26 results on '"Xu, Yanjie"'
Search Results
2. Risk factors for Lyme disease : A scale-dependent effect of host species diversity and a consistent negative effect of host phylogenetic diversity: Host diversity and Lyme risk
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Wang, Yingying X.G., Matson, Kevin D., Prins, Herbert H.T., Xu, Yanjie, Huang, Zheng Y.X., de Boer, Willem F., Wang, Yingying X.G., Matson, Kevin D., Prins, Herbert H.T., Xu, Yanjie, Huang, Zheng Y.X., and de Boer, Willem F.
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Biodiversity can influence disease risk. One example of a diversity-disease relationship is the dilution effect, which suggests higher host species diversity (often indexed by species richness) reduces disease risk. While numerous studies support the dilution effect, its generality remains controversial. Most studies of diversity-disease relationships have overlooked the potential importance of phylogenetic diversity. Furthermore, most studies have tested diversity-disease relationships at one spatial scale, even though such relationships are likely scale dependent. Using Lyme disease as a model system, we investigated the effects of host species richness and phylogenetic relatedness on the number of reported Lyme disease cases in humans in the U.S.A. at two spatial scales (the county level and the state level) using piecewise structural equation modelling. We also accounted for relevant climatic and habitat-related factors and tested their correlations with the number of Lyme disease cases. We found that species assemblages with more related species (i.e., host species in the order Rodentia) were associated with more Lyme disease cases in humans. Host species richness correlated negatively with the number of Lyme disease cases at the state level (i.e., a dilution effect), a pattern that might be explained by the higher number of reservoir-incompetent species at high levels of species richness at this larger spatial scale. In contrast, a positive correlation was found between species richness and the number of Lyme disease cases at the county level, where a higher proportion of rodent species was associated with higher levels of species richness, potentially amplifying the disease risk. Our results highlight that analyse at a single spatial scale can miss some impacts of biodiversity on human health. Thus, multi-scale analyses with consideration of host phylogenetic diversity are critical for improving our understanding of diversity-disease relationships.
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- 2023
3. Habitat loss exacerbates pathogen spread : An Agent-based model of avian influenza infection in migratory waterfowl
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Yin, Shenglai, Xu, Yanjie, Xu, Mingshuai, de Jong, Mart C.M., Huisman, Mees R.S., Contina, Andrea, Prins, Herbert H.T., Huang, Zheng Y.X., de Boer, Willem F., Yin, Shenglai, Xu, Yanjie, Xu, Mingshuai, de Jong, Mart C.M., Huisman, Mees R.S., Contina, Andrea, Prins, Herbert H.T., Huang, Zheng Y.X., and de Boer, Willem F.
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Habitat availability determines the distribution of migratory waterfowl along their flyway, which further influences the transmission and spatial spread of avian influenza viruses (AIVs). The extensive habitat loss in the East Asian-Australasian Flyway (EAAF) may have potentially altered the virus spread and transmission, but those consequences are rarely studied. We constructed 6 fall migration networks that differed in their level of habitat loss, wherein an increase in habitat loss resulted in smaller networks with fewer sites and links. We integrated an agent-based model and a susceptible-infected-recovered model to simulate waterfowl migration and AIV transmission. We found that extensive habitat loss in the EAAF can 1) relocate the outbreaks northwards, responding to the distribution changes of wintering waterfowl geese, 2) increase the outbreak risk in remaining sites due to larger goose congregations, and 3) facilitate AIV transmission in the migratory population. In addition, our modeling output was in line with the predictions from the concept of "migratory escape", i.e., the migration allows the geese to "escape" from the location where infection risk is high, affecting the pattern of infection prevalence in the waterfowl population. Our modeling shed light on the potential consequences of habitat loss in spreading and transmitting AIV at the flyway scale and suggested the driving mechanisms behind these effects, indicating the importance of conservation in changing spatial and temporal patterns of AIV outbreaks.
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- 2022
4. Beyond Site-Specific Criteria : Conservation of Migratory Birds and Their Habitats from a Network Perspective
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Xu, Yanjie, Green, Andy J., Mundkur, Taej, Hagemeijer, Ward, Mossad, Haitham, Prins, Herbert H.T., de Boer, Willem F., Xu, Yanjie, Green, Andy J., Mundkur, Taej, Hagemeijer, Ward, Mossad, Haitham, Prins, Herbert H.T., and de Boer, Willem F.
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Many populations of birds depend on networks of sites to survive. Sufficient connectivity that allows movement between the sites throughout the year is a critical requirement. We found that existing international frameworks and policies for identifying sites important for bird conservation focus more at the level of the individual site than on the site network and its connectivity. Only 21% of site criteria acknowledge the importance of movement networks for birds, and such network criteria were mostly (67%) qualitative. We suggest a three-step quantitative approach for informing conservation about the connectivity of bird movements (especially when migrating) from a network perspective, by reviewing current scientific knowledge. The first step is to construct a bird movement network by identifying sites frequently used by birds as ‘nodes’, and then define ‘edges’ from the probability of non-stop flight between each pair of nodes. The second step is to quantify network connectivity, i.e., the extent to which the site network facilitates bird movements. The last step is to assess the importance of each site from its contribution to network connectivity. This approach can serve as a tool for comprehensive and dynamic monitoring of the robustness of site networks during global change.
