I smell where you walked – how chemical cues influence movement decisions in ants

Interactions between animals are not restricted to direct encounters. Frequently, individuals detect the proximity of others through cues unintentionally left by others, such as prey species assessing predation risk based on indirect predator cues. However, while the importance of indirect cues in predator–prey interactions has been intensely studied, their role in interactions among competitors, and their consequences for community structure, are little known to date. Ant communities are usually structured by aggressive interactions between competing species. Responding to cues of others should be useful to avoid competitors or discover food sources. In ants and other insects, such cues include chemical footprints, which they leave while walking. Here, we investigated how different ant species respond to footprints of others. Ant colonies were confronted with footprints of other colonies or species, and the workers chose between cue‐bearing and cue‐free areas. Moreover, we determined the chemical composition of footprints, and compared the absolute quantities of footprint and cuticular hydrocarbons. Ants of the species Lasius niger avoided footprints of non‐nestmate conspecifics, and tended to avoid footprints of two other species. We suggest that they avoided encounters with competitors to reduce costly fights. In contrast, three other ant species approached allospecific footprints, which may represent eavesdropping to find resources discovered by others. Three of the four ant species responded differently to nestmates and non‐nestmate footprints either through footprint‐following or antennation behavior. The chemical composition of footprints was species‐specific and largely congruent to cuticular hydrocarbons. Footprint quantities left by single workers represented 1/170 to 1/64 of the quantity of their cuticular hydrocarbons. We showed that chemical footprints represent an important cue for behavioral decisions in ants. The ability to identify and respond to chemical footprints may represent an important strategy for insects to cope with competing species or colonies in their habitat.     

Functional evolution of noncoding DNA

Noncoding DNA in eukaryotes encodes functionally important signals for the regulation of chromosome assembly, DNA replication, and gene expression. The increasing availability of whole-genome sequences of related taxa has led to interest in the evolution of these signals, and the phylogenetic footprints they produce. Cis-regulatory sequences controlling gene expression are often conserved among related species, but are rarely conserved between distantly related taxa. Several experimentally characterized regulatory elements have failed to show sequence similarity even between closely related species.     

Weak seed banks influence the signature and detectability of selective sweeps

Seed banking (or dormancy) is a widespread bet-hedging strategy, generating a form of population overlap, which decreases the magnitude of genetic drift. The methodological complexity of integrating this trait implies it is ignored when developing tools to detect selective sweeps. But, as dormancy lengthens the ancestral recombination graph (ARG), increasing times to fixation, it can change the genomic signatures of selection. To detect genes under positive selection in seed banking species it is important to (1) determine whether the efficacy of selection is affected, and (2) predict the patterns of nucleotide diversity at and around positively selected alleles. We present the first tree sequence-based simulation program integrating a weak seed bank to examine the dynamics and genomic footprints of beneficial alleles in a finite population. We find that seed banking does not affect the probability of fixation and confirm expectations of increased times to fixation. We also confirm earlier findings that, for strong selection, the times to fixation are not scaled by the inbreeding effective population size in the presence of seed banks, but are shorter than would be expected. As seed banking increases the effective recombination rate, footprints of sweeps appear narrower around the selected sites and due to the scaling of the ARG are detectable for longer periods of time. The developed simulation tool can be used to predict the footprints of selection and draw statistical inference of past evolutionary events in plants, invertebrates, or fungi with seed banks.     

Combining non-invasive methods for the rapid assessment of mammalian richness in a transect-quadrat survey scheme - Case Study of the Horsh Ehden Nature Reserve, North Lebanon

Lebanon lacks updated information related to the status of mammalian species, their richness and distribution. This study aimed at developing a rapid assessment methodology combining three non-invasive techniques based on the transect-quadrat survey scheme to measure mammalian richness at the Horsh Ehden Nature Reserve. The achieved results showed that the combination of the three techniques, droppings, footprints and photo-trapping for the rapid assessment of mammalian richness supported by Geographical Information System applications is highly effective. Twenty visits covering twenty quadrats out of 49 over a period of nine months allowed the detection of 12 of the 14 targeted species with droppings providing the majority of evidence while footprints and photo-trapping being of equal efficiency. The method can be easily replicated in any region to rapidly assess mammalian richness and the area of activity of the detected species and therefore directing conservation and management activities towards species of interest.     

