Floral structure in the marine angiosperms Cymodocea serrulata and Thalassodendron ciliatum (Cymodocea ciliata)

Several female flowers were found on plants of Cymodocea serrulata collected in Mida Creek, Kenya, during August 1969. The structure of the female inflorescence of C. serrulata , previously known only from one fragmentary example, is described and shown to be very similar to that of C. angustata Ostenf. but different from that of Thalassodendron ciliatum. The occurrence of small squamulae intravaginales in all leaf and bract axils in both C. serrulata and T. ciliatum is described. Secondary male flowers were observed in the axil of the penultimate bract of about 10% of male inflorescences of T. ciliatum collected on the Kenya coast. The frequency of flowering and the factors affecting flowering in C. serrulata are discussed.     

Isolation and characterization of novel microsatellite markers for Cymodocea serrulata (Cymodoceaceae), a seagrass distributed widely in the Indo‐Pacific region

Cymodocea serrulata is a tropical seagrass species distributed widely in the Indo‐Pacific region. We developed 16 novel microsatellite (simple sequence repeat) markers for C. serrulata using next‐generation sequencing for use in genetic studies. The applicability of these markers was attested by genotyping of 40 individuals collected from a natural population in the Philippines. Of the 16 loci, 15 showed polymorphism. For the 15 polymorphic markers, the number of alleles per locus ranged from two to seven, and the observed and expected heterozygosities ranged from 0.131–1.000 and 0.124–0.788, respectively. These markers are useful tools for elucidating genetic diversity, connectivity, and structure in this foundational coastal species.     

Beta diversity of orchid bees in a tropical biodiversity hotspot

A controversial issue in ecology and conservation is whether community composition is controlled by niche or dispersal assembly. We assessed the importance of climatic factors and geographic gradients on the distribution of orchid bees in a severely-fragmented and species-rich tropical forest region in Brazil. Orchid-bee males were attracted to 17 different scent baits and collected in 15 forest sites. In total we captured 11,081 bees from 40 species. Climatic variables explained twice as much of the observed variation in the bee species data set as did pure spatial variation. However, most of the climatic explained variation was spatially structured, indicating that the species and the climatic data have a similar spatial arrangement. In fact, part of the observed latitudinal changes in community composition appears to be explained by a concomitant gradient in precipitation seasonality. Similarly, reduced temperatures and a more seasonal precipitation may help to explain the relative distinctiveness of the fauna from some of the westernmost sites. The level of similarity among the sampled sites, although highly variable, decayed both as function of the climatic and geographic distances among these sites. The greatest pairwise dissimilarities in the composition of the orchid-bee fauna were observed among sites 200–300 km from each other, since in many case those sites were more dissimilar in terms of climate than those further apart. It is suggested that global warming and consequent altered climatic regimes will influence the distribution patterns of orchid bees in a region already threatened by deforestation and forest fragmentation.     

Genetic structure at range edge: low diversity and high inbreeding in Southeast Asian mangrove (Avicennia marina) populations

Understanding the genetic composition and mating systems of edge populations provides important insights into the environmental and demographic factors shaping species' distribution ranges. We analysed samples of the mangrove Avicennia marina from Vietnam, northern Philippines and Australia, with microsatellite markers. We compared genetic diversity and structure in edge (Southeast Asia, and Southern Australia) and core (North and Eastern Australia) populations, and also compared our results with previously published data from core and southern edge populations. Comparisons highlighted significantly reduced gene diversity and higher genetic structure in both margins compared to core populations, which can be attributed to very low effective population size, pollinator scarcity and high environmental pressure at distribution margins. The estimated level of inbreeding was significantly higher in northeastern populations compared to core and southern populations. This suggests that despite the high genetic load usually associated with inbreeding, inbreeding or even selfing may be advantageous in margin habitats due to the possible advantages of reproductive assurance, or local adaptation. The very high level of genetic structure and inbreeding show that populations of A. marina are functioning as independent evolutionary units more than as components of a metapopulation system connected by gene flow. The combinations of those characteristics make these peripheral populations likely to develop local adaptations and therefore to be of particular interest for conservation strategies as well as for adaptation to possible future environmental changes.     

