Using an Illumina platform, we sequenced the complete mitochondrial genome of Lanius sphenocercus sphenocercus to an average coverage of 1669.5×. We performed a de novo assembly using SOAPdenovo2 and obtained the total mitogenome with 16,833 bp in length. Most PCGs begin with the typical ATG start codon with the exception of COI gene, which use GTG as the initiation codon. Stop codons AGG, TAG, TAA, and AGA are present in the PCGs; exceptions are COII, COIII and ND4, which possess incomplete termination codons (T). But, the function of COII with incomplete stop codon T should be further investigated. The phylogeny revealed that genetic distance of Laniidae and Corvidae was closer than other species. Compared to other three shrike species, L. s. sphenocercus occupy a separate status in the genus Lanius.
Keywords: High-throughput sequencing; Lanius sphenocercus; mitogenome; phylogeny.
© 2016 The Author(s). Published by Taylor & Francis.