Alice C. Hughes

Habitat fragmentation and biodiversity conservation: key findings and future challenges

Habitat loss and fragmentation has long been considered the primary cause for biodiversity loss and ecosystem degradation worldwide, and is a key research topic in landscape ecology (Wu 2013). Habitat fragmentation often refers to the reduction of continuous tracts of habitat to smaller, spatially distinct remnant patches, and habitat loss typically occurs concurrently with habitat fragmentation (Collinge 2009). Although some habitats are naturally patchy in terms of abiotic and biotic conditions (Wu and Loucks 1995), human actions have profoundly fragmented landscapes across the word (Haddad et al. 2015), altering the quality and connectivity of habitats. Therefore, understanding the causes and consequences of habitat fragmentation is critical to preserving biodiversity and ecosystem functioning. From May 4th to 10th, 2015, an International Workshop on Habitat Fragmentation and Biodiversity Conservation, held at the Thousand Island Lake, Zhejiang, China, discussed threats to biodiversity in fragmented landscapes and how fragmentation research can identify and help mitigate these threats. To meet these challenges, the Workshop had three goals. The first was to synthesize key findings in fragmentation science. Second was to identify important remaining research questions concerning the relationships between habitat fragmentation, biodiversity, and ecosystem functioning at local, regional, and global scales. Finally, we examined the unique roles of field-based fragmentation experiments in addressing these questions. The Workshop’s findings are relevant to the broader ecological community, and we present them here to stimulate research that will advance landscape ecology and conservation biology.

The utility of DNA metabarcoding for studying the response of arthropod diversity and composition to land-use change in the tropics

Metabarcoding potentially offers a rapid and cheap method of monitoring biodiversity, but real-world applications are few. We investigated its utility in studying patterns of litter arthropod diversity and composition in the tropics. We collected litter arthropods from 35 matched forest-plantation sites across Xishuangbanna, southwestern China. A new primer combination and the MiSeq platform were used to amplify and sequence a wide variety of litter arthropods using simulated and real-world communities. Quality filtered reads were clustered into 3,624 MOTUs at ≥97% similarity and the taxonomy of each MOTU was predicted. We compared diversity and compositional differences between forests and plantations (rubber and tea) for all MOTUs and for eight arthropod groups. We obtained ~100% detection rate after in silico sequencing six mock communities with known arthropod composition. Ordination showed that rubber, tea and forest communities formed distinct clusters. α-diversity declined significantly between forests and adjacent plantations for more arthropod groups in rubber than tea, and diversity of order Orthoptera increased significantly in tea. Turnover was higher in forests than plantations, but patterns differed among groups. Metabarcoding is useful for quantifying diversity patterns of arthropods under different land-uses and the MiSeq platform is effective for arthropod metabarcoding in the tropics.

Echolocation call analysis and presence-only modelling as conservation monitoring tools for rhinolophoid bats in Thailand

Bats are an important component of biodiversity in Southeast Asia, and are key indicators of habitat quality. Acoustic analysis of echolocation calls not only allows the identification of bat species that are difficult to capture, but also allows for rapid and standardised ways to survey and monitor bats over large areas. However keys based on call parameters must also account for geographic variation in call parameters, and consider any effects of morphology and sex on call frequency. Presence-only modelling can predict likely geographic locations of specific taxa, and can used to refine decision making so that species unlikely to occur in a specific region can be omitted from more localised acoustic libraries. Here we develop an acoustic library for the echolocation calls of rhinolophoid bats in Thailand, and use presence-only modelling (Maxent) to explore how species with similar calls in a library developed at the national level can sometimes be largely allopatric, and hence identifiable, once geographic range is predicted. Presence-only modelling can also be used to explore whether species with similar calls adjust call frequency in likely areas of sympatry. We analysed calls from fourteen species of rhinolophid and twelve hipposiderid species from Thailand. Calls from a further three rhinolophid and one hipposiderid species are also described but not analysed statistically because of small sample sizes. Even without considering geographic variation, 69% of rhinolophid (14 species with a minimum of five individuals/ species) and 91% of hipposiderid calls (12 species) could be classified successfully to species using two call parameters (frequency of most energy (FMAXE) and duration) in a discriminant function analysis. Most of the discrimination was achieved because species often utilised different frequency bands. Morphology can also affect call frequency both across and within species. In both rhinolophids and hipposiderid families there was a negative relationship between FMAXE and forearm length. Within species, FMAXE was negatively related to forearm length in Rhinolophus microglobosus, R. pusillus and R. thomasi, and positively related to forearm length in R. affinis and R. pearsonii. Male R. pusillus called at higher frequencies than females, although there was no sexual size dimorphism in forearm length. Call frequency was negatively related to relative humidity in R. pusillus, suggesting that bats called at lower frequencies in humid environments to counter increases in atmospheric attenuation. Presence-only modelling was used to show that some species with similar call frequencies (e.g., R. lepidus and R. microglobosus; R. yunanensis and R. trifoliatus are predicted to occur largely in allopatry, and so could be identified reliably in particular parts of the country. Presenceonly modeling can assist in predicting areas of overlap between species with similar call frequencies. Other species (e.g., R. malayanus, R. coelophyllus) overlap in frequency when data from all of Thailand are combined, but seem to avoid call overlap when syntopic. Hence acoustic identification can be improved by taking into account local distribution patterns and patterns of species coexistence. The creation of call libraries at a local scale would have extensive potential as a resource to monitor changes in species distributions through time.

