Sentence examples for based on core genome from inspiring English sources
A phylogeny based on core genome single nucleotide polymorphisms is shown in Figure 1.
The genealogy reconstructed using ClonalFrame based on core genome alignment obtained with progressiveMauve is presented in Figure 3.
Maximum likelihood phylogenetic analysis based on core genome SNPs of the ST239 isolates was performed using the RAxML BlackBox [ 32].
The separation of the two pig commensal isolates D1 and D32 based on core genome data disproves the hypothesis of highly related pig and human endocarditis isolates as derived from PFGE analysis.
A phylogenetic tree of the 51 VRE from stool and 45 hospital isolates based on core genome SNPs showed that carriage isolates from the three study participants were interspersed throughout the tree (Fig. 2a).
A phylogenetic tree of the 51 VRE and 25 VSE isolates based on core genome SNPs is shown in Additional file 2. This showed that the VSE carried by P7 and P15 were closely related to their resident VRE populations demonstrating possible in vivo acquisition or loss of resistance, whilst as expected the VSE carried by P31 was not closely related to their VRE.
This research group demonstrated the global geographic distribution of the ST239 lineage, indicating intercontinental transmission, based on core-genome single nucleotide polymorphisms (SNPs) [ 9].
In any case, it should be interesting to have on the same figure the whole genome tree compared to the species tree (preferentially based on core gene phylogeny).
In summary, we found significant overlap among genetic identities of Indian and European H. pylori based on core and flexible genome markers.
The size of the genomes varied from 3.86 to 4.03 Mb.> A maximum-likelihood tree of the 8 sequenced genomes and 16 reported A. baumannii complete genomes were created based on core SNPs from whole-genome alignment.
A number of molecular typing and characterization techniques such as AFLP, MLVA and MLST and comparative genomic hybridizations allowed differentiating strains of E. faecium and allocating them into various clonal complexes as based on core as well as accessory genome content [ 3, 4].
