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Objective To get better understanding the genetic diversity and antigen property of Chlamydia abortus strain isolated from yaks.Methods The C.abortus GN6 genome was sequenced using PacBio sequencing technology.De novo assembly were performed with the software program Canu (version 1.0) and the annotation was performed NCBI Prokaryotic Genome Annotation Pipeline.Results A total of 174,311 reads were obtained with N50 read length of 10 815 bases and mean length of 7 863 bases.