Finger printing using RM primer

[narottam dey]

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Dear Rajkumar,
       Here I am trying to tell u the actual problem. Look at the two attahed figure.
In Figure RM-559 (Polymorphism scoring of  RILs of F-9) there is no problem regarding scoring as the paprents shows disticts polymirphism, But problem arise when we want to score a germplasm collection say two variety  giving a specific band of same mole wt (fig RM-112) , then we can not differetite them by SSLP but in RAPD one variety giving 5 band and another giving 4 so we can easily differetiate them.Now question is that thogh in case RIL scoring (with SSLP)we give 1,2,3 score But in  case of germplasm we give 1,0.And again in case of RAPD for every band produced by a particular primer we give 1,0 scre.
So, it is clear that for assessment genetic diversity and cluter analysis RAPD is more informative than that of SSLP. But RAPD is random, which do not take any information from genome sequence whereas SSLP primers are in most cases Mapped marker but became less informative .
Can you solve this paradox.
With regards,
Narottam
 

Narottam Dey.
Senior Research Fellow.
Dept Of Botany
Bose Institute.
93/1,APC road,
Kolkata-700009,(W.B)
India.
Ph-91-33-23679670 (R),23506619-ext-330(o)
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