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- 2022
5. Stop Line Aided Cooperative Positioning of Connected Vehicles
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Wang, Xingqi, Jiang, Chaoyang, Sheng, Shuxuan, Xu, Yanjie, Jia, Yifei, Wang, Xingqi, Jiang, Chaoyang, Sheng, Shuxuan, Xu, Yanjie, and Jia, Yifei
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This paper develops a stop line aided cooperative positioning framework for connected vehicles, which creatively utilizes the location of the stop-line to achieve the positioning enhancement for a vehicular ad-hoc network (VANET) in intersection scenarios via Vehicle-to-Vehicle (V2V) communication. Firstly, a self-positioning correction scheme for the first stopped vehicle is presented, which applied the stop line information as benchmarks to correct the GNSS/INS positioning results. Then, the local observations of each vehicle are fused with the position estimates of other vehicles and the inter-vehicle distance measurements by using an extended Kalman filter (EKF). In this way, the benefits of the first stopped vehicle are extended to the whole VANET. Such a cooperative inertial navigation (CIN) framework can greatly improve the positioning performance of the VANET. Finally, experiments in Beijing show the effectiveness of the proposed stop line aided cooperative positioning framework.
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- 2021
6. Habitat use and activity patterns of mammals and birds in relation to temperature and vegetation cover in the alpine ecosystem of southwestern china with camera‐trapping monitoring
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Li, Zhouyuan, Tang, Zhuo, Xu, Yanjie, Wang, Yingying, Duan, Zhaogang, Liu, Xuehua, Wang, Pengyan, Yang, Jian, Chen, Wei, Prins, Herbert H.T., Li, Zhouyuan, Tang, Zhuo, Xu, Yanjie, Wang, Yingying, Duan, Zhaogang, Liu, Xuehua, Wang, Pengyan, Yang, Jian, Chen, Wei, and Prins, Herbert H.T.
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The high‐altitude ecosystem of the Tibetan Plateau in China is a biodiversity hotspot that provides unique habitats for endemic and relict species along an altitudinal gradient at the eastern edge. Acquiring biodiversity information in this area, where the average altitude is over 4000 m, has been difficult but has been aided by recent developments in non‐invasive technology, including infrared‐triggered camera trapping. We used camera trapping to acquire a substantial number of photographic wildlife records in Wolong National Nature Reserve, Sichuan, China, from 2013 to 2016. We collected information of the habitat surrounding the observation sites, resulting in a dataset covering 37 species and 12 environmental factors. We performed a multivariate statistical analysis to discern the dominant environmental factors and cluster the mammals and birds of the ecosystem in order to examine environmental factors contributing to the species’ relative abundance. Species were generalized into three main types, i.e., cold‐resistant, phyllophilic, and thermophilic, according to the identified key environmental drivers (i.e., temperature and vegetation) for their abundances. The mammal species with the highest relative abundance were bharal (Pseudois nayaur), Moupin pika (Ochotona thibetana), and Himalayan marmot (Marmota himalayana). The bird species with highest relative abundance were snow partridge (Lerwa lerwa), plain mountain finch (Leucosticte nemoricola), Chinese monal (Lophophorus lhuysii), and alpine accentor (Prunella collaris).
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- 2021
7. Mammal assemblage composition predicts global patterns in emerging infectious disease risk
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Wang, Yingying X.G., Matson, Kevin D., Santini, Luca, Visconti, Piero, Hilbers, Jelle P., Huijbregts, Mark A.J., Xu, Yanjie, Prins, Herbert H.T., Allen, Toph, Huang, Zheng Y.X., de Boer, Willem F., Wang, Yingying X.G., Matson, Kevin D., Santini, Luca, Visconti, Piero, Hilbers, Jelle P., Huijbregts, Mark A.J., Xu, Yanjie, Prins, Herbert H.T., Allen, Toph, Huang, Zheng Y.X., and de Boer, Willem F.
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As a source of emerging infectious diseases, wildlife assemblages (and related spatial patterns) must be quantitatively assessed to help identify high-risk locations. Previous assessments have largely focussed on the distributions of individual species; however, transmission dynamics are expected to depend on assemblage composition. Moreover, disease–diversity relationships have mainly been studied in the context of species loss, but assemblage composition and disease risk (e.g. infection prevalence in wildlife assemblages) can change without extinction. Based on the predicted distributions and abundances of 4466 mammal species, we estimated global patterns of disease risk through the calculation of the community-level basic reproductive ratio R0, an index of invasion potential, persistence, and maximum prevalence of a pathogen in a wildlife assemblage. For density-dependent diseases, we found that, in addition to tropical areas which are commonly viewed as infectious disease hotspots, northern temperate latitudes included high-risk areas. We also forecasted the effects of climate change and habitat loss from 2015 to 2035. Over this period, many local assemblages showed no net loss of species richness, but the assemblage composition (i.e. the mix of species and their abundances) changed considerably. Simultaneously, most areas experienced a decreased risk of density-dependent diseases but an increased risk of frequency-dependent diseases. We further explored the factors driving these changes in disease risk. Our results suggest that biodiversity and changes therein jointly influence disease risk. Understanding these changes and their drivers and ultimately identifying emerging infectious disease hotspots can help health officials prioritize resource distribution.
