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We performed a partial least squares (PLS) analysis on the data, where blood, menstrual blood, saliva and semen markers and samples clustered well.
This dovetailing of wildlife forensics with natural resource management and research existed informally for 10 years, since the beginning of my research career at McMaster University, where the same DNA markers and samples would benefit both conservation officers and research biologists.
Returning to the question that conservation officers might have about identifying the geographic origin of a specific animal as an example, this application requires a significant number of DNA markers and samples from different localities within the database to ensure a confident assignment of an unknown sample to a particular geography.
In addition, targeted highly multiplex amplification methods, such as molecular inversion probes [4], [5], GoldenGate [6] and trinucleotide threading [7], combined with massive sequencing is a powerful way of genotyping large sets of markers and samples at the same time [8].
Additional quality control measures were introduced such that only SNP markers and samples exceeding a 90% genotyping success threshold were included in any subsequent analysis.
An overview of the markers and samples previously analysed is given below as well as in the supplemental materials (Additional file 1).
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The variations of RGC counts in different studies can be caused by both animal strains and methodologies, such as RGC markers and sampling method employed.
Our power to detect multiple paternity (two or more fathers) was very high given the markers and sample sizes available in this study.
The power to detect QTL depends on heritability of traits, average allelic substitution effect of the alleles involved, recombination distance between the QTL and associated markers, and sample size of the progeny [ 37].
The limited number of molecular markers and sample size used in our study may partly explain these observations because these factors tend to overestimate the magnitude of large-effect QTL and hide the numerous small-effect QTL (Mackay et al. 2009).
The Low DNA Mass Ladder (Invitrogen) was used as a molecular marker, and samples were normalized by employing β-actin as a constitutive gene.
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