Multiple measures are necessary to assess rarity in macro-molluscs: a case study from southeastern Australia

Our knowledge of suitable criteria to determine rarity in most marine invertebrates is lacking, thus hindering targeted impact studies, long-term monitoring programs, and associated conservation strategies. Standardized definitions of rarity are required to enable comparisons of different assemblages and taxa. Gaston (Rarity, Chapman and Hall, Melbourne, 1994) has recommended that rare species are defined as the lowest quartile of species in the assemblage. In this study, the 25% ‘cut-off’ was applied to intertidal macro-molluscs along the Illawarra Coast, Australia from 200 surveys of 13 reefs, using three measures of population structure; (1) local abundance (numerical rarity); (2) number of locations (spatial rarity) and; (3) percent of surveys (temporal rarity). Rare species were consequently defined as those species with no more than; (1) a local abundance of two individuals; (2) a regional occurrence at two reefs and/or; (3) a temporal occurrence in 2% of all surveys. These cut-off values increased when only intertidal specialists were analysed. Using a combination of all three measures, 62 species (42%) were classified as regionally rare, but only four of these were true intertidal specialists. Most species were rare by only one or two definitions of rarity; illustrating the importance of considering multiple measures of rarity and the need to design specifically targeted survey methods for future monitoring. Many species that are rare by all three definitions are likely to be temporary immigrants, as subtidal species were significantly more likely to be classified as rare. Clearly many factors can influence the rarity of marine invertebrates on intertidal reefs, and these must all be considered to set appropriate conservation priorities.     

The importance of rare species: a trait‐based assessment of rare species contributions to functional diversity and possible ecosystem function in tall‐grass prairies

The majority of species in ecosystems are rare, but the ecosystem consequences of losing rare species are poorly known. To understand how rare species may influence ecosystem functioning, this study quantifies the contribution of species based on their relative level of rarity to community functional diversity using a trait‐based approach. Given that rarity can be defined in several different ways, we use four different definitions of rarity: abundance (mean and maximum), geographic range, and habitat specificity. We find that rarer species contribute to functional diversity when rarity is defined by maximum abundance, geographic range, and habitat specificity. However, rarer species are functionally redundant when rarity is defined by mean abundance. Furthermore, when using abundance‐weighted analyses, we find that rare species typically contribute significantly less to functional diversity than common species due to their low abundances. These results suggest that rare species have the potential to play an important role in ecosystem functioning, either by offering novel contributions to functional diversity or via functional redundancy depending on how rare species are defined. Yet, these contributions are likely to be greatest if the abundance of rare species increases due to environmental change. We argue that given the paucity of data on rare species, understanding the contribution of rare species to community functional diversity is an important first step to understanding the potential role of rare species in ecosystem functioning.     

Patterns and correlates of plant diversity differ between common and rare species in a neotropical dry forest

Determining which factors affect species richness is important for conservation theory and practice. However, richness of common and rare species may be affected by different factors. We use an extensive inventory of woody plants from a tropical dry forest landscape in Yucatan, Mexico to assess the unique effects of environmental variables, spatial dependence of sampling sites, forest stand age and the combined effect of all groups of variables on species richness of woody plants with different levels of rarity (common, intermediate, rare, very rare)—according to their abundance, habitat specificity and spatial distribution range in the landscape. Analyzing separately common species and those with different levels of rarity uncovered contrasting patterns and correlates of species richness that were not apparent when focusing on all woody plants. In particular, richness of common and intermediate species was influenced mainly by environmental factors, whereas richness of very rare species was affected mostly by the unique effect of spatial dependence of sampling sites, suggesting a main role of environmental filtering and dispersal limitation, respectively. However, common and very rare species also responded inversely to some landscape metrics, revealing contrasting environmental preferences of these groups of species. These contrasting results suggest different underlying mechanisms and the need for very different conservation strategies. Therefore, basic and applied research on tropical forest biodiversity should consider separately species with different levels of rarity, focusing on which factors control variation in each level, and paying special attention to very rare species, generally the most specious and vulnerable to local extinction.     

