Palaeo-precipitation is a major determinant of palm species richness patterns across Madagascar: a tropical biodiversity hotspot

The distribution of rainforest in many regions across the Earth was strongly affected by Pleistocene ice ages. However, the extent to which these dynamics are still important for modern-day biodiversity patterns within tropical biodiversity hotspots has not been assessed. We employ a comprehensive dataset of Madagascan palms (Arecaceae) and climate reconstructions from the last glacial maximum (LGM; 21 000 years ago) to assess the relative role of modern environment and LGM climate in explaining geographical species richness patterns in this major tropical biodiversity hotspot. We found that palaeoclimate exerted a strong influence on palm species richness patterns, with richness peaking in areas with higher LGM precipitation relative to present-day even after controlling for modern environment, in particular in northeastern Madagascar, consistent with the persistence of tropical rainforest during the LGM primarily in this region. Our results provide evidence that diversity patterns in the World''s most biodiverse regions may be shaped by long-term climate history as well as contemporary environment.     

South American palaeobotany and the origins of neotropical rainforests

Extant neotropical rainforest biomes are characterized by a high diversity and abundance of angiosperm trees and vines, high proportions of entire-margined leaves, high proportions of large leaves (larger than 4500 mm2), high abundance of drip tips and a suite of characteristic dominant families: Sapotaceae, Lauraceae, Leguminosae (Fabaceae), Melastomataceae and Palmae (Arecaceae). Our aim is to define parameters of extant rainforests that will allow their recognition in the fossil record of South America and to evaluate all known South American plant fossil assemblages for first evidence and continued presence of those parameters. We ask when did these critical rainforest characters arise? When did vegetative parameters reach the level of abundance that we see in neotropical forests? Also, when do specific lineages become common in neotropical forests? Our review indicates that evidence of neotropical rainforest is exceedingly rare and equivocal before the Palaeocene. Even in the Palaeocene, the only evidence for tropical rainforest in South America is the appearance of moderately high pollen diversity. By contrast, North American sites provide evidence that rainforest leaf physiognomy was established early in the Palaeocene. By the Eocene in South America, several lines of evidence suggest that neotropical rainforests were diverse, physiognomically recognizable as rainforest and taxonomically allied to modern neotropical rainforests. A mismatch of evidence regarding the age of origin between sites of palaeobotanical high diversity and sites of predicted tropical climates should be reconciled with intensified collecting efforts in South America. We identify several lines of promising research that will help to coalesce previously disparate approaches to the origin, longevity and maintenance of high diversity floras of South America.     

The role of shaded cocoa plantations in the maintenance of epiphytic orchids and their interactions with phorophytes

生境丧失和破碎化是热带森林生物多样性的主要威胁。遮荫的可可种植园(SCP)等农业生态系统为热带森林生物群提供了庇护。然而,在这些转化后的生境中是否还维持种间生态的相互作用,目前尚鲜为人知。我们评定附生兰花群落的多样性、繁殖状态和光合代谢(CAM或C₃),以及与热带雨林(TRF)相比,它们与SCP中寄主树种(附生植物)之间的相互作用。在墨西哥东南部,对TRF和SCP中各三个采样地点进行研究。每个采样地点建立了4个400平方米的样地,调查记录所有兰花及其附生植物。我们依据花/果实(或残体)是否存在来确定每个兰花个体的繁殖(成体)或非繁殖(幼体)状态,并根据文献确定每种兰花的光合作用途径。我们采用真正的分集和生态网络的方法分别分析兰花的多样性以及兰科与附生植物间的相互作用。我们一共记录了47个兰花种的607个个体。在TRF (19个有效物种)中的兰花多样性高于SCP (11个有效物种),两个生境之间仅共享7个物种。SCP (53%)中的CAM兰花物种比TRF (14%)更常见。在群落水平上,SCP维持了非生殖兰花和生殖兰花的比例以及TRF兰科附生植物网络的嵌套结构和特异化水平。然而,SCP中仅保留一部分的TRF附生兰花,突显出保护TRF的重要性。尽管存在这种差异,诸如SCP类型的遮荫农业生态系统仍然可以维持天然林的一些多样性和功能,因为SCP附生兰花群落主要由CAM物种组成,其附生植物构成了一个嵌套的相互作用网络,对干扰形成了更强的抗性。     

