Effects of land-use change on community composition of tropical amphibians and reptiles in Sulawesi, Indonesia

Taxonomic diversity of amphibians (Amphibia, Anura) and reptiles (Reptilia, Testudines, Squamata) in a heterogeneous landscape in west-central Mexico: a checklist and notes on geographical distributions

In Mexico, land use changes have significantly impacted the diversity of amphibians and reptiles in a negative way. In light of this, we evaluate the alpha and beta components of the taxonomic diversity of amphibians and reptiles in a heterogeneous landscape in west-central Mexico. Additionally, we provide a checklist of amphibian and reptile species recorded over nine years of observations within the studied landscape and surrounding areas. The land cover/use types with the highest species richness and alpha taxonomic diversity differed between amphibians and reptiles. Overall beta taxonomic diversity was high for both groups, but slightly higher in reptiles. This taxonomic differentiation mainly corresponded to a difference in the turnover component and was greater in pristine habitats compared to disturbed ones. The checklist records 20 species of amphibians (ten of which are endemic) and 48 of reptiles (30 endemics). Additionally, the study expands the known geographical distribution range of one species of frog and three species of snakes. Our findings suggest that heterogeneous landscapes with diverse land cover/use types can provide essential habitats for the conservation of amphibian and reptile species.

Modelling Red-Crowned Parrot (Psittaciformes: Amazona viridigenalis [Cassin, 1853]) distributions in the Rio Grande Valley of Texas using elevation and vegetation indices and their derivatives

Texas Rio Grande Valley Red-crowned Parrots (Psittaciformes: Amazona viridigenalis [Cassin, 1853]) primarily occupy vegetated urban rather than natural areas. We investigated the utility of raw vegetation indices and their derivatives as well as elevation in modelling the Red-crowned parrot's general use, nest site, and roost site habitat distributions. A feature selection algorithm was employed to create and select an ensemble of fine-scale, top-ranked MaxEnt models from optimally-sized, decorrelated subsets of four to seven of 199 potential variables. Variables were ranked post hoc by frequency of appearance and mean permutation importance in top-ranked models. Our ensemble models accurately predicted the three distributions of interest ([Formula: see text] Area Under the Curve [AUC] = 0.904-0.969). Top-ranked variables for different habitat distribution models included: (a) general use-percent cover of preferred ranges of entropy texture of Normalized Difference Vegetation Index (NDVI) values, entropy and contrast textures of NDVI, and elevation; (b) nest site-entropy textures of NDVI and Green-Blue NDVI, and percent cover of preferred range of entropy texture of NDVI values; (c) roost site-percent cover of preferred ranges of entropy texture of NDVI values, contrast texture of NDVI, and entropy texture of Green-Red Normalized Difference Index. Texas Rio Grande Valley Red-crowned Parrot presence was associated with urban areas with high heterogeneity and randomness in the distribution of vegetation and/or its characteristics (e.g., arrangement, type, structure). Maintaining existing preferred vegetation types and incorporating them into new developments should support the persistence of Red-crowned Parrots in southern Texas.

Pesticides reduce tropical amphibian and reptile diversity in agricultural landscapes in Indonesia

Pesticide use on tropical crops has increased substantially in recent decades, posing a threat to biodiversity and ecosystem services. Amphibians and reptiles are common in tropical agricultural landscapes, but few field studies measure pesticide impacts on these taxa. Here we combine 1-year of correlative data with an experimental field approach from Indonesia. We show that while pesticide application cannot predict amphibian or reptile diversity patterns in cocoa plantations, our experimental exposure to herbicides and insecticides in vegetable gardens eliminated amphibians, whereas reptiles were less impacted by insecticide and not affected by herbicide exposure. The pesticide-driven loss of a common amphibian species known to be a pest-control agent (mainly invertebrate predation) suggests a strong indirect negative effect of pesticides on this service. We recommend landscape-based Integrated Pest Management and additional ecotoxicological studies on amphibians and reptiles to underpin a regulatory framework and to assure recognition and protection of their ecosystem services.