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- 2021
8. Do contrasting patterns of migration movements and disease outbreaks between congeneric waterfowl species reflect differing immunity?
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Yin, Shenglai, Xu, Yanjie, Batbayar, Nyambyar, Takekawa, John Y., Si, Yali, Prosser, Diann J., Newman, Scott H., Prins, Herbert H.T., de Boer, Willem F., Yin, Shenglai, Xu, Yanjie, Batbayar, Nyambyar, Takekawa, John Y., Si, Yali, Prosser, Diann J., Newman, Scott H., Prins, Herbert H.T., and de Boer, Willem F.
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Long-distance migrations influence the dynamics of host-pathogen interactions and understanding the role of migratory waterfowl in the spread of the highly pathogenic avian influenza viruses (HPAIV) is important. While wild geese have been associated with outbreak events, disease ecology of closely related species has not been studied to the same extent. The swan goose (Anser cygnoides) and the bar-headed goose (Anser indicus) are congeneric species with distinctly different HPAIV infection records; the former with few and the latter with numerous records. We compared movements of these species, as well as the more dis-tantly related whooper swan (Cygnus cygnus) through their annual migratory cycle to better understand exposure to HPAIV events and how this compares within and between congeneric and non-congeneric species. In spite of their record of fewer infections, swan geese were more likely to come in contact with disease outbreaks than bar-headed geese. We propose two possible explana-tions: i) frequent prolonged contact with domestic ducks increases innate immunity in swan geese, and/or ii) the stress of high-eleva-tion migration reduces immunity of bar-headed geese. Continued efforts to improve our understanding of species-level pathogen response is critical to assessing disease transmission risk.
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- 2021
9. Indicators of site loss from a migration network : Anthropogenic factors influence waterfowl movement patterns at stopover sites
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Xu, Yanjie, Kieboom, Mattias, Van Lammeren, Ron J.A., Si, Yali, De Boer, Willem F., Xu, Yanjie, Kieboom, Mattias, Van Lammeren, Ron J.A., Si, Yali, and De Boer, Willem F.
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A network of connected wetlands supports migratory movements of waterfowl. These networks are rapidly changing due to intensive human activities around natural habitats. Quantifying how anthropogenic factors change waterfowl movements via a reduction of habitat availability and quality can facilitate a better understanding of the dynamics of these migration networks, and provide early-warning signals for network collapse. Using satellite tracking data for greater white-fronted geese (Anser albifrons) in the East Asian-Australasian Flyway, we tested how environmental factors (i.e., anthropogenic and ecological factors) influence geese movement patterns at stopover sites. We found that these factors, e.g., percentage of farmlands in the landscape, and proximity index of wetland patches, accurately predicted percentage of flying time and the median movement distance of tracked geese at stopover sites. Farmlands may increase energy consumptions in stopover sites because the geese flew more frequently, made longer movements, and switched their behaviour more frequently in landscapes with a higher proportion of farmlands. Goose movements were constrained in natural habitats, as a higher proportion of water and wetlands increased their movements, and thereby increased flying time and median movement distances. We suggest that using environmental factors monitored by remote sensing techniques to predict bird movement patterns is a powerful quantitative tool to measure quality of stopover sites. The changes in environmental factors in these stopover sites can be used as an indicator for the probability of losing a site from a migration network, and thereby generates insights for setting priorities in conservation planning of migratory birds.
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- 2021
10. Unravelling networks : Causes and consequences of decreasing connectivity in bird migration pathway
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de Boer, W.F., Prins, H.H.T., Si, Y., Gong, P., Xu, Yanjie, de Boer, W.F., Prins, H.H.T., Si, Y., Gong, P., and Xu, Yanjie
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Habitat loss and disturbance pose great threats to wildlife, and these may be particularly severe for migratory birds. A well-connected network of foraging, resting, breeding, and moulting sites is essential for bird migration. However, losing a key site can breakdown a bird migration network completely, and consequently trigger population declines. In this thesis, Yanjie Xu analysed long-term observations on large-scale movements by migratory waterfowl to monitor the changes in the connectivity of these bird migration networks in the past decades. The results illustrated how global changes can influence the network dynamics of migratory birds, potentially leading to population declines (Chapter 3), and rapid spread of diseases by avian hosts (Chapter 6). Moreover, she pointed out a variety of other potential consequences of connectivity loss in bird migration networks, e.g., changing patterns of gene flows, predation risks, seed dispersal, and social information diffusion (Chapter 7). Integrating the five different chapters of this thesis, Yanjie Xu proposed a practical methodological framework (Chapter 7) for setting priorities in conservation of migration networks at a variety of scales: a local scale (Chapter 4), a flyway scale (Chapter 5), and at species level (Chapter 2). Her findings give novel insights into the impact of global change on wildlife, and can facilitate systematic conservation policy making for migratory animals.
