Characteristics of some types of DNA marker
|
SNPs |
SCAR |
SSR |
|
|---|---|---|---|
|
Principle |
Observation in sequencing data |
Amplification with sequence specific primers |
Amplification with sequence specific primers |
|
Type of polymorphism |
Single base changes |
Single base changes, insertions, deletions |
Number of repeats |
|
Level of polymorphism |
High |
High |
High |
|
Dominance |
Co-dominant |
Dominant or codominant |
Co-dominant |
|
Amount of DNA required |
<1-20 µg, depending on sequencing method used |
25 ng/reaction |
25 - 35 ng/reaction |
|
Amount fresh leaf tissue required |
<1 - 20 mg |
25 µg/ reaction |
25 - 35 µg/reaction |
|
Quality of DNA required |
Depending on sequencing method used |
Low |
Medium |
|
Sequence information obtained |
Yes |
Yes |
Yes |
|
Radioactive detection required |
No |
No |
Yes/no |
|
Development |
Sequencing: complex SNPs themselves: easy; they are observed during sequencing |
Complex |
Complex |
|
Cost |
Medium, decreasing rapidly |
Low |
High |
|
Complexity of steps involved |
High |
Low |
Medium/high |
|
Initial costs |
High |
Medium |
Medium/high |
|
Application time |
Fast |
Fast |
Fast |
|
Reproducibility |
High |
High |
High |
More information (optional) on markers can be obtained from Semagn et al.(2006) African Journal of Biotechnology 5: 2540-2568 (link).