Substantial molecular variation and low genetic structure in Kenya’s black rhinoceros: implications for conservation

Kenya’s black rhinoceros population declined by more than 98% from 20,000 individuals in the 1970s to around 400 individuals in 1990 due to the effects of poaching, at which time the surviving individuals were isolated in a series of demographically inviable subpopulations. An initial management exercise translocated the survivors into four high security sanctuaries to control poaching and enhance breeding, and this measure successfully arrested the decline. Subsequently, new sanctuaries were established and the metapopulation size reached 650 animals by 2008. However, translocations and the current management strategy that partitions the metapopulation into ‘montane’ and ‘lowland’ rhinoceros may have substantial consequences at the population level and their impact on population genetic diversity has not been investigated. In this study, 12 of the 16 extant subpopulations were analysed using 408 bp of mitochondrial control region sequence (n = 170) and nine microsatellite loci (n = 145). Both markers detected moderate to high genetic diversity (h = 0.78 ± 0.027, n = 170; H_O = 0.70 ± 0.087, n = 145) consistent with previous studies on Diceros bicornis michaeli. However, mtDNA and nDNA diversity varied substantially between subpopulations. The results suggest that the Masai Mara is more differentiated, inbred and isolated than other subpopulations. It also suggests that there are neither distinct montane and lowland groups nor other detectable historical barriers to gene flow. Instead the large majority of genetic diversity was partitioned at the level of individuals; highlighting the need to conserve as many individuals as possible. Future translocations should consider the genetic profile of individuals and the demographic history of both the donor and recipient subpopulations.     

Population expansion,current and past gene flow in Gould’s petrel: implications for conservation

Seabird life-history traits such as long generation time, low annual fecundity and delayed sexual maturation make them more prone to population loss and consequently to extinction; petrels are indeed amongst the most threatened birds. Based on coalescence and multiloci inference this study examines the extent of genetic differentiation of a vulnerable New Caledonia (caledonica) and Australia (leucoptera) subspecies of Pterodroma leucoptera (Gould’s Petrel), and whether the genetic relationship between them results from the influence of past events like variation in sea level, or is dominated by contemporary gene flow. Sequences of two mitochondrial genes and five nuclear introns were obtained from 86 individuals from both populations. Haplotype networks were used to infer relationships between the haplotypes of both populations. The demographic history of the P. leucoptera complex was studied using neutrality tests and Extended Bayesian Skyline Plots. A weak population differentiation was revealed. The Extended Bayesian Skyline plot suggested a population expansion approximately 80,000 years before present (bp) for caledonica and 30,000 years bp for leucoptera. The split was dated to 30,000 years bp by means of multilocus inference through *BEAST. Despite genetic similarity of the two taxa, we advocate to consider them as independent units for conservation management, given their strong ecological distinctiveness (foraging distribution, winter distribution, breeding phenology and breeding distribution).     

Buteo Nesting Ecology: Evaluating Nesting of Swainson’s Hawks in the Northern Great Plains

Swainson’s hawks (Buteo swainsoni) are long-distance migratory raptors that nest primarily in isolated trees located in areas of high grassland density. In recent years, anthropogenic conversion of grassland habitat has raised concerns about the status of the breeding population in the northern Great Plains. In 2013, we initiated a study to investigate the influence of extrinsic factors influencing Swainson’s hawk nesting ecology in north-central South Dakota and south-central North Dakota. Using ground and aerial surveys, we located and monitored nesting Swainson’s hawk pairs: 73 in 2013 and 120 in 2014. We documented 98 successful breeding attempts that fledged 163 chicks; 1.52 and 1.72 fledglings per successful nest in 2013 and 2014, respectively. We used Program MARK to evaluate the influence of land cover on nest survival. The top model, S _{Dist2Farm+%Hay}, indicated that nest survival (fledging at least one chick) decreased as nests were located farther from farm sites and as the percent of hay cover increased within 1200-m of the nest site (34.4%; 95% CI = 27.6%–42.3%). We used logistic regression analysis to evaluate the influence of landscape variables on nest-site selection; Swainson’s hawks selected for nest sites located closer to roads. We suggest that tree belts associated with farm sites, whether occupied or not, provide critical breeding sites for Swainson’s hawks. Additionally, poor breeding success may be related to the late migratory behavior of this species which requires them to occupy marginal habitat due to other raptors occupying the most suitable habitat prior to Swainson’s hawks arriving to the breeding grounds.     