Integrating the Rabinowitz rarity framework with a National Plant Inventory in South Korea

Increasingly large presence‐only survey datasets are becoming available for use in conservation assessments. Potentially, these records could be used to determine spatial patterns of plant species rarity and endemism. We test the integration of a large South Korean species record database with Rabinowitz rarity classes. Rabinowitz proposed seven classes of species rarity using three variables: geographic range, habitat specificity, and local population size. We estimated the range size and local abundance of 2,215 plant species from species occurrence records and habitat specificity as the number of landcover types each species’ records were found in. We classified each species into a rarity class or as common, compared species composition by class to national lists, and mapped the spatial pattern of species richness for each rarity class. Species were classed to narrow or wide geographic ranges using 315 km, the average from a range size index of all species (D_max), based on maximum distance between observations. There were four classes each within the narrow and wide range groups, sorted using cutoffs of local abundance and habitat specificity. Nationally listed endangered species only appeared in the narrow‐range classes, while nationally listed endemic species appeared in almost all classes. Species richness in most rarity classes was high in northeastern South Korea especially for species with narrow ranges. Policy implications. Large presence‐only surveys may be able to estimate some classes of rarity better than others, but modification to include estimates of local abundance and habitat types, could greatly increase their utility. Application of the Rabinowitz rarity framework to such surveys can extend their utility beyond species distribution models and can identify areas that need further surveys and for conservation priority. Future studies should be aware of the subjectivity of the rarity classification and that regional scale implementations of the framework may differ.     

Are there adequate data to assess how well theories of rarity apply to marine invertebrates?

Understanding the biology of rare species is a very important part of conservation biology. Most of our current understanding of rarity has, however, come from studies of terrestrial plants, birds, mammals and some insects. Freshwater and marine habitats are underrepresented in published studies of rare species or conservation biology. We therefore have little knowledge about how well our understanding of what makes particular species rare and how rare species persist applies to marine invertebrates which form a major component of coastal biodiversity. In this review, I examine some theories about rarity with respect to intertidal and shallow subtidal invertebrates to identify whether there are adequate data to apply these theories to marine invertebrates and how well such theories apply. The general conclusions are that the lack of quantitative data on abundances, ranges, habitat-requirements, dispersal and connectedness among populations for marine invertebrates means that their status as rare species cannot really be assessed appropriately. It is also unlikely that, without extensive sampling programmes and considerable expense, adequate data could be obtained for these small, cryptic animals, which typically have very patchy, variable and unpredictable patterns of distribution and abundance. Intertidal and subtidal assemblages are diverse, including species with many different life-histories from many phyla, occupying the same suite of habitats. It is therefore suggested that future research on rare organisms in marine habitats should build upon the long and successful history of experimental marine studies to test specific hypotheses about processes influencing rarity in the field. Such studies would not only add a new dimension to our current understanding of rarity, but would also provide badly-needed data on the status of rare marine invertebrates. abundances, invertebrates, marine, range, rarity     

Drivers and interrelationships among multiple dimensions of rarity for freshwater fishes

Species can be rare or common in three different dimensions: geographic range size, habitat breadth, and local abundance. Understanding drivers of rarity are not only fundamentally interesting; it is also pertinent for their conservation. We addressed this challenge by analyzing the rarity of 291 native freshwater fishes occurring in ca 3500 independent stream reaches that span a broad environmental gradient across continental USA. Using phylogenetic regression and path analysis, we examined the concordance among the three rarity dimensions, and identified possible mechanisms by which species life‐history, habitat affinities, and biogeography drive variation in rarity. Weak double extinction jeopardies were driven by weakly positive correlations between habitat breadth and local abundance, and between habitat breadth and geographic range size. However, a triple extinction jeopardy was averted as local abundance and range size were not positively linked in our study. This is because large‐river and lacustrine habitat use mediated a trade‐off between local abundance and range size. Large rivers and lacustrine habitats represent important dispersal pathways and refugia that enabled fishes to acquire wide ranges; however, species using these habitats are less abundant overall because they are less adapted to small lotic channels, which comprise the majority of stream habitats in the US. Life‐history traits were key in governing the relationship between abundance and range size as large‐river and lacustrine habitat use were driven by body size, egg size, and parental care. Our analysis contributes novel insights into mechanisms that underlie multiple dimensions of rarity in freshwater fish and informs the prioritization of multiply rare species for conservation.     

