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

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

rDNA	Platform^a/method	Read Archive accession	Total reads	Mapped reads^b/BLAST hits	GP^c (%)	GS^d rDNA (Mb)	Copies^e (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
18S	PB	SRR1930096	555,762	1,436	0.08	0.91	~570

^aSequencing platform: IL – Illumina; PB – PacBio
^bThe number refers to the number of Illumina reads mapped to 5S reference or 5S hits with the PacBio data base
^c GP – genome proportion
^dGS – 5S genome space was calculated from GP: genome size (MB) * GP (%), considering 1100 Mb/1C the E. lucius genome size
^eThe copies were calculated as follows: GS (bp) divided by size of the 5S unit monomer (220 bp)
^fExperimental evaluation of copies by the slot blot hybridisation (Additional file 2: Figure S2)

ISSN: 1471-2164