Monday, October 20, 2014
Nucleotide Hits
Nucleotide Hits is based on particular DNA sequences from the 16S ribosome of the six most abundant orders present in subject B. The six most abundant orders present within subject B included; Clostridiales, Bacteroidales, Bifidobacteriales, Erysipelotrichales, Lactobacillales and Burkholderiales.
Days 17 through 25 were selected for subject B. This period was chosen as no irregularities in the data sets were observed during this time. The melodies were randomly generated to create the songs for this relationship. The chord progressions were based on the list of the above relative abundance orders of bacteria. The chords were randomly selected and was based on Robert Palmers song “Addicted to Love”.
Home is where the biome is
The relationship between the sensitivity of the human
microbiome to the environment was assessed in this piece. It is important to
note that only data from subject A was utilized during this analysis. Three
time intervals were chosen to determine whether or not the relationship
indicated any significance. Firstly a period was selected before the subject
travelled, which included days 53 through 60. Secondly a period was selected
where the subject was traveling abroad which included days 113 through 120. It
is of importance to note that there was a period during travel where subject A
was unwell, but this time period was not explored as a relationship due to the
fact that it could not be compared to a time period where subject A was not
traveling and unwell. Lastly a period was
selected after the subject had returned from said travels which encompassed days
138 through 146.
The relative abundances of the bacterial families
clearly indicated a shift in the composition of the orders present within the microbiome.
The four most abundant bacterial families over all
three time periods were selected, namely: Actinomycetales,
Bifidobacteriales, Coriobacteriales, and
Lactobacillales. Bacterial data used were selected from high
abundance bacteria over the selected time period. The bacterial names also
possessed the appropriate quantity of syllables needed to add lyrics to 4/4
time. This meant that once the music had been written the names of the bacteria
were suitable for use as lyrics. The chord progression was randomly generated
based on Elton John’s “Rocket Man”.
Sam and Ella
The effect of an enteric infection caused by Salmonella was
assessed in this relationship. LAB attached itself to the lining of the
gut, were it is usually found in abundance. When a Salmonella infection occurs,
the two organisms are now forced to compete for the same binding sites on the
gut lining. During Subject B’s
infection there were significant quantities of LAB found in the subjects stool
samples as a result. The quantity of LAB was compared to that of Salmonella,
within the stool samples by observing the amount of LAB present. The more LAB
present within the sample would indicate that Salmonella is outcompeting the LAB for binding sites in the GIT.
This selection indicates that one pathogenic organism has the ability to change
the entire composition of the microbiome. The competition between Salmonella and
LAB was clearly demonstrated in the change of pitch. As the pitch increases the
relative abundance of LAB also increased. Days 150, 151, 153, 155, 156, 157,
158 and 159 were selected as they were the only days that illness was reported
by the subject in the corresponding metadata files, it is important to note
that only data pertaining to subject B was utilised for this analysis. The
relative abundance OTUs of Lactobacillales was used to create
a melody, revealing a clear pattern created over two bars in 4/4 time. This meant that a melody made up of 8 notes was generated in order to make
a repetitive tune that would be simpler to learn. Again, random chords were
chosen, in this instance based on an American folk song titled “Saint James
Infirmary”.
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