The present invention relates to identification of QTL for milk yield in buffalo (Bubalus bubalis) using microsatellite markers. A core set of 20 microsatellite markers from BTA6 (BBU7) and BTA9 (BBU10) from cattle genome database were identified and were amplifiable in buffaloes. Genotyping was done on a reference population by selection of daughters of 12 sires (half sib family) of buffaloes the bulls were selected from the breed tract of Murrah buffaloes. The phenotypic records of milk yield of 1243 buffalos were obtained and verified for normal distribution. The data was subjected to analysis using single marker analysis using QTL Cartographer, interval mapping using Rlqtl and meta-QTL analysis using Biomercator. The QTL positions obtained in BBU7 were between 40-60 and 80-100cM. The QTL peak positions were identified between 40 - 60cM and 80 -100cM in BBUl 0. The peak positions were confirmed by meta-analysis using Biomercator and Joint trait analysis using QTL Cartographer.