Wallace’s Giant Bee for sale: implications for trade regulation and conservation

The recent rediscovery of what is perhaps the most iconic and the world’s largest wild bee species, endemic from just a handful islands in Indonesia, represents a major finding and opens up new avenues for conservation research on this species thought to be extinct. But there is one twist in this otherwise positive insect conservation tale: two female specimens of Megachile pluto collected on Bacan (Indonesia) in February and on Halmahera (Indonesia) in September 2018 (respectively) appeared on an international online auction site, and fetched several thousands of US$ each to private collectors. These online sales marks a new chapter in bee conservation, and will likely present important new policy and scientific challenges to protect this species from extinction. Indeed, while Wallace’s Giant Bee is currently red listed according to the International Union for Conservation of Nature, the international trade of this species is currently not restricted as it does not appear on the appendices of the Convention on International Trade in Endangered Species. Wider implications are discussed to highlight how the case study of Wallace’s Giant Bee also applies to other threatened insect species subject to international trade, and how conservation actions should be developed.     

Low genetic diversity and high genetic differentiation in the critically endangered Omphalogramma souliei （Primulaceae）： implications for its conservation

Omphalogramma souliei Franch. is an endangered perennial herb only distributed in alpine areas of SW China. ISSR markers were applied to determine the genetic variation and genetic structure of 60 individuals of three populations of O. souliei in NW Yunnan, China. The genetic diversity at the species level is low with P=42.5% （percentage of polymorphic bands） and Hsp=0.1762 （total genetic diversity）. However, a high level of genetic differentiation among populations was detected based on different measures （Nei＇s genetic diversity analysis： Gst=0.6038; AMOVA analysis： Fst=0.6797）. Low level of genetic diversity within populations and significant genetic differentiation among populations might be due to the mixed mating system in which xenogamy predominated and autogamy played an assistant role in O. souliei. The genetic drift due to small population size and limited current gene flow also resulted in significant genetic differentiation. The assessment of genetic variation and differentiation of the endangered species provides important information for conservation on a genetic basis. Conservation strategies for this rare endemic species are proposed.     

Genetic diversity,population genetic structure and demographic history of Przewalski’s gazelle (<Emphasis Type="Italic">Procapra przewalskii</Emphasis>): implications for conservation

The Przewalski’s gazelle (Procapra przewalskii) is one of the most endangered antelope species in the world. It is endemic to China and is a flagship species in the eastern part of the Qinghai–Tibet plateau. To establish effective conservation measures on this species, genetic information such as genetic structure is needed. However, there has not been a comprehensive genetic assessment on this gazelle using nuclear DNA markers yet. Here, we employed 13 microsatellite loci to investigate genetic diversity, population genetic structure and demographic history of Przewalski’s gazelle using noninvasive samples of 169 wild gazelles collected from nine populations. A total of 76 alleles were detected from the entire samples, mean allele number was 5.85, and overall H _O and H _E were 0.525 and 0.552, respectively. Structure and GENELAND analyses found six genetic groups in the nine populations. Between the inferred genetic groups, significant genetic differentiation and low migration rates were detected. Demographic analyses indicated that Przewalski’s gazelle experienced genetic bottleneck and severe population decline, with the ancestral effective population size reducing to less than one percent. Based on the results of this study, we provide several conservation recommendations for Przewalski’s gazelle, such as six management units, periodic monitoring and special conservation consideration on the Qiejitan population.     

Genetic diversity and population structure of Eugenia dysenterica DC. (``cagaiteira' – Myrtaceae) in Central Brazil: Spatial analysis and implications for conservation and management

Studies about the organization of the genetic variability and population structure in natural plant populations are used to support conservation and management programs. Among the Cerrado fruit tree species that possess potential economic importance in agriculture, the “Cagaiteira” (Eugenia dysenterica DC. – Myrtaceae), deserves an special position. We obtained information about allele and genotypic frequencies in 10 local populations, situated up to 250 km apart, from six isozymes that furnished a total of 8 loci. The average within-population fixation index (f) was 0.337, and the out crossing rate was 0.835, suggesting a mixed mating system for this species, which seems to be preferably alogamous. Based on genetic diversity and analysis of variance techniques, a high degree of population differentiation (θ_P = 0.154) was found, in comparison with other tropical tree species. Genetic divergence, analyzed by Nei's genetic distances, clustered with UPGMA and ordinated by non-metric multidimensional scaling, showed spatial patterns of clusters of local populations. Explicit spatial analyses, using Mantel tests and boundary tests, basically confirmed these patterns and revealed a complex pattern of genetic variation in geographic space. The intercept of the multivariate spatial correlograms was around 120 km, an indication of the minimum distance between samples needed to conserve genetic diversity among samples. This spatial scale can be used to define population genetics units for conservation programs or to establish sampling strategies. This revised version was published online in July 2006 with corrections to the Cover Date.     

