Long-term consequences of mechanical fuel management for the conservation of Mediterranean forest herb communities

Mechanical clearing of understory vegetation is increasingly used in Euro-Mediterranean forests to reduce fire hazard, yet its long-term consequences for biodiversity remain poorly understood. This study analysed the influence of time since understory management and management frequency, on herbaceous species richness, cover and composition, functional richness and composition, and richness and cover within functional groups (life and growth forms, dispersal strategy, clonality, and plant height), using a chronosequence of cork oak (Quercus suber) stands spanning about 70 years. Overall species richness was virtually constant over time, but the richness of species with annual life form and plasticity in height was much higher in recently and recurrently treated stands; the opposite was found for perennial (mainly hemicryptophytes and chamaephytes), tussock-forming and clonal species richness, and functional richness. Overall herbaceous cover and that of annual, semi-basal, non-clonal and plastic species (in height) were favoured by recent and recurrent fuel treatments; cover by perennial (hemicryptophytes and chamaephytes), short basal, tussock-forming, and clonal species tended to increase for >10–20 years after management, and declined with management frequency. There was a marked shift in species and functional composition associated with time since understory management and management frequency. These findings suggest that widespread fuel management at <10 year intervals may shift understory herb communities to early-successional stages, impairing the persistence of species and functional groups recovering slowly after disturbance. Fuel management needs to balance the dual goals of fire hazard reduction and biodiversity conservation, retaining undisturbed patches in landscapes otherwise managed to reduce fuel accumulation.     

Genetic monitoring as a promising tool for conservation and management

In response to ever-increasing anthropogenic changes to natural ecosystems, regional, national and international organizations have established guidelines for monitoring biological diversity. Most monitoring programs, however, do not take full advantage of the potential afforded by molecular genetic markers, which can provide information relevant to both ecological and evolutionary time frames, while costing less and being more sensitive and reliable than traditional monitoring approaches. As several molecular and computational approaches are relatively new, many technical and theoretical issues remain to be resolved. Here, we illustrate how DNA and population genetic data can provide valuable information, often unattainable via other approaches, for monitoring species of management, conservation and ecological interest.     

The terrestrial arthropods of Mauritius: a neglected conservation target

Entomology in Mauritius has historically been linked with the agricultural and medical fields but concern should now be directed towards the conservation of native forest insects given that they are key components of the local ecosystem. Despite its young age, small size and remoteness, the island has a well-developed native insect fauna with a high proportion of endemic species. A majority of the insect orders are represented on the island. We document the current state of knowledge for Mauritian arthropods, with particular focus on the Coleoptera. This is the most diverse order locally with 1,032 species. In addition, it is the best catalogued historically, providing a framework for future conservation studies to evaluate the current status of this group. We explore the current threats facing the native insect fauna and highlight the needs for concern on this vital component of local biodiversity. We recognize that the initial step for conserving the native insects will depend largely on the establishment of a local taxonomic knowledge base with international expert input.     

Genetic connectivity among osprey populations and consequences for conservation: philopatry versus dispersal as key factors

Genetic variability and population structure in osprey were studied using DNA microsatellite markers. Special emphasis was placed on the subspecies living in the Afro-Palearctic (Pandion haliaetus haliaetus). For comparative purposes, American osprey subspecies (P. h. carolinensis, P. h. ridgway) and Indo/Australian subspecies (P. h. cristatus) were included in this analysis. Twenty DNA microsatellite loci were analysed across a total of 200 individuals. Cluster analysis of genetic distances generally grouped populations of osprey in accordance with their subspecific designation and with previous results from mtDNA analysis. Ospreys from America and Australia were clearly separated from P. h. haliaetus suggesting a more ancient isolation which prevented recent gene flow across these groups. Within P. h. haliaetus, significant genetic differentiation was found between populations in northern and southern Europe, suggesting that the Afro-Palearctic group is structured into two interconnected entities (Mediterranean and continental Europe). Population structuring was supported by an assignment test and by analysis of allele-sharing among individuals. At the Mediterranean scale, no significant differences of allelic information were found between populations. Behaviours such as dispersal, migration and philopatry seem to have played simultaneously and in contrary directions in shaping the genetic structure and diversity of populations. Our results provide essential information for reconstructing gene flow and genetic variability among osprey populations at different scales, which call for caution in the proactive management and conservation of the species, namely in the Mediterranean area.     

