The complete chloroplast genome of Juglans cathayensis var. formosana (Hayata), an endemic in China

Juglans cathayensis var. formosana (Hayata) is a precious Juglans tree endemic to China. In this study, we reported its complete chloroplast genome assembled from Illumina pair-end sequencing data. The completed plastome was 159,967 bp in length, including a large-single copy (LSC) region of 89,320 bp, a small-single copy (SSC) region of 18,175 bp, and a pair of inverted repeat (IR) regions of 26,236 bp. The overall GC content of the genome was 36.12%, and the corresponding values of the LSC, SSC, and IR regions were 33.71, 29.79, and 42.43%, respectively. A total of 131 genes were annotated, including 87 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. Phylogenetic analysis strongly supported that J. cathayensis var. formosana and J. cathayensis formed a sister clade to J. mandshurica and J. hopeiensis. The newly characterized complete chloroplast genome of J. cathayensis var. formosana will provide essential data for further investigation of this precious species.