The draft genome sequence of a novel “
Liberibacter” species detected in an unidentified species of
(Rutaceae) collected in Bhutan is reported. The total length is 1,408,989 bp with 1,169 coding sequences in 96 contigs, a GC content of 37.3%, and 76 to 77% average nucleotide identity with several other “
. Liberibacter” species.