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- 2020
11. MDM2-P53 Signaling Pathway-Mediated Upregulation of CDC20 Promotes Progression of Human Diffuse Large B-Cell Lymphoma
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Sun,Chengtao, Li,Mengzhen, Feng,Yanfen, Sun,Feifei, Zhang,Li, Xu,Yanjie, Lu,Suying, Zhu,Jia, Huang,Junting, Wang,Juan, Hu,Yang, Zhang,Yizhuo, Sun,Chengtao, Li,Mengzhen, Feng,Yanfen, Sun,Feifei, Zhang,Li, Xu,Yanjie, Lu,Suying, Zhu,Jia, Huang,Junting, Wang,Juan, Hu,Yang, and Zhang,Yizhuo
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Chengtao Sun,1,* Mengzhen Li,1,* Yanfen Feng,2,3,* Feifei Sun,2,4 Li Zhang,2,4 Yanjie Xu,1 Suying Lu,2,4 Jia Zhu,2,4 Junting Huang,2,4 Juan Wang,2,4 Yang Hu,1 Yizhuo Zhang1,2,4 1Department of Hematology, Tianjin Medical University Cancer Institute and Hospital; National Clinical Research Center for Cancer; Key Laboratory of Cancer Prevention and Therapy, Tianjin, Tianjin’s Clinical Research Center for Cancer, Tianjin, People’s Republic of China; 2Sun Yat-Sen University Cancer Center; State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangzhou, Guangdong Province, People’s Republic of China; 3Department of Pathology, Sun Yat-Sen University Cancer Center, Guangzhou, Guangdong Province, People’s Republic of China; 4Department of Pediatric Oncology, Sun Yat-Sen University Cancer Center, Guangzhou, Guangdong Province, People’s Republic of China*These authors contributed equally to this workCorrespondence: Yizhuo Zhang Tel/ Fax +86-20-87343799Email yizhuozhang111@163.comBackground: Cell-division cycle 20 (CDC20) is overexpressed in a variety of tumor cells and is negatively regulated by wild-type p53 (wtp53). Our previous study uncovered that CDC20 was upregulated and associated with poor outcome in diffuse large B-cell lymphoma (DLBCL) based on bioinformatics analysis. Dysregulation of the MDM2-p53 is a major mechanism to promote DLBCL. Thus, we hypothesized that CDC20 could be a downstream gene of the MDM2-p53 signaling pathway. However, the clinical significance and mechanistic role of a novel MDM2-p53-CDC20 signaling pathway in DLBCL have still remained unclear.Materials and Methods: RT-qPCR was performed in MDM2 knocked down (KD) and control (Ctrl) OCI-Ly3/OCI-Ly10 cells to investigate whether CDC20 was a downstream gene of the MDM2-p53 pathway. The effects of CDC20 on cell proliferation, cell cycle and apoptosis were assessed, as well as the role of CDC20 in suppres
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- 2020
12. Urbanization-driven changes in land-climate dynamics : A case study of Haihe River Basin, China
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Li, Zhouyuan, Xu, Yanjie, Sun, Yingbao, Wu, Mengfan, Zhao, Bin, Li, Zhouyuan, Xu, Yanjie, Sun, Yingbao, Wu, Mengfan, and Zhao, Bin
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Urbanization changes the land surface environment, which alters the regional climate system. In this study, we took the Haihe River Basin in China as a case study area, as it is highly populated and experienced rapid urbanization from 2000-2015. We investigated how land use and cover change (LUCC) was driven by urban land development affects land-climate dynamics. From 2000-2015, we collected data from the land use and cover database, the remote sensing database of the Moderate Resolution Imaging Spectroradiometer (MODIS) series, and the meteorological database to process and generate regional datasets for LUCC maps. We organized data by years aligned with the selected indicators of land surface, normalized difference vegetation index (NDVI), albedo, and land surface temperature (LST), as well as of regional climate, cloud water content (CWC), and precipitation (P). The assembled datasets were processed to perform statistical analysis and conduct structural equation modelling (SEM). Based on eco-climatology principles and the biophysical process in the land-climate dynamics, we made assumptions on how the indicators connected to each other. Moreover, we testified and quantified them in SEM. LUCC results found that from 2000-2015 the urban area proportion increased by 214% (2.20-6.91%), while the agricultural land decreased by 7.2% (53.05-49.25%) and the forest increased by 4.3% (10.02-10.45%), respectively. This demonstrated how cropland intensification and afforestation happened in the urbanizing basin. SEM results showed that the forest had both positive and negative effects on the regional hydrological cycle. The agricultural land, grassland, and shrub had indirect effects on the P via different biophysical functions of LST. The overall effects of urbanization on regional precipitation was positive (pathway correlation coefficient = 0.25). The interpretation of how urbanization drives LUCC and alters regional climate were herein discussed in different aspects of
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- 2020
13. A network approach to prioritize conservation efforts for migratory birds
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Xu, Yanjie, Si, Yali, Takekawa, John, Liu, Qiang, Prins, Herbert H.T., Yin, Shenglai, Prosser, Diann J., Gong, Peng, de Boer, Willem F., Xu, Yanjie, Si, Yali, Takekawa, John, Liu, Qiang, Prins, Herbert H.T., Yin, Shenglai, Prosser, Diann J., Gong, Peng, and de Boer, Willem F.