西双版纳热带季节雨林的研究

本文以多个样方的资料分析,从群落综合特征上研究了西双版纳热带季节雨林的特点和类型、物种组成、生活型谱、叶级谱等。根据上层标志树种、群落生态外貌特征和生境把西双版纳的热带季节雨林区分为低丘雨林和沟谷雨林二个群系组,各包括若干群系。低丘雨林中面积最大和最有代表性的群系是大药树、龙果林,而沟谷雨林中最有代表性的群系是番龙眼、千果榄仁林。二者相比,低丘雨林的物种多样性要小一些,附生植物相对少一些,小、矮高位芽植物和小叶、落叶树种比例稍高,在生态上向季雨林和热带山地的常绿阔叶林过渡,有更强的地方代表性。沟谷雨林则更接近典型的湿热带雨林。     

The cryptogamic flora of an isolated rainforest fragment in Tasmania

The cryptogamic flora of a small isolated natural fragment of rainforest in south-eastern Tasmania has retained its rainforest character but has been modified in comparison to the flora of large, well-buffered rainforest stands. There is a high proportion of widespread wet forest species and many typical rainforest lichens and bryophytes are absent or represented only by depauperate and/or sterile individuals. The relative proportions of hepatics to mosses is reversed compared with that normally found in rainforest and there is a much lower diversity in the bryophyte flora. In spite of these modifications, the flora of the rainforest fragment is quite distinct from that of the surrounding sclerophyll vegetation. The community acts as a refuge for many species and contributes significantly to the overall biodiversity of the area. The site is very important for biological conservation but the data suggest that the ecosystem is extremely fragile and must be protected from future disturbance if its rainforest flora is to survive. The new combination, Bacidia vallatula (Jatta) Kantvilas, is proposed, and the lichen Byssoloma subdiscordans (Nyl.) P. James is recorded from Tasmania for the first time.     

Phylogenomic approaches reveal how climate shapes patterns of genetic diversity in an African rain forest tree species

The world's second largest expanse of tropical rainforest is in Central Africa, and it harbours enormous species diversity. Population genetic studies have consistently revealed significant structure across Central African rainforest plants. In particular, previous studies have repeatedly demonstrated a north–south genetic discontinuity around the equatorial line, in a continuous expanse of rainforest where a climatic inversion is documented. Here, we took a phylogeographic approach by sequencing 351 nuclear markers in 112 individuals across the distribution of the African rainforest tree species Annickia affinis (Annonaceae). We showed for the first time that the north–south divide is the result of a single, major colonization event across the climatic inversion from an ancestral population located in Gabon. We suggested that differences in ecological niche of populations located on either side of this inversion may have contributed to this phylogenetic discontinuity. We found evidence for inland dispersal, predominantly in northern areas, and variable demographic histories among genetic clusters, indicating that populations responded differently to past climate change. We show how newly developed genomic tools can provide invaluable insights into our understanding of tropical rainforest evolutionary dynamics.     

Pronounced genetic diversity in tropical epiphyllous lichen fungi

Lowland tropical habitats harbour an unexplored genetic diversity of epiphyllous fungi. In the shade of rainforest understoreys, lichenized fungi are specialized to an ephemeral habitat where they produce little vegetative biomass and develop reproductive structures early. In a first population genetic study of epiphyllous lichen fungi, we analysed the intraspecific genetic diversity of five leaf-colonizing lichen mycobiont species. Sampling focused on a lowland perhumid forest plot in Costa Rica, with additional collections from other localities throughout the country. In all species we detected sympatric occurrence of highly diverged haplotypes. Haplotypes belonging to distinct clades in networks were also found on the same leaf, clearly indicating multiple independent colonization events on single leaves. Despite the unusually high genetic diversity of these leaf-colonizing tropical fungi, we did not detect pronounced spatial structure of the haplotype distribution between geographical regions. The observed patterns suggest that the diversity of foliicolous lichens could be much higher than expected, with several cryptic genetic lineages within each morphologically characterized species.     

