Genomic analysis of the marine yeast Rhodotorula sphaerocarpa ETNP2018 reveals adaptation to the open ocean

BMC Genomics

Table 1 General genomic characteristics of R. sphaerocarpa ETNP2018 and fourteen representative Rhodotorula strains. "I.S.S." represents International Space Station

Source	Species	Strain	Total Length (Mbp)	GC (%)	Scaffolds	Scaffold N50 (bp)	Contigs	Contig N50 (bp)	Annotated Proteins	Gene Models	tRNA
Seawater	R. sphaerocarpa	ETNP2018	17.7	63.4	115	377,844	120	356,447	3210	6451	137
Seawater	R. sphaerocarpa	GDMCC 60679	18.0	63.0	32	1,074,774	32	1,074,774	3213	6310	316
Seawater	R. diobovata	08–225	21.1	67.0	361	118,648	678	82,556	3315	7741	183
Seawater	R. mucilaginosa	CYJ03	19.1	60.5	88	420,192	88	420,192	3073	6620	137
Marine Sediment	R. paludigena	P4R5	21.0	64.3	277	180,700	290	171,007	3406	7430	127
Freshwater	R. glutinis	ZHK	22.3	67.8	30	1,466,672	49	963,562	3376	7569	154
Freshwater	R. kratochvilovae	YM25235	23.7	67.3	46	1,067,950	46	1,067,950	3581	8224	294
Acid Mine Drainage	R. taiwanensis	MD1149	19.6	61.7	181	388,693	227	345,821	3202	6961	113
Endophytic	R. kratochvilovae	Y14	22.0	67.5	46	1,029,848	46	1,029,848	3465	7958	194
Endophytic	R. graminis	WP1	21.0	67.8	26	1,420,730	322	167,431	3213	6875	152
Terrestrial (I.S.S.)	R. mucilaginosa	F6_4S_B_2B	20.2	60.6	199	432,962	222	353,031	3261	7040	124
Terrestrial	R. toruloides	NBRC 0880	20.7	61.8	30	1,390,799	30	1,390,799	3429	8284	128
Terrestrial	R. mucilaginosa	B1	20.0	60.6	225	256,462	225	256,462	3256	7052	113
Terrestrial	R. frigidialcoholis	JG-1b	19.4	67.0	156	301,937	171	280,417	3036	6396	115
Terrestrial	Rhodotorula sp.	CCFEE5036	19.1	60.6	155	337,802	201	256,314	3096	6624	120
Average of all Strains			20.3	64	131	684,401	183	547,774	3275	7169	160
Stdev. of all Strains			1.6	3	103	493,511	168	425,961	154	662	64
Average of seawater strains			19	63.5	149	497,865	230	483,492	3,203	6781	193
Stdev. Of seawater strains			1.5	2.7	145	407,049	301	420,520	99	653	85

ISSN: 1471-2164