*Biovar - A strain differentiated from other strains by biochemical or other non-serological means.

:Abedon, S. T. (1998) Supplemental Lecture (98/04/14 update). <http://www.mansfield.ohio-state.edu/~sabedon/biol3010.htm>. Accessed 10 November 2013.

*Clusters of orthologous groups (COGs) - A group of at least three proteins that have the same evolutionary origin.

:Koonin, E.V. (2013) The Clusters of Orthologous Groups (COGs) Database: Phylogenetic Classification of Proteins. from Complete Genomes. In J. McEntyre & J. Ostell (Eds). ''The NCBI Handbook''. Retrieved from http://www.ncbi.nlm.nih.gov/books/NBK21090/. Accessed 11 November 2013.

*Contig - Copies of pieces of DNA that represent the overlapping regions of a chromosome.

:U.S. Department of Energy Human Genome Project (2013) The Human Genome Project Information Archive 1990-2003. <http://web.ornl.gov/sci/techresources/Human_Genome/glossary.shtml>. Accessed 10 November 2013.

*Enoyl-acyl carrier protein reductase - The last enzyme in the fatty acid elongation cycle.

:Massengo-Tiasse, R.P. & Cronan, J. E. (2009) Diversity in enoyl-acyl carrier protein reductases. ''Cell. Mol. Life Sci.'' '''66''': 1507–1517.

*Entner-Doudoroff pathway - A pathway that converts glucose to pyruvate and glyceraldehyde-3 phosphate by producing and then dehydrating 6-phosphogluconate.

:EMBL-EBI (2013) GO:0009255 Entner-Doudoroff pathway. <http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0009255>. Accessed 10 November 2013.

*Hydrodynamic shearing - A technique that fragments DNA molecules by forcing them through a small orifice or the bore of a small-diameter tube at high velocity.

:Joneja, A. & Huang, X. (2009) Supplementary Material For: A device for automated hydrodynamic shearing of genomic DNA. ''BioTechniques'' '''46''': 553–556.

*Paralog - Genes that are homologous and are a result of gene duplication.

:Paralogy. (n.d.) Biology Online. <http://www.biology-online.org/dictionary/Paralogy>. Accessed 11 November 2013.

*Pathogenicity island - Genetic element within an organism's genome that is responsible for the ability of the organism to cause disease.

:Pathogenicity island. (n.d.) MedicineNet.com. <http://www.medterms.com/script/main/art.asp?articlekey=20705>. Accessed 11 November 2013.

*Serology - A type of laboratory medicine that analyzes blood serum for signs of infection by looking at antigen-antibody interactions ''in vivo''.

:Serology. (n.d.). Medical-Dictionary. <http://medical-dictionary.thefreedictionary.com/serology>. Accessed 10 November 2013.

*Type II secretion system - A secretory pathway in Proteobacteria correlated to a bacterium's pathogenesis that is responsible for the secretion of toxins and hydrolytic enzymes.

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==Outline of the Article==

===Methods used to annotate the genome===

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