976 199,694 0.12 1.32 ~820
PB SRR1930096 555,762 1,436 0.08 0.91 ~570
  1. aSequencing platform: IL – Illumina; PB – PacBio
  2. bThe number refers to the number of Illumina reads mapped to 5S reference or 5S hits with the PacBio data base
  3. c GP – genome proportion
  4. dGS – 5S genome space was calculated from GP: genome size (MB) * GP (%), considering 1100 Mb/1C the E. lucius genome size
  5. eThe copies were calculated as follows: GS (bp) divided by size of the 5S unit monomer (220 bp)
  6. fExperimental evaluation of copies by the slot blot hybridisation (Additional file 2: Figure S2)