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Deng J, Zhu Y, Luo Y, Zhong Y, Tu J, Yu J, He J. Urbanization drives biotic homogenization of the avian community in China. Integr Zool 2024. [PMID: 38379130 DOI: 10.1111/1749-4877.12815] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/22/2024]
Abstract
Urbanization-driven biotic homogenization has been recorded in various ecosystems on local and global scales; however, it is largely unexplored in developing countries. Empirical studies on different taxa and bioregions show conflicting results (i.e. biotic homogenization vs. biotic differentiation); the extent to which the community composition changes in response to anthropogenic disturbances and the factors governing this process, therefore, require elucidation. Here, we used a compiled database of 760 bird species in China to quantify the multiple-site β-diversity and fitted distance decay in pairwise β-diversities between natural and urban assemblages to assess whether urbanization had driven biotic homogenization. We used generalized dissimilarity models (GDM) to elucidate the roles of spatial and environmental factors in avian community dissimilarities before and after urbanization. The multiple-site β-diversities among urban assemblages were markedly lower than those among natural assemblages, and the distance decays in pairwise similarities in natural assemblages were more rapid. These results were consistent among taxonomic, phylogenetic, and functional aspects, supporting a general biotic homogenization driven by urbanization. The GDM results indicated that geographical distance and temperature were the dominant predictors of avian community dissimilarity. However, the contribution of geographical distance and climatic factors decreased in explaining compositional dissimilarities in urban assemblages. Geographical and environmental distances accounted for much lower variations in compositional dissimilarities in urban than in natural assemblages, implying a potential risk of uncertainty in model predictions under further climate change and anthropogenic disturbances. Our study concludes that taxonomic, phylogenetic, and functional dimensions elucidate urbanization-driven biotic homogenization in China.
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Affiliation(s)
- Jiewen Deng
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Younan Zhu
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Yuelong Luo
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Yongjing Zhong
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Jiahao Tu
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Jiehua Yu
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
| | - Jiekun He
- Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, China
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Cheng X, Zhao W, Liang G, Lu H, Fu Y, Li Y, Cui F. Construction of cytomegalovirus promoter-driven gene expression system in Laodelphax striatellus. Insect Sci 2024. [PMID: 38339806 DOI: 10.1111/1744-7917.13333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Revised: 12/18/2023] [Accepted: 01/08/2024] [Indexed: 02/12/2024]
Abstract
The small brown planthopper (SBPH, Laodelphax striatellus) is a significant rice pest, responsible for transmitting rice stripe virus (RSV) in a persistent and propagative manner. RSV is one of the most detrimental rice viruses, causing rice stripe disease, which results in considerable loss of rice grain yield. While RNA interference and gene knockout techniques have enabled gene downregulation in SBPH, no system currently exists for the overexpression of endogenous or exogenous genes. Consequently, the development of a protein expression system for SBPH is imperative to serve as a technical foundation for pest control and gene function investigations. This study aimed to construct an expression vector using the promoter of the constitutive-expressed tubulin gene of SBPH, and promoter of human cytomegalovirus (CMV). Fluorescence experiments demonstrated that both tubulin and CMV promoter could drive green fluorescent protein (GFP) expression in SBPH, and could also facilitate the expression of a nucleocapsid protein (NP) -GFP fusion protein containing viral NP with comparable efficiency. Through expression vector optimization, we have identified that the 3 tandem CMV promoters display a significantly higher promoter activity compared with both the 2 tandem CMV promoters and the single CMV promoter. In addition, the incorporation of Star polycation nanoparticles significantly enhanced the expression efficiency in SBPH. These results provide a promising technical platform for investigating gene functions in SBPH.
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Affiliation(s)
- Xiaohui Cheng
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Wan Zhao
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Guohua Liang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- School of Life Sciences, Hebei University, Baoding, Hebei, China
| | - Hong Lu
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yumei Fu
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yiming Li
- School of Life Sciences, Hebei University, Baoding, Hebei, China
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- Institute of Wetland Ecology & Clone Ecology/Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, Zhejiang, China
| | - Feng Cui
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
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Zhou C, Zheng X, Wang L, Yue B, DU C, Liu X. The first chromosome-level genome assembly and transcriptome sequencing provide insights into cantharidin production of the blister beetles. Integr Zool 2023. [PMID: 37881135 DOI: 10.1111/1749-4877.12783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2023]
Abstract
Blister beetles (Coleoptera: Meloidae) produce a natural defensive toxin cantharidin (CTD), which has been used for various cancer treatments and other diseases. Currently, the lack of chromosome-level reference genomes in Meloidae limits further understanding of the mechanism of CTD biosynthesis and environmental adaptation. In this study, the chromosome-level genome assembly of Mylabris phalerata was generated based on PacBio and Hi-C sequencing. This reference genome was about 136.68 Mb in size with contig N50 of 9.17 Mb and composed of 12 chromosomes. In comparison to six other Coleoptera insects, M. phalerata exhibited multiple expanded gene families enriched in juvenile hormone (JH) biosynthetic process pathway, farnesol dehydrogenase activity, and cytochrome P450, which may be related to CTD biosynthesis. Consistently, the transcriptomic analysis suggested the "terpenoid backbone biosynthesis" pathway and "the juvenile hormone" as putative core pathways of CTD biosynthesis and presented eight up-regulated differential expression genes in male adults as candidate genes. It is possible that the restricted feeding niche and lifestyle of M. phalerata were the cause of the gene family's contraction of odorant binding proteins. The ABC transporters (ABCs) related to exporting bound toxins out of the cell and the resistance to the self-secreted toxins (e.g. CTD) were also contracted, possibly due to other self-protection strategies in M. phalerata. A foundation of understanding CTD biosynthesis and environmental adaptation of blister beetles will be established by our reference genome and discoveries.
