Study on Greenway Plant Landscape Based on Bird Habitat Conservation - A Case Study of Wenyu River - North Canal Greenway in Beijing

In recent years, rapid urbanization is leading to a sharp decrease of bird diversity in city. The plant landscape in the greenway plays an important role in habitat conservation. This paper aims to explore the effects of plant landscape planning for the bird habitat conservation in urban greenway, and to study the design methods of greenway plant landscapes based on bird habitats conservation. Wenyu River - North Canal, a river located in the east of Beijing with uninterrupted green spaces along the coast, has the potential to become the migration channel for migratory birds. Dongjiao Wetland Park is an important node. At the macro level, the program investigated the vegetation pattern of Wenyu River-North Canal by using GIS technology and analyzed the distribution and ecological connectivity of different bird habitat types in the greenway. The results show that along the Wenyu River-North Canal, the distribution of habitats for some bird groups is uneven and some habitat types are poorly connected. At the micro level, a field study was conducted in Dongjiao Wetland Park in combination with actual projects, in which the forest form distribution and plant species composition were analyzed and the bird biotope was mapped. The results show that in the Dongjiao Wetland Park, the plant community is dominated by arbor-herb type; evergreen plants, shrubs and food plants are lacking; grasslands habitats and wetlands habitats were small and the area disturbed by human is large. According to the analysis results, aiming at bird habitat conservation, a vegetation landscape optimization plan of Wenyu River-North Canal Greenway and a plant landscape reconstruction design of the Northern Park of Dongjiao Wetland Park were proposed, including protecting important habitat patches, optimizing plant community structure and selecting plant species

SearchMorph:Multi-scale Correlation Iterative Network for Deformable Registration

Deformable image registration can obtain dynamic information about images, which is of great significance in medical image analysis. The unsupervised deep learning registration method can quickly achieve high registration accuracy without labels. However, these methods generally suffer from uncorrelated features, poor ability to register large deformations and details, and unnatural deformation fields. To address the issues above, we propose an unsupervised multi-scale correlation iterative registration network (SearchMorph). In the proposed network, we introduce a correlation layer to strengthen the relevance between features and construct a correlation pyramid to provide multi-scale relevance information for the network. We also design a deformation field iterator, which improves the ability of the model to register details and large deformations through the search module and GRU while ensuring that the deformation field is realistic. We use single-temporal brain MR images and multi-temporal echocardiographic sequences to evaluate the model's ability to register large deformations and details. The experimental results demonstrate that the method in this paper achieves the highest registration accuracy and the lowest folding point ratio using a short elapsed time to state-of-the-art

Vitamin E stabilizes iron and mitochondrial metabolism in pulmonary fibrosis

Introduction: Pulmonary fibrosis (PF) is a fatal chronic lung disease that causes structural damage and decreased lung function and has a poor prognosis. Currently, there is no medicine that can truly cure PF. Vitamin E (VE) is a group of natural antioxidants with anticancer and antimutagenic properties. There have been a few reports about the attenuation of PF by VE in experimental animals, but the molecular mechanisms are not fully understood.Methods: Bleomycin-induced PF (BLM-PF) mouse model, and cultured mouse primary lung fibroblasts and MLE 12 cells were utilized. Pathological examination of lung sections, immunoblotting, immunofluorescent staining, and real-time PCR were conducted in this study.Results: We confirmed that VE significantly delayed the progression of BLM-PF and increased the survival rates of experimental mice with PF. VE suppressed the pathological activation and fibrotic differentiation of lung fibroblasts and epithelial-mesenchymal transition and alleviated the inflammatory response in BLM-induced fibrotic lungs and pulmonary epithelial cells in vitro. Importantly, VE reduced BLM-induced ferritin expression in fibrotic lungs, whereas VE did not exhibit iron chelation properties in fibroblasts or epithelial cells in vitro. Furthermore, VE protected against mitochondrial dysmorphology and normalized mitochondrial protein expression in BLM-PF lungs. Consistently, VE suppressed apoptosis in BLM-PF lungs and pulmonary epithelial cells in vitro.Discussion: Collectively, VE markedly inhibited BLM-induced PF through a complex mechanism, including improving iron metabolism and mitochondrial structure and function, mitigating inflammation, and decreasing the fibrotic functions of fibroblasts and epithelial cells. Therefore, VE presents a highly potential therapeutic against PF due to its multiple protective effects with few side effects

Characterization of Non-heading Mutation in Heading Chinese Cabbage (Brassica rapa L. ssp. pekinensis)

