Comparative Genomics and Phylogenetic Analysis Revealed the Chloroplast Genome Variation and Interspecific Relationships of Corylus (Betulaceae) Species

• Published in: Frontiers in plant science Vol. 9; p. 927
• Main Authors: Yang, Zhen, Zhao, Tiantian, Ma, Qinghua, Liang, Lisong, Wang, Guixi
• Format: Journal Article
• Language: English
• Published: Switzerland Frontiers Media S.A 09.07.2018
• Subjects: chloroplast genome variation; comparative genomics; Corylus; interspecific relationships; phylogenetic analysis; Plant Science; interspecific relationships; chloroplast genome variation; phylogenetic analysis; Corylus; comparative genomics
• ISSN: 1664-462X; 1664-462X
• DOI: 10.3389/fpls.2018.00927

L. is an economically and phylogenetically important in the family Betulaceae. Taxonomic and phylogenetic relationships of species have long been controversial for lack of effective molecular markers. In this study, the complete chloroplast (cp) genomes of six species were assembled and characterized using next-generation sequencing. We compared the genome features, repeat sequences, sequence divergence, and constructed the phylogenetic relationships of the six species. The results indicated that cp genomes were typical of the standard double-stranded DNA molecule, ranging from 160,445 base pairs (bp) ( var. thibetca) to 161,621 bp ( ) in length. Each genome contained a pair of inverted repeats (IRs), a large single-copy (LSC) region and a small single-copy (SSC) region. Each of the six cp genomes possessed 113 unique genes arranged in the same order, including 80 protein-coding, 29 tRNA, and 4 rRNA genes. contained the highest number of repeat sequences, and the richest SSRs in six cp genomes were A/T mononucleotides. Comparative analyses of six cp genomes revealed four hotspot regions ( ) that could be used as potential molecular markers. Phylogenetic analyses of the complete chloroplast genomes and 80 protein-coding genes exhibited nearly identical topologies that strongly supported the monophyly of and simultaneously revealed the generic relationships among Betulaceae. The availability of these genomes can offer valuable genetic information for further taxonomy, phylogeny, and species delimitation in or even Betulaceae plants.