典型移民城市食物氮足迹估算分析——以深圳市为例

城市食物源氮消费产生的环境排放是全国氮污染的重要源头,城市食物氮足迹评估可反映维持城市人口基本食物需求的活性氮排放以及对周边环境的潜在影响。以典型移民城市深圳市为例,基于改进N-Calculator模型的基础上,估算了2010-2015年间因城市人口流动导致的城市食物氮足迹变化,并分析其时空异质性及其与城市化间的关系。结果表明：深圳市不同类型城市居民食物氮足迹不一致,其中常住户籍居民人均食物氮足迹从14.63 kg N a^-1增加至15.17 kg N a^-1,高于非户籍居民食物氮足迹13.09 kg N a^-1,其主要体现在瓜果、肉类、水产品等食物消费上。总体上,深圳城市食物氮足迹呈增长趋势,5年增幅11.50%,增幅最大为常住户籍居民食物氮足迹,但目前深圳非户籍居民的食物消费主导着城市食物氮足迹。深圳城市内部区域食物氮足迹呈高度空间异质性与聚集性,各区域增长量差异明显,街道尺度城市食物氮足迹增长热点主要分布在城市的西部沿海区域,部分热点区域单位增长量数量级比肩区级尺度单位的增长量,城市区域食物氮足迹与人口城市化的关联性不明显,但与经济城市化存在一定的关联性。当前城市移民落户趋势及居民高氮饮食倾向不利于城市氮足迹的削减,减少食物生产上游活性氮流失为深圳市贯彻粤港澳大湾区协同可持续发展的关键。     

Elephant (Loxodonta africana) footprints as habitat for aquatic macroinvertebrate communities in Kibale National Park,south‐west Uganda

This is the first study where elephant footprints as habitat for aquatic macroinvertebrate communities were assessed. Preliminary observations during the dry season in Kibale Forest, Uganda, indicated that water‐filled footprints constituted the majority of stagnant ponds. Consequently, this study aimed at giving an overview of the diversity and ecology of those habitats and the capacity of elephants as ecosystem engineers. The fauna and abiotic factors (age, size, substrate, organic matter, pH, canopy cover, temperature, conductivity) of 30 water‐filled natural elephant footprints were sampled, resulting in the record of 61 morphospecies among 27 families/orders. Species composition was dominated by Hydrophilidae and Dytiscidae and influenced by environmental variables, such as age and organic matter. To study the colonization process, 18 artificial footprints were created within different distances from the water source. After 5 days, 410 specimens were collected, with higher species richness in artificial footprints closer to a natural water source. We conclude that colonization of water‐filled footprints is fast, they constitute important habitats with high diversity and variability, and they act as stepping stones for dispersal and add to the ability of elephants as ecosystem engineers. We emphasize the importance of elephants as a key species in ecosystem dynamics and conservation practice.     

Feeding patterns of elephants at the Atherstone Collaborative Nature Reserve

The African savannah elephant (Loxodonta africana Blumenbach) is a generalist herbivore that relies on widely distributed resources. Vegetation decline, aggravated by these elephants, can compromise local conservation efforts. Thus it imperative to understand the factors that drive them to consume specific plant species and plant parts. The objective of our study was to investigate the feeding patterns of African savannah elephants in the enclosed bushveld savannah at the Atherstone Collaborative Nature Reserve in South Africa. For 1 year, we examined elephant selection of woody versus herbaceous vegetation, and identified which plant species and parts were preferentially consumed. We accomplished this by directly observing feeding elephants, and by utilizing data collected on elephant footprints, dung piles, stripped bark and broken branches. We further conducted vegetation surveys to determine selection frequency relative to species abundance. Elephants showed a preference for different plant parts consumption in the feeding plots. In total, leaves, branches and bark contributed mostly to their diet. Seasonal selection patterns showed an increasing proportion of bark and branch consumption during the dry season.     

