Additional file 1 of Sampling the fish gill microbiome: a comparison of tissue biopsies and swabs

• Main Authors: Morag Clinton (11678457), Adam J. Wyness (10170055), Samuel A. M. Martin (8994104), Andrew S. Brierley (11678460), David E. K. Ferrier (9526432)
• Format: Still Image
• Language: unknown
• Published: 2021
• Subjects: Microbiology; Experimental design; Sampling methodology; Gill microbiota; Microbial assemblages; Aquaculture; Atlantic salmon; Veterinary microbiology
• Online Access: https://doi.org/10.6084/m9.figshare.16986720.v1

Additional file 1. Rarefaction sequencing curves and total read counts. Rarefaction curves before (A) and following (B) filtration to remove taxonomic assignation out-with desired 16S microbial SILVA results. Clear plateaus are seen suggesting adequate sequencing depth was achieved at a depth of 1500 sequences from swab and biopsy samples. Accompanying table illustrates the total unfiltered read counts seen in curve A, as well as read counts as specific filtration steps towards final filtered read counts. Filtration steps were as follows 1) Removal of sequences unassigned to bacteria; 2) Removal of sequences assigned to archaea; 3) Removal of sequences assigned to mitochondria; 4) Removal of sequences assigned to chloroplasts; 5) Removal of sequences not taxonomically assigned below kingdom level.