727 Works

Data from: Mechanisms of reciprocity and diversity in social networks: a modelling and comparative approach

Ivan Puga-Gonzalez, Julia Ostner, Oliver Schülke, Sebastian Sosa, Bernard Thierry & Cedric Sueur
Three mechanisms have been proposed to underlie reciprocation of social behaviors in gregarious animals: ‘calculated reciprocity’, ‘emotional bookkeeping’ and ‘symmetry-based reciprocity’. Among these explanations, emotional book-keeping has received the broadest support from experimental and observational studies. On the other hand, three individual-based models have shown that reciprocation may emerge via ‘symmetry-based reciprocity’, ‘emotional bookkeeping’, or a combination of both mechanisms. Here we use these three models to assess their relative fit with empirical data on...

Data from: Soil microbes promote complementarity effects among co-existing trees through soil nitrogen partitioning

Shan Luo, Bernhard Schmid, Gerlinde B. De Deyn & Shixiao Yu
1. Plant resource partitioning is a mechanism promoting species coexistence and ecosystem functioning. Yet, we still have limited understanding of how soil microbes, especially plant symbiotic microbes, influence resource partitioning. We hypothesized that soil borne microbes, in particular mycorrhizal fungi, facilitate differential performance of tree species depending on different nitrogen sources and that this leads to a positive plant diversity–community productivity relationship. 2. We conducted two complementing glasshouse experiments. In a “monoculture experiment”, we supplied...

Data from: Correlation of native and exotic species richness: a global meta-analysis finds no invasion paradox across scales

Shijia Peng, Nicole L. Kinlock, Jessica Gurevitch, Shao-Lin Peng & Shaolin Peng
Support for the “biotic resistance hypothesis,” that species-rich communities are more successful at resisting invasion by exotic species than are species-poor communities, has long been debated. It has been argued that native-exotic richness relationships (NERR) are negative at small spatial scales and positive at large scales, but evidence for the role of spatial scale on NERR has been contradictory. However, no formal quantitative synthesis has previously examined whether NERR is scale-dependent across multiple studies, and...

Data from: The niches of nuthatches affect their lineage evolution differently across latitude

Yu-Chi Chen, Masoud Nazarizadeh, Fu‐Min Lei, Xiao‐Jun Yang, Cheng‐Te Yao, Feng Dong, Lu Dong, Fa‐Sheng Zou, Sergei V. Drovetski, Yang Liu, Chun-Cheng Huang, Chih-Ming Hung, Fu-Min Lei, Yu‐Chi Chen, Chun‐Cheng Huang & Chih‐Ming Hung
Ecological niche evolution can promote or hinder the differentiation of taxa and determine their distribution. Niche‐mediated evolution may differ among climatic regimes, and thus species that occur across a wide latitudinal range offer a chance to test these heterogeneous evolutionary processes. In this study, we examine (1) how many lineages have evolved across the continent‐wide range of the Eurasian nuthatch (Sitta europaea), (2) whether the lineages’ niches are significantly divergent or conserved, and (3) how...

Data from: Niches in the Anthropocene: passerine assemblages show niche expansion from natural to urban habitats

Emilio Pagani-Núñez, Dan Liang, Chao He, Xuemeng Zhou, Xu Luo, Yang Liu & Eben Goodale
Human‐mediated habitat transformation is increasingly evident around the world. Yet, how this transformation influences species’ niche width and overlap remains unclear. On the one hand, human‐mediated habitat transformation promotes increased species similarity through trait‐based filtering, and an increased prevalence of generalist species with broad niches, resulting in functional homogenization. On the other hand, species that colonize transformed habitats could use empty niches, resulting in decreased species similarity and an expansion of assemblage‐level niche space. Here...

Data from: The inverted U-shaped effect of urban hotspots spatial compactness on urban economic growth

Weipan Xu, Haohui Chen, Enrique Frias-Martinez, Manuel Cebrian & Xun Li
The compact city, as a sustainable concept, is intended to augment the efficiency of urban function. However, previous studies have concentrated more on morphology than on structure. The present study focuses on urban structural elements, i.e., urban hotspots consisting of high-density and high-intensity socioeconomic zones, and explores the economic performance associated with their spatial structure. We use nighttime luminosity (NTL) data and the Loubar method to identify and extract the hotspot and ultimately draw two...

