Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

Table 2 Assembly bin taxonomic assignment and gene content

			Assembled sequence taxonomic affiliation (kbp)¹
Assembly	Bin set	Avg # complete ORFs per contig²	Archaea	Bacteria	Eukaryota	Viruses	No-hits
Illumina	Unbinned	1.31	46,405	3,419,539	125,885	6287	1,019,041
	MQ	3.39	4543	393,630	3906	71	14,113
	HQ	7.66	1056	75,467	575	4	523
PacBio	Unbinned	14.6	10,686	854,468	7707	2290	26,804
	MQ	20.8	885	149,168	811	50	501
	HQ	48.2	1809	20,711	512	0	17

¹superkingdom taxonomic affiliation was based on contig-level assignments derived from the BlobTools/DIAMOND workflow
²Complete ORFs were defined as Prodigal predictions that had a “partial” status of “00,” which indicates the presence of a start and stop codon for the ORF

ISSN: 1474-760X