The anatomy of the interspecific abundance–range size relationship for the British avifauna: II. Temporal dynamics

In a companion paper, we started an examination of the anatomy of the interspecific relationship between local abundance and geographical range size in the British avifauna by analysing its spatial dynamics. Here, we use the same data to extend this study to a consideration of the temporal dynamics of the relationship. Most species of British breeding bird show a positive intraspecific abundance–range size relationship through time: i.e. in years when a species is locally more abundant it also occupies a higher proportion of census sites. However, the majority of such relationships are not statistically significant, and other relationships that are statistically significant are negative. Therefore, intraspecific abundance–range size relationships do not simply mirror the relationship across species. Where they do arise, positive relationships are more likely to be associated with positive intraspecific relationships between range size and maximum rather than minimum abundance. The interspecific abundance–range size relationship is remarkably consistent across years, and is always significantly positive. The relationships for woodland and farmland census sites show correlated variation, so that in years when the linear regression slope and coefficient of determination are high across species on farmland plots, they also tend to be high across species on woodland plots. Common species tend to be common on both farmland and woodland plots, and tend to be common in all years. Likewise, rare species tend to be rare in all habitats and years. This concordance means that the positive interspecific abundance–range size relationship can be viewed as occurring largely independently of intraspecific relationships. It follows from the above that developing an understanding of intraspecific abundance–range size relationships may be of only limited value in ascertaining the determinants of positive interspecific abundance–range size relationships. We conclude that for interspecific relationships, it will be important to know why some species are consistently common and others rare, whereas for intraspecific relationships it will be important to understand the dynamic links between local abundances across sites.     

Seven forms of rarity in mammals

Conservation biologists have identified threats to the survival of about a quarter of the mammalian species; to identify patterns of rarity and commonness of mammals, we studied a global sample of 1212 species (about 28% of the mammals) using the ‘7 forms of rarity’ model (in which species are roughly divided into above and below the median for local population density, species’ range area, and number of habitat types). From a niche‐based hypothesis of abundance and distribution, we predicted that mammals would exhibit a bimodal pattern of rarity and commonness, with an overabundance of species in the relatively rarest and most common categories; and just such a significant bimodal pattern emerged, with over a quarter of the species classified as exceedingly rare and a further quarter very common, supporting the niche‐based hypothesis. Orders that include large mammals, including perissodactyls, primates, diprotodonts, and carnivores, exhibited significantly high proportions of relatively rare species; and tropical zoogeographic regions, especially Indomalaya, had relatively high proportions of species in the rarest category. Significant biases in the available data on mammals included under‐sampling of small species like rodents and bats, and a relative paucity of data on zoogeographic regions outside of North America and Australia. Mammalian species listed as of conservation concern by the IUCN occurred in all cells of the model, indicating that even relatively common species can be listed as threatened under some conditions; but we also found that sixty‐three species were relatively rare in all three criteria of the 7‐forms model but were not listed as threatened, indicating potential candidates for further study. Mammals may be a group of animals where rarity or commonness is a natural aspect of species biology, both confirming and perhaps partly explaining the large proportion of mammals assigned threatened status.     