Neighboring trees regulate the root-associated pathogenic fungi on the host plant in a subtropical forest

Keke Cheng & Shixiao YU
Root-associated fungi and host-specific pathogens are major determinants of species coexistence in forests. Phylogenetically related neighboring trees can strongly affect the fungal community structure of the host plant, which, in turn, will affect the ecological processes. Unfortunately, our understanding of the factors influencing fungal community composition in forests is still limited. In particular, investigation of the relationship between the phytopathogenic fungal community and neighboring trees is incomplete. In the current study, we tested the host...

Plant diversity enhances rehabilitation of degraded lands by spurring plant-soil feedbacks

Pu Jia, Jie-Liang Liang, Sheng-Xiang Yang, Sheng-Chang Zhang, Jun Liu, Zhi-Wei Liang, Feng-Mei Li, Qing-Wei Zeng, Zhou Fang, Bin Liao, Wen-Sheng Shu, Marc Cadotte & Jin-Tian Li
Despite a rich history of theoretical and empirical work showing that increasing biodiversity results in higher ecosystem function, this research has not made a commensurate impact on the reclamation of degraded lands, where enhancing ecosystem function is of primary importance. 2. In this study, we manipulated plant diversity on heavily degraded mine lands and showed that increasing plant diversity greatly enhanced the reclamation of these lands. We found that high diversity assemblages were often associated...

Island biogeography of soil bacteria and fungi: similar patterns, but different mechanisms

Shaopeng Li, Pandeng Wang, Yongjian Chen, Maxwell Wilson, Xian Yang, Chao Ma, Jianbo Lu, Xiao-Yong Chen, Jianguo Wu, Wen-Sheng Shu & Lin Jiang
Microbes, similar to plants and animals, exhibit biogeographic patterns. However, in contrast with the considerable knowledge on the island biogeography of higher organisms, we know little about the distribution of microorganisms within and among islands. Here, we explored insular soil bacterial and fungal biogeography and underlying mechanisms, using soil microbiota from a group of land-bridge islands as a model system. Similar to island species-area relationships observed for many macroorganisms, both island-scale bacterial and fungal diversity...

Fast and furious: Early differences in growth rate drive short-term plant dominance and exclusion under eutrophication

Yann Hautier, Zhang Pengfei, Mariet Hefting, Merel Soons, George Kowalchuk, Mark Rees, Andrew Hector, Lindsay Turnbull, Xiaolong Zhou, Zhi Guo, Chengjin Chu, Guozhen Du & Yann Hautier
1. The reduction of plant diversity following eutrophication threatens many ecosystems worldwide. Yet, the mechanisms by which species are lost following nutrient enrichment are still not completely understood, nor are the details of when such mechanisms act during the growing season, which hampers understanding and the development of mitigation strategies. 2. Using a common garden competition experiment, we found that early-season differences in growth rates among five perennial grass species measured in monoculture predicted short-term...

Environmental drivers of plant distributions at global and regional scales: occurrence data with associated environmental variables of plant families/genera/species

Erhan Huang, Shixiao Yu & Yuxin Chen
How environmental factors drive plant distribution across globe is one of the most fundamental questions in ecology. Plant distributions may be shaped by various environmental factors, such as climate, topography and edaphic factors. Nevertheless, it is not clear about the relative importance of different environmental factors in driving plant distribution across spatial scales and among plant groups. This study aimed to disentangle how plant–environment relationships vary with latitude and among plant taxa including angiosperms, gymnosperms,...

A large-scale systematic framework of Chinese snakes based on a unified multilocus marker system

Jiang-Ni Li, Dan Liang, Ying-Yong Wang, Peng Guo, Song Huang & Peng Zhang
Snakes are one of the most diverse groups of terrestrial vertebrates, with approximately 3500 extant species, some of which are closely related to human life. A robust phylogeny and taxonomy of snakes is crucial for us to know, study, protect and make use of them. For a large group such as snakes, cross-study data utilization is important which can be facilitated by standardization of the loci used for systematic analyses. In this study, we combined...