Evaluation of genetic diversity and population structure of Macqueen’s Bustard Chlamydotis macqueenii in Iran

Capsule: There is low genetic diversity in the Macqueen’s Bustard Chlamydotis macqueenii in Iran.

Aims: To investigate the genetic diversity and population structure of Macqueen’s Bustard in Iran, using two mitochondrial DNA loci.

Methods: Molecular diversity of the mitochondrial cytochrome oxidase c subunit I (COI) gene and part of the mitochondrial control region D-loop (in total 1183 base pairs) were analysed from 26 individual Macqueen’s Bustards from three regions of Iran.

Results: There was little variation in nucleotides and haplotypes in the populations for genes of both CR and COI. The population had free breeding and gene flow between the three study regions in Iran: Petregan, Ferdows and Yazd.

Conclusion: The use of molecular and genetic studies is essential to strengthen the protection of genetic diversity of the Macqueen’s Bustard.     

Population genetic diversity and conservation priority of prince’s pine Chimaphila umbellata populations around the south margin of their distribution

Conservation Genetics - How genetic diversity is maintained within a range of species is one of the crucial pieces of information in species conservation. Although the classical central-marginal...     

Testing for hybridization and assessing genetic diversity in Morelet’s crocodile (Crocodylus moreletii) populations from central Veracruz

Among the loss of genetic diversity due to population declines, population fragmentation and habitat loss, hybridization also stands as a threat to Morelet’s crocodile (Crocodylus moreletii) populations. Genetic surveys in Belize and the Yucatan Peninsula have detected evidence of hybridization with the American crocodile (C. acutus). Admixture between these two species is most likely driven by human-mediated translocations. Along the central gulf coast of Mexico, C. moreletii populations are presumed to be purebred. To test this, we use nine microsatellite loci and sequence data from the mitochondrial control region to detect if C. acutus alleles have introgressed into populations of C. moreletii from central Veracruz. In 2010, C. moreletii was transferred from Appendix I to II of CITES based on a whole species demographic analysis, which indicated that populations had recovered across its range. Our study shows that populations in central Veracruz are purebred, although they exhibit low levels of genetic diversity most likely caused by inbreeding. Our data also suggest there is fragmentation among populations of C. moreletii, which may lead to further loss of genetic variation. Due the purity and low genetic diversity of C. moreletii populations from central Veracruz, we recommend increased protection and active management practices that take genetic data into account.     

Disease ecology in the Galápagos Hawk (Buteo galapagoensis): host genetic diversity, parasite load and natural antibodies

An increased susceptibility to disease is one hypothesis explaining how inbreeding hastens extinction in island endemics and threatened species. Experimental studies show that disease resistance declines as inbreeding increases, but data from in situ wildlife systems are scarce. Genetic diversity increases with island size across the entire range of an extremely inbred Galápagos endemic bird, providing the context for a natural experiment examining the effects of inbreeding on disease susceptibility. Extremely inbred populations of Galápagos hawks had higher parasite abundances than relatively outbred populations. We found a significant island effect on constitutively produced natural antibody (NAb) levels and inbred populations generally harboured lower average and less variable NAb levels than relatively outbred populations. Furthermore, NAb levels explained abundance of amblyceran lice, which encounter the host immune system. This is the first study linking inbreeding, innate immunity and parasite load in an endemic, in situ wildlife population and provides a clear framework for assessment of disease risk in a Galápagos endemic.     