The functional importance of rare and dominant species in a Neotropical forest bird community

Bird communities in Tropical forests have high rate of rare species, but only recently some studies suggested their disproportional role for the overall functional diversity. We investigated data from bird communities monitored annually using point counts over ten years in Iguassu National Park, that is a large and protected area in the southern portion of the Atlantic Forest in Brazil. We aimed (1) to determine the rare and dominant species in the community based on their abundance over time; (2) to evaluate the impact of each class of rarity on the overall functional volume of the community; (3) to investigate the pattern of occupancy of the trait space filled by each dominance class, and (4) to assess the disparity in functional trait composition between classes of rarity. We defined dominant, intermediate, and rare species in communities using cluster analysis and data of relative abundance of species in five sections of 1-km in the forest interior. The number of clusters was defined in accordance with the silhouette criterion measures of cohesion and separation that range from −1 to 1, with values > 0.5 indicating high-quality clusters. Among total 138 bird species recorded, 107 were rare, 26 intermediates, and 5 dominants. Our data corroborate a functional disproportional importance of rare bird species in the community considering the functional space (FRic), but functional dispersion (FDis) was not significantly different between the rare and intermediate species. In fact, there is a large overlap of the functional volume occupied by rare in relation to dominant/intermediate species. The niche space occupied by rare species covers most of the space occupied by intermediate and dominant species. The low representativeness of functional turnover indicates that few functions are unique to the classes of higher dominance. Our data suggest the importance of rare bird species to the overall functional diversity but also highlights the potential use of dominants/intermediates species as indicators to select important forests areas for conservation, as certain forest fragments. Through these most abundant species it would be possible to assess which functions are heaviest in abundance, becoming core functions, in the context of each independent forest fragment.     

Comparison of land cover and farming intensity-based models for mapping High Nature Value farmland in Cyprus

ABSTRACT

Capsule: Breeding bird survey data were used to compare biodiversity at sites defined as High Nature Value farmland (HNVf) under two different mapping models.

Aims: To examine whether farmland classified as HNVf was important for bird diversity and conservation of priority bird species in Cyprus, through comparison of two different HNVf maps. The HNV concept aims to define biodiversity-rich farmland and facilitate its protection and management. Heterogeneous, low-intensity cropping and grazing systems are important areas for biodiversity conservation in Europe and for birds in particular, but are threatened by abandonment and agricultural intensification. We compared two HNVf mapping systems, a simpler model based on land cover data (CLC map) and a more complex Cyprus Environment Department model (ED map) including layers relating to agricultural intensity.

Methods: Line transect bird surveys were carried out to compare bird diversity, abundance of farmland bird species of conservation priority and also of the endemic Cyprus Warbler Sylvia melanothorax, at sites classified as HNV or not.

Results: A greater diversity of breeding birds was found in sites classified as HNVf under combined ED and CLC maps. However, for the set of 12 priority bird species, neither HNV mapping approach encompassed their overall abundance, but a combined CLC and ED model did predict higher abundances of the Cyprus Warbler. Vineyard sites were found to be associated with high overall breeding bird diversity, but with low abundance of priority bird species.

Conclusion: We identified weaknesses in both mapping systems, with the ED model failing to capture all HNV grazing land and the CLC model defining some intensive farming systems as HNV. We conclude that the overlap between the two models best captures HNVf, but layers encompassing grazing land and priority habitats need to be added to better define HNVf in Cyprus and facilitate its protection and management.     

Rarity in Chilean forest birds: which ecological and life‐history traits matter?

While it is a truism that species rarity is non-randomly distributed across regions, habitats, and taxa, there is little consensus on which factors are the best predictors of low abundances and restricted geographical ranges. In this study, we evaluate the effects of ecological and life-history traits, as well as phylogeny, on rarity in the abundance and distribution of land birds inhabiting forest habitats in the Mediterranean and temperate regions of Chile. We use data on abundance collected at 16 sites and data on latitudinal distribution obtained from a literature compilation. Statistical analyses were based on multiple regression and multivariate models. We used Signed Mantel test to analyse the relationship between species ecological and life-history traits and rarity, taking into account the effect of phylogenetic relatedness. We found that rarity, in terms of distribution, is associated with a low investment in reproduction, non-migratory status, and degree of habitat specialization. These ecological and life-history traits, in association with forest loss due to climatic changes and human impacts, may explain the narrow distribution of most endemic forest birds species. Rarity in abundance, on the other hand, is more difficult to explain. However, the fact that large species with an insectivorous diet showed low density in the assemblages studied suggests that abundance is mostly regulated by energy (resource) requirements and availability. Finally, our study shows that there is no phylogenetic influence in the observed patterns.     

