455 Works

Size-selective exclusion of mammals and invertebrates differently affects grassland plant communities depending on vegetation type

Xiaowei Wang, Martin Schutz & Anita Risch
Human-caused loss of vertebrate and invertebrate animals, defaunation, is increasing, and potentially affects plant community structure of diverse grassland ecosystems worldwide. We experimentally simulated defaunation using size-selective fences to progressively exclude large-, medium- and small-sized mammals, and invertebrates from two subalpine vegetation types in the Swiss National Park (SNP): intensively grazed short-grass and moderately grazed tall-grass vegetation. We assessed plant community properties yearly from 2009 to 2013, and examined treatment effects on plant community structure...

An approach for estimating haplotype diversity from sequences with unequal lengths

Ping Fan, Jon Fjeldså, Xuan Liu, Yafei Dong, Yongbin Chang, Yanhua Qu, Gang Song & Fumin Lei
1. Genetic diversity is an essential component of biodiversity. Developing robust quantification methods is critically important in depicting the genetic diversity underlying the geographical distributions of species, especially for the sequence data with unequal lengths. 2. Traditional calculation of genetic diversity depends on sequences of equal length. However, many homologous sequences downloaded from online repositories vary in length, posing a significant challenge to quantify the genetic diversity, especially haplotype diversity. We developed a new approach...

Trivalvaria tomentosa (Annonaceae), a new species from Southeast Yunnan, China

Bine Xue, Jian-Wu Li, Jun-Jie Liao, Ming-Zhong Mo, Yun-Hong Tan & You-Sheng Chen
Trivalvaria tomentosa sp. nov. is herein described from Yunnan Province in China. It is easily distinguished from all previously described Trivalvaria species by having tomentose twigs, petioles, abaxial surface of the leaves, sepals and petals. A detailed description for the new species, along with line drawings, photographs, as well as morphological comparisons with similar species, are provided. A phylogenetic analysis was conducted to confirm the placement of this new species within Trivalvaria.

Data from: Substantia nigra integrity correlates with sequential working memory in Parkinson’s disease

Zheng Ye, Lirong Jin, Thomas F. Muente, Wenyue Liu, Changpeng Wang, Tingting He, Minghong Su, Yuan Lu & Guanyu Zhang
Maintaining and manipulating sequential information online is essential for daily activities such as planning. In Parkinson’s disease (PD), deficits in sequential working memory have been associated with altered regional activation and functional connectivity within the basal ganglia. This study demonstrated that the substantia nigra (SN) integrity correlates with basal ganglia dysfunction during sequential working memory. We included 29 patients with PD and 29 healthy controls (HC). We assessed the SN integrity using neuromelanin-sensitive MRI and...

Genomic signatures of rapid adaptive divergence in a tropical montane species

Per Ericson, Martin Irestedt & Yanhua Qu
This dataset contains data from a study described in the paper: Ericson, P.G.P., Irestedt, M., She, H., and Qu, Y. (2021) "Genomic signatures of rapid adaptive divergence in a tropical montane species". Biology Letters (in print). The study investigates allopatric divergence and selection in Archbold’s Bowerbird (Amblyornis papuensis), an iconic bird living in a tropical mountain region in New Guinea, using a novel chromosome-level genome and population genomic comparisons. Our results show that the two...

Two new species of the Lycophyte Genus Selaginella (Selaginellaceae) from China, with notes on phylogenetic position of related species

Ling Huang, Shu-Han Li & Shi-Yong Dong
Two new species of lycophytes, Selaginella obovata and S. zhangii, were discovered in southeastern Yunnan, China. Selaginella obovata is characterized by the prostrate habit and relatively small size of plant, obovate median leaves, and short, dorsiventral strobili, and is not apparently similar to any known species. Phylogenetic analyses of plastid sequences (rbcL, atpI, psbA) indicated that S. obovata is closely allied to S. bisulcata, which is also supported by spore morphology, and that these two...

