Table 2 Binned genomes of Illumina-PacBio hybrid assembly

From: Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization

Accession	Bin	Phylogeny	Symbiont guild	% est. com.	Contig no.	Times cov.	Est. size (Mb)	% GC	N50	CDS no.	% in COGs	Dupl.
MPNP00000000	bin131	Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae^a	III	93.69	416	612	4	41.99	19 278	3392	59.58	1
MPMP00000000	bin36	Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Albidovulum^a	II	89.19	201	189	6.3	58.04	44 410	5122	64.02	0
MPMX00000000	bin65	Proteobacteria; Alphaproteobacteria; Rhodospirillales; Rhodospirillaceae; uncultured^b	I	91.89	94	396	4.7	66.16	72 338	4036	76.39	0
MPNO00000000	bin129	Proteobacteria; Alphaproteobacteria; Rhodospirillales; Rhodospirillaceae; Defluviicoccus^b	I	82.88	122	237	5.8	69.54	56 772	4742	72.75	0
MPMV00000000	bin56	Proteobacteria; Alphaproteobacteria; Rickettsiales; EF100-94H03^b	I	93.69	102	54	4.8	63.69	78 682	4292	70.36	0
MPMT00000000	bin52	Proteobacteria; Alphaproteobacteria^c	I	92.79	120	234	4.5	66.54	52 938	3989	72.75	1
MPNG00000000	bin98	Proteobacteria; Alphaproteobacteria^a	III	85.59	105	96	1.9	40.65	46 493	1455	33.68	0
MPNF00000000	bin95	Proteobacteria; Alphaproteobacteria^c	I	75.68	582	152	4.5	66.27	6974	3890	64.16	0
MPMI00000000	bin18	Proteobacteria; Deltaproteobacteria; Desulfurellales; Desulfurellaceae; uncultured^b	I	87.39	83	38	6	57.83	103 191	5238	65.65	0
MPMQ00000000	bin40	Proteobacteria;Gammaproteobacteria;Oceanospirillales;Hahellaceae;Kistimonas;^a	III	93.69	215	76	4	57.27	38 525	2848	46.91	0
MPMU00000000	bin55	Proteobacteria; Gammaproteobacteria^a	III	84.68	183	47	3.5	47.27	24 711	2562	67.49	1
MPNI00000000	bin106	Proteobacteria^a	III	90.09	148	53	2.9	39.61	55 882	2088	41.62	0
MPNJ00000000	bin107	Nitrospinae/tectomicrobia group; Nitrospinae^c	I	90.09	60	440	4.9	59.46	165 774	4046	69.7	1
MPMZ00000000	bin75	Nitrospirae; Nitrospira; Nitrospirales; Nitrospiraceae; Nitrospira;^b	III	91.89	115	65	3.3	56.24	44 884	3093	56.58	2
MPMH00000000	bin63	SBR1093;EC214;^d	III	88.29	150	479	2.6	50.41	30 980	2180	68.21	4
MPNK00000000	bin110	Acidobacteria; Holophagae; Subgroup 10; TK85^b	I	79.28	758	549	7.9	67.45	12 332	5726	55.43	4
MPMW00000000	bin61	Acidobacteria; Acidobacteria^a	III	70.27	207	117	4.1	67.65	19 828	2561	55.92	0
MPMY00000000	bin70	Candidatus Poribacteria;^c	II	91.89	106	351	5.5	40.34	70 347	4254	59.07	6
MPMS00000000	bin44	Candidatus Poribacteria; Poribacteria genera incertae sedis^a	II	91.89	465	265	7.7	47.18	23 989	6288	54.28	10
MPNB00000000	bin80	Bacteroidetes; Cytophagia; Order II; Rhodothermaceae; uncultured^b	III	92.79	192	453	4.4	50.96	34 696	3555	50.44	0
MPMN00000000	bin25	Bacteroidetes; Flavobacteriia; Flavobacteriales; Flavobacteriaceae^a	III	90.09	124	589	3.3	36.18	40 599	2420	51.03	0
MPMR00000000	bin43	Gemmatimonadetes; Gemmatimonadetes; BD2-11 terrestrial group^b	III	92.79	65	633	4.8	67.96	132 700	3664	60.84	1
MPNE00000000	bin94	Gemmatimonadetes^c	III	91.89	83	190	4.8	66.9	89 414	3702	59.62	1
MPNH00000000	bin103	Spirochaetae; Spirochaetes; Spirochaetales; Spirochaetaceae^a	II	87.39	96	66	5.5	67.36	71 825	4338	67.75	0
MPNA00000000	bin76	Actinobacteria; Acidimicrobiia; Acidimicrobiales; OM1 clade^b	I	90.09	82	102	3.9	61.59	108 948	3269	65.65	0
MPNQ00000000	bin134	Actinobacteria; Acidimicrobiia; Acidimicrobiales; Sva0996 marine group^b	I	90.09	77	224	4.1	64.29	91 761	3487	68.71	1
MPNL00000000	bin119	Deinococcus-Thermus; Deinococci;Deinococcales; Trueperaceae; Truepera^a	II/III	91.89	91	62	3.5	62.23	62 429	2876	69.47	1
MPMK00000000	bin9	Cyanobacteria; ;SubsectionI; FamilyI; uncultured^b	III	89.19	391	157	3	58.71	12 771	2808	50.68	2
MPML00000000	bin5	Chloroflexi; Caldilineae; Caldilineales; Caldilineaceae; uncultured^b	II	92.79	120	81	6	58.5	64 429	4593	68.26	1
MPMO00000000	bin34	Chloroflexi; Caldilineae; Caldilineales; Caldilineaceae; uncultured^b	II	90.99	111	46	5.1	63.15	63 615	3982	63.01	0
MPMM00000000	bin22	Chloroflexi; SAR202 clade^c	I	90.99	58	94	4.8	59.2	163 655	4049	57.08	4
MPNN00000000	bin127	Chloroflexi; SAR202 clade^c	II/III	90.09	21	74	3.3	56.35	309 970	2976	59.98	0
MPND00000000	bin90	Chloroflexi; SAR202 clade^b	I	89.19	213	61	5.2	57.14	50 603	4453	54.91	5
MPMJ00000000	bin16	Chloroflexi; SAR202 clade^b	I	88.29	101	70	3.7	65.63	62 928	3253	60.62	0
MPNC00000000	bin87	Chloroflexi; SAR202 clade^c	I	90.99	67	331	5.4	62.79	269 076	4711	55.47	1
MPNM00000000	bin125	Chloroflexi^a	I	92.79	66	757	4	62.27	125 355	3410	61.73	1
MPMG00000000	bin20	Chloroflexi^a	II	91.89	22	245	4	59.31	250 998	3218	72.5	2

Abbreviations: dupl, duplicates; com, completeness; cov, coverage; est, estimated; Phylogenetic information.
Only duplicate genes other than PF00750, PF01795, and TIGR00436 were counted, as these genes are known to occur in multiple copies (Albertsen et al., 2013).
^aRDPclassifier; d concatenated gene tree.
^bLCA SILVA (SINA).
^cconcatenated gene tree + 16S rRNA gene tree.
^dLCA greengenes (SINA).

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Table 2 Binned genomes of Illumina-PacBio hybrid assembly

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