Compatibility between plasmids encoding antibiotic-resistance genes was assessed by incompatibility testing. As happened for previous typing methods, mating experiments were also central to Inc testing. Two pla
Once the host range of a plasmid has been determined, plasmids may be classified by incompatibility testing. This method relies on the fact that closely related plasmids are unable to coexist stably in the same bacterial cell. Plasmids that are sufficiently closely related to interfere with one an...
Thirty-seven plasmid systems contained sequences that could be classified into seven different plasmid incompatibility types (Inc11, Inc18, IncFIB, IncFIC, IncI-ɣ/K1, IncK2/Z and IncW; Supplementary Table 9). Furthermore, 602 plasmid systems contained at least two non-redundant compound ...
We found that the clusters "inc" (incompatibility group) and "rep_cluster" (uncharacterized types) were the dominant groups in the gut plasmi- dome (Fig. 1a) and were significantly phylogenetically different from each other (phylogenetic signal, Pagel's λ: 0.93; p-value (based on LR test...
We found that the clusters “inc” (incompatibility group) and “rep_cluster” (uncharacterized types) were the dominant groups in the gut plasmidome (Fig. 1a) and were significantly phylogenetically different from each other (phylogenetic signal, Pagel’s λ: 0.93; p-value (based on LR test...
Plasmid incompatibility types were determined using the Plasmidfinder database accessed on December 6, 202398 implemented on ABRicate v.1.0.1 (https://github.com/tseemann/ abricate). To identify instances of genome rearrangement and gene loss, plasmid sequences were aligned, visualized and ...
Incompatibility pMLST: Plasmid multi-locus sequence typing MAC: Mycobacterium avium Complex MCL: Markov Cluster Algorithm NCBI: National Center for Biotechnology Information NTM: Non-tuberculous mycobacteria ORF: Open reading frame RBH: Reciprocal best hits TIR: Terminal inverted repeat VFDB...
To determine the distribution of plasmid incompatibility groups among the four group strains, thirty-three different plasmid replicons, including HI1, HI2, I1-α, I2, X1, X2, X3, X4, M, N, FIA, FIB, W, Y, P1-α, FIC, A/C, T, FIIS, FII, FIIk, FIIY, FIBS, FIBK, L, K1...
Multiple PCR was used to identify incompatibility plasmid groups in MCRPEC by using plasmid DNA of MCRPEC isolates. As is shown in Fig.1, six incompatibility plasmid groups were detected, including IncFI (97.0%, 32/33), IncHI (12.1%, 4/33), IncY (48.5%, 16/33), IncN (15.2%, 5/33...
In an approach referred to as incompatibility (Inc+) testing, fragments of minimal replicons were screened to identify factors/sequences that inhibit the replication of the plasmid from which they originated; the original analysis of this type was first done for mini F plasmid (Tolun and He...