Phylogenomic and ecological analyses reveal the spatiotemporal evolution of global pines

Wei-Tao Jin, David Gernandt, Christian Wehenkel, Xiao-Mei Xia, Xiao-Xin Wei & Xiao-Quan Wang
How coniferous forests evolved in the Northern Hemisphere remains largely unknown. Unlike most groups of organisms that generally follow a latitudinal diversity gradient, most conifer species in the Northern Hemisphere are distributed in mountainous areas at middle latitudes. It is of great interest to know whether the mid-latitude region has been an evolutionary cradle or museum for conifers and how evolutionary and ecological factors have driven their spatiotemporal evolution. Here, we investigated the macroevolution of...

The effects of different parity and delivery mode on wheezing disorders in the children—a retrospective cohort study in Fujian, China

Haiyan Gao, Chong Miao, Haibo Li, Meng Bai, Huijie Zhang, Zhengqin Wu, Wei Li, Wenjuan Liu, Libo Xu, Guanghua Liu & Yibing Zhu
The relationship between childbirth delivery methods and the risk of wheezing in children remains controversial. Few studies have explored it under different maternal conditions. To explore the influence of childbirth delivery method on the onset of wheezing in children of different parity. A total of 21716 patients were included in this retrospective observational study. Multivariable logistic regression was used to analyze the relationship between childbirth delivery method and wheezing in children under 18 years of...

Alleviation of refractory IgA nephropathy by intensive fecal microbiota transplantation: the first case reports

Jin Zhao, Ming Bai, Xiaoxia Yang, Yan Wang, Rong Li & Shiren Sun
Gut dysbiosis may be implicated in the pathogenesis of IgA nephropathy (IgAN) through immune and/or metabolite pathways. Fecal microbiota transplantation (FMT) could reestablish the micro-ecological balance in IgAN, although this has never been attempted before. We explored whether FMT could be efficacious in treating IgAN in two patients with refractory IgAN. Two Chinese female patients with IgAN failed to achieve clinical remission after receiving several rounds of immunosuppressive therapy and suffered from unbearable adverse effects...

Dynamics in perioperative neutrophil-to-lymphocyte*platelet ratio as a predictor of early acute kidney injury following cardiovascular surgery

Yang Li, Zhouping Zou, Yunlu Zhang, Bowen Zhu, Yichun Ning, Bo Shen, Chunsheng Wang, Zhe Luo, Jiarui Xu & Xiaoqiang Ding
In this study, we applied a composite index of neutrophil-lymphocyte * platelet ratio (NLPR), and explore the significance of the dynamics of perioperative NLPR in predicting cardiac surgery-associated acute kidney injury (CSA-AKI). During July 1st and December 31th 2019, participants were prospectively derived from the ‘Zhongshan Cardiovascular Surgery Cohort’. NLPR was determined using neutrophil counts, lymphocyte and platelet count at the two-time points. Dose-response relationship analyses were applied to delineate the non-linear odds ratio (OR)...

The effects of ground cover management on fruit yield and quality: a meta-analysis

Linfa Fang, Xiaojun Shi, Yong Zhang, Yehua Yang, Xueliang Zhang, Xiaozhong Wang & Yuting Zhang
An important management strategy for the development of sustainable agriculture in orchards is the management of ground cover. However, there is a knowledge gap regarding the effects of ground cover on fruit yield and quality. We performed a meta-analysis of 580 observations collected from 116 peer-reviewed field studies, to assess the effects of ground cover on fruit yield and quality indicators. Overall, ground cover significantly increased fruit yield, soluble solid content, sugar content, and vitamin...

Intraspecific genetic variation matters when predicting seagrass distribution under climate change

Zi-Min Hu, Quan-Sheng Zhang, Jie Zhang, Kass Jamie, Mammola Stefano, Fresia Pablo, Draisma Stefano, Assis Jorge, Jueterbock Alexander, Yokota Masashi & Zhixin Zhang
Seagrasses play a vital role in structuring coastal marine ecosystems, but their distributional range and genetic diversity have declined rapidly over the past decades. In order to improve conservation of seagrass species, it is important to predict how climate change may impact their ranges. Such predictions are typically made with correlative species distribution models (SDMs), which can estimate a species’ potential distribution under present and future climatic scenarios given species’ presence data and climatic predictor...