Lightly-harvested rustic cocoa is a valuable land cover for amphibian and reptile conservation in human-modified rainforest landscapes

The conservation of tropical biodiversity depends not only on forest remnants, but also on anthropogenic land covers. Some shade crops are considered wildlife-friendly agroecosystems, but their conservation value is context- and taxon-dependent. Amphibians and reptiles have received less attention despite their high sensitivity to habitat disturbance. We determined the conservation value of lightly-harvested rustic cocoa plantations for herpetofauna in the Lacandona region, Mexico. We compared 12 environmental variables between habitats. Then, we compared the abundance, species number and composition of amphibian and reptile assemblages. Within each habitat, we explored the relationships between environmental variables and abundance and species number. Tree density, litter cover and litter depth were higher in cocoa. Abundance of reptiles and amphibians were higher in cocoa than forest; species number did not differ. Habitat explained some of the variation (8%) in assemblage composition. In cocoa, amphibian abundance was positively related to canopy height and the presence of a humus layer, while reptile abundance was negatively related to relative humidity. We conclude that lightly-used rustic cocoa plantations can be suitable habitat for forest herpetofauna. As long as cocoa plantations do not replace existing forest cover, they can play an important role in the design of wildlife-friendly tropical landscapes.

Tropical forest conversion to rubber plantation in southwest China results in lower fungal beta diversity and reduced network complexity

Despite the extensive, ongoing conversion of tropical forests to rubber plantation, the effects of this land-use change on soil fungal community diversity and composition are still poorly known. We compared a network of sites of tropical forest in southern Yunnan, China, with a network of rubber plantation sites originally derived from this forest. Soil DNA was amplified for ITS2 and sequenced using Illumina MiSeq. We found that there was a major shift in community composition across all phyla, including a large reduction in ectomycorrhizal fungi likely related to the absence of hosts. Conversion from forest to rubber plantation had no effect on total fungal α-diversity, but rubber plantation had lower β-diversity, resulting in lower overall gamma diversity. Networks based on co-occurrence of operational taxonomic unit in each land-use type showed that network complexity decreased with land-use change from forest to rubber plantation. Further investigation of soil functionality is needed to investigate whether this lower network complexity is related to reduced soil ecosystem resilience.

Agricultural land-uses consistently exacerbate infectious disease risks in Southeast Asia

Agriculture has been implicated as a potential driver of human infectious diseases. However, the generality of disease-agriculture relationships has not been systematically assessed, hindering efforts to incorporate human health considerations into land-use and development policies. Here we perform a meta-analysis with 34 eligible studies and show that people who live or work in agricultural land in Southeast Asia are on average 1.74 (CI 1.47-2.07) times as likely to be infected with a pathogen than those unexposed. Effect sizes are greatest for exposure to oil palm, rubber, and non-poultry based livestock farming and for hookworm (OR 2.42, CI 1.56-3.75), malaria (OR 2.00, CI 1.46-2.73), scrub typhus (OR 2.37, CI 1.41-3.96) and spotted fever group diseases (OR 3.91, CI 2.61-5.85). In contrast, no change in infection risk is detected for faecal-oral route diseases. Although responses vary by land-use and disease types, results suggest that agricultural land-uses exacerbate many infectious diseases in Southeast Asia.

Modification of landscape as promoter of change in structure and taxonomic diversity of reptile´s communities: an example in tropical landscape in the central region of Mexico

The degree of species loss was assessed by comparing the structure of communities and species diversity of reptiles from three different environments, one natural (tropical evergreen forest [TEF]) and two modified (shaded coffee plantation [SCP] and grazing area [GA]) from the mid portion of the Sierra Madre Oriental, Mexico. The results showed 29 species, 18 in TEF, 13 in SCP and 12 in GA. According to the abundance of each species, the reptile structure for TEF and SCP was similar and they both differed from GA, while the diversity (effective number of species) was the highest for TEF. The percentage of number of species from TEF accounted for 28% more species than SCP and GA, which indicated a species loss of about 70% in disturbed environments. The values of beta diversity were the highest between TEF and GA, followed by SCP and GA and to a lesser degree between TEF and SCP, which indicates that TEF showed a high number of exclusive species. Our results suggest that carrying out long-term studies that include richness and diversity in environments with different levels of disturbance, in addition to including characteristics of natural history, might enhance the development of more efficient conservation strategies for these species.

