68 Works

Large losses of ammonium-nitrogen from a rice ecosystem under elevated CO2

Lei Cheng, Chenchao Xu, Kaihang Zhang, Wanying Zhu, Jing Xiao, Chen Zhu, Naifang Zhang, Fangjian Yu, Shuyao Li, Chunwu Zhu, Qichao Tu, Xin Chen, Jianguo Zhu, Shuijin Hu, Roger T Koide & Mary K Firestone
Inputs of nitrogen into terrestrial ecosystems, mainly via the use of ammonium-based fertilizers in agroecosystems, are enormous, but its fate under elevated atmospheric carbon dioxide (CO2) is not well understood. We have taken advantage of a 15-year free air CO2 enrichment study to investigate the influence of elevated CO2 on the transformation of ammonium-nitrogen in a rice ecosystem in which ammonium is usually assumed to be stable under anaerobic conditions. We demonstrate that elevated CO2...

Synthesis of Bi2S3 thin films based on pulse-plating bismuth nanocrystallines and its photoelectrochemical properties

Guochen Zhao, Fangchang Ding, Qiujin Wang, Shaofei Zhou, Ying Ye & Reza Ghomashchi
The solubility of Bi3+ in aqueous solution is an important factor that limits the fabrication of high quality Bi2S3 thin films. In order to find a low–cost method to manufacture high quality Bi2S3 thin films, we are reporting the preparation of the Bi2S3 thin films based on pulse-plating method in this paper for the first time. The nano-bismuth particles were obtained by electroplating on fluorine doped SnO2 (FTO) coated conducting glass substrates with saturated bismuth...

Cost-effectiveness analysis of cetuximab combined with chemotherapy as a first-line treatment for RAS wild-type metastatic colorectal cancer patients based on the TAILOR trial

Huijuan Wang, Lingfei Huang, Peng Gao, Zhengyi Zhu, Weifeng Ye, Haiying Ding & Luo Fang
Objectives Cetuximab plus leucovorin, fluorouracil, and oxaliplatin (FOLFOX-4) is superior to FOLFOX-4 alone as a first-line treatment for patients with RAS wild-type metastatic colorectal cancer (wt mCRC), with significantly improved survival benefit by TAILOR, an open-label, randomized, multicentre, phase III trial. Nevertheless, the cost-effectiveness of these two regimens remains uncertain. The following study aims to determine whether cetuximab combined with FOLFOX-4 is a cost-effective strategy for specific RAS wt mCRC patients in China. Design A...

Data from: Do microorganism stoichiometric alterations affect carbon sequestration in paddy soil subjected to phosphorus input?

Zhi Jian Zhang, Qiang He, ZhiJian Zhang, HongYi Li, Jiao Hu, Xia Li, GuangMing Tian, Hang Wang, ShunYao Wang & Bei Wang
Ecological stoichiometry provides a powerful tool for integrating microbial biomass stoichiometry with ecosystem processes, opening far-reaching possibilities for linking microbial dynamics to soil carbon (C) metabolism in response to agricultural nutrient management. Despite its importance to crop yield, the role of phosphorus (P) with respect to ecological stoichiometry and soil C sequestration in paddy fields remains poorly understood, which limits our ability to predict nutrient-related soil C cycling. Here, we collected soil samples from a...

Data from: Genetic diversity of male and female Chinese bayberry (Myrica rubra) populations and identification of sex-associated markers

Hui-Min Jia, Yun Jiao, Guo-Yun Wang, Ying-Hui Li, Hui-Juan Jia, Hong-Xia Wu, Chun-Yan Chai, Xiao Dong, Yanping Guo, Liping Zhang, Qi-Kang Gao, Wei Chen, Li-Juan Song, Eric W. Wan De Weg & Zhong-Shan Gao
Background: Chinese bayberry (Myrica rubra Sieb. & Zucc.) is an important subtropical evergreen fruit tree in southern China. Generally dioecious, the female plants are cultivated for fruit and have been studied extensively, but male plants have received very little attention. Knowledge of males may have a major impact on conservation and genetic improvement as well as on breeding. Using 84 polymorphic SSRs, we genotyped 213 M. rubra individuals (99 male individuals, 113 female varieties and...

