Interspecific hybridization causes long‐term phylogenetic discordance between nuclear and mitochondrial genomes in freshwater fishes

Classification, phylogeography and the testing of evolutionary hypotheses rely on correct estimation of species phylogeny. Early molecular phylogenies often relied on mtDNA alone, which acts as a single linkage group with one history. Over the last decade, the use of multiple nuclear sequences has often revealed conflict among gene trees. This observation can be attributed to hybridization, lineage sorting, paralogy or selection. Here, we use 54 groups of fishes from 48 studies to estimate the degree of concordance between mitochondrial and nuclear gene trees in two ecological grades of fishes: marine and freshwater. We test the hypothesis that freshwater fish phylogenies should, on average, show more discordance because of their higher propensity for hybridization in the past. In keeping with this idea, concordance between mitochondrial and nuclear gene trees (as measured by proportion of components shared) is on average 50% higher in marine fishes. We discuss why this difference almost certainly results from introgression caused by greater historical hybridization among lineages in freshwater groups, and further emphasize the need to use multiple nuclear genes, and identify conflict among them, in estimation of species phylogeny.     

Stability switches,oscillatory multistability,and spatio-temporal patterns of nonlinear oscillations in recurrently delay coupled neural networks

A model of time-delay recurrently coupled spatially segregated neural assemblies is here proposed. We show that it operates like some of the hierarchical architectures of the brain. Each assembly is a neural network with no delay in the local couplings between the units. The delay appears in the long range feedforward and feedback inter-assemblies communications. Bifurcation analysis of a simple four-units system in the autonomous case shows the richness of the dynamical behaviors in a biophysically plausible parameter region. We find oscillatory multistability, hysteresis, and stability switches of the rest state provoked by the time delay. Then we investigate the spatio-temporal patterns of bifurcating periodic solutions by using the symmetric local Hopf bifurcation theory of delay differential equations and derive the equation describing the flow on the center manifold that enables us determining the direction of Hopf bifurcations and stability of the bifurcating periodic orbits. We also discuss computational properties of the system due to the delay when an external drive of the network mimicks external sensory input.     

Production of extracellular enzymes by different isolates of Pochonia chlamydosporia

For the first time, the specific activities of chitinases, esterases, lipases and a serine protease (VCP1) produced by different isolates of the nematophagous fungus Pochonia chlamydosporia were quantified and compared. The isolates were grown for different time periods in a minimal liquid medium or media supplemented with 1 % chitin, 0.2 % gelatin or 2 % olive oil. Enzyme-specific activities were quantified in filtered culture supernatants using chromogenic p-nitrophenyl substrates (for chitinases, lipases and esterases) and a p-nitroanilide substrate (to measure the activity of the proteinase VCP1). Additionally, information on parasitic growth (nematode egg parasitism) and saprotrophic growth (plant rhizosphere colonisation) was collected. Results showed that the production of extracellular enzymes was influenced by the type of medium (p < 0.05) in which P. chlamydosporia was grown. Enzyme activity differed with time (p < 0.05), and significant differences were found between isolates (p < 0.001) and the amounts of enzymes produced (p < 0.001). However, no significant relationships were found between enzyme activities and parasitic or saprotrophic growth using Kendall's coefficient of concordance or Spearman rank correlation coefficient. The results provided new information about enzyme production in P. chlamydosporia and suggested that the mechanisms which regulate the trophic switch in this fungus are complex and dependent on several factors.     

