Rugamonas rubra is a red-pigmented, circular bacteria found in the soil of the Appomattox River. It has been previously found in river water in England (Austin, 1986).
- Austin, D.A., and Moss, M.O. “Numerical taxonomy of red-pigmented bacteria isolated from a lowland river, with the description of a new taxon, Rugamonas rubra gen. nov., sp. nov.” J. Gen. Microbiol. (1986) 132:1899-1909.
Date Collected: February 8, 2017
Methods for isolation and identification:
- A soil sample was taken from beneath the water of the Appomattox River (Figure 1). 100μl of the excess water sample was placed on an agar plate and was incubated at 25 degrees Celsius for 48 hours. The plate was parafilmed and placed in the refrigerator for seven days.
- A red, circular colony (Figure 2) was selected for 16S rRNA gene sequencing by PCR amplification.
- The PCR product was sent for DNA sequencing to identify the species of the bacteria.
Figure 1. Site of collection
Figure 2. Selected colony for identification
- MspI digestion (Figure 3): A bold band was produced at 2,000 bp by PCR.
Figure 3. Gel electrophoresis results of Appomattox River Soil PCR product and + MSP1.
- DNA Sequence: The sequenced PCR product produced 1017 quality base pairs that were used to identify the bacteria as Rugamonas rubra. The chromatogram of the sequence is available as a pdf (HM01_PREMIX_JF7554_23). NCBI BLAST revealed 99% similarity with 4 gaps out of 1017 base pairs (Figure 4).
Figure 4. NCBI BLAST results of chosen colony.
Contributed by: Megan Bland and Hannah Hatke, BIOL 250 Spring 2017