Data from: Sensitivity and acclimation of three canopy-forming seaweeds to UVB radiation and warming

Xi Xiao, Thibaut De Bettignies, Ylva S. Olsen, Susana Agusti, Carlos M. Duarte & Thomas Wernberg
Canopy-forming seaweeds, as primary producers and foundation species, provide key ecological services. Their responses to multiple stressors associated with climate change could therefore have important knock-on effects on the functioning of coastal ecosystems. We examined interactive effects of UVB radiation and warming on juveniles of three habitat-forming subtidal seaweeds from Western Australia–Ecklonia radiata, Scytothalia dorycarpa and Sargassum sp. Fronds were incubated for 14 days at 16–30°C with or without UVB radiation and growth, health status,...

Data from: Ecological correlates of extinction risk in Chinese birds

Yanping Wang, Xingfeng Si, Peter M. Bennett, Chuanwu Chen, Di Zeng, Yuhao Zhao, Yiru Wu & Ping Ding
China is one of the countries with the richest bird biodiversity in the world. Among the 1372 Chinese birds, 146 species are considered threatened and three species are regionally extinct according to the officially released China Biodiversity Red List in 2015. Here, we conducted the first extensive analysis to systematically investigate the patterns and processes of extinction and threat in Chinese birds. We addressed the following four questions. First, is extinction risk randomly distributed among...

Data from: Population structure and historical demography of Dipteronia dyeriana (Sapindaceae), an extremely narrow palaeoendemic plant from China: implications for conservation in a biodiversity hot spot

Chen Chen, Ruisen S. Lu, Shanshan S. Zhu, Tamaki Ichiro & Qiu X. Yingxiong
Inferring past demography is a central question in evolutionary and conservation biology. It is, however, sometimes challenging to disentangle their roles of contemporary versus historical processes in shaping the current patterns of genetic variation in endangered species. In this study, we used both chloroplast microsatellite (cpSSR) loci and nuclear microsatellite (nSSR) loci to assess the levels of genetic differentiation, genetic effective population size, contemporary/historical levels of gene flow and demographic history for five populations sampled...

Data from: Characterizing the plasticity of nitrogen metabolism by the host and symbionts of the hydrothermal vent chemoautotrophic symbioses Ridgeia piscesae

Liao Li, Scott D. Wankel, Wu Min, Colleen M. Cavanaugh, Peter R. Girguis & Min Wu
Chemoautotrophic symbionts of deep sea hydrothermal vent tubeworms are known to provide their hosts with all their primary nutrition. While studies have examined how chemoautotrophic symbionts provide the association with nitrogen, fewer have examined if symbiont nitrogen metabolism varies as a function of environmental conditions. Ridgeia piscesae tubeworms flourish at Northeastern Pacific vents, occupy a range of microhabitats, and exhibit a high degree of morphological plasticity [e.g. long-skinny (LS) and short-fat (SF) phenotypes] that may...

Choice consequences: salinity preferences and hatchling survival in the mangrove rivulus fish (Kryptolebias marmoratus)

Shelly C. McCain, Sydney Kopelic, Thomas M. Houslay, Alastair J. Wilson, Huanda Lu & Ryan L. Earley
In heterogeneous environments, mobile species should occupy habitats in which their fitness is maximized. Mangrove rivulus fish inhabit mangrove ecosystems where salinities range from 0 to 65 ppt, but are most often collected at ∼25 ppt. We examined the salinity preference of mangrove rivulus in a lateral salinity gradient, in the absence of predators and competitors. Fish could swim freely for 8 h throughout the gradient with chambers containing salinities ranging from 5 to 45...