Polymorphism of mitochondrial genes in populations of Leporinus friderici (Bloch, 1794): intraspecific structure and zoogeography of the Neotropical fish

On the basis of faunistic and floristic inventories, various authors have developed the forest refuge theory to explain species diversity in humid tropical regions. Renno et al. (1990) used electrophoretic markers to study the genetic structure of Leporinus friderici and suggested the existence of an aquatic refuge on the Guiana shield. In the present study, mitochondrial markers (RFLP) confirmed and complemented the previous electrophoretic study. Four multimorphs were evidenced, allowing the populations to be separated into two sets on either side of the eastern edge of the Guiana refuge, i.e. the Kourou river region in French Guiana.     

Lack of genetic structure among ecologically adapted populations of an Australian rainforest Drosophila species as indicated by microsatellite markers and mitochondrial DNA sequences

Although fragmented rainforest environments represent hotspots for invertebrate biodiversity, few genetic studies have been conducted on rainforest invertebrates. Thus, it is not known if invertebrate species in rainforests are highly genetically fragmented, with the potential for populations to show divergent selection responses, or if there are low levels of gene flow sufficient to maintain genetic homogeneity among fragmented populations. Here we use microsatellite markers and DNA sequences from the mitochondrial ND5 locus to investigate genetic differences among Drosophila birchii populations from tropical rainforests in Queensland, Australia. As found in a previous study, mitochondrial DNA diversity was low with no evidence for population differentiation among rainforest fragments. The pattern of mitochondrial haplotype variation was consistent with D. birchii having undergone substantial past population growth. Levels of nuclear genetic variation were high in all populations while F(ST) values were very low, even for flies from geographically isolated areas of rainforest. No significant differentiation was observed between populations on either side of the Burdekin Gap (a long-term dry corridor), although there was evidence for higher gene diversity in low-latitude populations. Spatial autocorrelation coefficients were low and did not differ significantly from random, except for one locus which revealed a clinal-like pattern. Comparisons of microsatellite differentiation contrasted with previously established clinal patterns in quantitative traits in D. birchii, and indicate that the patterns in quantitative traits are likely to be due to selection. These results suggest moderate gene flow in D. birchii over large distances. Limited population structure in this species appears to be due to recent range expansions or cycles of local extinctions followed by recolonizations/expansions. Nevertheless, patterns of local adaptation have developed in D. birchii that may result in populations showing different selection responses when faced with environmental change.     

The use of biotechnology in the conservation of tropical germplasm

The rapid erosion of the genetic diversity of both wild and cultivated plants has recently attracted more and more international concern. As a consequence, germplasm conservation techniques have become accessible to protect the third world's germplasm diversity. Several approaches are used for germplasm conservation and utilization. The evaluation and use of these techniques has to be focussed with one important objective; to preserve with as much integrity as possible, the genetic variability of the selected species.Questions have risen about the best way to preserve genetic diversity of the humid tropics, since it is being recognized that these conditions hold much of the world's gene pool of plants. Seed banks are considered the best system for orthodox seed storage. For many tropical species that cannot support dehydration, tissue culture and cryoconservation are the best alternative. Important considerations regarding the adaptation of modern techniques to tropical species have to be carefully analyzed. Quantitative studies of genetic indices of somaclonal variation, or types or mutant plants can be observed.Consideration of plant germplasm as a base for genetic improvement has come a long way, but much remains to be done, particularly, with the plant diversity that exists in the tropics. All efforts to conserve and use genetic resources will contribute to the benefit of future human generations.     

