Models for assessing local‐scale co‐abundance of animal species while accounting for differential detectability and varied responses to the environment

We developed a new modeling framework to assess how the local abundance of one species influences the local abundance of a potential competitor while explicitly accounting for differential responses to environmental conditions. Our models also incorporate imperfect detection as well as abundance estimation error for both species. As a case study, we applied the model to four pairs of mammal species in Borneo, surveyed by extensive and spatially widespread camera trapping. We detected different responses to elevation gradients within civet, macaque, and muntjac deer species pairs. Muntjac and porcupine species varied in their response to terrain ruggedness, and the two muntjac responded different to river proximity. Bornean endemic species of civet and muntjac were more sensitive than their widespread counterparts to habitat disturbance (selective logging). Local abundance within several species pairs was positively correlated, but this is likely due to the species having similar responses to (unmodeled) environmental conditions or resources rather than representing facilitation. After accounting for environment and correcting for false absences in detection, negative correlations in local abundance appear rare in tropical mammals. Direct competition may be weak in these species, possibly because the ‘ghost of competition past’ or habitat filtering have already driven separation of the species in niche space. The analytical framework presented here could increase basic understanding of how ecological interactions shape patterns of abundance across the landscape for a range of taxa, and also provide a powerful tool for forecasting the impacts of global change.     

GPS tracking data of Lesser Black-backed Gulls and Herring Gulls breeding at the southern North Sea coast

In this data paper, Bird tracking - GPS tracking of Lesser Black-backed Gulls and Herring Gulls breeding at the southern North Sea coast is described, a species occurrence dataset published by the Research Institute for Nature and Forest (INBO). The dataset (version 5.5) contains close to 2.5 million occurrences, recorded by 101 GPS trackers mounted on 75 Lesser Black-backed Gulls and 26 Herring Gulls breeding at the Belgian and Dutch coast. The trackers were developed by the University of Amsterdam Bird Tracking System (UvA-BiTS, http://www.uva-bits.nl). These automatically record and transmit bird movements, which allows us and others to study their habitat use and migration behaviour in great detail. Our bird tracking network is operational since 2013. It is funded for LifeWatch by the Hercules Foundation and maintained in collaboration with UvA-BiTS and the Flanders Marine Institute (VLIZ). The recorded data are periodically released in bulk as open data (http://dataset.inbo.be/bird-tracking-gull-occurrences), and are also accessible through CartoDB and the Global Biodiversity Information Facility (GBIF).     

Neutral processes and species sorting in benthic microalgal community assembly: effects of tidal resuspension

Benthic microalgae (BMA) provide vital food resources for heterotrophs and stabilize sediments with their extracellular secretions. A central goal in ecology is to understand how processes such as species interactions and dispersal, contribute to observed patterns of species abundance and distribution. Our objectives were to assess the effects of sediment resuspension on microalgal community structure. We tested whether taxa‐abundance distributions could be predicted using neutral community models (NCMs) and also specific hypotheses about passive migration: (i) As migration decreases in sediment patches, BMA α‐diversity will decrease, and (ii) As migration decreases, BMA community dissimilarity (β‐diversity) will increase. Co‐occurrence indices (checkerboard score and variance ratio) were also computed to test for deterministic factors, such as competition and niche differentiation, in shaping communities. Two intertidal sites (mudflat and sand bar) differing in resuspension regime were sampled throughout the tidal cycle. Fluorometry and denaturing gradient gel electrophoresis were utilized to investigate diatom community structure. Observed taxa‐abundances fit those predicted from NCMs reasonably well (R² of 0.68–0.93), although comparisons of observed local communities to artificial randomly assembled communities rejected the null hypothesis that diatom communities were assembled solely by stochastic processes. No co‐occurrence tests indicated a significant role for competitive exclusion or niche partitioning in microalgal community assembly. In general, predictions about relationships between migration and species diversity were supported for local community dynamics. BMA at low tide (lowest migration) exhibited reduced α‐diversity as compared to periods of immersion at both mudflat and sand bar sites. β‐diversity was higher during low tide emersion on the mudflat, but did not differ temporally at the sand bar site. In between‐site metacommunity comparisons, low‐ and high‐resuspension sites exhibited distinct community compositions while the low‐energy mudflats contained higher microalgal biomass and greater α‐diversity. To our knowledge this is the first study to test the relevance of neutral processes in structuring marine microalgal communities. Our results demonstrate a prominent role for stochastic factors in structuring local BMA community assembly, although unidentified nonrandom processes also appear to play some role. High passive migration, in particular, appears to help maintain species diversity and structure communities in both sand and muddy habitats.     

昆虫迁飞随气流散布若干问题的商榷

昆虫通过飞翔从一个生境迁移到另一个新的生境,是普遍存在的自然现象,而随气流远距离季节性迁飞是在特定环境条件下产生的,是昆虫与环境在进化过程中的统一。对于迁飞的个体,“从A迁飞到B,并在B获得生境”是随机事件,但对于迁飞的群体则存在统计规律。迁飞昆虫以被动的随气流散布方式,获得对环境的主动适应。     

江豚胎儿形态发生及生殖规律的研究

在胚胎发育早期,江豚上颌生有短须;左侧1-3根,右侧2-3根.具有半月形外耳廓.雄性胎儿阴茎露于体外.脐带较短.胎儿运动器官(胸鳍、尾鳍和尾柄)发育较快.随着胚胎的发育,外耳廓消失,阴茎藏于体腔.江豚胚胎发育过程中的这些形态学变化,再现了鲸类祖先在陆上生活的历史,同时也反映了鲸类在二次入水过程中所形成的对水环境的适应.此外.通过对收集的17头江豚胎儿资料进行统计,结果表明长江江豚胎儿的生长速度约为9.08cm/月(O.303cm/d),妊娠期为9.4个月,交配季节为6-8月份,分娩为3-5月份.       

