Markup | Genome Research

Table 1.

Summary of de novo genome assembly, quality assessment, and annotation of 35 Eucalypt genomes

Species	Scaffolded genome size (Mbp)	% of genome in scaffolds	Scaffold N50 (Mbp)	Contig N50 (Mbp)	Contig count	BUSCO complete	LAI	TE %
A. floribunda	388.21	99.73%	36.02	4.02	224	96.82%	14.5	34.55%
C. maculata	403.82	99.90%	40.55	4.69	173	97.25%	15.92	36.26%
E. albens^a	606.89	99.79%	56.93	2.55	674	96.47%	17.3	46.57%
E. ANBG9806169	507.93	99.65%	49.61	2.40	476	96.86%	22.16	44.00%
E. brandiana	507.08	99.82%	45.47	7.28	168	98.11%	23.85	44.21%
E. caleyi	589.32	99.53%	59.52	4.77	276	96.47%	18.24	46.00%
E. camaldulensis	558.45	99.87%	52.65	2.48	418	96.73%	16.99	45.31%
E. cladocalyx	544.08	99.68%	51.92	2.80	390	97.59%	18.53	45.85%
E. cloeziana	480.07	99.75%	44.75	1.74	625	97.12%	19.06	42.57%
E. coolabah	606.31	99.53%	53.56	1.29	935	95.44%	15.9	45.89%
E. curtisii	435.26	99.96%	40.29	2.96	288	97.29%	18.34	41.66%
E. dawsonii	706.90	99.35%	67.73	0.99	1342	97.51%	17.01	45.88%
E. decipiens	590.95	99.50%	60.20	1.99	552	96.99%	18.87	46.95%
E. erythrocorys	539.20	99.99%	50.47	4.02	250	97.55%	20.18	47.07%
E. fibrosa	589.91	99.85%	55.66	6.45	192	96.73%	17.49	45.10%
E. globulus	545.02	99.28%	51.39	0.64	1747	96.69%	17.46	44.29%
E. grandis	615.89	99.44%	58.49	0.61	1747	96.09%	17.11	46.53%
E. guilfoylei	472.36	99.97%	44.61	4.25	209	98.02%	16.39	41.22%
E. lansdowneana	633.52	99.92%	59.67	2.35	489	97.12%	19.46	46.10%
E. leucophloia	568.48	99.38%	54.41	2.66	382	96.99%	17.91	44.37%
E. marginata	512.89	98.83%	50.56	1.01	989	96.17%	19.58	43.43%
E. melliodora^a	639.15	99.30%	60.83	1.87	564	98.67%	18.32	47.20%
E. melliodora × E. sideroxylon	603.57	99.80%	57.05	6.22	281	97.72%	17.96	46.71%
E. microcorys	440.91	99.92%	41.20	4.00	233	97.21%	16.2	41.39%
E. paniculata	588.85	99.66%	55.38	3.70	330	97.12%	18.58	44.92%
E. pauciflora	494.03	99.88%	50.46	6.58	209	97.25%	20.29	43.10%
E. polyanthemos	603.28	99.56%	57.46	4.66	300	96.82%	17.52	45.55%
E. pumila	529.75	99.70%	48.19	2.49	473	97.38%	17.74	44.17%
E. regnans	494.97	99.84%	47.06	5.26	205	97.25%	20.18	43.06%
E. shirleyi	597.18	99.88%	56.34	6.91	181	97.29%	19.89	45.85%
E. sideroxylon^a	592.133	99.87%	62.13	5.22	297	96.65%	18.68	46.57%
E. tenuipes	397.78	99.99%	35.74	3.43	207	96.39%	15.07	37.82%
E. victrix	557.16	99.85%	53.19	11.10	120	96.65%	18.71	44.34%
E. viminalis	558.71	99.11%	52.93	0.65	1755	96.47%	16.5	44.57%
E. virginea	532.79	99.97%	56.15	2.39	376	97.08%	17.69	43.78%

[i] Alphabetically ordered list of genomes assembled and associated statistics.

[ii] ^aGenomes for E. albens, E. melliodora, and E. sideroxylon have been previously reported, being assembled using the same pipeline (Ferguson et al. 2023).