A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes

Sheila Podell; Jessica M. Blanton; Aaron Oliver; Michelle A. Schorn; Vinayak Agarwal; Jason S. Biggs; Bradley S. Moore; Eric E. Allen

doi:10.1186/s40168-020-00877-y

Microbiome

Table 1 Metagenome-assembled genome properties

From: A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes

Host clade	MAG name	Total length	Pct GC	Num scf	Gene count	16S len	CheckM complete	CheckM contam	Taxonomy
Ia	SP12AHP1	2,316,397	54.6	125	2323	1467	91.4	0.0	Alphaproteobacteria; Rhodobacterales; Hyphomonadaceae
Ia	SP12ARB1	2,913,125	57.2	262	3307	1381	69.1	0.0	Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae
Ia	SP12BCY1	2,978,903	39.9	202	2868	1517	100.0	0.0	Bacteroidetes; Cytophagia; Cytophagales; Cytophagaceae; Ekhidna
Ia	SP12CHS1	4,999,041	48.0	573	6155	1486	96.6	0.2	Cyanobacteria; Oscillatoriophycideae; Oscillatoriales; Gomontiellaceae; Hormoscilla
Ia	SP5AHP2	2,126,940	54.9	153	2340	1467	87.8	0.0	Alphaproteobacteria; Rhodobacterales; Hyphomonadaceae
Ia	SP5ARB1	2,540,908	59.8	118	2682	1415	82.4	3.4	Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae
Ia	SP5ARS3	2,817,712	63.5	46	2617	n.d	94.8	0.0	Alphaproteobacteria: Rhodospirillales
Ia	SP5BCY1	2,936,924	39.7	200	2813	1517	96.4	0.5	Bacteroidetes; Cytophagia; Cytophagales; Cytophagaceae; Ekhidna
Ia	SP5CHS1	4,838,078	47.7	445	5922	1484	96.6	0.2	Cyanobacteria; Oscillatoriophycideae; Oscillatoriales; Gomontiellaceae; Hormoscilla
Ia	SP5CPC	2,787,143	43.8	397	3056	1442	77.4	0.0	Cyanobacteria; Synechococcales; Prochloraceae; Prochloron
Ia	SP5GCR1	1,621,865	44.7	28	1518	1542	98.3	0.0	Gammaproteobacteria; Chromatiales
Ia	SP5OBV1	1,589,243	29.8	57	1544	1469	91.2	0.0	Oligoflexia; Bdellovibrionales
Ib	GM102ARS1	1,092,149	65.2	302	1180	263	41.2	0.8	Alphaproteobacteria: Rhodospirillales
Ib	GM102HS1	5,041,890	47.5	518	6591	227	95.7	1.8	Cyanobacteria; Oscillatoriophycideae; Oscillatoriales; Gomontiellaceae; Hormoscilla
II	GM202ARS1	2,820,038	63.5	18	2912	1500	100.0	0.0	Alphaproteobacteria: Rhodospirillales
II	GM202ARS2	1,828,912	53.3	49	1885	1496	85.3	0.8	Alphaproteobacteria: Candidatus Methylospongiales
II	GM202BCY1	3,008,284	40.3	122	2918	1517	94.9	0.5	Bacteroidetes; Cytophagia; Cytophagales; Cytophagaceae; Ekhidna
II	GM202CHS1^a	6,869,623	47.5	70	7441	1492	97.4	2.0	Cyanobacteria; Oscillatoriophycideae; Oscillatoriales; Gomontiellaceae; Hormoscilla
III	GM7ARB1	2,553,113	60.7	59	2499	1463	96.6	0.0	Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae
III	GM7ARB2	2,578,993	59.9	37	2551	1235	93.7	0.9	Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae
III	GM7ARS4	1,589,243	52.0	24	1425	66	91.0	0.8	Alphaproteobacteria: Candidatus Methylospongiales
III	GM7CHS1^b	6,299,679	47.8	6	6160	1484	100.0	1.8	Cyanobacteria; Oscillatoriophycideae; Oscillatoriales; Gomontiellaceae
III	GM7GCV1	1,911,341	61.0	40	1792	1524	89.1	0.0	Gammaproteobacteria; Cellvibrionales

Additional metadata and genome quality information are provided in Supplementary Table 3; n.d. not detected. Symbols denote genomes previously described in [13]
^aMAG GUM202CHS1 is identical to NCBI accession RFFC00000000.1
^bMAG GM7CHS1 was newly assembled as described in the “Methods” section, replacing NCBI accession RFFB00000000.1

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