Amphibian diversity and threatened species in a severely transformed neotropical region in Mexico

Many regions around the world concentrate a large number of highly endangered species that have very restricted distributions. The mountainous region of central Veracruz, Mexico, is considered a priority area for amphibian conservation because of its high level of endemism and the number of threatened species. The original tropical montane cloud forest in the region has been dramatically reduced and fragmented and is now mainly confined to ravines and hillsides. We evaluated the current situation of amphibian diversity in the cloud forest fragments of this region by analyzing species richness and abundance, comparing assemblage structure and species composition, examining the distribution and abundance of threatened species, and identifying the local and landscape variables associated with the observed amphibian diversity. From June to October 2012 we sampled ten forest fragments, investing 944 person-hours of sampling effort. A total of 895 amphibians belonging to 16 species were recorded. Notable differences in species richness, abundance, and assemblage structure between forest fragments were observed. Species composition between pairs of fragments differed by an average of 53%, with the majority (58%) resulting from species replacement and the rest (42%) explained by differences in species richness. Half of the species detected are under threat of extinction according to the International Union for Conservation of Nature, and although their distribution and abundance varied markedly, there were also ubiquitous and abundant species, along with rare species of restricted distribution. The evident heterogeneity of the ten study sites indicates that to conserve amphibians in a mountainous region such as this one it is necessary to protect groups of fragments which represent the variability of the system. Both individually and together cloud forest fragments are very important to conservation because each remnant is inhabited by several threatened species, some of them at imminent risk of extinction.

Effects of oil palm plantations on anuran diversity in the eastern Amazon

The extent of land use for oil palm plantations has grown considerably in the tropics due to climate, appropriate soil conditions for cultivation and its profitability. However, oil palm plantations may endanger biodiversity through reduction and fragmentation of forest areas. Herein we analyzed the effects on anuran species richness, composition and total abundance in oil palm plantations and surrounding forests in eastern Amazon. We installed seven plots in oil palm plantations and seven plots in surrounding forests, which we surveyed for the presence of anurans through active visual and acoustic surveys during periods of high and low rainfall levels. Anuran assemblages found in forests and oil palm plantations differed in species richness and composition, with a loss of 54% of species in oil palm plantations. No difference was observed in total abundance of anurans between both environments. While conversion of forests to oil palm plantations may result in less negative impacts on anuran diversity than other types of monocultures, such loss is nevertheless high, making the maintenance of relatively greater forested areas around oil palm plantations necessary in order to conserve anuran diversity.

Thresholds of logging intensity to maintain tropical forest biodiversity

Primary tropical forests are lost at an alarming rate, and much of the remaining forest is being degraded by selective logging. Yet, the impacts of logging on biodiversity remain poorly understood, in part due to the seemingly conflicting findings of case studies: about as many studies have reported increases in biodiversity after selective logging as have reported decreases. Consequently, meta-analytical studies that treat selective logging as a uniform land use tend to conclude that logging has negligible effects on biodiversity. However, selectively logged forests might not all be the same. Through a pantropical meta-analysis and using an information-theoretic approach, we compared and tested alternative hypotheses for key predictors of the richness of tropical forest fauna in logged forest. We found that the species richness of invertebrates, amphibians, and mammals decreases as logging intensity increases and that this effect varies with taxonomic group and continental location. In particular, mammals and amphibians would suffer a halving of species richness at logging intensities of 38 m(3) ha(-1) and 63 m(3) ha(-1), respectively. Birds exhibit an opposing trend as their total species richness increases with logging intensity. An analysis of forest bird species, however, suggests that this pattern is largely due to an influx of habitat generalists into heavily logged areas while forest specialist species decline. Our study provides a quantitative analysis of the nuanced responses of species along a gradient of logging intensity, which could help inform evidence-based sustainable logging practices from the perspective of biodiversity conservation.

