An improved method for chloroplast genome sequencing in non-model forest tree species

	An improved method for chloroplast genome sequencing in non-model forest tree species
	Du, Fang K. ; Lang, Tiange ; Lu, Sihai ; et al
刊名	TREE GENETICS & GENOMES
	2015
卷号	11 期号:6
关键词	Chloroplast Next-generation sequencing Rolling circle amplification (RCA) Oak
中文摘要	Chloroplast genomes can provide a large amount of information and resources for use in studies on plant evolution and molecular ecology. However, a rapid and efficient method for obtaining chloroplast genome sequences is still lacking. In this study, we report a modified method for the isolation of intact chloroplasts, which needs less than 0.5 g leaf material. Coupled with rolling circle amplification (RCA), next-generation sequencing, and a pipeline combining de novo assembly and reference-guided assembly (RGA), we successfully obtained a complete chloroplast genome for the non-model forest tree species, evergreen oak Quercus spinosa, with as many as 36 % of the sequence reads mapped to the chloroplast genome. The Q. spinosa cpDNA is 160,825 bp in length and codes for 134 genes (89 protein coding, 8 ribosomal RNAs (rRNAs), and 36 distinct transfer RNAs (tRNAs)). The genome organization and arrangement are similar to those found among most angiosperm chloroplast genomes. Our inexpensive and efficient protocol can be applied to the reconstruction of chloroplast genomes for plant evolutionary studies, especially in non-model tree species.
公开日期	2016-02-15
内容类型	期刊论文
源URL	[http://ir.xtbg.org.cn/handle/353005/9663]
专题	西双版纳热带植物园_其他
推荐引用方式 GB/T 7714	Du, Fang K.,Lang, Tiange,Lu, Sihai,et al. An improved method for chloroplast genome sequencing in non-model forest tree species[J]. TREE GENETICS & GENOMES,2015,11(6).
APA	Du, Fang K.,Lang, Tiange,Lu, Sihai,&et al.(2015).An improved method for chloroplast genome sequencing in non-model forest tree species.TREE GENETICS & GENOMES,11(6).
MLA	Du, Fang K.,et al."An improved method for chloroplast genome sequencing in non-model forest tree species".TREE GENETICS & GENOMES 11.6(2015).