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Full-Text Articles in Bioinformatics
Bioinformatic Interrogation Of Phosphonate Tailoring Pathways, Monica Papinski
Bioinformatic Interrogation Of Phosphonate Tailoring Pathways, Monica Papinski
Theses and Dissertations (Comprehensive)
Phosphonates represent an underexploited class of natural products despite their tremendous potential for use in medicine and agriculture. Even less characterized are phosphonate-containing macromolecules such as cell wall lipids and glycans, distinguished by a P-C bond known to provide stability towards hydrolysis. Despite some progress made in revealing cell wall phosphonate tailoring (Pnt) pathways, several barriers impede the discovery and characterization of novel phosphonate biosynthetic pathways. Specifically, a large diversity of gene composition and arrangement is evident surrounding key genes established to participate in phosphonate tailoring pathways, which are identified alongside the presence of the ppm gene encoding the P-C …
Genome Jigsaw: Implications Of 16s Ribosomal Rna Gene Fragment Position For Bacterial Species Identification, Jennifer Mitchell
Genome Jigsaw: Implications Of 16s Ribosomal Rna Gene Fragment Position For Bacterial Species Identification, Jennifer Mitchell
Theses and Dissertations (Comprehensive)
The 16S rRNA gene is present within all bacteria, and contains nine variable regions interspersed within conserved regions of the gene. While conserved regions remain mostly constant over time, variable regions can be used for taxonomic identification purposes. Current methodologies for characterizing microbial communities, such as those used to study the human microbiome, involve sequencing short fragments of this ubiquitous gene, and comparing these fragments to reference sequences in databases to identify the microbes present. Traditionally, whole 16S rRNA sequences with more than 97% sequence identity (id) are assigned to a single operational taxonomic unit (OTUs); each OTU being a …