Aim Advancement in ecological methods predicting species distributions is a crucial precondition for deriving sound management actions. Maximum entropy (MaxEnt) models are a popular tool to predict species distributions, as they are considered able to cope well with sparse, irregularly sampled data and minor location errors. Although a fundamental assumption of MaxEnt is that the entire area of interest has been systematically sampled, in practice, MaxEnt models are usually built from occurrence records that are spatially biased towards better‐surveyed areas. Two common, yet not compared, strategies to cope with uneven sampling effort are spatial filtering of occurrence data and background manipulation using environmental data with the same spatial bias as occurrence data. We tested these strategies using simulated data and a recently collated dataset on Malay civet Viverra tangalunga in Borneo. Location Borneo, Southeast Asia. Methods We collated 504 occurrence records of Malay civets from Borneo of which 291 records were from 2001 to 2011 and used them in the MaxEnt analysis (baseline scenario) together with 25 environmental input variables. We simulated datasets for two virtual species (similar to a range‐restricted highland and a lowland species) using the same number of records for model building. As occurrence records were biased towards north‐eastern Borneo, we investigated the efficacy of spatial filtering versus background manipulation to reduce overprediction or underprediction in specific areas. Results Spatial filtering minimized omission errors (false negatives) and commission errors (false positives). We recommend that when sample size is insufficient to allow spatial filtering, manipulation of the background dataset is preferable to not correcting for sampling bias, although predictions were comparatively weak and commission errors increased. Main Conclusions We conclude that a substantial improvement in the quality of model predictions can be achieved if uneven sampling effort is taken into account, thereby improving the efficacy of species conservation planning.

Biological responses to climate change have been widely documented across taxa and regions, but it remains unclear whether species are maintaining a good match between phenotype and environment, i.e. whether observed trait changes are adaptive. Here we reviewed 10,090 abstracts and extracted data from 71 studies reported in 58 relevant publications, to assess quantitatively whether phenotypic trait changes associated with climate change are adaptive in animals. A meta-analysis focussing on birds, the taxon best represented in our dataset, suggests that global warming has not systematically affected morphological traits, but has advanced phenological traits. We demonstrate that these advances are adaptive for some species, but imperfect as evidenced by the observed consistent selection for earlier timing. Application of a theoretical model indicates that the evolutionary load imposed by incomplete adaptive responses to ongoing climate change may already be threatening the persistence of species.

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Summary1. Camera trapping is a widely applied method to study mammalian biodiversity and is still gaining popularity. It can quickly generate large amounts of data which need to be managed in an efficient and transparent way that links data acquisition with analytical tools. 2. We describe the free and open-source R package camtrapR, a new toolbox for flexible and efficient management of data generated in camera trap-based wildlife studies. The package implements a complete workflow for processing camera trapping data. It assists in image organization, species and individual identification, data extraction from images, tabulation and visualization of results and export of data for subsequent analyses. There is no limitation to the number of images stored in this data management system; the system is portable and compatible across operating systems. 3. The functions provide extensive automation to minimize data entry mistakes and, apart from species and individual identification, require minimal manual user input. Species and individual identification are performed outside the R environment, either via tags assigned in dedicated image management software or by moving images into species directories. 4. Input for occupancy and (spatial) capture-recapture analyses for density and abundance estimation, for example in the R packages unmarked or secr, is computed in a flexible and reproducible manner. In addition, survey summary reports can be generated, spatial distributions of records can be plotted and exported to GIS software, and single-and two-species activity patterns can be visualized. 5. camtrapR allows for streamlined and flexible camera trap data management and should be most useful to researchers and practitioners who regularly handle large amounts of camera trapping data.

