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Lv SY, Ye XY, Li ZH, Ma PF, Li DZ. Testing complete plastomes and nuclear ribosomal DNA sequences for species identification in a taxonomically difficult bamboo genus Fargesia. PLANT DIVERSITY 2023; 45:147-155. [PMID: 37069924 PMCID: PMC10105076 DOI: 10.1016/j.pld.2022.04.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Revised: 04/05/2022] [Accepted: 04/15/2022] [Indexed: 06/17/2023]
Abstract
Fargesia, the largest genus within the temperate bamboo tribe Arundinarieae, has more than 90 species mainly distributed in the mountains of Southwest China. The Fargesia bamboos are important components of the subalpine forest ecosystems that provide food and habitat for many endangered animals, including the giant panda. However, species-level identification of Fargesia is difficult. Moreover, the rapid radiation and slow molecular evolutionary rate of Fargesia pose a significant challenge to using DNA barcoding with standard plant barcodes (rbcL, matK, and ITS) in bamboos. With progress in the sequencing technologies, complete plastid genomes (plastomes) and nuclear ribosomal DNA (nrDNA) sequences have been proposed as organelle barcodes for species identification; however, these have not been tested in bamboos. We collected 196 individuals representing 62 species of Fargesia to comprehensively evaluate the discriminatory power of plastomes and nrDNA sequences compared to standard barcodes. Our analysis indicates that complete plastomes have substantially higher discriminatory power (28.6%) than standard barcodes (5.7%), whereas nrDNA sequences show a moderate improvement (65.4%) compared to ITS (47.2%). We also found that nuclear markers performed better than plastid markers, and ITS alone had higher discriminatory power than complete plastomes. The study also demonstrated that plastomes and nrDNA sequences can contribute to intrageneric phylogenetic resolution in Fargesia. However, neither of these sequences were able to discriminate all the sampled species, and therefore, more nuclear markers need to be identified.
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Affiliation(s)
- Shi-Yu Lv
- School of Life Science, Northwest University, Xi'an, Shaanxi, 710069, China
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, 650201, China
| | - Xia-Ying Ye
- Agronomy and Life Science Department, Zhaotong University, Zhaotong, Yunnan, 657000, China
| | - Zhong-Hu Li
- School of Life Science, Northwest University, Xi'an, Shaanxi, 710069, China
| | - Peng-Fei Ma
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, 650201, China
| | - De-Zhu Li
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, 650201, China
- Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming, Yunnan, 650201, China
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Ye XY, Xu ZC, Cheng YH, Wang WH, Li DZ. Inflorescences of Fargesiaangustissima T.P. Yi and Yushaniapauciramificans T.P. Yi (Poaceae, Bambusoideae) shed light on the taxonomy of the Sino-Himalayan alpine bamboos. PHYTOKEYS 2022; 215:27-36. [PMID: 36761098 PMCID: PMC9836519 DOI: 10.3897/phytokeys.215.94010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Accepted: 10/10/2022] [Indexed: 06/18/2023]
Abstract
The taxonomy of the Sino-Himalayan alpine bamboos is controversial due to their complex evolutionary history and further complicated by the scarcity of inflorescence. Here, we supplement the description of the inflorescence of Fargesiaangustissima T.P. Yi and Yushaniapauciramificans T.P. Yi, which shed light on the taxonomy of Fargesia Franchet, Borinda Stapleton and Yushania Keng. F.angustissima has compressed inflorescence unilateral stretching out from reduced spathe, showing a transitional state between species with condensed inflorescence embraced by spathe-like bracts and species with open inflorescence without bracts. Considering that extensive gene flow existed between several clades of Fargesia found in recent studies, a broadly-defined Fargesia s. l. should be adopted. Meanwhile, the inflorescence of Y.pauciramificans has typical characteristics of Yushania, such as axilla with tuberculate glands, rachilla internodes ciliate and cylindrical florets, supporting the delimitation of Yushania.
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Affiliation(s)
- Xia-Ying Ye
- Agronomy and Life Science Department, Zhaotong University, Zhaotong, Yunnan 657000, ChinaKunming Institute of Botany, Chinese Academy of SciencesYunnanChina
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Kunming, Yunnan 650201, ChinaZhaotong UniversityYunnanChina
| | - Zu-Chang Xu
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Kunming, Yunnan 650201, ChinaZhaotong UniversityYunnanChina
| | - Yue-Hong Cheng
- Sichuan Wolong National Natural Reserve Administration, Aba, Sichuan, 623000, ChinaSichuan Wolong National Natural Reserve AdministrationSichuanChina
| | - Wei-Hua Wang
- Agronomy and Life Science Department, Zhaotong University, Zhaotong, Yunnan 657000, ChinaKunming Institute of Botany, Chinese Academy of SciencesYunnanChina
| | - De-Zhu Li
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Kunming, Yunnan 650201, ChinaZhaotong UniversityYunnanChina
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