Remotely Sensed Data Informs Red List Evaluations and Conservation Priorities in Southeast Asia.

The IUCN Red List has assessed the global distributions of the majority of the world’s amphibians, birds and mammals. Yet these assessments lack explicit reference to widely available, remotely-sensed data that can sensibly inform a species’ risk of extinction. Our first goal is to add additional quantitative data to the existing standardised process that IUCN employs. Secondly, we ask: do our results suggest species of concern—those at considerably greater risk than hitherto appreciated? Thirdly, these assessments are not only important on a species-by-species basis. By combining distributions of species of concern, we map conservation priorities. We ask to what degree these areas are currently protected and how might knowledge from remote sensing modify the priorities? Finally, we develop a quick and simple method to identify and modify the priority setting in a landscape where natural habitats are disappearing rapidly and so where conventional species’ assessments might be too slow to respond. Tropical, mainland Southeast Asia is under exceptional threat, yet relatively poorly known. Here, additional quantitative measures may be particularly helpful. This region contains over 122, 183, and 214 endemic mammals, birds, and amphibians, respectively, of which the IUCN considers 37, 21, and 37 threatened. When corrected for the amount of remaining natural habitats within the known elevation preferences of species, the average sizes of species ranges shrink to <40% of their published ranges. Some 79 mammal, 49 bird, and 184 amphibian ranges are <20,000km2—an area at which IUCN considers most other species to be threatened. Moreover, these species are not better protected by the existing network of protected areas than are species that IUCN accepts as threatened. Simply, there appear to be considerably more species at risk than hitherto appreciated. Furthermore, incorporating remote sensing data showing where habitat loss is prevalent changes the locations of conservation priorities.

Using Echolocation Calls to Identify Thai Bat Species: Vespertilionidae, Emballonuridae, Nycteridae and Megadermatidae

Variation in the acoustic structure of bat echolocation calls can often provide sufficient information for reliable and efficient species identification. The aim of this study was to investigate the use of echolocation call structure to identify a number of bats in the families Vespertilionidae, Emballonuridae, Nycteridae and Megadermatidae from Thailand. These species typically emit echolocation calls with a frequency-modulated (FM) sweep dominating part or all of their calls. A total of 510 echolocation calls from free-flying individuals were recorded throughout Thailand. According to the frequency-time spectra, these calls were categorized into four types: broadband FM (eight species), narrowband FM (seven species), long multiharmonic (four species) and short multiharmonic (three species). Discriminant function analysis was used to classify calls from individual bats to species. Correct classification levels were 85.9% for individuals emitting broadband FM calls (six species with adequate sample sizes), 70.4% for narrowband FM bats (seven species), 84.4% for species emitting long multiharmonic calls (four species) and 96.7% for species emitting short multiharmonic calls (two species with adequate sample sizes). However, classification rates were often low at the species level. Acoustic identification of bats emitting FM calls should be approached with caution in species-rich communities, in contrast with the identification of rhinolophoid bats where many species use distinctive constant frequencies that can facilitate identification, and provides a basis for rapid acoustic surveys of large areas in Thailand, and potentially other parts of Southeast Asia.