- Abstract
Habitat loss can trigger migration network collapse by isolating migratory bird breeding grounds from nonbreeding grounds. Theoretically, habitat loss can have vastly different impacts depending on the site's importance within the migratory corridor. However, migration-network connectivity and the impacts of site loss are not completely understood. We used GPS tracking data on 4 bird species in the Asian flyways to construct migration networks and proposed a framework for assessing network connectivity for migratory species. We used a node-removal process to identify stopover sites with the highest impact on connectivity. In general, migration networks with fewer stopover sites were more vulnerable to habitat loss. Node removal in order from the highest to lowest degree of habitat loss yielded an increase of network resistance similar to random removal. In contrast, resistance increased more rapidly when removing nodes in order from the highest to lowest betweenness value (quantified by the number of shortest paths passing through the specific node). We quantified the risk of migration network collapse and identified crucial sites by first selecting sites with large contributions to network connectivity and then identifying which of those sites were likely to be removed from the network (i.e., sites with habitat loss). Among these crucial sites, 42% were not designated as protected areas. Setting priorities for site protection should account for a site's position in the migration network, rather than only site-specific characteristics. Our framework for assessing migration-network connectivity enables site prioritization for conservation of migratory species.
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- 2020
14. A network approach to prioritize conservation efforts for migratory birds
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Xu, Yanjie (author), Si, Yali (author), Takekawa, John (author), Liu, Q. (author), Prins, Herbert H. T. (author), Yin, Shenglai (author), Prosser, Diann J. (author), Gong, Peng (author), de Boer, Willem F. (author), Xu, Yanjie (author), Si, Yali (author), Takekawa, John (author), Liu, Q. (author), Prins, Herbert H. T. (author), Yin, Shenglai (author), Prosser, Diann J. (author), Gong, Peng (author), and de Boer, Willem F. (author)
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Habitat loss can trigger migration network collapse by isolating migratory bird breeding grounds from nonbreeding grounds. Theoretically, habitat loss can have vastly different impacts depending on the site's importance within the migratory corridor. However, migration‐network connectivity and the impacts of site loss are not completely understood. We used GPS tracking data on 4 bird species in the Asian flyways to construct migration networks and proposed a framework for assessing network connectivity for migratory species. We used a node‐removal process to identify stopover sites with the highest impact on connectivity. In general, migration networks with fewer stopover sites were more vulnerable to habitat loss. Node removal in order from the highest to lowest degree of habitat loss yielded an increase of network resistance similar to random removal. In contrast, resistance increased more rapidly when removing nodes in order from the highest to lowest betweenness value (quantified by the number of shortest paths passing through the specific node). We quantified the risk of migration network collapse and identified crucial sites by first selecting sites with large contributions to network connectivity and then identifying which of those sites were likely to be removed from the network (i.e., sites with habitat loss). Among these crucial sites, 42% were not designated as protected areas. Setting priorities for site protection should account for a site's position in the migration network, rather than only site‐specific characteristics. Our framework for assessing migration‐network connectivity enables site prioritization for conservation of migratory species., Network Architectures and Services
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- 2019
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15. A network approach to prioritize conservation efforts for migratory birds
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Xu, Yanjie (author), Si, Yali (author), Takekawa, John (author), Liu, Q. (author), Prins, Herbert H. T. (author), Yin, Shenglai (author), Prosser, Diann J. (author), Gong, Peng (author), de Boer, Willem F. (author), Xu, Yanjie (author), Si, Yali (author), Takekawa, John (author), Liu, Q. (author), Prins, Herbert H. T. (author), Yin, Shenglai (author), Prosser, Diann J. (author), Gong, Peng (author), and de Boer, Willem F. (author)
- Abstract
Habitat loss can trigger migration network collapse by isolating migratory bird breeding grounds from nonbreeding grounds. Theoretically, habitat loss can have vastly different impacts depending on the site's importance within the migratory corridor. However, migration‐network connectivity and the impacts of site loss are not completely understood. We used GPS tracking data on 4 bird species in the Asian flyways to construct migration networks and proposed a framework for assessing network connectivity for migratory species. We used a node‐removal process to identify stopover sites with the highest impact on connectivity. In general, migration networks with fewer stopover sites were more vulnerable to habitat loss. Node removal in order from the highest to lowest degree of habitat loss yielded an increase of network resistance similar to random removal. In contrast, resistance increased more rapidly when removing nodes in order from the highest to lowest betweenness value (quantified by the number of shortest paths passing through the specific node). We quantified the risk of migration network collapse and identified crucial sites by first selecting sites with large contributions to network connectivity and then identifying which of those sites were likely to be removed from the network (i.e., sites with habitat loss). Among these crucial sites, 42% were not designated as protected areas. Setting priorities for site protection should account for a site's position in the migration network, rather than only site‐specific characteristics. Our framework for assessing migration‐network connectivity enables site prioritization for conservation of migratory species., Network Architectures and Services
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- 2019
- Full Text
- View/download PDF
16. Identifying vital nodes based on reverse greedy method
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Ren, Tao, Li, Zhe, Qi, Yi, Zhang, Yixin, Liu, Simiao, Xu, Yanjie, Zhou, Tao, Ren, Tao, Li, Zhe, Qi, Yi, Zhang, Yixin, Liu, Simiao, Xu, Yanjie, and Zhou, Tao
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The identification of vital nodes that maintain the network connectivity is a long-standing challenge in network science. In this paper, we propose a so-called reverse greedy method where the least important nodes are preferentially chosen to make the size of the largest component in the corresponding induced subgraph as small as possible. Accordingly, the nodes being chosen later are more important in maintaining the connectivity. Empirical analyses on ten real networks show that the reverse greedy method performs remarkably better than well-known state-of-the-art methods.