Ghost of land-use past in the context of current land cover: evidence from salamander communities in streams of Blue Ridge and Piedmont ecoregions

The Blue Ridge and Piedmont of the southeastern United States are rich in biodiversity and have undergone centuries of extensive deforestation and subsequent urbanization resulting in geomorphic landscape changes. To investigate the impacts of past and present land uses on stream salamander communities across both ecoregions, we surveyed streams associated with different land uses at the riparian zone and watershed. Using the USGS land-cover data set (2006) and aerial photographs (1940), we assessed the current and historical percent land cover (urban, agriculture, and forests) at local and landscape scales for each sampling site. Using percent land cover as predictors and diversity indices (species richness, Simpson’s index, and relative abundance) as response variables, we developed a stepwise multiple regression model and a redundancy analysis. Both analyses indicated the negative impacts of historical land uses, particularly row-crop agriculture, on stream salamander diversity and community structure rendering streams unsuitable for all but the most tolerant species. Legacy effects were prominent in the Piedmont where protected areas with agricultural history were species-deprived (70% decline) compared with stream habitats that had sustained a continuous forest cover through time. Our findings suggested that landscape processes resulting in historical forest cover loss may persist over 50 years during forest recovery.

The role of trees in agroecology and sustainable agriculture in the tropics

Shifting agriculture in the tropics has been replaced by sedentary smallholder farming on a few hectares of degraded land. To address low yields and low income both, the soil fertility, the agroecosystem functions, and the source of income can be restored by diversification with nitrogen-fixing trees and the cultivation of indigenous tree species that produce nutritious and marketable products. Biodiversity conservation studies indicate that mature cash crop systems, such as cacao and coffee with shade trees, provide wildlife habitat that supports natural predators, which, in turn, reduce the numbers of herbivores and pathogens. This review offers suggestions on how to examine these agroecological processes in more detail for the most effective rehabilitation of degraded land. Evidence from agroforestry indicates that in this way, productive and environmentally friendly farming systems that provide food and nutritional security, as well as poverty alleviation, can be achieved in harmony with wildlife.

Natural windbreaks sustain bird diversity in a tea-dominated landscape

Windbreaks often form networks of forest habitats that improve connectivity and thus conserve biodiversity, but little is known of such effects in the tropics. We determined bird species richness and community composition in windbreaks composed of remnant native vegetation amongst tea plantations (natural windbreaks), and compared it with the surrounding primary forests. Fifty-one, ten-minute point counts were conducted in each habitat type over three days. Despite the limited sampling period, our bird inventories in both natural windbreaks and primary forests were nearly complete, as indicated by bootstrap true richness estimator. Bird species richness and abundance between primary forests and windbreaks were similar, however a difference in bird community composition was observed. Abundances of important functional groups such as frugivores and insectivores did not vary between habitat types but nectarivores were more abundant in windbreaks, potentially as a result of the use of windbreaks as traveling routes, foraging and nesting sites. This preliminary study suggests that natural windbreaks may be important habitats for the persistence of bird species in a production landscape. However, a better understanding of the required physical and compositional characteristics for windbreaks to sustain bird communities is needed for effective conservation management.

Endemic predators, invasive prey and native diversity

Interactions between native diversity and invasive species can be more complex than is currently understood. Invasive ant species often substantially reduce diversity in the native ants diversity that act as natural control agents for pest insects. In Indonesia (on the island of Sulawesi), the third largest cacao producer worldwide, we show that a predatory endemic toad (Ingerophrynus celebensis) controls invasive ant (Anoplolepis gracilipes) abundance, and positively affects native ant diversity. We call this the invasive-naivety effect (an opposite of enemy release), whereby alien species may not harbour anti-predatory defences against a novel native predator. A positive effect of the toads on native ants may facilitate their predation on insect vectors of cacao diseases. Hence, toads may increase crop yield, but further research is needed on this aspect. Ironically, amphibians are globally the most threatened vertebrate class and are strongly impacted by the conversion of rainforest to cacao plantations in Sulawesi. It is, therefore, crucial to manage cacao plantations to maintain these endemic toads, as they may provide critical ecosystem services, such as invasion resistance and preservation of native insect diversity.