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Xu N, Du X, Zhang XX, Yang HL. The complete chloroplast genome of Salix lindleyana (salicaceae), a plateau plant species. Mitochondrial DNA B Resour 2023; 8:877-881. [PMID: 37614527 PMCID: PMC10443960 DOI: 10.1080/23802359.2023.2246675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Accepted: 08/04/2023] [Indexed: 08/25/2023] Open
Abstract
Salix lindleyana Wallich ex Andersson 1851 is a species of genus Salix which mainly grows on mountains above 3000 m at sea level in Qinghai-Tibetan Plateau (including the Himalayas and Hengduan Mountains). To determine its phylogenetic position within Salix, we reconstructed S. lindleyana complete chloroplast (cp) genome sequence by de novo assembly using whole-genome sequencing data. The completed chloroplast genome was 155,304 bp, with a total GC content of 36.7%. It had a very typical tetrad structure, including a large single-copy (LSC) region of 84,539 bp, a small single-copy (SSC) region of 16,161 bp, and two inverted repeats (IR) regions of 27,302 bp. A total of 132 functional genes were distributed in the chloroplast genome, including 87 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. Phylogenetic analysis showed that S. lindleyana was clustered with Salix dasyclados Wimmer 1849 and Salix variegata Franchet 1887. The complete chloroplast genome of S. lindleyana provides potential genetic resources for further phylogenetic studies.
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Affiliation(s)
- Nan Xu
- The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration; Institute of Tree Development and Genome Editing, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
| | - Xin Du
- The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration; Institute of Tree Development and Genome Editing, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
| | - Xiu-Xing Zhang
- The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration; Institute of Tree Development and Genome Editing, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
| | - Hai-Ling Yang
- The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration; Institute of Tree Development and Genome Editing, College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
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Wan J, Tang H, Yu Z, Wang J, Yao X, Li X. Characterization of the complete Salix viminalis var. gmelinii Turcz 1854 chloroplast genome from the northeast of China. Mitochondrial DNA B Resour 2022; 7:1768-1770. [PMID: 36237206 PMCID: PMC9553155 DOI: 10.1080/23802359.2022.2127337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022] Open
Abstract
The Salix viminalis var. gmelinii Turcz 1854 is a variant of the Salix genus, from the Salicaceae family, and possesses an extremely high economic value. In this study the complete chloroplast genome of the woody plant S. viminalis var. gmelinii was characterized for the first time using a high-throughput approach in conjunction with de novo assembly technology. The S.viminalis var. gmelinii chloroplast genome is 155,405 base pairs (bp) in length and contains 36.71% GC content. It incorporates a large single-copy region (LSC, 84,287bp) alongside one small-copy region (SSC, 16,198bp), and two inverted repeat regions (IRA and IRB, 27,460bp). Moreover, this chloroplast genome encodes 128 genes, which comprises 83 protein-coding genes, 37 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. Furthermore, the phylogenetic analysis revealed that S.viminalis var. gmelinii is closely related to S. cupularis and S.gordejevii.
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Affiliation(s)
- Jie Wan
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Huijie Tang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Zicheng Yu
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Jing Wang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xu Yao
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xiaoping Li
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China,College of Forestry, Nanjing Forestry University, Nanjing, China,Key Laboratory of Forest Tree Genetics and Breeding and High-Efficiency Cultivating in Jiangsu Province, Nanjing Forestry University, Nanjing, China,CONTACT Xiaoping Li College of Forestry, Nanjing Forestry University, Nanjing, 210037, China
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Wang Z, Tang H, Yu Z, Wang J, Yao X, Li X. Phylogenetic analysis and complete chloroplast genome of Salix wilhelmsiana M.B. Mitochondrial DNA B Resour 2022; 7:1648-1649. [PMID: 36147369 PMCID: PMC9487952 DOI: 10.1080/23802359.2022.2119814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Abstract
Salix wilhelmsiana M.B. Bieberstein 1819 is a perennial woody plant with high economic and ecological value. In this study, we annotated the chloroplast (cp) genome of Salix wilhelmsiana M.B. The results showed that the length of the complete cp genome is 155,577 bp, which is typically composed of two single-copy regions (large single-copy (LSC) of 84,439 bp and small single-copy (SSC) of 16,221 bp) and a pair of IR regions of 27,457 bp with a quadripartite structure. The genome contains 129 genes, including 84 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The GC content was 36.70%. Phylogenetic analysis based on cp genome sequences of 19 species from the Salicaceae family revealed that S. wilhelmsiana M.B. is closely related to S. viminalis var. gmelinii.
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Affiliation(s)
- Zhengxuan Wang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Huijie Tang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Zicheng Yu
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Jing Wang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xu Yao
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xiaoping Li
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China
- College of Forestry, Nanjing Forestry University, Nanjing, China
- Jiangsu Key Laboratory for Poplar Germplasm Enhancement and Variety Improvement, Nanjing Forestry University, Nanjing, China
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Wang J, Yu Z, Yao X, Wan J, Wang Z, Li X. The complete chloroplast genome sequence of Salix kochiana Trautv. and its phylogenetic analysis. Mitochondrial DNA B Resour 2022; 7:1123-1125. [PMID: 35783067 PMCID: PMC9245976 DOI: 10.1080/23802359.2022.2087555] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022] Open
Abstract
Salix kochiana Trautvetter 1837 is one of the highest value shrubs present in northern China with important economic and ecological benefits. This study revealed the structural characteristics and phylogenetic relationships of chloroplast genes in S. kochiana Trautv. The results showed that the length of the complete chloroplast genome was 155,657 bp, which was a typical circular double-stranded structure, including an 84,458 bp large single-copy region (LSC), a 16,221 bp small single-copy region (SSC) and a 27,489 bp pair of inverted repeat regions (IRA and IRB). The chloroplast genome contains 48,757 A bases, 28,017 G bases, 49,843 T bases, and 29,040 C bases, with a GC content of 36.66%. Through bioinformatics annotation, a total of 126 genes were found in the chloroplast genome, including 81 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis showed that S. kochiana Trautv. was closely related to S. triandroides.
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Affiliation(s)
- Jing Wang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Zicheng Yu
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xu Yao
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Jie Wan
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Zhengxuan Wang
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Xiaoping Li
- Collaborative Innovation Center of Southern Modern Forestry, Nanjing Forestry University, Nanjing, China.,College of Forestry, Nanjing Forestry University, Nanjing, China.,Jiangsu Key Laboratory for Poplar Germplasm Innovation and Variety Improvement, Nanjing Forestry University, Nanjing, China
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