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- 2019
17. Species-dependent effects of habitat degradation in relation to seasonal distribution of migratory waterfowl in the East Asian–Australasian Flyway
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Xu, Yanjie, Si, Yali, Yin, Shenglai, Zhang, Wenyuan, Grishchenko, Mikhail, Prins, Herbert H.T., Gong, Peng, de Boer, Willem F., Xu, Yanjie, Si, Yali, Yin, Shenglai, Zhang, Wenyuan, Grishchenko, Mikhail, Prins, Herbert H.T., Gong, Peng, and de Boer, Willem F.
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Context: Migratory species’ resilience to landscape changes depends on spatial patterns of habitat degradation in relation to their migratory movements, such as the distance between breeding and non-breeding areas, and the location and width of migration corridors. Objectives: We investigated to what extent the impact of habitat degradation depended on the seasonal distributions of migratory waterfowl. Methods: Using logistic regression, we selected wetland sites for eight waterfowl species in the East Asian–Australasian Flyway (EAAF) by calculating the probabilities of species occurrence per wetland site in relation to environmental factors. We quantified landscape metrics related to habitat degradation within these wetland sites. We used general linear models to test for differences in the effects of habitat degradation on waterfowl species with different migration extents and at different latitudes. Results: The patterns of habitat degradation differed spatially across the EAAF and affected species to a different degree. Species with shorter and broader migration corridors (Anser cygnoid and A. anser) could benefit from improved habitat conditions in the west of the EAAF. Species with longer and narrower migration corridors (Cygnus columbianus, A. fabalis, A. albifrons, A. erythropus, Anas crecca, and Anas acuta) were under higher risk of habitat degradation in the coastal regions of China and Japan. Conclusions: Migratory species with longer and narrower migration corridors are more affected by habitat degradation, because they might have fewer alternative stopover sites at similar latitude. Our findings improve the understanding of species-specific effects of environmental changes on migratory species, and defines critical and endangered wetland sites, and vulnerable species.
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- 2019
18. Loss of functional connectivity in migration networks induces population decline in migratory birds
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Xu, Yanjie, Si, Yali, Wang, Yingying, Zhang, Yong, Prins, Herbert H.T., Cao, Lei, de Boer, Willem F., Xu, Yanjie, Si, Yali, Wang, Yingying, Zhang, Yong, Prins, Herbert H.T., Cao, Lei, and de Boer, Willem F.
- Abstract
Migratory birds rely on a habitat network along their migration routes by temporarily occupying stopover sites between breeding and non-breeding grounds. Removal or degradation of stopover sites in a network might impede movement and thereby reduce migration success and survival. The extent to which the breakdown of migration networks, due to changes in land use, impacts the population sizes of migratory birds is poorly understood. We measured the functional connectivity of migration networks of waterfowl species that migrate over the East Asian-Australasian Flyway from 1992 to 2015. We analysed the relationship between changes in non-breeding population sizes and changes in functional connectivity, while taking into account other commonly considered species traits, using a phylogenetic linear mixed model. We found that population sizes significantly declined with a reduction in the functional connectivity of migration networks; no other variables were important. We conclude that the current decrease in functional connectivity, due to habitat loss and degradation in migration networks, can negatively and crucially impact population sizes of migratory birds. Our findings provide new insights into the underlying mechanisms that affect population trends of migratory birds under environmental changes. Establishment of international agreements leading to the creation of systematic conservation networks associated with migratory species' distributions and stopover sites may safeguard migratory bird populations.
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- 2019
19. Forest connectivity, host assemblage characteristics of local and neighboring counties, and temperature jointly shape the spatial expansion of lyme disease in United States
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Wang, Yingying X.G., Matson, Kevin D., Xu, Yanjie, Prins, Herbert H.T., Huang, Zheng Y.X., de Boer, Willem F., Wang, Yingying X.G., Matson, Kevin D., Xu, Yanjie, Prins, Herbert H.T., Huang, Zheng Y.X., and de Boer, Willem F.