Validating eDNA Measurements of the Richness and Abundance of Anurans at a Large Scale

Wenhao Li, Xianglei Hou, Chunxia Xu, Mingshuo Qin, Supen Wang, Li Wei, Yanping Wang, Xuan Liu & Yiming Li
In some situations, environmental DNA (eDNA) metabarcoding is a more accurate tool for measuring species richness of a taxon than conventional methods. Whether this tool can reliably estimate the abundance of a taxon remains unresolved. We examined the reliability of metabarcoding for measuring anuran diversity compared to a commonly used traditional line transect method (TLTM) through the replicate sampling of three visits across 71 waterbodies (ponds or reservoirs) in Liuheng, China. We also investigated the...

Effects of soil phosphorus, light, AMF and jasmonic acid on growth and defense of Plantago lanceolata

Arjen Biere, Minggang Wang & Laiye Qu
This dataset contains data from a two-part greenhouse experiments described in the paper: “Qu, L., Wang, M., and Biere, A. (2021) Interactive effects of Mycorrhizae, Soil Phosphorus and Light on Growth and Induction and Priming of Defense in Plantago lanceolata. Frontiers in Plant Science 12: 647372”. The experiment investigates the effects of a factorial combination of three factors: inoculation with AMF (the arbuscular mycorrhizal fungus Funneliformis mosseae; yes/no), soil phosphorus level (Soil P, 10.5 vs....

Data from: Invasive herbaceous respond more negatively to elevated ozone concentration than native species

Lichao Wang, Yan Li & Yanjie Liu
Aim: Many studies show that increase in ground-level ozone (O3) has adverse effects on plant growth. Due to high phenotypic plasticity, invasive species is considered to be more adaptable to elevated O3 than native species. This idea is only tested by the very limited studies comparing invasive weeds with crops. However, whether it holds remains unclear when comparing invasive species with their co-occurring native species in natural systems. Location: China Methods: We performed an open-top...

Divergent contributions of living roots to turnover of different soil organic carbon pools and their links to plant traits

Junsheng Huang, Weixing Liu, Shengnan Pan, Zhe Wang, Zhou Jia, Zhenhua Wang, Meifeng Deng, Lu Yang, Chao Liu, Pengfei Chang & Lingli Liu
1. Rhizodeposits and root litter contribute critically to soil organic carbon (SOC) formation and decomposition. This root-induced SOC turnover shows great interspecific variations. Bulk SOC consists of diverse functional pools differing in formation and stabilization. Yet, it remains unclear which plant traits regulate the effects of living roots on the turnover of different SOC pools across species. 2. By performing 13CO2 continuous labelling of six grassland species for a growing season in a climate-controlled chamber,...

Effects of experimental warming on vegetative and reproductive characters of P. viviparaum in the Qinghai-Tibet Plateau

Chan Zhang, Xianting Li, Yumeng An, Zhonghua Zhang, Fei Ren & Huakun Zhou
This dataset contains data from a simulated warming experiment described in the paper: “Zhang, C., Li, XT., and An, YM. Effects of experimental warming on vegetative and reproductive growth of Polygonum viviparaum in the Qinghai-Tibet Plateau. Nordic Journal of Botany. DOI: 10.1111/njb.03157”. The experiment investigated Polygonum viviparaum, a perennial herb distributed widely in arctic and alpine regions, under two different levels of experimental warming treatments to examine effects of warming on its vegetative and reproductive...

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...