Community-wide trait means and variations affect biomass in a biodiversity experiment with tree seedlings

Shan Luo, Bernhard Schmid, Cameron Wagg, Yuxin Chen, Bin Jiang, Minxia Liang, Xubing Liu & Shixiao Yu
The structure of a plant community in terms of functional traits can strongly affect community productivity. Two components may contribute to this, community-wide trait means (mass-ratio hypothesis) or community-wide trait variations (diversity hypothesis) across species and individuals. We compared the explanatory power of the two hypotheses for explaining biomass variation among individuals and communities as measures of productivity. We set up experimental communities of tree seedlings that ranged in species richness from 1‒8. We measured...

Relationships between plant-soil feedbacks and functional traits

Nianxun Xi, Peter Adler, Dongxia Chen, Hangyu Wu, Jane Catford, Peter Van Bodegom, Michael Bahn, Kerri Crawford & Chengjin Chu
Plant-soil feedbacks (PSF) and functional traits are two active but not well theoretically integrated areas of research. However, PSF and traits are both affected by life history evolution, so the two should theoretically be related. We provide a conceptual framework to link plant functional traits to two types of PSF metrics, and hypothesize that individual PSF (plant performance in conspecific versus heterospecific soil) should be related to the fast-slow trait spectrum, while pairwise PSF (the...

Plastome and RAD-seq of Polygonatum odoratum

Shiou Yih Lee
Polygonatum odoratum (Mill.) Druce (Asparagaceae, Asparagales) is a widely cultivated medicinal herb in China. However, this useful herb is understudied despite being known as a medicinal resource with top grade medical and edible properties since long. In this study, P. odoratum and four cultivars were investigated. The variations in morphological characteristics and vegetative phases of each cultivars were observed. For genetic aspect, the plastid genome of P. odoratum varies in length from 154,569 bp to...

Global resorption efficiencies of trace elements in leaves of terrestrial plants

Hao Chen, Sasha Reed, Xiao-Tao Lü, Kongcao Xiao, Kelin Wang & Dejun Li
1. Leaf nutrient resorption is a critical nutrient conservation strategy. Previous studies focus mainly on resorption patterns of macronutrients, but resorption patterns of trace elements remain poorly understood. 2. A meta-analysis was conducted to explore the general patterns of the leaf resorption of eight trace elements [i.e., copper (Cu), molybdenum (Mo), zinc (Zn), boron (B), manganese (Mn), sodium (Na), aluminum (Al), and iron (Fe)], and a macronutrient [i.e., sulfur (S)] using data collected from 53...

sj-docx-1-ict-10.1177_15347354211002919 – Supplemental material for Exploring the Safety, Effectiveness, and Cost-Effectiveness of a Chinese Patent Medicine (Fufang E’jiao Syrup) for Alleviating Cancer-Related Fatigue: A Protocol for a Randomized, Double-Blinded, Placebo-Controlled, Multicenter Trial

Zhuo Song, Ling-yun Sun, Shan-shan Gu, Xiao-shu Zhu, He-zheng Lai, Fang Lu, Ning Cui, Qiong-yang Li, Yu Wu & Yun Xu
Supplemental material, sj-docx-1-ict-10.1177_15347354211002919 for Exploring the Safety, Effectiveness, and Cost-Effectiveness of a Chinese Patent Medicine (Fufang E’jiao Syrup) for Alleviating Cancer-Related Fatigue: A Protocol for a Randomized, Double-Blinded, Placebo-Controlled, Multicenter Trial by Zhuo Song, Ling-yun Sun, Shan-shan Gu, Xiao-shu Zhu, He-zheng Lai, Fang Lu, Ning Cui, Qiong-yang Li, Yu Wu and Yun Xu in Integrative Cancer Therapies

Mycorrhizal effects on decomposition and soil CO2 flux depend on changes in nitrogen availability during forest succession

Ruiqiang Liu, Yanghui He, Guiyao Zhou, Junjiong Shao, Lingyan Zhou, Huimin Zhou, Nan Li, Bingqian Song, Chao Liang, Enrong Yan, Xiao-Yong Chen, Xihua Wang, Minhuang Wang, Shahla Hosseini Bai, Xuhui Zhou & Richard Phillips
Mycorrhizal fungi play a central role in plant nutrition and nutrient cycling, yet our understanding on their effects on free-living microbes, soil carbon (C) decomposition and soil CO2 fluxes remains limited. Here we used trenches lined with mesh screens of varying sizes to isolate mycorrhizal hyphal effects on soil C dynamics in subtropical successional forests. We found that the presence of mycorrhizal hyphae suppressed soil CO2 fluxes by 17% in early-successional forests, but enhanced CO2...

