deletions | additions       diff --git a/Results and Discussion.md b/Results and Discussion.md  index ef2bbc3..fbc2cfc 100644  --- a/Results and Discussion.md  +++ b/Results and Discussion.md 
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Phylogenetic analysis was performed using the full length (1482bp) 16S rDNA sequence from the genome assembly, not the shorter (1350bp) version from Sanger sequencing. The Coronado^T 16S rDNA sequence showed less than 95.5% identity to other _Porphyrobacter_ species and identity is even lower to other genera in the family. Given the low 16S rDNA identity to other members of the family, we did not perform DNA-DNA hybridization as this would have been uninformative \cite{Stackebrandt_1994} \cite{Tindall_2010} \cite{23591456}.  Phylogenetic trees built by varying the aligner, tree-building algorithm, number of taxa for comparison, and choice of outgroup demonstrated both that the current taxonomy of the family is in need of revision (as has been suggested by others, e.g. \cite{12656149} and \cite{25713040}) and that the placement of Coronado^T within the family is not stable. Because the Bayesian and Maximum Likelihood methods show a very similar topology, and are considered the most accurate methods for phylogenetic analysis of 16S, (e.g. \cite{22456349}),  we have shown those trees in Figure 2 and Figure 3. Both of these trees place Coronado^T within the _Porphyrobacter_ clade, though in the Bayesian tree there is a polytomy at the base of this clade. We note, as also shown recently by \cite{25713040}, that this clade is always polyphyletic with respect to _Erythromicrobium ramosum_ and often to _Erythrobacter litoralis_. In addition, Coronado^T is found on a long branch due to several changes that are unique to this strain, relative to the rest of the family. These changes are identical in both the assembly and the Sanger sequence and are all compatible with the secondary structure model of 16S (e.g. changes in a stem nucleotide pair with the appropriate base). Based on this analysis, we chose to compare Coronado^T to the five other _Porphyrobacter_ species listed in Table 1. Analysis of the draft genome of strain Coronado^T was used to complement the physical characterizations typical of the family _Erythrobacteraceae_ and the genus _Porphyrobacter_. For example, Coronado^T does not contain any of the numerous genes involved in bacteriochlorophyll biosynthesis, rendering protein extraction/spectrophotometry unnecessary. Conversly, while no flagella were observed by TEM, this strain appears to possess the required genes making it likely that the flagella were lost in sample preparation or that their expression is condition-dependent. 
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