Mechanical-Statistical Modeling in Ecology: From Outbreak Detections to Pest Dynamics

Knowledge about large-scale and long-term dynamics of (natural) populations is required to assess the efficiency of control strategies, the potential for long-term persistence, and the adaptability to global changes such as habitat fragmentation and global warming. For most natural populations, such as pest populations, large-scale and long-term surveys cannot be carried out at a high resolution. For instance, for population dynamics characterized by irregular abundance explosions, i.e., outbreaks, it is common to report detected outbreaks rather than measuring the population density at every location and time event. Here, we propose a mechanical-statistical model for analyzing such outbreak occurrence data and making inference about population dynamics. This spatio-temporal model contains the main mechanisms of the dynamics and describes the observation process. This construction enables us to account for the discrepancy between the phenomenon scale and the sampling scale. We propose the Bayesian method to estimate model parameters, pest densities and hidden factors, i.e., variables involved in the dynamics but not observed. The model was specified and used to learn about the dynamics of the European pine sawfly (Neodiprion sertifer Geoffr., an insect causing major defoliation of pines in northern Europe) based on Finnish sawfly data covering the years 1961–1990. In this application, a dynamical Beverton–Holt model including a hidden regime variable was incorporated into the model to deal with large variations in the population densities. Our results gave support to the idea that pine sawfly dynamics should be studied as metapopulations with alternative equilibria. The results confirmed the importance of extreme minimum winter temperatures for the occurrence of European pine sawfly outbreaks. The strong positive connection between the ratio of lake area over total area and outbreaks was quantified for the first time.     

Changes in land use and habitat availability affect the population genetic structure of Metrioptera roeselii (Orthoptera: Tettigoniidae)

The impact of temporal changes in habitat availability and land use on the present genetic diversity of the grassland katydid species Metrioptera roeselii was investigated in an extensively used agricultural landscape (Lahn-Dill-Bergland, Germany) based on six microsatellite loci. By integrating spatial and temporal dimensions, this study contrasts to conventional approaches that usually record landscape changes at discrete points in time. Molecular data suggest little geographical substructuring of the species. Nevertheless, time-dependent effects on genetic diversity in terms of observed heterozygosity and allelic richness within subpopulations were detected by general linear models (GLM), explaining up to 82 and 13%, respectively. The results indicated that allelic richness was significantly reduced with higher rates of land-use change. Contrastingly, the level of heterozygosity even increased with increasing land-use change, if this rate increase was accompanied by a reduction in grassland amount, while with an increase of grassland amount the level of heterozygosity remained similar. Furthermore, depending on the study site, heterozygosity was differently affected by grassland age of sampled patches and of the surrounding. This is presumably induced by contrasting levels of heterozygosity in combination with differing modes of dispersal due to habitat availability and site-specific matrix effects. The loss of genetic diversity due to frequent land-use change might result in a reduced ability to adapt to landscape change, which is even more relevant in intensively used agricultural landscapes and in the course of climate change.     

Dynamics of epileptiform activity in mouse hippocampal slices

Increase of the extracellular K⁺ concentration mediates seizure-like synchronized activities in vitro and was proposed to be one of the main factors underlying epileptogenesis in some types of seizures in vivo. While underlying biophysical mechanisms clearly involve cell depolarization and overall increase in excitability, it remains unknown what qualitative changes of the spatio-temporal network dynamics occur after extracellular K⁺ increase. In this study, we used multi-electrode recordings from mouse hippocampal slices to explore changes of the network activity during progressive increase of the extracellular K⁺ concentration. Our analysis revealed complex spatio-temporal evolution of epileptiform activity and demonstrated a sequence of state transitions from relatively simple network bursts into complex bursting, with multiple synchronized events within each burst. We describe these transitions as qualitative changes of the state attractors, constructed from experimental data, mediated by elevation of extracellular K⁺ concentration.     

长江流域植被净第一性生产力及其时空格局研究

 基于生态过程模型——CASA模型,利用1982～1999年18年来8 km×8 km分辨率的遥感数据和匹配的温度、降水、太阳辐射资料以及植被和土壤信息,对长江流域的植被NPP及其时空分布格局进行了分析。主要结论如下：1) 18年来,长江流域年均NPP总量为0.46Pg C·a-1,占全国总量的27.22     