Genetic structure of the xerophilous bromeliad Pitcairnia geyskesii on inselbergs in French Guiana – a test of the forest refuge hypothesis

Inselbergs are isolated granitic rock outcrops that provide distinctive ecological conditions. In northern South America they rise above the surrounding rainforest. Among inselberg specialists, Pitcairnia geyskesii (Bromeliaceae) is restricted to these habitats in French Guiana. We studied populations from 12 inselbergs using 7 microsatellite loci to give a "reverse image" of the reduction-expansion of the rainforest in the context of the refuge hypothesis. Our analyses showed that populations are fragmented with dispersal occurring only over very short distances. Genetic diversity was higher in northern French Guiana, whereas specific alleles were observed in the south. The results point to the occurrence of a dry corridor in the north, as hypothesized by Tardy (1998) based on charcoal analyses, whereas de Granville's (1982) hypothesis of a unique past refuge is not confirmed. Moreover, our data suggests the importance of Oyapock River as a pathway for range expansion, arguing against the potential role of the Inini-Camopi Mountains as a physical barrier. Finally, in spite of a strongly argued scenario in favour of a north-to-south migration history, a clear genetic isolation of P. geyskesii populations living on inselbergs of the Mitaraka archipelago suggests a distinct ancestry of the most southern populations.     

Soil phosphorus heterogeneity promotes tree species diversity and phylogenetic clustering in a tropical seasonal rainforest

The niche theory predicts that environmental heterogeneity and species diversity are positively correlated in tropical forests, whereas the neutral theory suggests that stochastic processes are more important in determining species diversity. This study sought to investigate the effects of soil nutrient (nitrogen and phosphorus) heterogeneity on tree species diversity in the Xishuangbanna tropical seasonal rainforest in southwestern China. Thirty‐nine plots of 400 m² (20 × 20 m) were randomly located in the Xishuangbanna tropical seasonal rainforest. Within each plot, soil nutrient (nitrogen and phosphorus) availability and heterogeneity, tree species diversity, and community phylogenetic structure were measured. Soil phosphorus heterogeneity and tree species diversity in each plot were positively correlated, while phosphorus availability and tree species diversity were not. The trees in plots with low soil phosphorus heterogeneity were phylogenetically overdispersed, while the phylogenetic structure of trees within the plots became clustered as heterogeneity increased. Neither nitrogen availability nor its heterogeneity was correlated to tree species diversity or the phylogenetic structure of trees within the plots. The interspecific competition in the forest plots with low soil phosphorus heterogeneity could lead to an overdispersed community. However, as heterogeneity increase, more closely related species may be able to coexist together and lead to a clustered community. Our results indicate that soil phosphorus heterogeneity significantly affects tree diversity in the Xishuangbanna tropical seasonal rainforest, suggesting that deterministic processes are dominant in this tropical forest assembly.     

The effects of land use change on native dung beetle diversity and function in Australia's Wet Tropics

The impacts of land use change on biodiversity and ecosystem functions are variable, particularly in fragmented tropical rainforest systems with high diversity. Dung beetles (Scarabaeinae) are an ideal group to investigate the relationship between land use change, diversity and ecosystem function as they are easily surveyed, sensitive to habitat modification and perform many ecosystem functions. Although this relationship has been investigated for dung beetles in some tropical regions, there has been no study assessing how native dung beetles in Australia's tropical rainforests respond to deforestation, and what the corresponding consequences are for dung removal (a key ecosystem function fulfilled by dung beetles). In this study we investigated the relationship between dung beetle community attributes (determined through trapping) and function (using dung removal experiments that allowed different dung beetle functional groups to access the dung) in rainforest and cleared pasture in a tropical landscape in Australia's Wet Tropics. Species richness, abundance and biomass were higher in rainforest compared to adjacent pasture, and species composition between these land use types differed significantly. However, average body size and evenness in body size were higher in pasture than in rainforest. Dung removal was higher in rainforest than in pasture when both functional groups or tunnelers only could access the dung. Increased dung removal in the rainforest was explained by higher biodiversity and dominance of a small number of species with distinct body sizes, as dung removal was best predicted by the evenness in body size of the community. Our findings suggest that functional traits (including body size and dung relocation behaviour) present in a dung beetle community are key drivers of dung removal. Overall, our results show that deforestation has reduced native dung beetle diversity in Australian tropical landscapes, which negatively impacts on the capacity for dung removal by dung beetles in this region.     