Rumen Ciliates of White-tailed Deer (Odocoileus virginianus), Axis Deer (Axis axis), Sika Deer (Cervus nippon) and Fallow Deer (Dama dama) from Texas

Samples of rumen contents from 33 white-tailed deer (Odocoileus virginianus), 31 axis deer (Axis axis), 26 sika deer (Cervus nippon), and 25 fallow deer (Dama dama) were collected from four study areas in central Texas. The geometric mean concentration of total protozoa was 50.2 x 10(4) per ml, with no differences between species (P > 0.36). White-tailed deer had a higher percentage of Entodinium and lower percentage of Diplodiniinae (P < 0.01) than the other deer species, which were not different from each other. Occurrence of Epidinium, Isotricha, and Dasytricha was sporadic and did not differ among deer species. Numerous new host records of protozoan species were observed: white-tailed deer--four; axis deer--five; sika deer--five; fallow deer--four. This brings the total number of protozoan species identified in each deer species to: white-tailed--eight; axis--12; sika--15; fallow--16. For all species combined, protozoan concentration were 7.5 to 11-fold higher (P < 0.01) from Area 4, which differed from the other three areas by having a stream that allowed deer to have free access to water. Criteria used for identification of medium-size Eudiplodinium species were evaluated.     

高粱蚜发生程度的预测研究

通过１８年的田间调查和研究,得知高粱蚜的发生程度与麦蚜的发生程度呈负相关（ｒ＝－０．８９９８）,因此即可用麦蚜发生程度预测后期高粱蚜的发生程度,预测回归式为ｙ＝５．９０１１－０．９８７４ｘ。该预报方法较常规测报法在时间上提早了１个月。经多年检验,预报准确率颇高。     

Factors influencing the habitat choice of pangolins (Manis spp.) in low land of Nepal

Pangolins in the genus Manis are nocturnal, burrowing, insectivorous mammals listed as Critically Endangered or Endangered by the International Union for Conservation of Nature. Two species of pangolins are found in Nepal: the Chinese pangolin (Manis pentadactyla) and Indian pangolin (Manis crassicaudata). Despite having high conservation priority, little attention has been given to conservation interventions of both species of pangolins found in the Terai region (low land) of Nepal. The present study assesses habitat use and factors affecting the habitat choice of pangolins in low land (Terai), Nepal, focusing on Amritdharapani Community Forest of Chitwan district. Pangolin burrows were used as the indirect signs, and opportunistic sampling method was used to record the burrows. After the identification of all occurrence sites (burrows) in the field, random points were generated excluding the points where burrows were recorded for sampling of nonoccurrence sites. A total of thirty‐nine burrows were observed at elevations ranging from 301 to 413 masl. Burrows were frequently associated with northwest aspects, gentle slope (15°–20°), moderate canopy cover (51%–75%), red‐colored soil, and acidic soils with pH 6.5–7. The burrows were most common in areas with weak human disturbance (i.e., 1,500–1,700 m from settlements), 800–1,200 m from roads, and within 300 m from a water source and within 20 m from the nearest termitarium. Distance to settlement, distance to road, soil pH, and canopy cover were found to affect the habitat choice of pangolins in the study area.     

Validating distribution models for twelve endemic bird species of tropical dry forest in western Mexico

Considering the high biodiversity and conservation concerns of the tropical dry forest, this study aim is to predict and evaluate the potential and current distributions of twelve species of endemic birds which distribute along the western slope of Mexico. The main goal is to evaluate altogether different methods for predicting actual species distribution models (ADMs) of the twelve species including the identification of key environmental potential limiting factors. ADMs for twelve endemic Mexican birds were generated and validated by means of applying: (1) three widely used species niche modeling approaches (ENFA, Garp, and Maxent); (2) two thresholding methods, based on ROC curves and Kappa Index, for transforming continuous models to presence/absence (binary) models; (3) documented habitat–species associations for reducing species potential distribution models (PDMs); and (4) field occurrence data for validating final ADMs. Binary PDMs' predicted areas seemed overestimated, while ADMs looked drastically reduced and fragmented because of the approach taken for eliminating those predicted areas which were documented as unsuitable habitat types for individual species. Results indicated that both thresholding methods generated similar threshold values for species modeled by each of the three species distribution modeling algorithms (SDMAs). A Wilcoxon signed‐rank test, however, showed that Kappa values were generally higher than ROC curve for species modeled by ENFA and Maxent, while for Garp models there were no significant differences. Prediction success (e.g., true presences percentage) obtained from field occurrence data revealed a range of 50%–82% among the 12 species. The three modeling approaches applied enabled to test the application of two thresholding methods for transforming continuous to binary (presence/absence) models. The use of documented habitat preferences resulted in drastic reductions and fragmentation of PDMs. However, ADMs predictive success rate, tested using field species occurrence data, varied between 50 and 82%.     

Forbidden versus permitted interactions: Disentangling processes from patterns in ecological network analysis

Several studies have identified the tendency for species to share interacting partners as a key property to the functioning and stability of ecological networks. However, assessing this pattern has proved challenging in several regards, such as finding proper metrics to assess node overlap (sharing), and using robust null modeling to disentangle significance from randomness. Here, we bring attention to an additional, largely neglected challenge in assessing species’ tendency to share interacting partners. In particular, we discuss and illustrate with two different case studies how identifying the set of “permitted” interactions for a given species (i.e. interactions that are not impeded, e.g. by lack of functional trait compatibility) is paramount to understand the ecological and co‐evolutionary processes at the basis of node overlap and segregation patterns.