Data from: Nonspecific PCR amplification by high-fidelity polymerases: implications for next-generation sequencing of AFLP markers.

High-fidelity “proofreading” polymerases are often used in library
construction for next-generation sequencing projects, in an effort to
minimize errors in the resulting sequence data. The increased template
fidelity of these polymerases can come at the cost of reduced template
specificity, and library preparation methods based on the AFLP technique
may be particularly susceptible. Here, we compare AFLP profiles generated
with standard Taq and two versions of a high-fidelity polymerase. We find
that Taq produces fewer and brighter peaks than high-fidelity polymerase,
suggesting that Taq performs better at selectively amplifying templates
that exactly match the primer sequences. Because the higher accuracy of
proofreading polymerases remains important for sequencing applications, we
suggest that it may be more effective to use alternative library
preparation methods.