Characterization of aquatic mosquito habitat, natural enemies, and immature mosquitoes in the Artibonite Valley, Haiti

This paper characterizes water body types harboring immature mosquitoes in a low-lying area of Haiti and investigates the relationship between immature Anopheles albimanus abundance and aquatic predator presence. Larval An. albimanus were found in permanent and semi-permanent groundwater habitats including (in order of greatest abundance) hoof/footprints, ditches, rice fields, and ground pools. High levels of species co-occurrence were observed in habitats. Among water bodies positive for immature Anopheles, 42.9% also contained immature Culex species. Significant association between An. albimanus abundance and the absence of fish predators was detected. Results from the multivariate negative binomial regression suggest that the interactive effect of increasing distance from the Artibonite River and elevation are positively associated with the abundance of immature An. albimanus. The presence of fish predators was not associated with the abundance of An. albimanus larvae in habitats while controlling for habitat distance and elevation. The results of this study provide baseline entomological information to inform vector control programs in the country.     

Increasing synergistic effects of habitat destruction and hunting on mammals over three decades in the Gran Chaco

Habitat destruction and overexploitation are the main threats to biodiversity and where they co-occur, their combined impact is often larger than their individual one. Yet, detailed knowledge of the spatial footprints of these threats is lacking, including where they overlap and how they change over time. These knowledge gaps are real barriers for effective conservation planning. Here, we develop a novel approach to reconstruct the individual and combined footprints of both threats over time. We combine satellite-based land-cover change maps, habitat suitability models and hunting pressure models to demonstrate our approach for the community of larger mammals (48 species > 1 kg) across the 1.1 million km² Gran Chaco region, a global deforestation hotspot covering parts of Argentina, Bolivia and Paraguay. This provides three key insights. First, we find that the footprints of habitat destruction and hunting pressure expanded considerably between 1985 and 2015, across ~40% of the entire Chaco – twice the area affected by deforestation. Second, both threats increasingly acted together within the ranges of larger mammals in the Chaco (17% increase on average, ± 20% SD, cumulative increase of co-occurring threats across 465 000 km²), suggesting large synergistic effects. Conversely, core areas of high-quality habitats declined on average by 38%. Third, we identified remaining priority areas for conservation in the northern and central Chaco, many of which are outside the protected area network. We also identify hotspots of high threat impacts in central Paraguay and northern Argentina, providing a spatial template for threat-specific conservation action. Overall, our findings suggest increasing synergistic effects between habitat destruction and hunting pressure in the Chaco, a situation likely common in many tropical deforestation frontiers. Our work highlights how threats can be traced in space and time to understand their individual and combined impact, even in situations where data are sparse.     

Analysis of similarity within 142 pairs of orthologous intergenic regions of Caenorhabditis elegans and Caenorhabditis briggsae

Patterns of similarity between genomes of related species reflect the distribution of selective constraint within DNA. We analyzed alignments of 142 orthologous intergenic regions of Caenorhabditis elegans and Caenorhabditis briggsae and found a mosaic pattern with regions of high similarity (phylogenetic footprints) interspersed with non-alignable sequences. Footprints cover ~20% of intergenic regions, often occur in clumps and are rare within 5′ UTRs but common within 3′ UTRs. The footprints have a higher ratio of transitions to transversions than expected at random and a higher GC content than the rest of the intergenic region. The number of footprints and the GC content of footprints within an intergenic region are higher when genes are oriented so that their 5′ ends form the boundaries of the intergenic region. Overall, the patterns and characteristics identified here, along with other comparative and experimental studies, suggest that many footprints have a regulatory function, although other types of function are also possible. These conclusions may be quite general across eukaryotes, and the characteristics of conserved regulatory elements determined from genomic comparisons can be useful in prediction of regulation sites within individual DNA sequences.     

