Cyperus malaccensis subsp.monophyllus is a native coastal salt marsh herb with a large distribu-tion area from the southeast to the south coast of China,which plays an important role in the fields of beach protection and soil improvement.In this study,Illumina high-throughput sequencing technology was used to obtain the whole genome information characteristics of the chloroplast of C.malaccensis subsp.monophyl-lus,and to explore its genomic characteristics and phylogenetic relationship.The results showed that the com-plete chloroplast genome of C.malaccensis subsp.monophyllus was 186 314 bp in length,which was a typical tetrad structure.The large single-copy region and the small single-copy region were 101 162 and 10 310 bp,respectively,and the inverted repeat region was 37 421 bp.A total of 141 chloroplast genes were annotated,including 94 protein-coding genes,39 transport RNA genes and 8 ribosomal RNA genes.A total of 105 Simple Sequence Repeat(SSR)sites and 77 long repeat sequences were identified,and 183 Single Nucleotide Poly-morphism(SNP)sites were mined.Phylogenetic analyses showed that C.malaccensis subsp.monophyllus,C.malaccensis had the closest relationship with C.rotundus in Cyperus.This study provides a reference for further exploring the phylogenetic relationship of Cyperaceae plants and the differentiation of related species.
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