Phylogenetic diversity and ecological features in the Egyptian flora

Until fairly recently, regional-scale ecological and evolutionarypatterns have tended to be ignored as conservation efforts have been concernedwith species and their habitats. Here we compare frequencies in the Egyptianflora of particular rank sizes (order, family and genus) with patterns ofspecies abundance (classified as very rare, rare, common, or very common) and anarray of life-history attributes. The angiosperm flora of Egypt is representedby 2446 taxa (2088 species), including taxa in 10 subclasses, 51 orders, 120families, and 742 genera. A high degree of monotypism was observed: four ordersare monotypic (each existing as single species), and have very rare overallabundances; 30 families are monotypic (17 of which are very rare or rare); and 354genera are monotypic (over 70% of which are very rare or rare). Fourteenfamilies (in particular the Resedaceae and Zygophyllaceae) have at leastone-fifth of their global species represented in the Egyptian flora. Introducedspecies in general, and tree, aquatic herb and liana life forms all are especially well represented among monotypic genera. Native taxa are highlyrepresented among rare and very rare abundance classes, while introduced taxadid not differ significantly in their abundance patterns, compared to overallflora values. Few large genera (>20 spp.) occur in the flora, with mostspecies concentrated in genera containing 8–19 species per genus.Similarly, few families were highly speciose. Annual and herbaceous species weresignificantly over-represented, mainly among large, speciose genera andfamilies. However, perennials, trees, shrubs, aquatic herbs, lianas and parasiticspecies were found mainly in families and genera having very few taxa.Life-history attributes may have important implications to speciation rates.Taxonomically based results, involving abundances and life-history attributes,are discussed in the context of biodiversity and conservation.     

The value of coarse species range maps to inform local biodiversity conservation in a global context

Range maps of thousands of species, compiled and made freely available by the International Union for Conservation of Nature, are being increasingly applied to support spatial conservation planning. However, their coarse nature makes them prone to commission and omission errors, and they lack information on the variations in abundance within species’ distributions, calling into question their value to inform decisions at the fine scales at which conservation often takes place. Here, we tested if species ranges can reliably be used to estimate the responsibility of sites for the global conservation of species. We defined ‘specific responsibility’ as the fraction of a species’ population within a given site, considering it useful for prioritising species within sites; and defined ‘overall responsibility’ as the sum of specific responsibility across species within a site, assuming it informative of priorities among sites. Taking advantage of an exceptionally detailed dataset on the distribution and abundance of bird species at a near‐continental scale – a level of information rarely available to local decision‐makers – we created a benchmark against which we tested estimates of responsibility derived from range maps. We investigated approaches for improving these estimates by complementing range maps with plausibly available local data. We found that despite their coarse nature, range maps provided good estimates of sites’ overall responsibility, but relatively poor estimates of specific responsibility. Estimates were improved by combining range maps with local species lists or local abundance data, easily available through local surveys on the sites of interest, or simulated expert knowledge. Our results suggest that combining range maps with local data is a promising route for improving the effectiveness of local conservation decisions at contributing to reducing global biodiversity losses. This is all the more urgent in hyper‐diverse poorly‐known regions where conservation‐relevant decisions must proceed despite a paucity of biodiversity data.     

The use (and misuse) of archaeological salmon data to infer historical abundance in North America with a focus on New England