中国1999年生态足迹计算与发展能力分析

可持续发展的定量评估是可持续发展研究的关键领域,其核心是确定人类的生存是否处于生态系统的承载力范围之内．新近提出和发展起来的生态足迹指标是一种测算人类对自然利用程度的新的综合指标,该方法通过将区域的资源和能源消费转化为提供这种物质流所必需的各种生物生产土地的面积(生态足迹),并同区域能提供的生物生产土地面积(生态承载力)进行比较,能定量判断一个区域的发展是否处于生态承载力的范围内．以中国和部分省(区市）1999年的统计数据为基础,对中国和部分省(区市)1999年的生态足迹计算结果表明,1999年中国的人均生态足迹为1．326hm^2,而人均生态承载力为0．681hm^2,人均生态赤字为0、645hm^2;分省的计算结果也表明大部分省(区市)的生态足迹超过了当地的生态承载力．生态赤字的存在表明,区域的经济社会发展处于一种不可持续的发展状态．同时,将生态足迹计算中得到的不同土地类型面积作为测算生态经济系统多样性的指标,测算了中国及部分省(区市)1999年生态足迹的多样性,并采用Ulanowicz的发展能力公式分析了各省的发展能力．发展能力是一个较好的预测产出的指标,增加多样性是增加发展能力的有效途径、另外,还分析了生态足迹的多样性与资源利用效益的关系,讨论了生态足迹及其多样性的政策含义．     

Differential Use of Trails by Forest Mammals and the Implications for Camera-Trap Studies: A Case Study from Belize

Relative abundance indices are often used to compare species abundance between sites. The indices assume that species have similar detection probabilities, or that differences between detection probabilities are known and can be corrected for. Indices often consist of encounter frequencies of footprints, burrows, markings or photo captures along trails or transect lines, but the assumption of equal detection probabilities is rarely validated. This study analyzes detection probabilities of a range of Neotropical mammals on trails in dense secondary forests, using camera-trap and track data. Photo captures of the two large cats, jaguars ( Panthera onca ) and pumas ( Puma concolor ), were correlated solely with trail variables, while photo captures of their potential prey species had no correlation or negative correlation with trail variables. The Neotropical mammals varied greatly in their tendency to follow or cross trails based on footprints surveys. This indicates that camera locations on trails will have varying detection probability for these Neotropical mammals. Even the two similar-sized jaguars and pumas, occupying relatively similar niches, differed subtly in their use of trails. Pumas followed trails more completely while jaguars were more likely to deviate from trails. The ecological significance of these findings is that jaguars seem to be more willing to use the forest matrix away from trails than do pumas. We conclude that trail-based indices, such as photographic captures or tracks along trails, are not appropriate for comparison between Neotropical species, and not even between relatively similar species like jaguars and pumas.     

Product Carbon Footprints and Their Uncertainties in Comparative Decision Contexts

In response to growing awareness of climate change, requests to establish product carbon footprints have been increasing. Product carbon footprints are life cycle assessments restricted to just one impact category, global warming. Product carbon footprint studies generate life cycle inventory results, listing the environmental emissions of greenhouse gases from a product’s lifecycle, and characterize these by their global warming potentials, producing product carbon footprints that are commonly communicated as point values. In the present research we show that the uncertainties surrounding these point values necessitate more sophisticated ways of communicating product carbon footprints, using different sizes of catfish (Pangasius spp.) farms in Vietnam as a case study. As most product carbon footprint studies only have a comparative meaning, we used dependent sampling to produce relative results in order to increase the power for identifying environmentally superior products. We therefore argue that product carbon footprints, supported by quantitative uncertainty estimates, should be used to test hypotheses, rather than to provide point value estimates or plain confidence intervals of products’ environmental performance.     

Step on it: can footprints from tracking tunnels be used to identify lizard species?

There are few effective or efficient established methods for monitoring cryptic herpetofauna. Footprint tracking tunnels are routinely used to index small mammal populations, but also have potential for monitoring herpetofauna. We evaluated the utility of tracking tunnels for identification of New Zealand lizards using captive- and wild-sourced animals (four skink and eight gecko species). All skink prints that we obtained were indistinct or obscure, but we obtained relatively clear, measurable prints for all gecko species. We found that identification to species level was possible for the two gecko species for which we had a large sample—Naultinus gemmeus and Woodworthia ‘Otago large’—using linear discriminant analysis (the best model correctly assigned 96.1% of individuals). Our findings suggest that footprints from tracking tunnels may be used to distinguish between species of geckos. Additional research is needed to assess the ability to further discriminate intra- and inter-genera lizard footprints from tracking tunnels, and the utility of the technique for surveying and monitoring lizard populations.     

