DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage

doi:10.1016/j.pld.2020.07.007

Plant Diversity ›› 2020, Vol. 42 ›› Issue (05): 376-385.DOI: 10.1016/j.pld.2020.07.007

DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage

Kai-Wen Jiang^a, Rong Zhang^b,c, Zhong-Fu Zhang^d, Bo Pan^c,e,f, Bin Tian^a,g

a Key Laboratory of Biodiversity Conservation in Southwest China, National Forestry and Grassland Administration, Southwest Forestry University, Kunming, 650224, China;
b Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China;
c University of Chinese Academy of Sciences, Beijing, 100049, China;
d Department of Wetland, Southwest Forestry University, Kunming, 650224, China;
e Center for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla, 666303, China;
f Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Mengla, 666303, China;
g Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, A-1030, Vienna, Austria

收稿日期:2020-02-17 修回日期:2020-07-24 出版日期:2020-10-25 发布日期:2020-10-28
通讯作者: Bo Pan, Bin Tian
基金资助:
We thank Dr. Zhi-qiang Lu and Mr. Yi Fu for help during the field survey. We are grateful to Dr. Ovidiu Paun for very helpful comments on earlier drafts of this manuscript. We thank Dr. Shu-feng Li for the distributional map, as well as Dr. Bing Liu, Dr. Ren-bin Zhu, and Mr. Yi Fu for their photos of some Dumasia species. The first author thanks Dr. Wen-bin Yu, Dr. Pei-liang Liu, Dr. Xue-li Zhao, and Dr. Zhu-qiu Song for their help during the writing process. Additional thanks go to Dr. Richard T. Corlett, Raymond Porter and Mr Yuan-qiong Zhang for polishing this work. The authors would also like to express gratitude to two anonymous reviewers for their valuable comments on the manuscript. This work was financially supported by the Second Tibetan Plateau Scientific Expedition and Research (STEP) program (2019QZKK0502), the National Natural Science Foundation of China (NSFC 41861008) and the 135 Karst ‘breakthrough’ project Grant 2017XTBG-T03.

DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage

Kai-Wen Jiang^a, Rong Zhang^b,c, Zhong-Fu Zhang^d, Bo Pan^c,e,f, Bin Tian^a,g

a Key Laboratory of Biodiversity Conservation in Southwest China, National Forestry and Grassland Administration, Southwest Forestry University, Kunming, 650224, China;
b Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China;
c University of Chinese Academy of Sciences, Beijing, 100049, China;
d Department of Wetland, Southwest Forestry University, Kunming, 650224, China;
e Center for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla, 666303, China;
f Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Mengla, 666303, China;
g Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, A-1030, Vienna, Austria

Received:2020-02-17 Revised:2020-07-24 Online:2020-10-25 Published:2020-10-28
Contact: Bo Pan, Bin Tian
Supported by:
We thank Dr. Zhi-qiang Lu and Mr. Yi Fu for help during the field survey. We are grateful to Dr. Ovidiu Paun for very helpful comments on earlier drafts of this manuscript. We thank Dr. Shu-feng Li for the distributional map, as well as Dr. Bing Liu, Dr. Ren-bin Zhu, and Mr. Yi Fu for their photos of some Dumasia species. The first author thanks Dr. Wen-bin Yu, Dr. Pei-liang Liu, Dr. Xue-li Zhao, and Dr. Zhu-qiu Song for their help during the writing process. Additional thanks go to Dr. Richard T. Corlett, Raymond Porter and Mr Yuan-qiong Zhang for polishing this work. The authors would also like to express gratitude to two anonymous reviewers for their valuable comments on the manuscript. This work was financially supported by the Second Tibetan Plateau Scientific Expedition and Research (STEP) program (2019QZKK0502), the National Natural Science Foundation of China (NSFC 41861008) and the 135 Karst ‘breakthrough’ project Grant 2017XTBG-T03.

摘要/Abstract

摘要： Dumasia taxonomy and classification have long been problematic. Species within this genus have few morphological differences and plants without flowers or fruits are difficult to accurately identify. In this study, we evaluated the ability of six DNA barcoding sequences, one nuclear (ITS) and five chloroplast regions (trnH-psbA, matK, rbcL, trnL-trnF, psbB-psbF), to efficiently identify Dumasia species. Most single markers or their combinations identify obvious barcoding gaps between intraspecific and interspecific genetic variation. Most combined analyses including ITS showed good species resolution and identification efficiency. We therefore suggest that ITS alone or a combination of ITS with any cpDNA marker are most suitable for DNA barcoding of Dumasia. The phylogenetic analyses clearly indicated that Dumasia yunnanensis is not monophyletic and is separated as two independent branches, which may result from cryptic differentiation. Our results demonstrate that molecular data can deepen the comprehension of taxonomy of Dumasia and provide an efficient approach for identification of the species.

关键词: Cryptic species, DNA barcoding, Dumasia, Internal transcribed spacer (ITS), Plastid genome

Abstract: Dumasia taxonomy and classification have long been problematic. Species within this genus have few morphological differences and plants without flowers or fruits are difficult to accurately identify. In this study, we evaluated the ability of six DNA barcoding sequences, one nuclear (ITS) and five chloroplast regions (trnH-psbA, matK, rbcL, trnL-trnF, psbB-psbF), to efficiently identify Dumasia species. Most single markers or their combinations identify obvious barcoding gaps between intraspecific and interspecific genetic variation. Most combined analyses including ITS showed good species resolution and identification efficiency. We therefore suggest that ITS alone or a combination of ITS with any cpDNA marker are most suitable for DNA barcoding of Dumasia. The phylogenetic analyses clearly indicated that Dumasia yunnanensis is not monophyletic and is separated as two independent branches, which may result from cryptic differentiation. Our results demonstrate that molecular data can deepen the comprehension of taxonomy of Dumasia and provide an efficient approach for identification of the species.

Key words: Cryptic species, DNA barcoding, Dumasia, Internal transcribed spacer (ITS), Plastid genome

Kai-Wen Jiang, Rong Zhang, Zhong-Fu Zhang, Bo Pan, Bin Tian. DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage[J]. Plant Diversity, 2020, 42(05): 376-385.

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DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage

DNA barcoding and molecular phylogeny of Dumasia (Fabaceae: Phaseoleae) reveals a cryptic lineage

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