Genetic evidence of extra-pair paternity and intraspecific brood parasitism in the monk parakeet

Introduction

The monk parakeet (Myiopsitta monachus) is a widespread invasive species native to southern South America that has become established in many regions of the world. Monk parakeets breed in a large, fully enclosed structure built from twigs, which consist of one to many individual brooding chambers. The species has been considered to be socially and genetically monogamous. However, genetic relatedness of adults to juveniles in the native area was found to be lower than expected for monogamy. To assess the significance of this discrepancy, we examined individual and population genetic patterns of microsatellite loci at two sites in Córdoba province, Argentina.

Results

We sampled 154 nestlings and 42 adults in Córdoba, Argentina. Mean value of pairwise relatedness of nestlings within chambers was about 0.40. Contrarily, relatedness of nestlings between chambers was close to zero. We found a considerable degree of variation in nestling pairwise relatedness and parentage within chambers, including chambers with combinations of unrelated, half-sib, and full-sib nestlings. The proportion of sibling relatedness indicated monogamy in 47% and extra pair-paternity in 40% of the chambers. We also found intra-brood parasitism in 3% of the chambers.

Conclusions

Our results indicate that the monk parakeet is sexually polygamous in its native range in Argentina, which is consistent with the observed mean value of relatedness of adults to juveniles of about 0.4. We also confirm the existence of intra-brood parasitism. High density of monk parakeets may favor occurrence of extra-pair paternity and intra-brood parasitism in the native sites.

     

Characterization of Mauritius parakeet (Psittacula eques) microsatellite loci and their cross-utility in other parrots (Psittacidae, Aves)

We characterized 21 polymorphic microsatellite loci in the endangered Mauritius parakeet (Psittacula eques). Loci were isolated from a Mauritius parakeet genomic library that had been enriched separately for eight different repeat motifs. Loci were characterized in up to 43 putatively unrelated Mauritius parakeets from a single population inhabiting the Black River Gorges National Park, Mauritius. Each locus displayed between three and nine alleles, with the observed heterozygosity ranging between 0.39 and 0.96. All loci were tested in 10 other parrot species. Despite testing few individuals, between seven and 21 loci were polymorphic in each of seven species tested.     

Genetic diversity and the genetic structure of natural populations of Chamaecyparis obtusa: implications for management and conservation

We investigated 25 natural populations of Chamaecyparis obtusa using 51 cleaved amplified polymorphic sequence (CAPS) markers, which were developed using information on sequence-tagged sites (STS) in Cryptomeria japonica. Most CAPS markers have codominant expression patterns, and are suitable for population studies because of their robustness and convenience. We estimated various genetic diversity parameters, including average heterozygosity (H(e)) and allelic richness and found that the more peripheral populations tended to have lower genetic diversity than central populations, in agreement with a previous theoretical study. The overall genetic differentiation between populations was low, but statistically significant (G(ST)=0.039), and similar to the level reported in a previous allozyme study. We attempted to detect non-neutral loci associated with local adaptation to clarify the relationship between the fixation index (F(ST)) and H(e) values for each locus and found seven candidates non-neutral loci. Phylogenetic tree analysis of the populations and Bayesian clustering analysis revealed a pattern of gradually increasing isolation of populations with increasing geographical distance. Three populations had a high degree of linkage disequilibrium, which we attribute to severe bottlenecks due to human disturbance or competition with other species during their migration from refugia after the most recent glaciation. We concluded that the small populations in western Japan and in Kanto district are more important, from a conservation perspective, than the populations in central Japan, due to their genetic divergence, relatively small sizes and restricted areas.     

Genetic consequences of climate change for northern plants

Climate change will lead to loss of range for many species, and thus to loss of genetic diversity crucial for their long-term persistence. We analysed range-wide genetic diversity (amplified fragment length polymorphisms) in 9581 samples from 1200 populations of 27 northern plant species, to assess genetic consequences of range reduction and potential association with species traits. We used species distribution modelling (SDM, eight techniques, two global circulation models and two emission scenarios) to predict loss of range and genetic diversity by 2080. Loss of genetic diversity varied considerably among species, and this variation could be explained by dispersal adaptation (up to 57%) and by genetic differentiation among populations (F(ST); up to 61%). Herbs lacking adaptations for long-distance dispersal were estimated to lose genetic diversity at higher rate than dwarf shrubs adapted to long-distance dispersal. The expected range reduction in these 27 northern species was larger than reported for temperate plants, and all were predicted to lose genetic diversity according to at least one scenario. SDM combined with F(ST) estimates and/or with species trait information thus allows the prediction of species' vulnerability to climate change, aiding rational prioritization of conservation efforts.     