Using morphometrics to quantitatively differentiate African wild dog footprints from domestic dog footprints – a pilot study

Reliable population estimation and species inventories are important for wildlife conservation, but such estimations are often difficult due to unreliable identification of the species in question. Furthermore, for predator conflict resolution, it is essential to be able to reliably identify the predator. This study presents a new method to quantitatively distinguish African wild dog (Lycaon pictus) footprints from feral domestic dog (Canis lupus familiaris) footprints. Footprint photographs were digitally processed using Photoshop and the NIH image processing software ImageJ, and total pad area and angles between the centroids of the backpad and the digits of the paw were measured. Pad angles showed statistically significant differences between the two species and, with the exception that there was no significant difference in pad area between African wild dog females and domestic dog males, total pad areas were also diagnostic. Consequently, the combination of total pad area and the angle between backpad and digits are useful discriminators to reliably identify the species from an unknown footprint.     

A method for calculating a land‐use change carbon footprint (LUC‐CFP) for agricultural commodities – applications to Brazilian beef and soy,Indonesian palm oil

The world's agricultural system has come under increasing scrutiny recently as an important driver of global climate change, creating a demand for indicators that estimate the climatic impacts of agricultural commodities. Such carbon footprints, however, have in most cases excluded emissions from land‐use change and the proposed methodologies for including this significant emissions source suffer from different shortcomings. Here, we propose a new methodology for calculating land‐use change carbon footprints for agricultural commodities and illustrate this methodology by applying it to three of the most prominent agricultural commodities driving tropical deforestation: Brazilian beef and soybeans, and Indonesian palm oil. We estimate land‐use change carbon footprints in 2010 to be 66 tCO₂/t meat (carcass weight) for Brazilian beef, 0.89 tCO₂/t for Brazilian soybeans, and 7.5 tCO₂/t for Indonesian palm oil, using a 10 year amortization period. The main advantage of the proposed methodology is its flexibility: it can be applied in a tiered approach, using detailed data where it is available while still allowing for estimation of footprints for a broad set of countries and agricultural commodities; it can be applied at different scales, estimating both national and subnational footprints; it can be adopted to account both for direct (proximate) and indirect drivers of land‐use change. It is argued that with an increasing commercialization and globalization of the drivers of land‐use change, the proposed carbon footprint methodology could help leverage the power needed to alter environmentally destructive land‐use practices within the global agricultural system by providing a tool for assessing the environmental impacts of production, thereby informing consumers about the impacts of consumption and incentivizing producers to become more environmentally responsible.     

Footprints of ancient‐balanced polymorphisms in genetic variation data from closely related species

When long‐lasting, balancing selection can lead to “trans‐species” polymorphisms that are shared by two or more species identical by descent. In such cases, the gene genealogy at the selected site clusters by allele instead of by species, and nearby neutral sites also have unusual genealogies because of linkage. While this scenario is expected to leave discernible footprints in genetic variation data, the specific patterns remain poorly characterized. Motivated by recent findings in primates, we focus on the case of a biallelic polymorphism under ancient balancing selection and derive approximations for summaries of the polymorphism data from two species. Specifically, we characterize the length of the segment that carries most of the footprints, the expected number of shared neutral single nucleotide polymorphisms (SNPs), and the patterns of allelic associations among them. We confirm the accuracy of our approximations by coalescent simulations. We further show that for humans and chimpanzees—more generally, for pairs of species with low genetic diversity levels—these patterns are highly unlikely to be generated by neutral recurrent mutations. We discuss the implications for the design and interpretation of genome scans for ancient balanced polymorphisms in primates and other taxa.     

Dinosaur footprints from the Sao Khua Formation (Early Cretaceous) of Phu Kao National Park,Northeast Thailand

The first documented dinosaur footprints from Southeast Asia were theropod footprints found in Thailand at Phu Luang Wildlife Sanctuary. Since then, Mesozoic vertebrate footprints have been discovered in twelve different localities in Thailand. In 2000, dinosaur footprints were found in Phu Kao National Park in Northeastern Thailand, however, they have never been studied in detail. The following study presents the first map, the complete measurements, the geology, and stratigraphy of the site and surrounding area. The study discusses the nature of the trackmaker and the digitigrade character of the footprints. This discovery represents the first documented occurrence of dinosaur footprints inside the Early Cretaceous Sao Khua Formation from Thailand.