Data analysis
The second part of the placement was analysing DNA sequencing data for previously gathered soil samples using the interactive Krona charts just produced by Bioinformatics.
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Collecting environmental data and soil samples
The first thing our students did was fieldwork to collect soil samples and environmental data. We posted out our kit boxes and soil augers to them so that they could collect soil locally and add pins to our interactive map.
Our placement aims
While all three of our Nuffield Research Placement students have some aspects of their project in common, such as collecting a soil sample and extracting DNA from it, they each have a different aspect to look at with their analysis of our DNA sequencing results so far. Daria is investigating the diversity of bacteria, eukaryote … Read more
Results: St Agatha’s RC Primary School
DNA sequencing results for soil sample map pin 25708 have arrived and we are analysing them. The soil sample from the site contained 22,668,356 reads (fragments or short pieces of DNA). 95.0% were high quality reads and from this 1,594,974 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Results: University of St Andrews
DNA sequencing results for soil sample map pin 25825 have arrived and we are analysing them. The soil sample from the site contained 22,457,572 reads (fragments or short pieces of DNA). 94.6% were high quality reads and from this 1,170,050 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Results: 8th Fife (St Andrews) Cub Scouts
DNA sequencing results for soil sample map pin 25307 have arrived and we are analysing them. The soil sample from this site contained 20,562,102 reads (fragments or short pieces of DNA). 95.1% were high quality reads and from this 1,068,954 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Results: Aberdour School (A)
DNA sequencing results for soil sample map pin 35791 have arrived and we are analysing them. The soil sample from the site contained 23,073,556 reads (fragments or short pieces of DNA). 95.4% were high quality reads and from this 1,360,015 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Results: Nuffield Research Placement
DNA sequencing results for soil sample map pin 27584 have arrived and we are analysing them. The soil sample from this site contained 23,073,556 reads (fragments or short pieces of DNA). 95.4% were high quality reads and from this 1,360,015 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Results: Aberdour School (B)
DNA sequencing results for soil sample map pin 35790 have arrived and we are analysing them. The soil sample from the site contained 26,324,000 reads (fragments or short pieces of DNA). 95.5% were high quality reads and from this 1,599,447 reads have been classified. Find out how to interpret the pie-chart here: bacteria pie charts learning … Read more
Analysing bacteria
On day 9 we talked about how we could sequence the DNA we made on day 4, to identify what bacteria were present. Nowadays there are computer programmes where you insert a DNA sequence e.g. ACTGGACTAG… and it comes out with the closest matched options from its database. Another, more accurate method involves you figuring … Read more