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Luo C, Huang W, Yer H, Kamuda T, Li X, Li Y, Rong Y, Yan B, Wen Y, Wang Q, Huang M, Huang H. Complete Chloroplast Genomes and Comparative Analyses of Three Ornamental Impatiens Species. Front Genet 2022; 13:816123. [PMID: 35432470 PMCID: PMC9006450 DOI: 10.3389/fgene.2022.816123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Accepted: 03/11/2022] [Indexed: 11/25/2022] Open
Abstract
Impatiens L., the largest genus in the family Balsaminaceae with approximately 1,000 species, is a controversial genus. Due to the conflict of morphological features and insufficient genomic resources, the studies of systematic evolution and understanding of taxonomic identification are considered to be very limited. Hence, we have sequenced the complete chloroplast genomes of three ornamental species (Impatiens balsamina, I. hawkeri, and I. walleriana), and compared them with previously published wild species data. We performed a detailed comparison of a highly similar basic structure, size, GC content, gene number, order, and functional array among them. Similarly, most divergent genes were detected from previous work in the literature. The mutational regions containing highly variable nucleotide hotspots were identified and may be used as potential markers for species identification and taxonomy. Furthermore, using whole chloroplast genome data to analysis the phylogenetic relationship of the Balsaminaceae species, we found that they were all part of a single clade. The three phenotypically different ornamental species were clustered together, suggesting that they were very likely to be closely related. We achieved and characterized the plastid genome structure, identified the divergence hotspots, and determined the phylogenetic and taxonomic positions of the three cultivated species in the Impatiens genus. The results may show that the chloroplast genome can be used to solve phylogenetic problems in or between the Impatiens genus and also provide genomic resources for the study of the Balsaminaceae family’s systematics and evolution.
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Affiliation(s)
- Chao Luo
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States
| | - Wulue Huang
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Huseyin Yer
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States
- Faculty of Forestry, Duzce University, Duzce, Turkey
| | - Troy Kamuda
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States
| | - Xinyi Li
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Yang Li
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Yuhong Rong
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Bo Yan
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Yonghui Wen
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Qiong Wang
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
| | - Meijuan Huang
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- *Correspondence: Meijuan Huang, ; Haiquan Huang,
| | - Haiquan Huang
- College of Landscape Architecture and Horticulture Sciences, Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), Southwest Forestry University, Kunming, China
- Yunnan Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- *Correspondence: Meijuan Huang, ; Haiquan Huang,
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Luo C, Li Y, Budhathoki R, Shi J, Yer H, Li X, Yan B, Wang Q, Wen Y, Huang M, Huang H. Complete chloroplast genomes of Impatiens cyanantha and Impatiens monticola: Insights into genome structures, mutational hotspots, comparative and phylogenetic analysis with its congeneric species. PLoS One 2021; 16:e0248182. [PMID: 33798203 PMCID: PMC8018631 DOI: 10.1371/journal.pone.0248182] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Accepted: 02/20/2021] [Indexed: 12/22/2022] Open
Abstract
Impatiens L., the largest genus in the family Balsaminaceae with approximately 1000 species, is a controversial and complex genus that includes many economically important species well known for medicinal and ornamental values. However, there is limited knowledge of molecular phylogeny and chloroplast genomics, and uncertainties still exist at a taxonomic level. In this study, we have assembled four chloroplast genomics specimens of Impatiens cyanantha and Impatiens monticola, which are found at the different altitudes of Guizhou and Yunnan in China, and compared them with previously published three wild Balsaminaceae species (Impatiens piufanensis, Impatiens glandlifera, and Hydrocera triflora). The complete chloroplast genome sequences ranged from 152,236 bp (I. piufanensis) to 154,189 bp (H. triflora) and encoded 115 total distinct genes, of which 81 were protein-coding, 30 were distinct transfer RNA genes(tRNA), and 4 were ribosomal RNA genes (rRNA). A