LeafGo: Leaf to Genome, a quick workflow to produce high-quality de novo plant genomes using long-read sequencing technology

Table 1 Genome assembly statistics for two Eucalyptus species and A. hypogaea. We calculated the assembly statistics using Quast. CLR-based assemblies were 3-cycle polished as detailed in “Methods”. Results are based on the purged assemblies (see “Methods”).

Plants	Type	Size^d (Mb), ≥ 1 Mb\|total	No. contigs^d, ≥ 1 Mb\|total	N50 (Mb)/L50	N90 (Mb)/L90	Longest contig (Mb)	Alternative size (Mb)
E. rudis^a	HiFi (~ 40×)	531\|549	26\|331	36.0/7	7.3/15	61.8	425
E. rudis^a	CLR (~ 50×)	506\|518	44\|138	16.3/11	5.2/30	33.7	399
E. camaldulensis^b	HiFi (~ 51×)	525\|532	14\|149	41.4/5	23.2/12	69.1	520
E. camaldulensis^b	CLR (~ 230×)	516\|523	28\|77	29.3/7	8.5/19	58.1	570
A. hypogaea^c	HiFi (~ 74×)	2,564\|2,623	114\|1417	42.3/22	10.37/69	90.3	51

^aE. rudis unknown genome size. Coverage estimated based on assembly size
^bE. camaldulensis reference genome size, 558.6 Mb (AC: GCA_014182705.1)
^cA. hypogaea reference genome size, 2557 Mb (AC: GCF_003086295.2)
N50 the smallest length contig at which the cumulative contig lengths equal to 50% of the assembled size, L50 N50 contig count, N90 the smallest length contig at which the cumulative contig lengths equal to 90% of the assembled size, L90 N90 contig count
^dMetric calculated based on (1) minimum contig length cut-off of 1Mb or (2) no cut-off

ISSN: 1474-760X