Relatedness coefficients are important to make interpretations of social behaviors, which has implications for conservation. However, there are a lot of limitations towards genotyping a large amount of animals accross many microsatellite loci. How is it possible to evaluate dataset reliability?
First i strongly think they probability of Identity (PI) is very useful and should be the first estimate to give u ideas on which you can do further. and I think it is a good parameter to infer reliability of the relatedness of the studied loci. but be sure of whether or not they are conditionally (available phenotypic data for the marker locus) related or unconditionally related - and thus if they are a good combination for drawing conclusion on social behavior.
Yes!!!, As PI is the probability that two individuals had the same genotypes if you had lower values it increases the power of discriminate genetic individuals. This should be a primary step before calculate Relatedness because it is a similar-dependent metric.
The easy way to had lower PI with few markers is using the most variable loci. Also there is other metric PI sibs but for siblings.
http://onlinelibrary.wiley.com/doi/10.1046/j.1365-294X.2001.01185.x/abstract;jsessionid=7BA9EF27AF3F9ECD9DF6BC2C40BE4DE7.f02t01?deniedAccessCustomisedMessage=&userIsAuthenticated=false
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