Molecular genetic diversity and differentiation of populations of ‘somnus’ passion fruit trees (Passiflora setacea DC): Implications for conservation and pre-breeding

The ‘somnus’ passion fruit tree (Passiflora setacea) is native to the ‘Cerrado’ and ‘Caatinga’ biomes in Brazil and possesses agrobiological and commercial traits of interest. Studies examining the nature of genetic variability in natural populations are important for the utilization of these traits in conservation and breeding programs. In this study, we analyzed 12 populations of P. setacea from different locations distributed in three agro-ecological zones within the Bahia state of Brazil. Eleven ISSR primers and four pairs of RGA primers were used to assay 109 and 49 unique and reproducible loci, of which 108 (99%) and 49 (100%) were polymorphic. Although the level of genetic diversity in ‘somnus’ passion fruit trees was greater than that observed for other species of the same genus, preferential collection of certain populations, such as those located in the cities of Vitória da Conquista and Licinio de Almeida, is important when considering the fact that ‘somnus’ passion fruit trees occur in areas that are highly disturbed. This disturbance is primarily due to the deployment of pasture, predatory extraction and accelerated urban expansion. An analysis of molecular variance revealed a balance between the estimated genetic variation within and among populations. These data may be useful for developing strategies for preservation of this species in the Cerrado.     

Floristic composition,site conditions and diversity of poet’s daffodil (Narcissus radiiflorus Salisb.) hay meadows in the Venetian Pre-Alps and outer Dolomites (N-Italy): implications for conservation and restoration

Abstract

Hay meadows are an important component of the alpine landscape, which evolved over millennia of human activities. When traditionally managed, hay meadows support a rich flora and are recognized for high species diversity. However, both intensification and abandonment can lead to a loss of biodiversity in this vegetation. In this paper, the focus was on the hay meadows where Narcissus radiiflorus Salisb. forms white mosaic carpets during the blooming period. This vegetation was studied through 26 phytosociological relevés, taken in the Venetian Pre-Alps and outer Dolomites (Northern Italy). Relevés were numerically classified and analysed in their relationships with site conditions. Moreover, diversity metrics were calculated for detecting the conservation status of hay meadows subjected to different types of disturbance. The results showed that poet’s daffodils’ dominance brings together hay meadows showing a substantial range of floristic and ecologic variation and that part of the stands dominated by Narcissus radiiflorus could be referred to a habitat type regarded as prioritary for nature conservation. Moreover, management-related variations in functional diversity suggested that the best practice recommended for conservation and restoration of this habitat is the continuation of traditional late mowing. This practice will allow preserving both biodiversity and ecosystem functions and services.     

Population studies and conservation of Jamaica’s endangered swallowtail butterfly Papilio (Pterourus) homerus

This is an 18-year study of the endangered Papilio (Pterourus) homerus, adding substantial information to our scanty knowledge of its ecology. The contraction of a once contiguous but narrow population on a single Caribbean island carries the serious threat of extinction. There are now two populations or probably metapopulations, effectively isolated from each other. The butterfly’s larvae feed on Hernandia catalpaefolia and H. jamaicensis, both endemic to Jamaica, and development takes ～84 days from egg to the emerged adult. Adult numbers fluctuate rapidly, with peaks in July/August each year. Egg distribution was studied at three spatial levels: the food item (leaf cluster), the patch (tree) and the habitat (each valley). Major causes of developmental mortality were Chrysonotomyia, a eulophid parasitoid of the eggs, and bacterial infection of the larvae and pupae. Critically, the mortality from this wasp was lower in undisturbed forest than in the area disturbed by agriculture, this finding having important consequences for conservation. Although there was no evidence of a decline in numbers over the last century, we believe this is an artefact due to collectors working only at the periphery of its distribution. Even assuming that its population densities have not changed, the contraction of its usable habitat implies a similar reduction in average numbers and the small populations are susceptible to disaster. The efforts of researchers, NGOs, and Government agencies have greatly increased the level of awareness, making the people in some key areas the ‘protectors of the species’.     

Population genetics and relatedness in a critically endangered island raptor, Ridgway’s Hawk Buteo ridgwayi

Many island avian populations are of conservation interest because they have a higher risk of extinction than mainland populations. Susceptibility of island birds to extinction is primarily related to human induced change through habitat loss, persecution, and introduction of exotic species, in combination with genetic factors. We used microsatellite profiles from 11 loci to assess genetic diversity and relatedness in the critically endangered hawk Buteo ridgwayi endemic to the island of Hispaniola in the Caribbean. Using samples collected between 2005 and 2009, our results revealed a relatively high level of heterozygosity, evidence of a recent genetic bottleneck, and the occurrence of inbreeding within the population. Pair relatedness analysis found 4 of 7 sampled breeding pairs to be related similar to that of first cousin or greater. Pedigree estimates indicated that up to 18 % of potential pairings would be between individuals with relatedness values similar to that of half-sibling. We discuss our findings in the context of conservation genetic management suggesting both carefully managed translocations and the initiation of a captive population as a safeguard of the remaining genetic diversity.     

