Overview | Culturing | DNA extraction | DNA quantification | Library preparation | Data analysis | Laboratory Manual | Costs
As part of this project, and based on the research undertaken in Elton et al. we identified the costs we incurred as part of this pipeline. The prices on this web page are based on the prices available to the Centre for Clinical Microbiology (UCL, UK), The Centre de Recherches Médicales de Lambaréné (Gabon), The Institute for Endemic Diseases (Sudan), HerpeZ (Zambia) and the Fondation Congolaise pour la Recherche Médicale (Republic of Congo) at the time. As of July 2023, 1.21 British Pound Sterling to the United States Dollar (USD), 601.50 Sudanese pounds to USD, 20.23 Zambian Kwacha to USD, 604.80 Central African Francs (Gabon and Republic of Congo) to USD.
|
Pipeline step |
Comparator |
Cost per isolate (USD) |
|
Culturing media |
MGIT (liquid) |
20.24 |
|
|
7H11 (solid) |
6.94 |
|
CTAB method |
Precipitation |
2.08 |
|
|
Spin-column |
5.15 |
|
Covaris shearing |
n/a |
31.00 |
|
Quality control |
Qubit |
0.91 |
|
|
TapeStation genomic DNA |
3.61 |
|
|
or gel electrophoresis |
0.25 |
|
Library preparation kits |
SQK-RPB004 (PCR) |
50.00 |
|
|
SQK-RBK004 (native) |
20.32 |
|
|
SQK-RBK110.96 (native) |
7.71 |
|
Samples per flow cell |
6 samples |
167.40 |
|
|
12 samples |
83.70 |
|
|
24 samples |
41.85 |
Cost analysis of each step in the pipeline compared, as a cost per sample sequenced. In this table, costs incurred are representative of the prices incurred in this study. Only reagents have been included, as equipment and operator costs are likely to vary between sites. The TapeStation could be substituted for gel electrophoresis to reduce costs.
|
UK |
Sudan |
Zambia |
Gabon |
RoC |
|
|
Media |
|||||
|
MGIT |
20.24 |
19.43 |
4.97 |
20.24 |
20.79 |
|
7H11 |
U6.94 |
3.72 |
4.96 |
6.94 |
0.01 |
|
CTAB method |
|||||
|
Precipitation |
2.08 |
5.27 |
2.59 |
9.43 |
3.27 |
|
Spin-column |
5.15 |
11.32 |
4.17 |
4.24 |
11.21 |
|
DNA quantification |
|||||
|
Qubit |
0.91 |
1.88 |
1.95 |
1.88 |
0.63 |
|
Gel electrophoresis |
0.25 |
0.15 |
0.25 |
0.20 |
0.55 |
|
Library preparation kit |
|||||
|
SQK-RBK110.96 |
7.71 |
4.22 |
8.53 |
3.32 |
4.48 |
|
Flow cell |
|||||
|
12 samples |
83.70 |
93.00 |
93.00 |
72.54 |
97.70 |
|
Total cost |
|||||
|
|
126.97 |
138.99 |
120.42 |
118.79 |
138.64 |
Cost per sample in USD for the optimised tuberculosis sequencing pipeline. RoC = Republic of Congo.