Male floral structure in the marine angiosperm Cymodocea serrulata (R.Br.) Ascherson & Magnus (Zannichelliaceae)

Male flowers of Cymodocea serrulata (R. Br.) Ascherson & Magnus have been found in Moreton Bay, Queensland, the southernmost extent of this species' range. The flower is described together with the abundance of flowering. Syringodium isoetifolium (Ascherson) Dandy is also found in Moreton Bay and flowers were found in 1973 but not in 1974.     

Genetic diversity and population structure of the endangered insect species Carabus variolosus in its western distribution range: Implications for conservation

Genetic variation was assessed in the endangered species C. variolosus (Coleoptera: Carabidae), which is listed in the European Habitats and Species Directive. Twelve populations from the north-western margin of its range in Germany and France to the border region between Slovenia and Croatia were investigated for variation at 16 allozyme loci. In general, genetic diversity was rather low as indicated by a mean allelic richness of 1.3 alleles per locus, a mean gene diversity (H _E ) of 0.071 and a mean proportion of polymorphic loci (P _95% ) of 16%. Genetic diversity did not change directionally from the margin towards the core of the range. Very high differentiation between populations (overall F _ST  = 0.465), the results of a Mantel test, and poor accordance between geographical and genetic distance suggest a high degree of isolation of the island-like distributed populations. High F _ST values and genetic distance measures, even between geographically close populations within the same drainage, confirm a very low dispersal power of this habitat specialist of headwater areas and swamps in woodlands, even in comparison with other flightless beetles. It is concluded that the majority of populations are demographically independent. Hierarchical F-statistics indicate that almost half of the genetic variance is found between regions and populations. Therefore, we recommend that conservation efforts consider every population as a management unit and aim to maintain as many populations as possible over as many regions as possible.     

Ecology and genetic diversity of the dense-flowered orchid, Neotinea maculata, at the centre and edge of its range

Background and Aims

Species may occur over a wide geographical range within which populations can display large variation in reproductive success and genetic diversity. Neotinea maculata is a rare orchid of conservation concern at the edge of its range in Ireland, where it occurs in small populations. However, it is relatively common throughout the Mediterranean region. Here, factors that affect rarity of N. maculata in Ireland are investigated by comparing Irish populations with those found in Italy, where it is more common.

Methods

Vegetation communities, breeding system and genetic diversity were compared using three amplified fragment length polymorphism (AFLP) primer pairs in populations in Ireland and Italy. Vegetation was quantified using quadrats taken along transects in study populations, and hand pollination experiments were performed to assess reliance of N. maculata on pollinators in both Irish and Italian populations.

Key Results

Neotinea maculata occupies different vegetation communities in Italian and Irish populations. Breeding system experiments show that N. maculata is 100 % autogamous, and there are no differences in fruit and seed production in selfed, outcrossed and unmanipulated plants. AFLP markers revealed that Irish and Italian populations have similar genetic diversity and are distinct from each other.

Conclusions

Neotinea maculata does not suffer any negative effects of autogamous reproduction; it self-pollinates and sets seed readily in the absence of pollinators. It occupies a variety of habitats in both Ireland and Italy; however, Irish populations are small and rare and should be conserved. This could be due to climatic factors and the absence of suitable soil mycorrhizas to allow recruitment from seed.Key words: Neotinea maculata, AFLP, autogamy, conservation, genetic diversity, Lusitanian species, pollination     

Lipids of the tropical seagrass Thallassia hemprichii

The component sterols, alcohols, hydrocarbons, monocarboxylic, α,ω-dicarboxylic and α- and ω-hydroxy acids from the leaves and roots of the tropical seagrass Thallassia hemprichii are reported. The leaves contained significant concentrations of cholest-5-en-3β-ol, a sterol not normally detected in either higher plants or seagrasses. The lower abundance of polyunsaturated fatty acids found in both the leaves and roots compared to other seagrass species may be a result of the warmer waters from which this species was collected. Solvent-extractable, long-chain (> C₂₂)α,ω-diacids, α- and ω-hydroxy and monocarboxylic acids were also isolated from the leaves. The distribution pattern of these lipids should enable these components along with other distinctive components to be used as chemical markers for this seagrass.     