Information about historical animal or plant abundance often either explicitly or implicitly informs current conservation practice. If it can be shown that an organism was not historically abundant in a region, its conservation importance may be downgraded. In contrast to abundant archaeological support for historic importance of salmon in the Pacific Northwest, historic abundance of Atlantic salmon in New England has been called into question based on the rarity of salmon bones in archaeological sites. These data have been used to argue that the importance of salmon to the region has been exaggerated and that expensive restoration efforts in some rivers should be reconsidered. Here, we argue that lack of archaeological bone fragment abundance does not make a convincing case against historical Atlantic salmon abundance in New England for three primary reasons. First, salmon bones were rare or absent at sites that still have large salmon runs. Second, the lack of salmonid bones in general at archaeological sites suggests poor preservation and/or recovery of bone for these species relative to bones of other fishes. Third, given the presence of large numbers of non-salmonid anadromous fish in the site areas where people fished and deposited fish bones, power to detect salmon bones in studies to date may have been generally low. We present reliable historical accounts that help build a convincing case that salmon were historically abundant in New England rivers. We suggest that rarity of salmon bones in the existing archaeological data should not have unwarranted influence on present-day conservation decision-making in New England.     

Fish and Phytoplankton Exhibit Contrasting Temporal Species Abundance Patterns in a Dynamic North Temperate Lake

Temporal patterns of species abundance, although less well-studied than spatial patterns, provide valuable insight to the processes governing community assembly. We compared temporal abundance distributions of two communities, phytoplankton and fish, in a north temperate lake. We used both 17 years of observed relative abundance data as well as resampled data from Monte Carlo simulations to account for the possible effects of non-detection of rare species. Similar to what has been found in other communities, phytoplankton and fish species that appeared more frequently were generally more abundant than rare species. However, neither community exhibited two distinct groups of “core” (common occurrence and high abundance) and “occasional” (rare occurrence and low abundance) species. Both observed and resampled data show that the phytoplankton community was dominated by occasional species appearing in only one year that exhibited large variation in their abundances, while the fish community was dominated by core species occurring in all 17 years at high abundances. We hypothesize that the life-history traits that enable phytoplankton to persist in highly dynamic environments may result in communities dominated by occasional species capable of reaching high abundances when conditions allow. Conversely, longer turnover times and broad environmental tolerances of fish may result in communities dominated by core species structured primarily by competitive interactions.     

The rarity concept and the commonness of rarity in freshwater zooplankton

1. Regional distribution, frequency of occurrence and relative abundance were scored in 2467 Norwegian lakes for all the recorded 130 species of crustacean zooplankton. The majority of species were rare in the sense that 65% of species were recorded in fewer than 10% of localities. Only six species were recorded in more than 50% of localities, and the median number of species in a given locality was 14 (i.e. 10% of the total species pool). 2. Abundances of all species were scored according to the fraction of lakes in which they were recorded, their geographical range of distribution, and their numerical abundance. Typically the most rare species were rare by all three criteria, and vice versa for the common species, pointing to rarity as an inherent property of some species. For some species this rarity reflects being on the edge of their distributional range, while for others rarity seems to be a consequence of their life cycle strategies. 3. Some of the truly rare species have high dispersal rates and high colonization abilities, but are rapidly replaced by other species. Others are confined to specific habitats, often highly eutrophic, pointing to highly specialized niche adaptations. 4. A major cause for the few truly common species seems to be the limited number of species that are able to coexist within a given locality, reflecting ‘the ghost of competition past’ and predation pressure. 5. While species composition and species richness may reflect colonization abilities and stochastic events, the presence or absence of species is not only a random lottery but also a consequence of species‐specific attributes.     

Is the endangered Apium repens (Jacq.) Lag. rare because of a narrow regeneration niche?

The conservation of rare plant species is an important aspect of global biodiversity protection, but in many cases these species and the reasons why they are rare are poorly understood. The perennial umbellifer Apium repens is generally regarded to be a rare species all over its European range. We hypothesized that its rarity might be caused by a restricted regeneration niche, that is, highly specific requirements for sexual regeneration, low seed dispersal potential and low endurance capacity of seeds in the ground. We conducted several experimental investigations on its germination ecology, hydrochorous dispersal potential and soil seed bank properties. Apium repens showed high germination success under a variety of abiotic conditions. Either light or cold-wet stratification was necessary to stimulate germination. Seeds were able to float for more than 50 days when protected from precipitation, and soil seed bank sampling revealed that at least some seeds of A. repens were contained in soil depths of up to 10 cm. Overall, our findings do not support the hypothesis that the rarity of A. repens is caused by highly specific requirements for its sexual regeneration. Nonetheless, its germination ecology should be considered when designing conservation measures for this endangered species.     