Ecological consequences of tidal management for the salt-marsh vegetation

Presently a storm-surge barrier is under construction in the mouth of the Oosterschelde. After its completion tidal conditions in the estuary can be controlled. In order to indicate the limiting conditions for conceivable uses of the storm-surge barrier a number of the most prominent salt-marsh species were tested in their various life stages against immersion times of 2, 4 and 8 days.Most of the species were able to withstand an extended immersion fairly well, although some of them showed reduced growth during-and after immersion. No evident relation was found between the position of the species on the salt-marsh ecotone and their inundation tolerance. Only one taxon from the upper marsh, Festuca rubra ssp. litoralis, showed a total die-back after an 8 day summer inundation. Most of the species involved showed a decreasing immersion tolerance with increasing water temperatures. Limonium vulgare and Juncus gerardii, however, exhibited a significant growth increase after extended immersion, even at a temperature of the inundation water of 36°C.In contrast herewith flowers and flower buds started to decay after as little as a 2 day immersion. For Aster tripolium prolonged immersion reduced seed weight and germination capacity of the seeds. Germination and seed weight of Salicornia dolichostachya were not affected by prolonged immersion.It is concluded that prolonged summer inundations will cause an overall negative effect on the salt-marsh vegetation.Nomenclature follows Tutin et al., (1964–1980).Communication nr 295 of the Delta Institute for Hydrobiological ResearchThanks are due to Mrs. M. A. Vink, Miss M. Bouts and Miss H. Geltink for their assistance. The study was funded by the Ministry of Transport and Public Works, Rijkswaterstaat Delta Department, Environmental Division (project VEGIN).     

Trade and legislation: consequences for the conservation of lichens in the Nepal Himalaya

Lichen harvest and trade are closely associated with the livelihood of most of the rural people in Western Nepal. The present study investigates the commercial collection of lichens, quantifies the traded volume and relates it to a market scenario, and discusses conservation measures in relation to established legal practices in Nepal. Data on lichen trade and revenue generated for the 12 years (2000–2011) were collected and analyzed from 74 districts of Nepal. Voucher specimens were deposited at TUCH (Tribhuvan University Central Herbarium) in Nepal. The lichens collected in West Nepal are mainly used in international trade, while those in East Nepal are used locally for food. A total of 20 commercially important species of lichens were identified from five trade centers and one local market. During 2000–2011, Nepal legally exported 2020 tons of lichens and collected NRs 25,293,305 (USD 240,000). The average annual quantity of turnover was 168 tons, though it is estimated that much was exported illegally. The hill districts in Nepal, which traded 1774 tons, were more important for the collection of commercial lichen species than the Mountainous and inner-Tarai districts, which traded 167 and 108 tons, respectively. Through the Forest Act, Forest Regulations and its amendment in 2011, the collection of lichens for harvest, trade and export in any crude or processed form was banned. However, the legislation lacks an effective implementation strategy, and sustainable harvest of lichen resources based on scientific data would better serve local livelihood and lichen conservation in Nepal.     

Cryptic bumblebee species: consequences for conservation and the trade in greenhouse pollinators

Commercial greenhouse growers in both Japan and China are increasingly using reared orange-tailed bumblebees known previously as Bombus hypocrita Pérez as pollinators. Phylogenetic analysis of the DNA (COI) barcodes with Bayesian methods shows that this "species" is a long-standing confusion of two cryptic species. We find that the orange-tailed bumblebees in North China are actually part of the widespread Russian (otherwise white-tailed) B. patagiatus Nylander (as B. patagiatus ganjsuensis Skorikov, n. comb.), whereas the orange-tailed bees in Japan are true B. hypocrita. This situation has been further complicated because two other cryptic species from North China that were previously confused with the Russian B. patagiatus are now recognised as separate: B. lantschouensis Vogt n. stat. and B. minshanensis Bischoff n. stat.. As demand for pollination services by greenhouse growers inevitably increases, these bees are more likely to be transported between countries. In order to conserve genetic resources of pollinator species for their option value for future food security, we advocate preventing trade and movement of B. patagiatus from China into Japan and of B. hypocrita from Japan into China.     

