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Table 2 Summary of assembly statistics and ARGs assignments for 12 bacterial isolates obtained from four control subjects

From: Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

  7005–11 7005–5 7005–9 7084–1 7084–4 7084–5 7122–1 7122–2 7122–9 7174–2 7174–4 7174–5
CARD ID Name Percentage identity (%) to CARD protein sequences (TBLASTN; E-value ≤0.001)
ARO:3000216 acrB 97.6 97.3 97.8 84.1 84.3 83.1 97.9 96.6 97.8 96.9 95.7 98.0
ARO:3003844 mfd 97.5 96.8 97.0 80.5 80.5 N/A 97.4 N/A 97.3 N/A 95.9 96.4
ARO:3000491 acrD 97.1 97.2 95.2 79.3 79.4 78.2 97.4 96.4 97.4 97.2 97.3 97.4
ARO:3000793 mdtB 95.4 93.8 N/A 81.4 81.4 N/A 95.8 93.3 95.8 91.4 N/A 96.0
ARO:3000794 mdtC 93.5 90.4 N/A 80.8 80.7 N/A 93.2 91.5 93.1 85.3 88.4 93.4
ARO:3000502 AcrF 95.7 93.2 95.6 N/A N/A N/A 95.7 94.6 94.9 94.0 91.8 96.4
ARO:3000830 cpxA 97.5 95.3 96.9 N/A N/A N/A 96.6 95.2 97.2 96.2 97.0 97.5
ARO:3000024 patA 96.2 95.2 95.4 84.9 84.7 N/A 96.6 96.2 96.7 92.1 96.4 96.7
ARO:3003950 msbA 97.6 96.5 97.3 N/A N/A N/A 97.5 N/A 97.5 97.1 94.2 97.5
ARO:3000074 emrB 97.9 97.0 96.0 84.4 84.3 83.6 97.7 96.8 97.6 N/A 95.7 97.9
ARO:3002985 arnA 96.7 96.3 95.4 N/A N/A N/A 97.0 96.7 96.9 N/A 95.1 97.0
ARO:3000237 TolC 97.2 96.4 95.3 N/A N/A N/A 97.4 97.0 97.5 97.0 91.1 97.2
ARO:3000518 CRP 98.3 98.0 96.1 85.8 85.8 N/A 98.1 95.8 98.1 97.5 98.1 98.3
ARO:3004126 LamB 97.4 96.9 96.5 83.5 83.5 83.6 97.5 97.0 97.8 97.1 97.2 97.5
ARO:3004055 CpxR 98.1 97.3 98.6 84.0 83.7 83.2 98.3 96.9 98.3 97.6 97.4 98.1
ARO:3000792 mdtA 94.6 90.5 N/A 77.5 77.7 N/A 94.8 91.4 95.0 91.0 N/A 95.7
ARO:3002986 bacA 97.2 96.8 95.6 80.7 80.7 79.3 97.7 97.8 97.9 96.4 96.6 97.8
ARO:3003578 PmrF 97.1 96.7 96.7 N/A N/A N/A 97.0 96.8 97.3 N/A 95.8 97.2
ARO:3001215 mdtL 95.8 95.6 95.2 N/A N/A N/A 96.3 95.5 96.2 95.2 95.8 96.4
ARO:3000027 emrA 96.6 96.4 95.5 N/A N/A N/A 97.2 95.4 97.2 92.6 95.8 96.5
ARO:3001328 MdfA 95.5 94.7 N/A 78.1 78.4 N/A 95.5 94.3 95.9 N/A 94.6 95.7
ARO:3003843 leuO 97.4 N/A 95.3 N/A N/A N/A 97.5 97.4 97.6 96.8 96.9 97.0
ARO:3003952 YojI 96.2 N/A 96.0 82.6 82.9 78.4 96.0 95.6 96.4 N/A 95.5 95.7
ARO:3001329 mdtG 96.6 95.3 96.5 N/A N/A N/A 96.9 93.9 96.9 N/A 96.1 97.2
ARO:3000516 emrR 97.7 97.7 96.8 83.3 N/A N/A 97.7 96.2 97.7 89.6 96.1 97.7
ARO:3000309 emrD 97.3 96.9 96.8 N/A N/A N/A 97.1 97.1 97.4 93.4 95.5 97.1
ARO:3000828 baeR 96.0 94.2 N/A N/A N/A N/A 96.5 94.1 96.4 95.4 95.6 95.8
ARO:3004043 acrA 98.7 97.3 98.0 78.1 78.2 N/A 98.7 97.9 98.5 96.8 90.6 98.7
ARO:3003841 kdpE 95.4 94.9 94.2 N/A N/A N/A 95.8 N/A 95.8 93.9 95.8 96.0
ARO:3001216 mdtH 97.9 95.2 97.3 N/A N/A N/A 98.0 96.2 98.2 N/A N/A 97.9
ARO:3003049 rosB N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A
ARO:3004108 rob N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A
ARO:3001327 MdtK 75.1 73.9 74.9 N/A N/A N/A 74.8 N/A 74.7 74.4 73.9 75.0
ARO:3000263 marA 96.1 96.1 N/A N/A N/A N/A 96.4 95.1 96.6 96.4 N/A 97.4
ARO:3002818 msrB 98.1 N/A 98.3 89.3 90.4 82.5 97.1 96.2 96.6 N/A 96.6 98.3
ARO:3000676 H-NS 98.1 98.6 95.9 87.1 85.4 83.2 97.3 95.9 98.1 N/A 96.7 98.8
ARO:3003048 rosA N/A N/A N/A 73.9 74.5 72.1 N/A N/A N/A N/A N/A N/A
ARO:3000378 MexB 73.2 80 92.3 94.6 83.3 94.7 81.2 91.1 79.1 86.4 100 78.5
ARO:3000826 sdiA 77.4 63.7 N/A 100 81.1 N/A 82.1 85.7 63.1 57.9 N/A 84.2
ARO:3000829 baeS 96.2 58.15 45.0 92.72 70.83 45.7 97.0 53.9 97.6 67.8 93.5 95.2
N. of total CARD hits 75 70 81 38 38 18 74 61 77 226 55 408
Taxonomy Escherichia coli Escherichia coli Escherichia coli Raoultella planticola Raoultella planticola Raoultella planticola Escherichia coli Escherichia coli Escherichia coli Escherichia coli Escherichia coli Escherichia coli
Ref. Genome Size (Mb) 4.8 4.8 4.8 5.8 5.8 5.8 4.8 4.8 4.8 4.8 4.8 4.8
Coverage (based on reference) 22.1x 8.7x 7.5x 14.6x 40x 5.4x 32.7x 8.14x 37.3x 6x 7x 28.6x
Number of contigs 5 53 46 3 1 92 3 57 3 80 66 3
N50 (Mb) 1.57 1.29 1.68 2.32 5.47 4.12 4.67 1.14 4.67 0.51 0.83 4.83