Data from: Patterns of genotype variation and demographic history in Lindera glauca (Lauraceae), an apomict-containing dioecious forest tree

Shanshan Zhu, Hans-Peter Comes, Ichiro Tamaki, Ya-Nan Cao, Shota Sakaguchi, Zhao-Yan Yap, Yan-Qian Ding & Ying-Xiong Qiu
Aim: The historical circumstances promoting the transition from sexual to apomictic reproduction in dioecious plant species remains poorly understood. Here, we investigated the divergence and demographic history of Lindera glauca, a dioecious tree considered to be facultatively apomictic in China while comprising only females (obligate apomicts) in Japan. Location: East Asia (China and Japan) Methods: Samples from 42 populations were genotyped using chloroplast DNA and nuclear microsatellite (nSSR) loci to assess genetic diversity and structure....

Data from: Human−geographic effects on variations in the population genetics of Sinotaia quadrata (Gastropoda: Viviparidae) that historically migrated from continental East Asia to Japan

Bin Ye, Takumi Saito, Takahiro Hirano, Zhengzhong Dong, Van Tu Do & Satoshi Chiba
Background: Anthropogenic factors potentially affect observed biogeographical patterns in genetic variations of populations, but the effects of ancient human activities on the original patterns that were created by natural processes are unknown. Sinotaia quadrata, a widely distributed freshwater snail species in East Asia, was used to investigate this issue. It is unclear if S. quadrata in Japan was introduced from China, and how different human uses and varying geographic patterns affect the genetic structure of...

Data from: The preparation and characterization of uniform nanoporous structure on glass

Lei Wang, Likai Li, Youbo Liu, Hao Jin, Qingwen Tang, Wei Sun, Deren Yang, Hui Cai & Shuxian Wang
A novel fabrication method of uniform porous structures on the glass surface is proposed. The hydrofluoric acid fog formed by air-jet atomization etches the glass surface to fabricate nanoporous structure (NPS) on glass surface. This NPS shows the enhanced average light transmittance of ~92.9% and the superhydrophilic property with a contact angle less than 1° which presents an excellent anti-fog property. Passivated by fluorosilane, the NPS shows nearly the superhydrophobic property with a contact angle...

Data from: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements

David Secco, Chuang Wang, Huixia Shou, Matthew D. Schultz, Serge Chiarenza, Laurent Nussaume, Joseph R. Ecker, James Whelan & Ryan Lister
Cytosine DNA methylation (mC) is a genome modification that can regulate the expression of coding and non-coding genetic elements. However, little is known about the involvement of mC in response to environmental cues. Using whole genome bisulfite sequencing to assess the spatio-temporal dynamics of mC in rice grown under phosphate starvation and recovery conditions, we identified widespread phosphate starvation-induced changes in mC, preferentially localized in transposable elements (TEs) close to highly induced genes. These changes...

Data from: Impacts of species richness on productivity in a large-scale subtropical forest experiment

Yuanyuan Huang, Yuxin Chen, Nadia Castro-Izaguirre, Martin Baruffol, Matteo Brezzi, Anne Lang, Ying Li, Werner Härdtle, Werner Von Oheimb, Xuefeu Yang, Xiaojuan Liu, Kequan Pei, Sabine Both, Bo Yang, David Eichenberg, Thorsten Assmann, Jürgen Bauhus, Thorsten Behrens, François Buscot, Xiao-Yong Chen, Douglas Chester, Bing-Yang Ding, Walter Durka, Alexandra Erfmeier, Jingyun Fang … & Bernhard Schmid
Biodiversity experiments have shown that species loss reduces ecosystem functioning in grassland. To test whether this result can be extrapolated to forests, the main contributors to terrestrial primary productivity, requires large-scale experiments. We manipulated tree species richness by planting more than 150,000 trees in plots with 1 to 16 species. Simulating multiple extinction scenarios, we found that richness strongly increased stand-level productivity. After 8 years, 16-species mixtures had accumulated over twice the amount of carbon...