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Understanding risk factors for the spread of infectious diseases over time and across the landscape is critical for managing disease risk. While habitat connectivity and characteristics of local and neighboring animal (i.e., host) assemblages are known to influence the spread of diseases, the interactions among these factors remain poorly understood. In this study, we conducted a county-level analysis to test the effects of forest connectivity, together with the suitability of local assemblage (measured by the similarity of local host assemblage with neighboring assemblages) and the infection intensity of neighboring counties on the spatial expansion of Lyme disease in the United States. Our results suggested that both the similarity of local host assemblage and the infection intensity of neighboring counties were positively correlated with the probability of disease spread. Moreover, we found that increasing forest connectivity could facilitate the positive effect of neighbor infection intensity. In contrast, the effect size of the host assemblage similarity decreased with increasing connectivity, suggesting that host assemblage similarity was less effective in well-connected habitats. Our results thus indicate that habitat connectivity can indirectly influence disease spread by mediating the effects of other risk factors.
- Published
- 2019
20. Spring migration patterns, habitat use, and stopover site protection status for two declining waterfowl species wintering in China as revealed by satellite tracking
- Author
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Si, Yali, Xu, Yanjie, Xu, Fei, Li, Xueyan, Zhang, Wenyuan, Wielstra, Ben, Wei, Jie, Liu, Guanhua, Luo, Hao, Takekawa, John, Balachandran, Sivananintha, Zhang, Tao, de Boer, Willem F., Prins, Herbert H.T., Gong, Peng, Si, Yali, Xu, Yanjie, Xu, Fei, Li, Xueyan, Zhang, Wenyuan, Wielstra, Ben, Wei, Jie, Liu, Guanhua, Luo, Hao, Takekawa, John, Balachandran, Sivananintha, Zhang, Tao, de Boer, Willem F., Prins, Herbert H.T., and Gong, Peng
- Abstract
East Asian migratory waterfowl have greatly declined since the 1950s, especially the populations that winter in China. Conservation is severely hampered by the lack of primary information about migration patterns and stopover sites. This study utilizes satellite tracking techniques and advanced spatial analyses to investigate spring migration of the greater white-fronted goose (Anser albifrons) and tundra bean goose (Anser serrirostris) wintering along the Yangtze River Floodplain. Based on 24 tracks obtained from 21 individuals during the spring of 2015 and 2016, we found that the Northeast China Plain is far-out the most intensively used stopover site during migration, with geese staying for over 1 month. This region has also been intensely developed for agriculture, suggesting a causal link to the decline in East Asian waterfowl wintering in China. The protection of waterbodies used as roosting area, especially those surrounded by intensive foraging land, is critical for waterfowl survival. Over 90% of the core area used during spring migration is not protected. We suggest that future ground surveys should target these areas to confirm their relevance for migratory waterfowl at the population level, and core roosting area at critical spring-staging sites should be integrated in the network of protected areas along the flyway. Moreover, the potential bird–human conflict in core stopover area needs to be further studied. Our study illustrates how satellite tracking combined with spatial analyses can provide crucial insights necessary to improve the conservation of declining Migratory species.
- Published
- 2018
21. Control of chrysanthemum flowering through integration with an aging pathway.
- Author
-
Wei, Qian, Wei, Qian, Ma, Chao, Xu, Yanjie, Wang, Tianle, Chen, Yiyu, Lü, Jing, Zhang, Lili, Jiang, Cai-Zhong, Hong, Bo, Gao, Junping, Wei, Qian, Wei, Qian, Ma, Chao, Xu, Yanjie, Wang, Tianle, Chen, Yiyu, Lü, Jing, Zhang, Lili, Jiang, Cai-Zhong, Hong, Bo, and Gao, Junping
- Abstract
Age, as a threshold of floral competence acquisition, prevents precocious flowering when there is insufficient biomass, and ensures flowering independent of environmental conditions; however, the underlying regulatory mechanisms are largely unknown. In this study, silencing the expression of a nuclear factor gene, CmNF-YB8, from the short day plant chrysanthemum (Chrysanthemum morifolium), results in precocious transition from juvenile to adult, as well as early flowering, regardless of day length conditions. The expression of SQUAMOSA PROMOTER BINDING-LIKE (SPL) family members, SPL3, SPL5, and SPL9, is upregulated in CmNF-YB8-RNAi plants, while expression of the microRNA, cmo-MIR156, is downregulated. In addition, CmNF-YB8 is shown to bind to the promoter of the cmo-MIR156 gene. Ectopic expression of cmo-miR156, using a virus-based microRNA expression system, restores the early flowering phenotype caused by CmNF-YB8 silencing. These results show that CmNF-YB8 influences flowering time through directly regulating the expression of cmo-MIR156 in the aging pathway.The mechanisms by which plant age regulates flowering remain incompletely understood. Here the authors show that age dependent regulation of SPL transcription factors by miR156 influence flowering via control of NF-YB8 expression in Chrysanthemum.