Are locally rare species abundant elsewhere in their geographical range?

Abstract Ecologists have long sought to understand why some species are rare and others common. For the most part, inconsistent relationships between local rarity and underlying mechanisms have emerged. One possibility for this inconsistency is that locally rare species may not always be rare. However, it is largely unknown whether most locally rare species in a community possess the capacity to become abundant elsewhere in their geographical range. Here, we identified 57 locally rare plant species of open forest in south‐eastern Australia. We found that most of these species (91%) occurred in higher abundance at other sites within their geographical range (somewhere‐abundant species), while the remaining small percentage of locally rare species were consistently rare (everywhere‐sparse species). Somewhere‐abundant species had significantly smaller seeds on average than everywhere‐sparse species in cross‐species regression analysis. This pattern was not maintained when the influence of other life‐history attributes was controlled for, or when phylogenetic relatedness among species was considered explicitly in phylogenetic regression analysis. In both cross‐species and phylogenetic regressions, somewhere‐abundant and everywhere‐sparse species did not differ significantly with respect to growth form, height, regeneration‐after‐fire strategy, or dispersal. Our findings provide further evidence for the notion that theories to account for local rarity which are couched in terms of within‐community interactions alone are incomplete for the majority of species, because they need to account for different outcomes in different places.     

Recovery of conservation values in Central African rain forest after logging and shifting cultivation

Secondary forests in Central Africa are increasing in importance for biodiversity conservation as old growth forests outside the few protected areas are disappearing rapidly. We examined vegetation recovery in a lowland rain forest area in Cameroon based on a detailed botanical survey of old growth forest and different-aged logging gaps (5–27 years) and shifting cultivation fields (10–60 years). Our analysis focuses on the long-term recovery of botanical conservation values by analysing trends in vegetation structure, species composition, species diversity and levels of endemism and rarity. In the total survey (4.25 ha), we recorded 834 species of which 23% were endemic to the Lower Guinea forest region. The proportion of endemic species was high in shrubs and low in herbs. Geographic range and (local) rarity were not significantly associated. The proportion of rare species (relative frequency <10%) was high in woody climbers and low in trees. In logging gaps, recovery of all vegetation characteristics was relatively quick (5–14 years). Recovery in shifting cultivation sites took longer (30–60 years). Endemic species were found to be highly sensitive to shifting cultivation practices and even after 50–60 years the level of endemism was still significantly lower compared to old growth forest. The proportion of rare species was not significantly different between disturbed sites and old growth forest. We conclude that secondary forests can contribute to biodiversity conservation, e.g. as buffer zones around protected areas. However, this contribution should be assessed differently between land use types and widespread versus endemic species.     

The contribution of rare species to community phylogenetic diversity across a global network of forest plots

Niche differentiation has been proposed as an explanation for rarity in species assemblages. To test this hypothesis requires quantifying the ecological similarity of species. This similarity can potentially be estimated by using phylogenetic relatedness. In this study, we predicted that if niche differentiation does explain the co-occurrence of rare and common species, then rare species should contribute greatly to the overall community phylogenetic diversity (PD), abundance will have phylogenetic signal, and common and rare species will be phylogenetically dissimilar. We tested these predictions by developing a novel method that integrates species rank abundance distributions with phylogenetic trees and trend analyses, to examine the relative contribution of individual species to the overall community PD. We then supplement this approach with analyses of phylogenetic signal in abundances and measures of phylogenetic similarity within and between rare and common species groups. We applied this analytical approach to 15 long-term temperate and tropical forest dynamics plots from around the world. We show that the niche differentiation hypothesis is supported in six of the nine gap-dominated forests but is rejected in the six disturbance-dominated and three gap-dominated forests. We also show that the three metrics utilized in this study each provide unique but corroborating information regarding the phylogenetic distribution of rarity in communities.