Data from: MHC class I diversity predicts non-random mating in Chinese alligators (Alligator sinensis)

Qun-Hua Han, Ru-Na Sun, Hai-Qiong Yang, Zhen-Wei Wang, Qiu-Hong Wan & Sheng-Guo Fang
The major histocompatibility complex (MHC) plays numerous important roles in kin recognition, pathogen resistance, and mate selection. Research in fish, birds, and mammals have suggested that individuals optimize MHC diversity, and therefore offspring fitness, when choosing mates. In reptiles, however, it is unclear whether female mate choice is based on genome-wide genetic characteristics such as microsatellites DNA loci, on particular functional trait loci (e.g., MHC) or on both, and MHC effects on mate choice remain...

Rest-task modulation of fMRI-derived global signal topography is mediated by transient co-activation patterns

Jianfeng Zhang, Zirui Huang, Shankar Tumati & Georg Northoff
Recent resting-state fMRI studies have revealed that the global signal (GS) exhibits a non-uniform spatial distribution across the gray matter. Whether this topography is informative remains largely unknown. We therefore tested rest-task modulation of global signal topography by analyzing static global signal correlation and dynamic co-activation patterns in a large sample of fMRI dataset (n=837) from the Human Connectome Project. The GS topography in the resting-state and in seven different tasks was first measured by...

Data from: Expression plasticity and evolutionary changes extensively shape the sugar-mimic alkaloid adaptation of non-digestive glucosidase in lepidopteran mulberry-specialist insects

Xiaotong Li, Liangen Shi, Xiangping Dai, Yajie Chen, Hongqing Xie, Min Feng, Yuyin Chen & Huabing Wang
During the co-evolutionary arms race between plants and herbivores, insects evolved systematic adaptive plasticity to minimise the chemical defence effects of their host plants. Previous studies mainly focused on the expressional plasticity of enzymes in detoxification and digestion. However, the expressional response and adaptive evolution of other fundamental regulators against host phytochemicals are largely unknown. Glucosidase II (GII), which is composed of a catalytic GIIα subunit and a regulatory GIIβ subunit, is an evolutionarily conserved...

Data from: Facilitation among plants can accelerate density-dependent mortality and steepen self-thinning lines in stressful environments

Wei-Ping Zhang, Xin Jia & Gen-Xuan Wang
The speed and slope of plant self-thinning are all affected by plant-plant interactions across environmental gradients. Possible mechanisms driving the self-thinning dynamics include the relative strength of root vs. shoot competition, and the interplay between competition and facilitation. Although these mechanisms often act in concert, their relative importance has not yet been fully explored. We used both a one-layer and a two-layer zone-of-influence (ZOI) model to examine how competition and facilitation drive self-thinning across stress...

Data from: Phylogeny of Morella rubra and its relatives (Myricaceae) and genetic resources of Chinese bayberry using RAD sequencing

Luxian Liu, Xinjie Jin, Nan Chen, Xian Li, Pan Li & Chengxin Fu
Phylogenetic relationships among Chinese species of Morella (Myricaceae) are unresolved. Here, we use restriction site-associated DNA sequencing (RAD-seq) to identify candidate loci that will help in determining phylogenetic relationships among Morella rubra, M. adenophora, M. nana and M. esculenta. Three methods for inferring phylogeny, maximum parsimony (MP), maximum likelihood (ML) and Bayesian concordance, were applied to data sets including as many as 4253 RAD loci with 8360 parsimony informative variable sites. All three methods significantly...