Heading is a key agronomic trait of Chinese cabbage. A non-heading mutant with flat growth of heading leaves (fg-1) was isolated from an EMS-induced mutant population of the heading Chinese cabbage inbred line A03. In fg-1 mutant plants, the heading leaves are flat similar to rosette leaves. The epidermal cells on the adaxial surface of these leaves are significantly smaller, while those on the abaxial surface are much larger than in A03 plants. The segregation of the heading phenotype in the F2 and BC1 population suggests that the mutant trait is controlled by a pair of recessive alleles. Phytohormone analysis at the early heading stage showed significant decreases in IAA, ABA, JA and SA, with increases in methyl IAA and trans-Zeatin levels, suggesting they may coordinate leaf adaxial-abaxial polarity, development and morphology in fg-1. RNA-sequencing analysis at the early heading stage showed a decrease in expression levels of several auxin transport (BrAUX1, BrLAXs, and BrPINs) and responsive genes. Transcript levels of important ABA responsive genes, including BrABF3, were up-regulated in mid-leaf sections suggesting that both auxin and ABA signaling pathways play important roles in regulating leaf heading. In addition, a significant reduction in BrIAMT1 transcripts in fg-1 might contribute to leaf epinastic growth. The expression profiles of 19 genes with known roles in leaf polarity were significantly different in fg-1 leaves compared to wild type, suggesting that these genes might also regulate leaf heading in Chinese cabbage. In conclusion, leaf heading in Chinese cabbage is controlled through a complex network of hormone signaling and abaxial-adaxial patterning pathways. These findings increase our understanding of the molecular basis of head formation in Chinese cabbage

The Local Origin of the Tibetan Pig and Additional Insights into the Origin of Asian Pigs

BACKGROUND: The domestic pig currently indigenous to the Tibetan highlands is supposed to have been introduced during a continuous period of colonization by the ancestors of modern Tibetans. However, there is no direct genetic evidence of either the local origin or exotic migration of the Tibetan pig. METHODS AND FINDINGS: We analyzed mtDNA hypervariable segment I (HVI) variation of 218 individuals from seven Tibetan pig populations and 1,737 reported mtDNA sequences from domestic pigs and wild boars across Asia. The Bayesian consensus tree revealed a main haplogroup M and twelve minor haplogroups, which suggested a large number of small scale in situ domestication episodes. In particular, haplogroups D1 and D6 represented two highly divergent lineages in the Tibetan highlands and Island Southeastern Asia, respectively. Network analysis of haplogroup M further revealed one main subhaplogroup M1 and two minor subhaplogroups M2 and M3. Intriguingly, M2 was mainly distributed in Southeastern Asia, suggesting for a local origin. Similar with haplogroup D6, M3 was mainly restricted in Island Southeastern Asia. This pattern suggested that Island Southeastern Asia, but not Southeastern Asia, might be the center of domestication of the so-called Pacific clade (M3 and D6 here) described in previous studies. Diversity gradient analysis of major subhaplogroup M1 suggested three local origins in Southeastern Asia, the middle and downstream regions of the Yangtze River, and the Tibetan highlands, respectively. CONCLUSIONS: We identified two new origin centers for domestic pigs in the Tibetan highlands and in the Island Southeastern Asian region

Assessing the Microbial Community and Functional Genes in a Vertical Soil Profile with Long-Term Arsenic Contamination

Conceived and designed the experiments: GW. Performed the experiments: JX GL. Analyzed the data: JX JZ GW. Contributed reagents/materials/analysis tools: ST JZ GW. Wrote the paper: JX ZH JDVN JZ GW.Arsenic (As) contamination in soil and groundwater has become a serious problem to public health. To examine how microbial communities and functional genes respond to long-term arsenic contamination in vertical soil profile, soil samples were collected from the surface to the depth of 4 m (with an interval of 1 m) after 16-year arsenic downward infiltration. Integrating BioLog and functional gene microarray (GeoChip 3.0) technologies, we showed that microbial metabolic potential and diversity substantially decreased, and community structure was markedly distinct along the depth. Variations in microbial community functional genes, including genes responsible for As resistance, carbon and nitrogen cycling, phosphorus utilization and cytochrome c oxidases were detected. In particular, changes in community structures and activities were correlated with the biogeochemical features along the vertical soil profile when using the rbcL and nifH genes as biomarkers, evident for a gradual transition from aerobic to anaerobic lifestyles. The C/N showed marginally significant correlations with arsenic resistance (p = 0.069) and carbon cycling genes (p = 0.073), and significant correlation with nitrogen fixation genes (p = 0.024). The combination of C/N, NO3− and P showed the highest correlation (r = 0.779, p = 0.062) with the microbial community structure. Contradict to our hypotheses, a long-term arsenic downward infiltration was not the primary factor, while the spatial isolation and nutrient availability were the key forces in shaping the community structure. This study provides new insights about the heterogeneity of microbial community metabolic potential and future biodiversity preservation for arsenic bioremediation management.Yeshttp://www.plosone.org/static/editorial#pee