Angola’s central scarp forests: patterns of bird diversity and conservation threats

Despite Angola’s central scarp forests being recognised as a critical global priority for bird conservation, fine-scale information on threatened bird distributions and patterns of bird diversity are lacking. These data are essential to identify sites within the Western Angola Endemic Bird Area that should be targeted for conservation. First endemic and near-endemic species and subspecies, and species with isolated populations along the Angolan scarp were identified to highlight taxa of greatest priority for conservation and for use in studying the evolutionary origins of the region. Thereafter survey data collected during 2005 from 13 forest sites along the central scarp was analysed. These data show that there are three distinct bird communities across the width of the escarpment, each associated with a distinctive forest type. Of note is the finding that threatened and Near Threatened endemic species occur almost exclusively in the dry forests adjacent to the main escarpment, rather than in the moistest forests found on the main escarpment, which instead are richer in Congo Basin forest birds. Based on these data, summaries of ranges, populations and conservation threats are given for the seven most threatened bird species. Attention is drawn to threats to the habitats of greatest importance to these species. A conservation area network should be established that encompasses the full spectrum of bird diversity described, to ensure survival of current unique taxa and the future evolutionary potential of the area.     

Conservation by trans-border cooperation: population genetic structure and diversity of geoffroy’s bat (Myotis emarginatus) at its north-western european range edge

Biodiversity and Conservation - In the European Union, all bat species are strictly protected and member states must ensure their conservation. However, if populations are genetically structured,...     

Tree diversity and conservation value of Ngovayang’s lowland forests,Cameroon

The Ngovayang Massif of southern Cameroon is a range of small hills near the Atlantic coast, in the Lower Guinea floristic region. This region is known to harbor forests with high levels of biodiversity and endemism, but this Massif is botanically poorly known. We assessed tree species diversity, floristic composition and level of endemism of the Ngovayang forest, comparing it with other sites in Central Africa. Five 1-ha permanent plots within old-growth lowland forests of the Ngovayang Massif were censused. A total of 2,658 individuals with dbh ≥ 10 cm were recorded, belonging to 293 species, 170 genera and 60 families. The mean number of stems was 532 ± 75 stems ha⁻¹. Taking into account other data available, the list of vascular plants known in the Massif reaches a total of 450 species. We found 47 species of high conservation value, including Cameroon endemics and other rare and threatened species. Species richness and endemism are comparable to those of the richest known sites in Central African forests. The forests of Ngovayang were found to be particularly rich in Fabaceae-Caesalpinioideae. Topographic heterogeneity, high precipitation and atmospheric humidity owing to the proximity of the ocean, and permanence of a forest cover during past geological times probably all contribute to explaining the Massif’s high tree diversity and endemism. This study highlights the botanical importance of the poorly studied Ngovayang forest within the Lower Guinea region, justifying efforts for improved assessment of this value and for the development of suitable national conservation strategies.     

Bryophyte diaspore bank: a genetic memory? Genetic structure and genetic diversity of surface populations and diaspore bank in the liverwort Mannia fragrans (Aytoniaceae)

Propagule banks are assumed to be able to store considerable genetic variability. Bryophyte populations are expected to rely more heavily on stored propagules than those of seed plants due to the vulnerability of the haploid gametophyte. This reliance has important implications for the genetic structure and evolutionary potential of surface populations. A liverwort, Mannia fragrans, was used to test whether the bryophyte diaspore bank functions as a "genetic memory." If a diaspore bank is capable of conserving genetic variability over generations, the levels of genetic diversity in the soil are expected to be similar or higher than at the surface. Surface and diaspore bank constituents of two populations of M. fragrans were investigated. Genetic structure and diversity measured as unbiased heterozygosity were analyzed using three ISSR markers. Similar genetic diversities were found in the soil (H(s) = 0.067) and at the surface (H(s)= 0.082). However, more haplotypes and specific haplotype lineages were present in soil samples. The results suggest that the bryophyte diaspore bank has an important role in accumulating genetic variability over generations and seasons. It is postulated that the role of the diaspore bank as a "genetic memory" is especially important in species of temporarily available habitats that have long-lived spores and genetically variable populations.