Data from: Spatial phylogenetics reveals evolutionary constraints on the assembly of a large regional flora

Daniel Spalink, Ricardo Kriebel, Pan Li, Matthew C. Pace, Bryan T. Drew, John G. Zaborsky, Jeffrey R. Rose, Chloe P. Drummond, Mary Ann Feist, William S. Alverson, Donald M. Waller, Kenneth M. Cameron, Thomas J. Givnish & Kenneth J. Sytsma
Premise of the study: We use spatial phylogenetics to analyze the assembly of the Wisconsin flora, linking processes of dispersal and niche evolution to spatial patterns in floristic and phylogenetic diversity, and testing whether phylogenetic niche conservatism can account for these patterns. Methods: We use digitized records and a new molecular phylogeny for all vascular plants in Wisconsin to estimate spatial variation in species richness and phylogenetic  and  diversity in a native flora...

Data from: Climate oscillation during the Quaternary associated with landscape heterogeneity promoted allopatric lineage divergence of a temperate tree Kalopanax septemlobus (Araliaceae) in East Asia

Shota Sakaguchi, Ying-Xiong Qiu, Yi-Hui Liu, Xin-Shuai Qi, Sea-Hyun Kim, Jingyu Han, Yayoi Takeuchi, James R. P. Worth, Michimasa Yamasaki, Shogo Sakurai & Yuji Isagi
We investigated the biogeographic history of Kalopanax septemlobus, one of the most widespread temperate tree species in East Asia, using a combined phylogeographic and palaeodistribution modelling approach. Range-wide genetic differentiation at nuclear microsatellites (G′ST = 0.709; 2205 samples genotyped at five loci) and chloroplast DNA (GST = 0.697; 576 samples sequenced for 2055 bp at three fragments) was high. A major phylogeographic break in Central China corresponded with those of other temperate species and the...

Data from: Mixed linear model approach for mapping quantitative trait loci underlying crop seed traits

Ting Qi & Haiming Xu
The crop seed is a complex organ that may be composed of the diploid embryo, the triploid endosperm and the diploid maternal tissues. According to the genetic features of seed characters, two genetic models for mapping quantitative trait loci (QTLs) of crop seed traits are proposed, with inclusion of maternal effects, embryo or endosperm effects of QTL, environmental effects and QTL-by-environment (QE) interactions. The mapping population can be generated either from double back-cross of immortalized...

Data from: Genome-wide identification and expression analysis of the ClTCP transcription factors in Citrullus lanatus

Pibiao Shi, Kateta Malangisha Guy, Weifang Wu, Bingsheng Fang, Jinghua Yang, Mingfang Zhang & Zhongyuan Hu
Background: The plant-specific TCP transcription factor family, which is involved in the regulation of cell growth and proliferation, performs diverse functions in multiple aspects of plant growth and development. However, no comprehensive analysis of the TCP family in watermelon (Citrullus lanatus) has been undertaken previously. Results: A total of 27 watermelon TCP encoding genes distributed on nine chromosomes were identified. Phylogenetic analysis clustered the genes into 11 distinct subgroups. Furthermore, phylogenetic and structural analyses distinguished...

Data from: Molecular analysis of caffeoyl residues related to pigmentation in green cotton fibers

Hongjie Feng, Yonglin Yang, Shichao Sun, Yanjun Li, Lin Zhang, Jingkui Tian, Qianhao Zhu, Zili Feng, Heqin Zhu & Jie Sun
The pigment components in green cotton fibers were isolated and identified as 22-O-caffeoyl-22-hydroxymonodocosanoin and 22-O-caffeoyl-22-hydroxydocosanoic acid. The concentration of 22-O-caffeoyl-22-hydroxymonodocosanoin was correlated positively with the degree of green fibers of color, indicating a role of caffeoyl derivatives in pigmentation of green cotton fibers. Upland cotton (Gossypium hirsutum L.) contains four genes (Gh4CL1 to Gh4CL4) encoding 4-coumarate:CoA ligase (4CL), key enzymes of the phenylpropanoid biosynthesis pathway. In 15 to 24 days-post anthesis fibers, the expression level...

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