Common and specific downstream signaling targets controlled by Tlr2 and Tlr5 innate immune signaling in zebrafish

BACKGROUND: Although the responses to many pathogen associated molecular patterns (PAMPs) in cell cultures and extracted organs are well characterized, there is little known of transcriptome responses to PAMPs in whole organisms. To characterize this in detail, we have performed RNAseq analysis of responses of zebrafish embryos to injection of PAMPs in the caudal vein at one hour after exposure. We have compared two ligands that in mammals have been shown to specifically activate the TLR2 and TLR5 receptors: Pam3CSK4 and flagellin, respectively. RESULTS: We identified a group of 80 common genes that respond with high stringency selection to stimulations with both PAMPs, which included several well-known immune marker genes such as il1b and tnfa. Surprisingly, we also identified sets of 48 and 42 genes that specifically respond to either Pam3CSK4 or flagellin, respectively, after a comparative filtering approach. Remarkably, in the Pam3CSK4 specific set, there was a set of transcription factors with more than 2 fold-change, as confirmed by qPCR analyses, including cebpb, fosb, nr4a1 and egr3. We also showed that the regulation of the Pam3CSK4 and flagellin specifically responding sets is inhibited by knockdown of tlr2 or tlr5, respectively. CONCLUSIONS: Our studies show that Pam3CSK4 and flagellin can stimulate the Tlr2 and Tlr5 signaling pathways leading to common and specific responses in the zebrafish embryo system. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-015-1740-9) contains supplementary material, which is available to authorized users

Thermal Regulation of Coastal Urban Forest Based on ENVI-Met Model—A Case Study in Qinhuangdao, China

Urban forests can improve human comfort by improving the near-surface microclimate. Exploring the microclimate characteristics of urban forests and their impact on human comfort is particularly important to improve the urban thermal environment through scientific urban forest design. Since most previous studies were conducted under typical inland urban climates and little is known about the thermal regulation services of coastal urban forests, this study field measured the thermal surface radiation temperature of 16 open spaces in the urban forest site in Qinhuangdao. Then the ENVI-met software was used to simulate and analyze the microclimate characteristics before and after the park’s building-up, and compare the differences in the human comfort index in different scenarios. Results indicated that: (1) Vegetation have a significant cooling effect on surrounding environment. The farther away from vegetation area, the higher the average surface temperature. (2) Water bodies have the best cooling and humidifying effect on the 9–18 m surrounding environment with the best human comfort index. (3) In summer, air temperature in park decreased by 0.4~1.4 °C, and the relative humidity increased by 0.07~2.81%. (4) After the park’s built-up, the average human comfort index was optimized by 0.02~1.87. Arranging the leisure open space around the water bodies and forest edge space of the deciduous broad-leaved forest could improve human comfort. This research is expected to provide a scientific basis and planning inspiration for the construction of coastal urban forests in the same latitude area

Thermal Regulation of Coastal Urban Forest Based on ENVI-Met Model—A Case Study in Qinhuangdao, China

Urban forests can improve human comfort by improving the near-surface microclimate. Exploring the microclimate characteristics of urban forests and their impact on human comfort is particularly important to improve the urban thermal environment through scientific urban forest design. Since most previous studies were conducted under typical inland urban climates and little is known about the thermal regulation services of coastal urban forests, this study field measured the thermal surface radiation temperature of 16 open spaces in the urban forest site in Qinhuangdao. Then the ENVI-met software was used to simulate and analyze the microclimate characteristics before and after the park’s building-up, and compare the differences in the human comfort index in different scenarios. Results indicated that: (1) Vegetation have a significant cooling effect on surrounding environment. The farther away from vegetation area, the higher the average surface temperature. (2) Water bodies have the best cooling and humidifying effect on the 9–18 m surrounding environment with the best human comfort index. (3) In summer, air temperature in park decreased by 0.4~1.4 °C, and the relative humidity increased by 0.07~2.81%. (4) After the park’s built-up, the average human comfort index was optimized by 0.02~1.87. Arranging the leisure open space around the water bodies and forest edge space of the deciduous broad-leaved forest could improve human comfort. This research is expected to provide a scientific basis and planning inspiration for the construction of coastal urban forests in the same latitude area