Effects of patch size on liana diversity and distributions in the tropical montane evergreen forests of the Nilgiri Mountains, southern India

Weinvestigatetheeffectofpatchsizeonlianadiversityanddistributionin19patchesofmontaneevergreen forest in the Nilgiri hills, Western Ghats, southern India. Additionally, we examined how liana species richness and community assemblage in both edge (within 10 m of the forest edge) and interior regions of forest patches respond to patch size, in order to infer the impact of forest expansion or reduction on the liana communities. A total of 1276 woody liana individuals of 15 species were identified, belonging to 10 genera and nine families. Total species richness of lianas was significantly positively related to forest-patch area, both when analysed for the entire patch, in addition to both core and edge regions when examined separately. Species richness of larger lianas also showed a significant positiverelationshipwithincreasingforestpatcharea.Communityassemblagevariedwithrespecttoforestedge,with shade-dependent species only occurring in interior patch regions, shade-averse species in edge regions, and shade- tolerant species occurring throughout. Disturbance also played a role in determining the response of liana diversity to patch size, with heavily disturbed patches showing no relationship between patch size and diversity, whereas positive relationshipsexistinlowtomoderatelydisturbedpatches.Themostsignificantresultisthechangeinlianacommunity composition between small and larger fragments. Many species present in smaller patches are also present in edge zonesoflargerfragments.Thissuggeststhatlianasareimportantstructuralcomponentsofmontaneforestecosystems, andtheircompositionalpatternsarepossiblydrivenbysuccession.Moreover,thisstudyrevealstheimportanceofedge effect and patch size in influencing liana species richness and compositional patterns.

Bioclimatic transect networks: powerful observatories of ecological change

Abstract Transects that traverse substantial climate gradients are important tools for climate change research and allow questions on the extent to which phenotypic variation associates with climate, the link between climate and species distributions, and variation in sensitivity to climate change among biomes to be addressed. However, the potential limitations of individual transect studies have recently been highlighted. Here, we argue that replicating and networking transects, along with the introduction of experimental treatments, addresses these concerns. Transect networks provide cost‐effective and robust insights into ecological and evolutionary adaptation and improve forecasting of ecosystem change. We draw on the experience and research facilitated by the Australian Transect Network to demonstrate our case, with examples, to clarify how population‐ and community‐level studies can be integrated with observations from multiple transects, manipulative experiments, genomics, and ecological modeling to gain novel insights into how species and systems respond to climate change. This integration can provide a spatiotemporal understanding of past and future climate‐induced changes, which will inform effective management actions for promoting biodiversity resilience.

The next generation of action ecology: novel approaches towards global ecological research

This paper was commissioned by the members of the Ecosphere Editorial Board to commemorate the ESA Centennial celebration.

Collection of voucher specimens for bat research: conservation, ethical implications, reduction, and alternatives

Voucher specimens have played a fundamental role in biology, but ethical and conservation concerns have been raised over unnecessary collection of organisms. From 1996 to 2017, 222 studies mentioned the collection of 7482 bats of 376 species, mostly from South America and Asia (India, China, and South-East Asia). Researchers mostly aimed to compile checklists or establish geographic ranges. Strong ethical reasons exist to avoid unnecessary collection, and suitable alternatives should be sought; for example, collecting voucher specimens for retrospective taxonomic confirmation can be replaced with molecular methods. We provide information on alternative methods and when to use them to avoid harming fragile populations of bats.

Alien plant invasions of protected areas in Java, Indonesia

Alien plants are invading protected areas worldwide, but there is little information from tropical Asia. Java has the longest record of human occupation in Asia and today supports 145 m people. Remnants of natural ecosystems survive in 12 small National Parks surrounded by dense human populations, making them highly vulnerable to invasions. We surveyed eight of these, along a rainfall gradient from lowland rainforest with >3000 mm annual rainfall to savanna with <1500 mm, and a 0–3158 m altitudinal gradient, using 403 10 × 5 m plots along trails. We found 67 invasive alien plant species, of which 33 occurred in only one park and two (Chromolaena odorata and Lantana camara) in all. Historical factors relating to plant introduction appeared to be as important as environmental factors in determining which species occurred in which park, while within parks canopy cover and altitude were generally most influential. Spread away from trails was only evident in open habitats, including natural savannas in Baluran National Park, threatened by invasion of Acacia nilotica. Existing control attempts for invasive aliens are reactive, localized, and intermittent, and insufficient resources are currently available for the early detection, prompt action, and continued monitoring that are needed.