Range-edge genetic diversity: locally poor extant southern patches maintain a regionally diverse hotspot in the seagrass Zostera marina

Refugial populations at the rear edge are predicted to contain higher genetic diversity than those resulting from expansion, such as in post-glacial recolonizations. However, peripheral populations are also predicted to have decreased diversity compared to the centre of a species' distribution. We aim to test these predictions by comparing genetic diversity in populations at the limits of distribution of the seagrass Zostera marina, with populations in the species' previously described central diversity 'hotspot'. Zostera marina populations show decreased allelic richness, heterozygosity and genotypic richness in both the 'rear' edge and the 'leading' edge compared to the diversity 'hotspot' in the North Sea/Baltic region. However, when populations are pooled, genetic diversity at the southern range is as high as in the North Sea/Baltic region while the 'leading edge' remains low in genetic diversity. The decreased genetic diversity in these southern Iberian populations compared to more central populations is possibly the effect of drift because of small effective population size, as a result of reduced habitat, low sexual reproduction and low gene flow. However, when considering the whole southern edge of distribution rather than per population, diversity is as high as in the central 'hotspot' in the North Sea/Baltic region. We conclude that diversity patterns assessed per population can mask the real regional richness that is typical of rear edge populations, which have played a key role in the species biogeographical history and as marginal diversity hotspots have very high conservation value.     

Community structure and spatial variability of marine nematodes in tropical Australian pioneer seagrass meadows

The spatial variability in the community structure of infaunal free-living marine nematodes of pioneer seagrass (Halophilaand Halodule) meadows within a deltaic mangrove estuarine system and a bay mangrove system in tropical north-eastern Australia were examined. Nematode mean densities were intermediate ranging from 609 to 2744 inds./10 cm². A total of 152 putative species from 94 genera and 22 families were found across the four sites. The communities exhibited a high degree of dominance by Terschellingia longicaudata, Catanema sp 1, Terschellingia sp 2 and Metalinhomoeus insularis.Non-metric multi-dimensional scaling (nMDS) revealed that intra-site variability was low. This was reinforced by 1-way MANOVA, showing no significant inter-station differences between the six most dominant species at each site. The main system difference was reflected by a greater percentage of the Desmodoridae combined with a reduction of the Linhomoeidae in the bay system. At a species level system differences were manifested by a stenohaline, brackish water nematode assemblage in the deltaic system (M. insularis, Terschellingoidessp 1, Pseudolellasp 1) and, by a stenohaline, marine nematode assemblage in the bay system (Catanema sp 1, Spirinia parasitifera, Actinonemasp 1). These communities represent `hotspots' of diversity within a wider, mangrove-influenced depauperate fauna. The high degree of dominance found in each community was countered by moderate diversity and this, combined with the high number and speciation of deposit-feeding species, suggests that nematodes were more abundant in the meadows due to the abundance of microbial food. Notwithstanding the different salinity/CaCO₃ regimes, these communities exhibit both intra- and inter-site homogeneity with dominance by a conservative, deep-dwelling guild. The fact that this homogeneity exists suggests that these small-bladed seagrass species may play a greater role (sediment stability, fine particle settlement, organic detritus) in influencing the infaunal nematode community than was previously thought.     