Performances (survival and growth) and functional traits of tree seedlings along light and water gradients

Yuanzhi Li
A foundational assumption of trait-based ecology is that individual performances should be predicted by its functional traits. However, the trait-performance relationships reported in literature were typically weak, probably due to the ignorance of interactions between traits and environments, intraspecific trait variability and hard traits (directly linked to physiological processes of interest). We conducted an experiment of planting 900 seedlings of six tree species separately (one seedling per pot) along experimentally manipulated light and water gradients,...

Distribution of ant assemblage, microclimate and microhabitat along vertical gradients

Shuang Xing
Abiotic and biotic factors structure species assembly in ecosystems both horizontally and vertically. However, the way community composition changes along comparable horizontal and vertical distances in complex three-dimensional habitats, and the factors driving these patterns, remains poorly understood. By sampling ant assemblages at comparable vertical and horizontal spatial scales in a tropical rain forest, we tested hypotheses that predicted differences in vertical and horizontal turnover explained by different drivers in vertical and horizontal space. These...

Data from: Rhytiphora: a phylogenetic and morphological study of Australia’s largest longhorn beetle genus

Lauren Ashman, Diana Hartley, Mengjie Jin, David Rowell, Luisa Teasdale, Adam Slipinski & Andreas Zwick
Rhytiphora Audinet-Serville is the most speciose longhorn beetle (Cerambycidae) genus in Australia, with about 200 species (from nearly 40 former genera, now synonymised into one) distributed across the entire continent. We used mitochondrial genome data from whole genome shotgun sequencing and COI barcoding of museum specimens to reconstruct the phylogeny of 68 Rhytiphora species, and analyse their morphological diversity and biogeographic history. We recovered a monophyletic Rhytiphora containing two distinct clades, within which all of...

Additional file 1 of Identification of DNA methylation-regulated genes as potential biomarkers for coronary heart disease via machine learning in the Framingham Heart Study

Xiaokang Zhang, Chen Wang, Dingdong He, Yating Cheng, Li Yu, Daoxi Qi, Boyu Li & Fang Zheng
Additional file 1: Table S1. Performance of the expression and methylation models applied to datasets from GEO. Table S2. Clinical baseline information of participants in the transcriptome sequencing and methylation microarray.

Additional file 2 of Assessing the causal association between human blood metabolites and the risk of epilepsy

Jiahao Cai, Xiaoyu Li, Shangbin Wu, Yang Tian, Yani Zhang, Zixin Wei, Zixiang Jin, Xiaojing Li, Xiong Chen & Wen-Xiong Chen
Additional file 2: Table S1. List of the identification (ID) for each of the 486 blood metabolites. Table S2. Harmonization data_482 blood metabolites and overall documented epilepsy from the ILAE consortium. Table S3. Results for the Mendelian randomization estimates and sensitivity analysis in epilepsy-subgroup (focal and generalized epilepsy) analysis. Table S4. Leave one out analysis for the causal association between blood metabolites and epilepsy subtypes.

Additional file 9 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 9: Table S4. The 21 prognositc DE-MRGs based on the TCGA GBM cohort.

Additional file 5 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 5: Fig. S5. Validation of the association between risk score and immune cell infiltration. A Scatter plot showed the positive correlation between the risk score and ImmuneScore (Spearman’s rank correlation coefficient) in the GSE16011 GBM cohort. B Scatter plot showed the positive correlation between the risk score and StromalScore (Spearman’s rank correlation coefficient) in the GSE16011 GBM cohort. C Scatter plot showed the positive correlation between the risk score and ESTAMEScore (Spearman’s rank...

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