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Jenna M. Lang edited 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 only 95% identity to the phylogenetically closest relative, _Porphyrobacter sanquineus_, and identity was even lower throughout the rest of the tree. 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}
As discussed above, a large-scale taxonomic revision of the family is most likely in order given the lack of monophyly observed for most genera in the tree. For example, Coronado(T) is the basal member of a clade containing mostly _Porphyrobacter_ that has strong bootstrap support, but is polyphyletic with respect to both _Erythromicrobium_ and _Erythrobacter_. And, this clade
fals falls within a well-supported polyphyletic clade of _Erythrobacter_. Based on this tree, we chose to compare Coronado(T) to the three genera in Table 1.
Analysis of the draft genome of strain Coronado(T) was used to complement the physical characterizations typical of the family _Erythrobacteraceae_. For example, Coronado(T) does not contain any of the numerous genes involved in chlorophyll biosynthesis, rendering protein extraction/spectrophotometry unneccessary. 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-dependant.