傅家边丘陵山地滨梅根围AM真菌与土壤酶活性的关系

为揭示AM真菌对宿主滨梅（Prunus maritima）的作用特点及对根部土壤酶活性的影响,于2009年4月、7月和10月分别从江苏傅家边丘陵山地滨梅根围分0～10、10～20、20～30、30～40、40～50 cm 5个土层采集土壤样品,观察滨梅AM菌根结构,测定了AM真菌侵染率、孢子密度、土壤磷酸酶、脲酶活性及有效磷、碱解氮含量,着重分析了AM真菌与土壤酶活性之间的关系。结果表明,滨梅能与AM真菌形成良好的共生关系,共生体为泡囊-丛枝结构;AM真菌侵染率和孢子密度分别在7月份和10月份最高,均出现在0～20 cm土层,并随土层加深而下降;AM真菌侵染率与土壤酸性磷酸酶、中性磷酸酶、碱磷酸酶活性显著正相关,而与脲酶活性无相关性;AM真菌孢子密度与碱性磷酸酶、脲酶活性呈极显著正相关关系;孢子密度与土壤有效磷、土壤碱解氮含量显著正相关,但AM真菌侵染率仅与土壤有效磷含量显著正相关;孢子密度与菌根侵染率之间无相关性。可见,滨梅AM真菌侵染率与孢子密度有明显的时空分布并与土壤因子尤其是某些土壤酶活性密切相关,且AM菌根的形成是滨梅适应丘陵山地干旱贫瘠环境的有效对策之一。     

京津冀地区经济社会要素与碳排放的时空耦合关系

碳排放受区域发展水平、产业结构、消费模式等经济社会多要素的综合影响。开展区域经济社会要素与碳排放的时空耦合关系研究,不仅有助于揭示区域内部各要素空间格局对碳排放的影响机制,而且对于制定差别化的经济、环境和产业政策,推动区域低碳协调和均衡发展也具有重要的实践意义。基于京津冀地区2005—2020年的相关统计数据,采用区域重心模型、空间关联性分析方法、地理集中度、不一致指数、空间自相关分析等方法,探讨了区域人口、经济、消费水平、第二产业、贫困度、碳排放量等经济社会要素的重心转移特征和地理集中度,并对各要素与碳排放的空间关系进行了分析。结果表明：(1)2005—2020年京津冀地区各经济社会要素均不同程度偏离区域几何中心,各要素在空间上长期处于不均衡状态,但随着时间推移,不均衡状态有所减缓。(2)研究期内,各经济社会要素的重心移动轨迹具有明显的阶段性,京津冀地区各要素重心格局易于波动,碳排放与其他要素重心空间耦合性呈现波动式变化。(3)人口因素是影响碳排放量增长的主要因素。贫困度、第二产业比重、经济发展水平的灰色关联度数值也都较高,贫困度、第二产业比重、经济发展水平也是碳排放量增长的主要驱动...     

Validation of an ambient system for the measurement of gait parameters

Fall risk in elderly people is usually assessed using clinical tests. These tests consist in a subjective evaluation of gait performed by healthcare professionals, most of the time shortly after the first fall occurrence. We propose to complement this one-time, subjective evaluation, by a more quantitative analysis of the gait pattern using a Microsoft Kinect. To evaluate the potential of the Kinect sensor for such a quantitative gait analysis, we benchmarked its performance against that of a gold-standard motion capture system, namely the OptiTrack. The “Kinect” analysis relied on a home-made algorithm specifically developed for this sensor, whereas the OptiTrack analysis relied on the “built-in” OptiTrack algorithm. We measured different gait parameters as step length, step duration, cadence, and gait speed in twenty-five subjects, and compared the results respectively provided by the Kinect and OptiTrack systems. These comparisons were performed using Bland-Altman plot (95% bias and limits of agreement), percentage error, Spearman’s correlation coefficient, concordance correlation coefficient and intra-class correlation. The agreement between the measurements made with the two motion capture systems was very high, demonstrating that associated with the right algorithm, the Kinect is a very reliable and valuable tool to analyze gait. Importantly, the measured spatio-temporal parameters varied significantly between age groups, step length and gait speed proving the most effective discriminating parameters. Kinect-monitoring and quantitative gait pattern analysis could therefore be routinely used to complete subjective clinical evaluation in order to improve fall risk assessment during rehabilitation.