- Published
- 2017
22. Southward autumn migration of waterfowl facilitates cross-continental transmission of the highly pathogenic avian influenza H5N1 virus
- Author
-
Xu, Yanjie, Gong, Peng, Wielstra, Ben, Si, Yali, Xu, Yanjie, Gong, Peng, Wielstra, Ben, and Si, Yali
- Abstract
The highly pathogenic avian influenza subtype H5N1 (HPAI H5N1) is a worldwide zoonotic infectious disease, threatening humans, poultry and wild birds. The role of wild birds in the spread of HPAI H5N1 has previously been investigated by comparing disease spread patterns with bird migration routes. However, the different roles that the southward autumn and northward spring migration might play in virus transmission have hardly been explored. Using direction analysis, we analyze HPAI H5N1 transmission directions and angular concentration of currently circulating viral clades, and compare these with waterfowl seasonal migration directions along major waterfowl flyways. Out of 22 HPAI H5N1 transmission directions, 18 had both a southward direction and a relatively high concentration. Differences between disease transmission and waterfowl migration directions were significantly smaller for autumn than for spring migration. The four northward transmission directions were found along Asian flyways, where the initial epicenter of the virus was located. We suggest waterfowl first picked up the virus from East Asia, then brought it to the north via spring migration, and then spread it to other parts of world mainly by autumn migration. We emphasize waterfowl autumn migration plays a relatively important role in HPAI H5N1 transmission compared to spring migration.
- Published
- 2016
23. Southward autumn migration of waterfowl facilitates cross-continental transmission of the highly pathogenic avian influenza H5N1 virus
- Author
-
Xu, Yanjie, Gong, Peng, Wielstra, Ben, Si, Yali, Xu, Yanjie, Gong, Peng, Wielstra, Ben, and Si, Yali
- Abstract
The highly pathogenic avian influenza subtype H5N1 (HPAI H5N1) is a worldwide zoonotic infectious disease, threatening humans, poultry and wild birds. The role of wild birds in the spread of HPAI H5N1 has previously been investigated by comparing disease spread patterns with bird migration routes. However, the different roles that the southward autumn and northward spring migration might play in virus transmission have hardly been explored. Using direction analysis, we analyze HPAI H5N1 transmission directions and angular concentration of currently circulating viral clades, and compare these with waterfowl seasonal migration directions along major waterfowl flyways. Out of 22 HPAI H5N1 transmission directions, 18 had both a southward direction and a relatively high concentration. Differences between disease transmission and waterfowl migration directions were significantly smaller for autumn than for spring migration. The four northward transmission directions were found along Asian flyways, where the initial epicenter of the virus was located. We suggest waterfowl first picked up the virus from East Asia, then brought it to the north via spring migration, and then spread it to other parts of world mainly by autumn migration. We emphasize waterfowl autumn migration plays a relatively important role in HPAI H5N1 transmission compared to spring migration.
- Published
- 2016
24. A Contact Rheological Model Embedded in Distinct Element Method
- Author
-
Wang, Gang, Jin, Feng, Xu, Yanjie, Wang, Gang, Jin, Feng, and Xu, Yanjie
- Abstract
A numerical model embedded in Distinct Element Method(DEM) was presented for simulation of contact rheological behavior in rocks. Based on the basic frame of DEM, the rheological constitutive equation and equivalent incremental contact force were introduced and embedded in the current calculation procedure of DEM. Then the responses of discrete blocks due to rheological deformation of contact interfaces can be simulated. Comparison between the model calculation results and theoretical solutions of a simple benchmark problem shows that the presented model has excellent accuracy, and possesses significant potential for analyzing rheological responses of high rock slopes and blocky structures.
- Published
- 2001
25. A Contact Rheological Model Embedded in Distinct Element Method
- Author
-
Wang, Gang, Jin, Feng, Xu, Yanjie, Wang, Gang, Jin, Feng, and Xu, Yanjie
- Abstract
A numerical model embedded in Distinct Element Method(DEM) was presented for simulation of contact rheological behavior in rocks. Based on the basic frame of DEM, the rheological constitutive equation and equivalent incremental contact force were introduced and embedded in the current calculation procedure of DEM. Then the responses of discrete blocks due to rheological deformation of contact interfaces can be simulated. Comparison between the model calculation results and theoretical solutions of a simple benchmark problem shows that the presented model has excellent accuracy, and possesses significant potential for analyzing rheological responses of high rock slopes and blocky structures.
- Published
- 2001
26. A Contact Rheological Model Embedded in Distinct Element Method
- Author
-
Wang, Gang, Jin, Feng, Xu, Yanjie, Wang, Gang, Jin, Feng, and Xu, Yanjie
- Abstract
A numerical model embedded in Distinct Element Method(DEM) was presented for simulation of contact rheological behavior in rocks. Based on the basic frame of DEM, the rheological constitutive equation and equivalent incremental contact force were introduced and embedded in the current calculation procedure of DEM. Then the responses of discrete blocks due to rheological deformation of contact interfaces can be simulated. Comparison between the model calculation results and theoretical solutions of a simple benchmark problem shows that the presented model has excellent accuracy, and possesses significant potential for analyzing rheological responses of high rock slopes and blocky structures.
- Published
- 2001
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