Data from: Silurian (late Llandovery–Wenlock) conodont fauna and biostratigraphy from the Yanbian area of Sichuan province, south-west china

Guanzhou Yan & Rongchang Wu
Late Llandovery–Wenlock conodonts are still inadequately documented in China with knowledge chiefly from the Baizitian section of Yanbian County, Sichuan Province, SW China. A collection of over 32000 conodont elements was recovered from 38 samples from the Xiabaizitian and Shangbaizitian formations at this classical locality. The conodont fauna is dominated by cosmopolitan species and can be assigned to 50 species representing 17 genera. Among these, one new species, Apsidognathus yanbianensis sp. nov. is proposed herein....

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...

An invasive species erodes the performance of coastal wetland protected areas

Junlin Ren, Jianshe Chen, Changlin Xu, Johan Van De Koppel, Mads Thomsen, Shi-Yun Qiu, Fangyan Cheng, Wanjuan Song, Quan-Xing Liu, Chi Xu, Junhong Bai, Yihui Zhang, Baoshan Cui, Mark Bertness, Brian Silliman, Bo Li & Qiang He
The world has increasingly relied upon protected areas (PAs) to rescue highly valued ecosystems from human activities, but whether PAs will fare well with bioinvasions remains unknown. By analyzing three decades of seven largest coastal PAs in China, including multiple World Natural Heritage and/or Wetlands of International Importance sites, we show that although PAs are achieving success in rescuing iconic wetlands and critical shorebird habitats from once widespread reclamation, this success is counteracted by escalating...

Fourier projection algorithm for calculating phonon dispersion relations of crystals

Shaoqing Wang & Chao Cheng
We propose a Fourier projection algorithm and demonstrate its superiority for calculation of the phonon dispersion relations of 2D and 3D crystals based on the atomic coordinate trajectories from supercell molecular dynamics/first-principle molecular dynamics simulations. The lattice vibration states are described in a six-dimensional phase space composed of lattice and wave vectors. Phonon dispersion information in the first Brillouin zone sampled with a k-mesh grid of N×N×N is generated by Fourier projection of the lattice...

The coordination between leaf and fine root litter decomposition and the difference of their controlling factors

Lulu Guo, Meifeng Deng, Sen Yang, Weixing Liu, Xin Wang, Jing Wang & Lingli Liu
Aim: As the two largest components of plant detritus input, leaf and root litter together determines ecosystem vegetation turnover and nutrient cycling rates. However, it remains unknown the similarities and differences between the controlling factors for their decomposition. We evaluated the relationship between leaf and fine root litter decomposition across biomes, and analyzed how litter traits, climate, soil conditions and decomposers shape their relationship. Location: Global. Time Period: 1984–2020. Major Taxa Studied: Vascular plant. Methods:...

Block-Wise Variable Selection for Clustering Via Latent States of Mixture Models

Beomseok Seo, Lin Lin & Jia Li
Mixture modeling is a major paradigm for clustering in statistics. In this article, we develop a new block-wise variable selection method for clustering by exploiting the latent states of the hidden Markov model on variable blocks or the Gaussian mixture model. The variable blocks are formed by depth-first-search on a dendrogram created based on the mutual information between any pair of variables. It is demonstrated that the latent states of the variable blocks together with...

Block-Wise Variable Selection for Clustering Via Latent States of Mixture Models

Beomseok Seo, Lin Lin & Jia Li
Mixture modeling is a major paradigm for clustering in statistics. In this article, we develop a new block-wise variable selection method for clustering by exploiting the latent states of the hidden Markov model on variable blocks or the Gaussian mixture model. The variable blocks are formed by depth-first-search on a dendrogram created based on the mutual information between any pair of variables. It is demonstrated that the latent states of the variable blocks together with...

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  • 2021

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  • Chinese Academy of Sciences
  • Fudan University
  • Chinese Academy of Medical Sciences & Peking Union Medical College
  • Sun Yat-sen University
  • Shanghai Jiao Tong University
  • Huazhong University of Science and Technology
  • Zhejiang University
  • University of Chinese Academy of Sciences
  • Capital Medical University
  • Peking University