Genetic management of the red squirrel,Sciurus vulgaris: a practical approach to regional conservation

The progressive decline in red squirrel (Sciurus vulgaris) numbers in Wales has led to conservation and reintroduction projects being established on the island of Anglesey. The recovery of the island’s remnant wild population was initially successful, however concern remained over potential loss of genetic diversity resulting from an observed demographic bottleneck. We used mitochondrial DNA (mtDNA) control region sequences and six microsatellite loci to assess current levels of genetic variation in the population. Samples were monomorphic for control region sequences and a historic specimen from the same area carrying a different haplotype demonstrated a loss of mtDNA diversity during the last 20 years. Inclusion of other Welsh haplotypes indicated phylogeographic structure in the region, in contrast to previous UK studies. Genotyping results showed allelic diversity and heterozygosity to be less than 50% of that recorded in other UK populations, with strong evidence for a recent genetic bottleneck. A parallel reintroduction programme on Anglesey included genetic analysis of individuals during the selection of captive breeding pairs. We present analysis of sequence and microsatellite data, and subsequent management decisions taken to maximise diversity in the founder and F1 generations. Population and Habitat Viability Analysis applied to both populations modelled future levels of heterozygosity and allelic diversity. Supplementation of the remnant and reintroduced populations with translocated squirrels was simulated as a potential management tool; results support use of this strategy to reduce loss of diversity and increase survival. The limitations of applying conservation genetic theory within small-scale management projects are discussed.     

Amplitude modulation thresholds for the parakeet (Melopsittacus undulatus)

Summary Parakeets were tested for the ability to detect sinusoidal amplitude modulation of broad band noise. Instrumental avoidance conditioning and a psychophysical modified method of limits procedure were used to measure the threshold for detecting amplitude modulation at 10 modulation frequencies between 2 and 2,048 Hz. Below about 40 Hz, modulation threshold is independent of modulation rate and noise level. Above 40 Hz, modulation threshold decreases with modulation frequency at the rate of 3 dB/ octave. These results are somewhat different from amplitude modulation functions in humans suggesting different degrees of temporal resolving power in birds and humans. Thresholds for changes in modulation rate are 1–2 orders of magnitude higher than pure tone frequency difference limens.We thank Frank Cusimano, Ann Huessener, Susan Peters, Roberta Pickert, Bill Searcy, Ken Yasukawa and Tim DeVoogd for participating as subjects, and Dick Fay for providing critical comments. This research was supported by grant No. PHS MH31165 from the National Institute of Mental Health to the first author.     

The consequences of polyandry for population viability,extinction risk and conservation

Polyandry, by elevating sexual conflict and selecting for reduced male care relative to monandry, may exacerbate the cost of sex and thereby seriously impact population fitness. On the other hand, polyandry has a number of possible population-level benefits over monandry, such as increased sexual selection leading to faster adaptation and a reduced mutation load. Here, we review existing information on how female fitness evolves under polyandry and how this influences population dynamics. In balance, it is far from clear whether polyandry has a net positive or negative effect on female fitness, but we also stress that its effects on individuals may not have visible demographic consequences. In populations that produce many more offspring than can possibly survive and breed, offspring gained or lost as a result of polyandry may not affect population size. Such ecological ‘masking’ of changes in population fitness could hide a response that only manifests under adverse environmental conditions (e.g. anthropogenic change). Surprisingly few studies have attempted to link mating system variation to population dynamics, and in general we urge researchers to consider the ecological consequences of evolutionary processes.     

Genetic substructure in cynomolgus macaques (Macaca fascicularis) on the island of Mauritius

Background

Nonhuman primates are commonly used in biomedical research as animal models of human disease and behavior. Compared to common rodent models, nonhuman primates are genetically, physiologically, behaviorally and neurologically more similar to humans owing to more recent shared ancestry and therefore provide the advantage of greater translational validity in preclinical studies. The cynomolgus macaque (Macaca fascicularis) is one of the most commonly used nonhuman primates in academic and industry settings, yet population genetic research has revealed significant substructure throughout the species distribution that may confound studies. Cynomolgus monkeys introduced to Mauritius specifically have previously been thought to maintain the least genetic heterogeneity of all cynomolgus monkeys, although recent work, including work from our lab, suggests macaques from Mauritius too may harbor cryptic substructure.

Results

To evaluate putative substructure in Mauritian cynomolgus macaques, we designed a panel of 96 single nucleotide polymorphisms based on preliminary findings from previous work to screen 246 of cynomolgus monkeys from two primary suppliers. Results from this study support substructure in Mauritian macaques and suggest a minimum of two populations and maybe three on Mauritius, with moderate admixture.

Conclusion

These findings inform the natural history of these monkeys suggesting either a previously unrecognized physical or ecological barrier to gene flow on Mauritius and/or the breakdown of historic substructure resulting from the history of macaque introduction to the island. These findings are relevant to ongoing research using these models in part because of increased appreciation of segregating common variation with functional effects and may be used to better inform animal selection in preclinical research.

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2164-15-748) contains supplementary material, which is available to authorized users.