Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation - Subject F
Proximal spacer:GG;   Proximal primers (533-515 reverse): TACCGCGGCTGCTGGCAC, TACCGCGGCGGCTGGCAC; Proximal spacer + primer variants accepted for quality filter (reads lacking an expected variant at the proximal end were rejected):  GGTACCGCGGCTGCTGGCAC, GGTACCGCGGCGGCTGGCAC, GTACCGCGGCTGCTGGCAC, GTACCGCGGCGGCTGGCAC, GGGTACCGCGGCTGCTGGCAC, GGGTACCGCGGCGGCTGGCAC; Distal spacer: CA;  Distal primers(8-27 forward): AGAGTTTGATCATGGCTCAG, AGAGTTTGATCCTGGCTCAG, AGAGTTTGATTCTGGCTCAG, AGGGTTCGATTCTGGCTCAG; Distal spacer + primer recognition not required for binning/trimming/filtering.       Sample/Barcode (a' and 'b' suffix indicate replicate PCR reactions under identical conditions;    xA' and 'xB' suffix indicate replicate DNA extractions from separate aliquots of same stool sample;   5n' suffix indicates replicate PCR with 5 ng template DNA instead of standard amount of 50 ng) F1/CGTGTCTCTA  F2/CTCGCGTGTC  F3/TAGTATCAGC  F4/TCTCTATGCG  F5/TGATACGTCT  F6/TACTGAGCTA  F7/CATAGTAGTG  F8/CGAGAGATAC  F9/ATACGACGTA  F10/TCACGTACTA  F11/CGTCTAGTAC  F11_5n/TCTGACGTCA (replicate PCR 5 ng template DNA instead of 50 ng); F12/TCTACGTAGC  F13/TGTACTACTC  F14/ACGACTACAG  F15/CGTAGACTAG  F16/TACGAGTATG  F17/TACTCTCGTG  F17_5n/TGAGTCAGTA (replicate PCR 5 ng template DNA instead of 50 ng); F18/TAGAGACGAG  F19/TCGTCGCTCG  F20/ACATACGCGT  F21/ACGCGAGTAT  F22/ACTACTATGT  F23/ACTGTACAGT  F24_5n/TGTAGTGTGA (replicate PCR 5 ng template DNA instead of 50 ng); F24/AGACTATACT  F25/AGCGTCGTCT  F26/AGTACGCTAT  F27/ATAGAGTACT  F28/CACGCTACGT  F29/CAGTAGACGT  F30/CGACGTGACT  F31/TACACACACT  F32/TACACGTGAT  F33/TACAGATCGT  F34/TACGCTGTCT  F35/TAGTGTAGAT  F36/TCGATCACGT  F37/TCGCACTAGT  F38/TCTAGCGACT  F39/TCTATACTAT  F40/TGACGTATGT  F40_5n/TGTCACACGA (replicate PCR 5 ng template DNA instead of 50 ng); F41/TGTGAGTAGT  F42/ACAGTATATA  F43/ACGCGATCGA  F44/ACTAGCAGTA  F45/AGCTCACGTA  F45_5n/TGTCGTCGCA (replicate PCR 5 ng template DNA instead of 50 ng); F46/AGTATACATA  F47/AGTCGAGAGA  F48/AGTGCTACGA  F49/CGATCGTATA  F50/CGCAGTACGA  F51/CGCGTATACA  F52_xAa/CGTACAGTCA (replicate PCR from 1 of 2 replicate DNA extractions); F52_xAb/TCACGCGAGA (replicate PCR from 1 of 2 replicate DNA extractions); F52_xA5n/ACACATACGC (replicate PCR 5 ng template DNA instead of 50 ng); F52_xB/CGTACTCAGA (2 of 2 replicate DNA extraction); F53_xAa/CTACGCTCTA (replicate PCR from 1 of 2 replicate DNA extractions); F53_xAb/TCGATAGTGA (replicate PCR from 1 of 2 replicate DNA extractions); F53_xB/CTATAGCGTA (2 of 2 replicate DNA extraction); F54_xAa/TACGTCATCA (replicate PCR from 1 of 2 replicate DNA extractions); F54_xAb/TCGCTGCGTA (replicate PCR from 1 of 2 replicate DNA extractions); F54_xB/TAGTCGCATA (2 of 2 replicate DNA extraction) 