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Genotyping primers for Cre lines from the Jax website are generally reliable for multiplex PCR if the primer sequences are validated and optimized for specific PCR conditions [1]. However, issues like non-specific amplification and preferential amplification of certain alleles can arise, necessitating careful optimization [1]. Multiplex PCR can indeed be performed using Taq polymerase buffer, with studies highlighting the importance of optimizing primer concentrations, annealing temperatures, and cycling conditions to ensure specific and efficient amplification [2][3][4]. The use of advanced Taq polymerases like AmpliTaq Gold has been shown to improve specificity and sensitivity in multiplex PCR [3]. Therefore, while feasible, meticulous optimization is crucial for reliable outcomes.

Reference

[1] Leneuve, P., Zaoui, R., Monget, P., Bouc, Y. L., & Holzenberger, M. (2001). Genotyping of Cre-lox mice and detection of tissue-specific recombination by multiplex PCR.. BioTechniques, 31 5, 1156-60, 1162 .

[2] Zhang, J., Liu, W., Ye, P., & D'ercole, A. (2007). Pitfalls of PCR-based strategy for genotyping cre-loxP mice.. BioTechniques, 42 3, 281, 283 .

[3] Ajzenberg, D., Collinet, F., Mercier, A., Vignoles, P., & Dardé, M. (2010). Genotyping of Toxoplasma gondii Isolates with 15 Microsatellite Markers in a Single Multiplex PCR Assay. Journal of Clinical Microbiology, 48, 4641 - 4645.

[4] Henegariu, O., Heerema, N., Dlouhy, S., Vance, G., & Vogt, P. (1997). Multiplex PCR: critical parameters and step-by-step protocol.. BioTechniques, 23 3, 504-11 .