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Affiliation(s)
- Chuang Zhou
- Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu, P. R. China
| | - Xiaofeng Zheng
- Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu, P. R. China
| | - Lei Wang
- Institute of Plant Protection, Sichuan Academy of Agricultural Sciences, Chengdu, P. R. China
| | - Bisong Yue
- Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu, P. R. China
| | - Chao DU
- Baotou Teachers College, Baotou, P. R. China
| | - Xu Liu
- Institute of Plant Protection, Sichuan Academy of Agricultural Sciences, Chengdu, P. R. China
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Liang J, Wang W, Cai Q, Li X, Zhu Z, Zhai Y, Li X, Gao X, Yi Y. Prioritizing conservation efforts based on future habitat availability and accessibility under climate change. Conserv Biol 2023:e14204. [PMID: 37855159 DOI: 10.1111/cobi.14204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Revised: 09/17/2023] [Accepted: 10/09/2023] [Indexed: 10/20/2023]
Abstract
The potential for species to shift their ranges to avoid extinction is contingent on the future availability and accessibility of habitats with analogous climates. To develop conservation strategies, many previous researchers used a single method that considered individual factors; a few combined 2 factors. Primarily, these studies focused on identifying climate refugia or climatically connected and spatially fixed areas, ignoring the range shifting process of animals. We quantified future habitat availability (based on species occurrence, climate data, land cover, and elevation) and accessibility (based on climate velocity) under climate change (4 scenarios) of migratory birds across the Yangtze River basin (YRB). Then, we assessed species' range-shift potential and identified conservation priority areas for migratory birds in the 2050s with a network analysis. Our results suggested that medium (i.e., 5-10 km/year) and high (i.e., ≥ 10 km/year) climate velocity would threaten 18.65% and 8.37% of stable habitat, respectively. Even with low (i.e., 0-5 km/year) climate velocity, 50.15% of climate-velocity-identified destinations were less available than their source habitats. Based on our integration of habitat availability and accessibility, we identified a few areas of critical importance for conservation, mainly in Sichuan and the middle to lower reaches of the YRB. Overall, we identified the differences between habitat availability and accessibility in capturing biological responses to climate change. More importantly, we accounted for the dynamic process of species' range shifts, which must be considered to identify conservation priority areas. Our method informs forecasting of climate-driven distribution shifts and conservation priorities.
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Affiliation(s)
- Jie Liang
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Wanting Wang
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Qing Cai
- Hunan Research Academy of Environmental Sciences, Changsha, P.R. China
| | - Xin Li
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Ziqian Zhu
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Yeqing Zhai
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Xiaodong Li
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Xiang Gao
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
| | - Yuru Yi
- College of Environmental Science and Engineering, Hunan University, Changsha, P.R. China
- Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, P.R. China
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Li G, Wang J, He X, Zhang L, Ran Q, Xiong A, Wu D, Hu L, Song Q, Zhu D. An integrative analysis identifying transcriptional features and key genes involved in COVID-19. Epigenomics 2020; 12:1969-1981. [PMID: 33242255 PMCID: PMC7714049 DOI: 10.2217/epi-2020-0168] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2020] [Accepted: 09/18/2020] [Indexed: 02/03/2023] Open
Abstract
Aim: To elucidate the transcriptional characteristics of COVID-19. Materials & methods: We utilized an integrative approach to comprehensively analyze the transcriptional features of both COVID-19 patients and SARS-CoV-2 infected cells. Results: Widespread infiltration of immune cells was observed. We identified 233 genes that were codifferentially expressed in both bronchoalveolar lavage fluid and lung samples of COVID-19 patients. Functional analysis suggested upregulated genes were related to immune response such as neutrophil activation and antivirus response, while downregulated genes were associated with cell adhesion. Finally, we identified LCN2, STAT1 and UBE2L6 as core genes during SARS-CoV-2 infection. Conclusion: The identification of core genes involved in COVID-19 can provide us with more insights into the molecular features of COVID-19.
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Affiliation(s)
- Guoping Li
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
| | - Junyi Wang
- State Key Laboratory of Quality Research inChinese Medicine, Macau University of Science & Technology, Taipa, Macau(SAR), China
| | - Xiang He
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
- Department of Respiratory Disease, Sichuan Friendship Hospital, Chengdu 610000, China
| | - Lei Zhang
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
| | - Qin Ran
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
| | - Anying Xiong
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
| | - Dehong Wu
- Laboratory of Allergy & Inflammation, Chengdu Institute of Respiratory Health, The Third People's Hospital of Chengdu, Affiliated Hospital of Southwest Jiaotong University, Chengdu 610031, China
- Department of Pulmonary and Critical Care Medicine, Sub-center of National Clinical Research Center for Respiratory Disease, The Third People's Hospital of Chengdu, Affiliated Hospital of Chongqing Medical University, Chengdu 610031, China
| | - Lingjuan Hu
- Department of RespiratoryDisease, Renshou county people's hospital, Chengdu 620550, China
| | - Qi Song
- State Key Laboratory of Quality Research inChinese Medicine, Macau University of Science & Technology, Taipa, Macau(SAR), China
| | - Dong Zhu
- State Key Laboratory of Quality Research inChinese Medicine, Macau University of Science & Technology, Taipa, Macau(SAR), China
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