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Illustration of the Ampsig format with example values |
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| # |
Field |
Example Value |
Information |
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| 1 |
Technique |
AFLP |
Full abbreviation of type of DNA markers, such as AFLP, SSR, RAPD |
| 2 |
Experiment |
EcoRI_ACA-MseI_CAC |
For VNTR, RAPD and SSR markers, primer sequences will be given in full. In this example, a six-nucleotide cutting enzyme EcoRI and a four-nucleotide cutting enzyme MseI were used to digest genomic DNA. PCR reaction was conducted with an EcoRI primer with selective nucleotides ACA, and a MseI primer with selective nucleotides CAC |
| 3 |
Source |
D Sonia id0011 |
Biological source of DNA. The binomial system with abbreviation of genus followed by species name is used to designate biological species. It is followed by a four-digit ID number to identify individual samples. In this example, DNA was isolated from a plant belonging to genus Dendrobium, species Sonia, with a lab-assigned ID 0011 |
| 4 |
UnitSize |
1 |
Unit size of DNA fragment to define the unit spacing. It can also be interpreted as the sequence resolution. In this example, the 1 indicates that the sequence spacing is 1 base pair. |
| 5 |
StartSize |
50 |
Size of the first DNA fragment (in base pairs) |
| 6 |
EndSize |
90 |
Size of the last DNA fragment. This field is redundant, and is kept mainly for proof-reading |
| 7 |
Annotation |
AFLP profile for D. Sonia |
Annotation of the fingerprint (only if required) |
| 8 |
Signature |
A..B..DC..B.D.....CC...A.....DDA.A....C..D..BB |
Alternatively, a system employing the symbols [4,3,2,1] for peaks and [0] for peak-absence may also be used. |
Hong and Chuah BMC Bioinformatics 2003 4:7 doi:10.1186/1471-2105-4-7 |
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