A preliminary assessment of matK, rbcL and trnH-psbA as DNA barcodes for Calamus (Arecaceae) species in China with a note on ITS
Yang, Han-Qi1; Dong, Yu-Ran1; Gu, Zhi-Jia1; Liang, Ning1; Yang, Jun-Bo2
2012-11-30
发表期刊ANNALES BOTANICI FENNICI
ISSN0003-3847
卷号49期号:5-6页码:319-330
摘要Calamus is the largest genus in the palm family (Arecaceae) and contains many species of high ecological and economical value. In this study, we assessed the nuclear ribosomal internal transcribed spacer region (ITS), matK, rbcL, trnH-psbA, as well as two combinations, matK + rbcL and matK + rbcL + trnH-psbA, as DNA barcodes for Calamus using 15 species or varieties distributed in China. ITS may exist as multiple copies in the examined Calamus species, and was eliminated from consideration as a possible barcode. The trnH-psbA spacer had the most variation, followed by matK and rbcL. No separations between intraspecific variation and interspecific divergence (barcoding gaps) were found in the remaining candidate barcodes. At the species level, the discrimination rates of the candidate barcodes based on neighbor-joining (NJ) trees were significantly different: matK (37.5%), rbcL (6.3%), trnH-psbA (56.3%), matK + rbcL (43.8%) and matK + rbcL + trnH-psbA (62.5%). Furthermore, the discrimination rates of trnH-psbA would improve to 91.7%, if the varieties of C. nambariensis and C. yunnanensis were treated as one species in the NJ tree. Thus, trnH-psbA may be an appropriate single DNA barcode for Calamus useful in the species identification.
关键词Molecular Phylogenetics Flowering Plants Sequence Data Land Plants Plastid Dna Identification Palmae Substitution Calamoideae Taxonomy
资助信息State Forestry Administration of China [2008-4-30]; Large-scale Scientific Facilities of the Chinese Academy of Sciences [2009-LSF-GBOWS-01]; Applied Basic Program of Yunnan [2010CD141]
学科领域Plant Sciences
收录类别SCI
语种英语
WOS研究方向Plant Sciences
WOS类目Plant Sciences
WOS记录号WOS:000311767300003
引用统计
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/15962
专题中国科学院东亚植物多样性与生物地理学重点实验室
作者单位1.Chinese Acad Forestry, Res Inst Resources Insects, Kunming 650224, Yunnan, Peoples R China
2.Chinese Acad Sci, Kunming Inst Bot, Key Lab Biodivers & Biogeog, Germplasm Bank Wild Species, Kunming 650204, Yunnan, Peoples R China
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Yang, Han-Qi,Dong, Yu-Ran,Gu, Zhi-Jia,et al. A preliminary assessment of matK, rbcL and trnH-psbA as DNA barcodes for Calamus (Arecaceae) species in China with a note on ITS[J]. ANNALES BOTANICI FENNICI,2012,49(5-6):319-330.
APA Yang, Han-Qi,Dong, Yu-Ran,Gu, Zhi-Jia,Liang, Ning,&Yang, Jun-Bo.(2012).A preliminary assessment of matK, rbcL and trnH-psbA as DNA barcodes for Calamus (Arecaceae) species in China with a note on ITS.ANNALES BOTANICI FENNICI,49(5-6),319-330.
MLA Yang, Han-Qi,et al."A preliminary assessment of matK, rbcL and trnH-psbA as DNA barcodes for Calamus (Arecaceae) species in China with a note on ITS".ANNALES BOTANICI FENNICI 49.5-6(2012):319-330.
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