comparative analysis of I. cyanantha (Guizhou) vs. I. cyanantha (Yunnan) and I. monticola (Guizhou) vs. I. monticola (Yunnan) revealed minor changes in lengths; however, similar gene contents, gene orders, and GC contents existed among them. Interestingly, highly coding and non-coding genes, and regions matK, psbK, atpH-atpI, trnC-trnT, petN, psbM, atpE, rbcL, accD, psaL, rps3-rps19, ndhG-ndhA,rpl16, rpoB, ndhB, ndhF, ycf1, and ndhH were found, which could be suitable for identification of species and phylogenetic studies. During the comparison between I. cyanantha (Guizhou) and I. cyanantha (Yunnan), we observed that the rps4, ycf2, ndhF, ycf1, and rpoC2 genes underwent positive selection. Meanwhile, in the comparative study of I. monticola (Guizhou) vs. I. monticola (Yunnan), The accD and ycf1 genes were positively selected. Additionally, phylogenetic relationships based on maximum likelihood (ML) and Bayesian inference (BI) among whole chloroplast genomes showed that a sister relationship with I. monticola (Guizhou) and I. monticola (Yunnan) formed a clade with I.piufanensis proving their close connection. Besides, I.cyanantha (Guizhou) and I. cyanantha (Yunnan) formed a clade with I. glandlifera. Along with the findings and the results, the current study might provide valuable significant genomic resources for systematics and evolution of the genus impatiens in different altitudes of regions.
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Affiliation(s)
- Chao Luo
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States of America
| | - Yang Li
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Roshani Budhathoki
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States of America
| | - Jiyuan Shi
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States of America
| | - Huseyin Yer
- Department of Landscape Architecture and Plant Science, University of Connecticut, Storrs, CT, United States of America
| | - Xinyi Li
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Bo Yan
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Qiong Wang
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Yonghui Wen
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Meijuan Huang
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
| | - Haiquan Huang
- College of Landscape Architecture and Horticultural Science, Southwest Forestry University, Kunming, China
- Research and Development Center of Landscape Plants and Horticulture Flowers, Southwest Forestry University, Kunming, China
- Yunnan Province Engineering Research Center for Functional Flower Resources and Industrialization, Southwest Forestry University, Kunming, China
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Li P, Wu Y, Zhang Z, Lin D, Wang D, Huang X, Zhang Y. Proteomics analysis identified serum biomarkers for occupational benzene exposure and chronic benzene poisoning. Medicine (Baltimore) 2019; 98:e16117. [PMID: 31232959 PMCID: PMC6636960 DOI: 10.1097/md.0000000000016117] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
The study aimed to find novel effect biomarkers for occupational benzene exposure and chronic benzene poisoning (CBP), which might also provide clues to the mechanism of benzene toxicity.We performed a comparative serological proteome analysis between healthy control workers with no benzene exposure, workers with short-term benzene exposure, workers with long-term benzene exposure, and CBP patients using 2D-DIGE and MALDI-TOF-MS. Two of the differentially expressed proteins were then selected to be validated by immune turbidimetric analysis.A total of 10 proteins were found to be significantly altered between different groups. The identified deferentially expressed proteins were classified according to their molecular functions, biological processes, and protein classes. The alteration of 2 important serum proteins among them, apolipoprotein A-I and transthyretin, were further confirmed.Our findings suggest that the identified differential proteins could be used as biomarkers for occupational benzene exposure and CBP, and they may also help elucidate the mechanisms of benzene toxicity.
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Affiliation(s)
- Peimao Li
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
| | - Yuanru Wu
- The Second People's Hospital of Longgang District, Shenzhen, Guangdong, China
| | - Zhimin Zhang
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
| | - Dafeng Lin
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
| | - Dianpeng Wang
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
| | - Xianqing Huang
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
| | - Yanfang Zhang
- Shenzhen Prevention and Treatment Center for Occupational Diseases, Shenzhen
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