Preface 54There is much interest in using Earth Observation (EO) technology to track biodiversity, 55 ecosystem functions, and ecosystem services, understandable given the fast pace of 56 biodiversity loss. However, because most biodiversity is invisible to EO, EO-based 57 indicators could be misleading, which can reduce the effectiveness of nature 58 conservation and even unintentionally decrease conservation effort. We describe an 59 approach that combines automated recording devices, high-throughput DNA Meeting the Aichi Biodiversity Targets 64From Google Earth to airborne sensors, the Copernicus Sentinels, and cube satellites, 65Earth Observation is undergoing a rapid expansion in capacity, accessibility, resolution, 66and signal-to-noise ratio, resulting in a recognised shift in our capability for using 67 remote-sensing technologies to monitor biophysical processes on land and water [1][2][3] . 68These advances are motivating calls to use Earth Observation products to manage our 69 natural environment and to track progress toward global and national policy targets on 70 biodiversity and ecosystem services [4][5][6] . Foremost among these policies are the Strategic 71Plan for Biodiversity and the Aichi Biodiversity Targets, which were adopted in 2010 by products (net primary productivity and fire incidence) that could serve as Essential 108Biodiversity Variables for the Sahara, despite this biome's suitability for remote sensing 109 due to its visible biodiversity hotspots, remoteness, and availability of long time series. 110Many of the Aichi Targets require data with species-level resolution, either because some 111 species are direct policy targets (e.g. Target 9: "invasive species controlled or eradicated") 112 or because species compositional data define the metric (e.g. Target 11: "protected areas 113 are ecologically representative and conserved effectively"). species, but information could be 'borrowed' from data-rich species to increase the 294 precision of predictions for rare species. These procedures were able to compensate for 295 the fact that only 134 total bird species had been detected in the survey, which is less The GDM was parameterised with a training dataset of 2280 surveys and fourteen 303 environmental variables and explained 57% of the variation in beta diversity. In addition, for linking pure-EO data to biodiversity. 382The major remaining components of uncertainty relate to generalisability, because only a 383 single FSC-certified reserve was sampled; the applicability of results to arboreal species, 384 which tend to be detected more frequently in forests with disturbed canopy but are not 385 necessarily more widespread in these forests; and wide confidence intervals around 386 parameter estimates for some species as a consequence of sparse data and a fairly 394Another example of the CEOBE approach is the use of Generalised Dissimilarity 395Modelling to connect EO-derived metrics of habitat degradation and fragmentation 89,90 396 to over 300 million records of more ...

Invertebrate-derived DNA (iDNA) from terrestrial haematophagous leeches has recently been proposed as a powerful non-invasive tool with which to detect vertebrate species and thus to survey their populations. However, to date little attention has been given to whether and how this, or indeed any other iDNA-derived data, can be combined with state-of-the-art analytical tools to estimate wildlife abundances, population dynamics and distributions. In this review, we discuss the challenges that face the application of existing analytical methods such as site-occupancy and spatial capture-recapture (SCR) models to terrestrial leech iDNA, in particular, possible violations of key assumptions arising from factors intrinsic to invertebrate parasite biology. Specifically, we review the advantages and disadvantages of terrestrial leeches as a source of iDNA and summarize the utility of leeches for presence, occupancy, and spatial capture-recapture models. The main source of uncertainty that attends species detections derived from leech gut contents is attributable to uncertainty about the spatio-temporal sampling frame, since leeches retain host-blood for months and can move after feeding. Subsequently, we briefly address how the analytical challenges associated with leeches may apply to other sources of iDNA. Our review highlights that despite the considerable potential of leech (and indeed any) iDNA as a new survey tool, further pilot studies are needed to assess how analytical methods can overcome or not the potential biases and assumption violations of the new field of iDNA. Specifically we argue that studies to compare iDNA sampling with standard survey methods such as camera trapping, and those to improve our knowledge on leech (and other invertebrate parasite) physiology, taxonomy, and ecology will be of immense future value.

Aim Using molecular data and dental features, we investigated the genetic and morphological diversity among species of palm civets in the genus Paradoxurus, with a focus on the common palm civet, Paradoxurus hermaphroditus (Carnivora, Viverridae), in order to address biogeographic scenarios and provide recommendations for a taxonomic revision.Location Asia: Pakistan to the Lesser Sunda Islands.Methods We investigated the genetic diversity within Paradoxurus using two mitochondrial (cytochrome b, control region) and one nuclear (intron 7 of the b-fibrinogen) markers. We used samples from 85 individuals of P. hermaphroditus (including 20 museum specimens) and one representative of each of the other species in the genus Paradoxurus: Paradoxurus jerdoni and Paradoxurus zeylonensis. DNA sequences were analysed using phylogenetic and haplotype network methods, and divergence dates were estimated for the clades retrieved. Furthermore, we examined dental characters from a large series of specimens and compared the morphological variation with the molecular data. ResultsOur phylogenetic analyses revealed that P. hermaphroditus is paraphyletic. We identified three major lineages distributed: (1) in the Indian subcontinent, south China, Hainan and in areas above 200 m in Indochina; (2) in Peninsular Malaysia, Java, Sumatra and in areas below 200 m in Indochina; and (3) in Borneo, the Philippines and the Mentawai archipelago. Our morphological observations were congruent with these three molecular lineages. Divergence date estimates inferred a Pliocene origin for Paradoxurus (2.8-5.7 Ma), with the three main clades diversifying from the mid-Early Pliocene to the end of the Pliocene. We suggest that the flooding of the Isthmus of Kra during the Pliocene was a major event shaping the diversification of Paradoxurus palm civets. We also hypothesize that the elevational segregation of the two lineages on the mainland could have resulted from the vegetational changes that were induced by Late Pliocene glacial episodes.Main conclusions The Isthmus of Kra is a major boundary between two major lineages of P. hermaphroditus. There is a need for a taxonomic revision for P. hermaphroditus, and we suggest that this species should be split into at least three species.

Radical revision of tiger taxonomy for a pragmatic and scientifically sound approach to tiger conservation management.