Table 2.

Genome assembly and annotation metrics for nine species of Caenorhabditis

Species	Species number	Sequenced strain	Assembly span (Mbp)	Scaffold count (n)	N50 (kbp)	Ns%	BUSCO genome complete/fragmented %	Protein‐coding gene count (n)	BUSCO proteome complete/fragmented %
C. parvicauda	21	NIC534	93.7	5,719	44.4	1.11	89.5/5	16,412	89.9/6.4
C. zanzibari	26	JU2190	101.1	3,128	91.3	0.22	98.2/1.2	22,198	98.6/1
C. panamensis	28	QG2080	79.0	986	487.2†	1.16	97.3/1.8	17,134*	91.9/3.6
C. becei	29	QG2083	87.9	1,567	767.5†	1.74	97.5/1.4	18,669*	91.9/3.9
C. uteleia	31	JU2585	104.0	3,222	177.0	0.99	96/3.1	27,614	96.1/3.1
C. sulstoni	32	JU2788	65.1	2,044	136.7	0.59	97.9/1	18,192	95.3/3.3
C. quiockensis	38	JU2809	100.4	4,890	139.4	0.09	96.1/3.2	22,278	95.7/3.4
C. waitukubuli	39	NIC564	91.4	21,203	15.1	1.27	92.5/4.8	30,089	92.7/5.5
C. tribulationis	40	JU2818	101.2	3,276	224.5	0.15	97.7/1.1	24,787	97.9/1.4
C. elegans	‐	N2	100.2	7	17,493.8	0.00	98.4/1.0‡	20,094	99.7/0.3‡

^*RNA‐seq data were not generated and therefore not used to guide gene prediction.

^†long‐insert (or “mate‐pair”) data were used during assembly. BUSCO version 3.0.2 was used with the ‘Nematoda_odb9’ dataset for both genome and proteome completeness assessment. Scaffolds shorter than 500 bp were discarded prior to annotation. Wormbase version WS264 of the C. elegans genome was used (Lee et al. 2018).

^‡BUSCO does not find core genes in the complete C. elegans N2 genome. More detailed metrics are presented in Table S3.