Genetic diversity and host range of powdery mildews on Papaveraceae

Because of the strong morphological similarity of the powdery mildew fungi that infect papaveraceous hosts, a total of 39 samples were studied to reveal the phylogeny and host range of these fungi. ITS and 28S sequence analyses revealed that the isolates identified earlier as Erysiphe cruciferarum on papaveraceous hosts represent distinct lineages and differ from that of E. cruciferarum sensu stricto on brassicaceous hosts. The taxonomic status of the anamorph infecting Eschscholzia californica was revised, and therefore, a new species name, Erysiphe eschscholziae, is proposed. The taxonomic position of the Pseudoidium anamorphs infecting Glaucium flavum, Meconopsis cambrica, Papaver dubium, and Stylophorum diphyllum remain unclear. This study revealed that Erysiphe macleayae exhibits a specific host range different from that of E. cruciferarum, the common pathogen of papaveraceous hosts. Although E. macleayae occurred naturally on Macleaya cordata, Macleaya microcarpa, M. cambrica, and Chelidonium majus only, our inoculation tests revealed that the fungus was capable of infecting Argemone grandiflora, Glaucium corniculatum, Papaver rhoeas, and Papaver somniferum, indicating that these plant species may also be taken into account as potential hosts. Erysiphe cruciferarum originating from P. somniferum was not able to infect A. grandiflora, C. majus, E. californica, M. cordata, and P. rhoeas. The emergence of E. macleayae on M. microcarpa is reported here for the first time from the Czech Republic and Slovakia. The appearance of chasmothecia of E. macleayae on C. majus in Slovakia was reported, as well. Erysiphe cruciferarum was identified on G. corniculatum and reported here for the first time from Slovakia.     

Genetic diversity and population structure of teosinte

The teosintes, the closest wild relatives of maize, are important resources for the study of maize genetics and evolution and for plant breeding. We genotyped 237 individual teosinte plants for 93 microsatellites. Phylogenetic relationships among species and subspecific taxa were largely consistent with prior analyses for other types of molecular markers. Plants of all species formed monophyletic clades, although relationships among species were not fully resolved. Phylogenetic analysis indicated that the Mexican annual teosintes divide into two clusters that largely correspond to the previously defined subspecies, Z. mays ssp. parviglumis and ssp. mexicana, although there are a few samples that represent either evolutionary intermediates or hybrids between these two subspecies. The Mexican annual teosintes show genetic substructuring along geographic lines. Hybridization or introgression between some teosintes and maize occurs at a low level and appears most common with Z. mays ssp. mexicana. Phylogeographic and phylogenetic analyses of the Mexican annual teosintes indicated that ssp. parviglumis diversified in the eastern part of its distribution and spread from east to west and that ssp. mexicana diversified in the Central Plateau of Mexico and spread along multiple paths to the north and east. We defined core sets of collections of Z. mays ssp. mexicana and ssp. parviglumis that attempt to capture the maximum number of microsatellite alleles for given sample sizes.     

Environmental variation and rivers govern the structure of chimpanzee genetic diversity in a biodiversity hotspot

Background

The mechanisms that underlie the diversification of tropical animals remain poorly understood, but new approaches that combine geo-spatial modeling with spatially explicit genetic data are providing fresh insights on this topic. Data about the diversification of tropical mammals remain particularly sparse, and vanishingly few opportunities exist to study endangered large mammals that increasingly exist only in isolated pockets. The chimpanzees of Cameroon represent a unique opportunity to examine the mechanisms that promote genetic differentiation in tropical mammals because the region is home to two chimpanzee subspecies: Pan troglodytes ellioti and P. t. trogolodytes. Their ranges converge in central Cameroon, which is a geographically, climatically and environmentally complex region that presents an unparalleled opportunity to examine the roles of rivers and/or environmental variation in influencing the evolution of chimpanzee populations.

Results

We analyzed microsatellite genotypes and mtDNA HVRI sequencing data from wild chimpanzees sampled at a fine geographic scale across Cameroon and eastern Nigeria using a spatially explicit approach based upon Generalized Dissimilarity Modeling. Both the Sanaga River and environmental variation were found to contribute to driving separation of the subspecies. The importance of environmental variation differed among subspecies. Gene-environment associations were weak in P. t. troglodytes, whereas environmental variation was found to play a much larger role in shaping patterns of genetic differentiation in P. t. ellioti.

Conclusions

We found that both the Sanaga River and environmental variation likely play a role in shaping patterns of chimpanzee genetic diversity. Future studies using single nucleotide polymorphism (SNP) data are necessary to further understand how rivers and environmental variation contribute to shaping patterns of genetic variation in chimpanzees.

