Characterization of the complete chloroplast genome sequence of Cardamine macrophylla (Brassicaceae)

被引：0
作者：
Ting Ren
Yanci Yang
Jiao Wang
Ruiting Zhang
Zhan-Lin Liu
机构：
[1] Northwest University,Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), College of Life Science
来源：
Conservation Genetics Resources | 2018年 / 10卷
关键词：
Plastome; Illumina sequencing; Phylogenetic analysis;
D O I：
暂无
中图分类号：
学科分类号：
摘要：
Cardamine macrophylla is a perennial herb with short-lived seeds. Here, the complete chloroplast genome (plastome) of C.macrophylla was obtained by Illumina sequencing technology. The plastome is 155,393 bp in length, including a large single copy (LSC) region of 84,492 bp, a small single copy (SSC) region of 17,957 bp and a pair of inverted repeats (IRs) of 26,472 bp. The genome contained 131 genes, including 85 protein-coding genes (78 PCG species), 37 tRNA genes (30 tRNA species), eight rRNA genes (four rRNA species) and one pseudogene. Among these genes, 15 genes harbored a single intron and three genes harbored two introns. Seven tRNA, five protein-coding and all four rRNA genes were completely duplicated in the IR regions. The GC content of C. macrophylla plastome is 36.4%. A total of 26,470 codons were detected in 85 protein-coding genes of C. macrophylla plastome. Phylogenetic analysis demonstrated that the all Cardamine species formed a monophyletic clade, and C. macrophylla was closely related to C. impatiens.
引用
收藏
页码：627 / 630
页数：3
相关论文
共 39 条
[1]  
Ceballos G(2015)Accelerated modern human-induced species losses: entering the sixth mass extinction Sci Adv 1 e1400253-1159
[2]  
Ehrlich PR(2004)Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs Genome Res 14 1147-e129
[3]  
Barnosky AD(2013)Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads: a baiting and iterative mapping approach Nucl Acids Res 41 e129-140
[4]  
García A(2010)Development and utilization of Resour Dev Market 26 139-W581
[5]  
Pringle RM(2013) willd Nucl Acids Res 41 W575-1295
[6]  
Palmer TM(2012)OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets PLoS One 7 e30619-2690
[7]  
Chevreux B(1987)NGS QC Toolkit: a toolkit for quality control of next generation sequencing data Nucleic Acids Res 15 1281-148
[8]  
Pfsterer T(2006)The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications Bioinformatics 22 2688-undefined
[9]  
Drescher B(2004)RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models Nature 427 145-undefined
[10]  
Driesel AJ(2006)Extinction risk from climate change Plant Physiol Comm 42 256-undefined
1234