Electronic supplementary material

The online version of this article (doi:10.1186/s12862-014-0274-0) contains supplementary material, which is available to authorized users.     

Population structure and genetic diversity of greater sage-grouse (Centrocercus urophasianus) in fragmented landscapes at the northern edge of their range

Range-edge dynamics and anthropogenic fragmentation are expected to impact patterns of genetic diversity, and understanding the influence of both factors is important for effective conservation of threatened wildlife species. To examine these factors, we sampled greater sage-grouse (Centrocercus urophasianus) from a declining, fragmented region at the northern periphery of the species?? range and from a stable, contiguous core region. We genotyped 2,519 individuals at 13 microsatellite loci from 104 leks in Alberta, Saskatchewan, Montana, and Wyoming. Birds from northern Montana, Alberta, and Saskatchewan were identified as a single population that exhibited significant isolation by distance, with the Milk River demarcating two subpopulations. Both subpopulations exhibited high genetic diversity with no evidence that peripheral regions were genetically depauperate or highly structured. However, river valleys and a large agricultural region were significant barriers to dispersal. Leks were also composed primarily of non-kin, rejecting the idea that leks form because of male kin association. Northern Montana sage-grouse are maintaining genetic connectivity in fragmented and northern peripheral habitats via dispersal through and around various forms of fragmentation.     

Genetic diversity and population structure of Moringa oleifera

Moringa is a genus of the tropical flowering plant family Moringaceae containing 13 diverse species. Among the different species, only Moringa oleifera L. is cultivated. This species has great potential in serving as a high-value crop for food, medicinal products, as well as fodder for animals, particularly in developing tropical regions of the world. In this study, the genetic diversity and population structure of world-wide collections of M. oleifera were investigated using DNA markers. A total of 19 microsatellite or simple sequence repeat (SSR) markers along with a partial sequence of the chloroplast gene atpB were used to study genetic diversity within 161 accessions of M. oleifera collected from Asia, Africa, North and South America, and the Caribbean. On average, 8.3 alleles/per SSR were amplified in each accession. A total number of 158 alleles were detected in 131 accessions collected from the wild in Pakistan and from 30 accessions obtained from ECHO (Florida). Observed heterozygosity varied from 0.16 to 0.86, with an average of 0.58, while the average PIC value was 0.59. Partial sequencing of chloroplast genes of 43 of 161 plants generated mixed patterns. These findings have demonstrated that there is a large genetic diversity present in wild collections of M. oleifera collected in Pakistan; whereas low genetic diversity is detected in cultivated accessions obtained from ECHO. Taken together, these results agree with previous reports that M. oleifera is native to the Indo-Pakistan ecological region, and provides sufficient diversity for genetic exploration as well as for genetic improvement efforts.     

Net primary productivity estimation and its relationship with tree diversity for tropical dry deciduous forests of central India

Present study aims at estimation and validation of net primary productivity (NPP) using production efficiency model (PEM), and its possible relationship with tree diversity. The PEM estimates NPP, based on light use efficiency (LUE) and intercepted photosynthetically active radiation (IPAR). Weighted average LUE varied between 0.02 gC/μmol/m² of PAR (Mixed forest (miscellaneous)) to 0.08 gC/μmol/m² of PAR (Acacia forest), in growing phase (GP), and 0.0008 gC/μmol/m² of PAR (Boswellia mixed forest) to 0.023 gC/μmol/m² of PAR (Acacia forest) during the senescent phase (SP). The average weighted LUE for tropical dry and Moist deciduous forest (MDF) in GP were 0.05 gC/μmol/m² of PAR and 0.03 gC/μmol/m² of PAR, respectively. The average IPAR for different forest types was 2079.58 μmol/m²/s during GP and 1510.58 μmol/m²/s during SP. The PEM based NPP varied between 0.58–275.78 gC/m²/year during GP and 0.43–74.34 gC/m²/year during SP. The PEM based NPP and conventional (ground based) NPP were related with R ² of 0.55. The tree diversity and NPP relationship was observed with R ² of 0.55 at the level of both plot and forest types.