Tropical nematode diversity: vertical stratification of nematode communities in a Costa Rican humid lowland rainforest

Comparisons of nematode communities among ecosystems have indicated that, unlike many organisms, nematode communities have less diversity in the tropics than in temperate ecosystems. There are, however, few studies of tropical nematode diversity on which to base conclusions of global patterns of diversity. This study reports an attempt to estimate nematode diversity in the lowland tropical rainforest of La Selva Biological Research Station in Costa Rica. We suggest one reason that previous estimates of tropical nematode diversity were low is because habitats above the mineral soil are seldom sampled. As much as 62% of the overall genetic diversity, measured by an 18S ribosomal barcode, existed in litter and understorey habitats and not in soil. A maximum-likelihood tree of barcodes from 360 individual nematodes indicated most major terrestrial nematode lineages were represented in the samples. Estimated 'species' richness ranged from 464 to 502 within the four 40 × 40 m plots. Directed sampling of insects and their associated nematodes produced a second set of barcodes that were not recovered by habitat sampling, yet may constitute a major class of tropical nematode diversity. While the generation of novel nematode barcodes proved relatively easy, their identity remains obscure due to deficiencies in existing taxonomic databases. Specimens of Criconematina, a monophyletic group of soil-dwelling plant-parasitic nematodes were examined in detail to assess the steps necessary for associating barcodes with nominal species. Our results highlight the difficulties associated with studying poorly understood organisms in an understudied ecosystem using a destructive (i.e. barcode) sampling method.     

Population genetic structuring in a rare tropical plant: Idiospermum australiense (Diels) S.T. Blake

Idiospermum australiense (Diels) S.T. Blake is considered to be one of the few remaining species of an ancient assemblage to have survived the attrition of Australian tropical rain forest during historically drier periods. This monotypic species is currently restricted to two very wet lowland rain forest locations in Australia’s wet tropical World Heritage Area that are thought to have provided refuge for humid-adapted taxa during the last glacial maximum. Two dominant (RAPD and ISSR) molecular marker sets were employed to investigate whether the genetic structure of Idiospermum could be attributed to its restriction to these quite disjunct localities. The results reveal that neither its restriction to purported Pleistocene refugia nor the geographic distance between populations could fully explain the distribution of variation in the Idiospermum data set, with evidence to suggest that potentially deeper time events have played a role in population structuring and the distribution of diversity. Although there is sufficient evidence in the data to suggest that gene dispersal is quite limited in the species, further investigation is still needed to yield more informative detail on additional factors, such as breeding and germination strategies and their potential influence over population structuring and diversity levels within each population and refugium.     

西双版纳片断热带雨林蝶类群落结构与多样性研究

对西双版纳片断热带雨林蝴蝶群落结构和多样性进行了研究。样地内共收集蝴蝶9 204号,隶属于10科,62属,84种。主要成分是：粉蝶科(粉蝶属、迁粉蝶属)、凤蝶科 (凤蝶属、麝凤蝶属)、蛱蝶科(斐豹蛱蝶属、尾蛱蝶属),眼蝶科(幕眼蝶属、矍眼蝶屑)等属的种类。属、种以风蝶科最丰富;个体数量以粉蝶科最多;喙蝶科的属、种和个体数量最少。各样地的多样性指数、均匀度和种类丰富度是：热带原始雨林自然保护区>城子片断热带雨林>植物园片断热带雨林>曼峨片断热带雨林。     

The patterns of genetic diversity in Carpentaria acuminata (Arecaceae), and rainforest history in northern Australia

Carpentaria acuminata occurs in monsoon rainforest and is endemic to the Northern Territory, Australia. The genetic diversity of C. acuminata populations was surveyed across the geographical range of the species using isozyme analysis. Genetic diversity within C. acuminata populations ( H _E = 0.143) was typical of rainforest species and woody angiosperms generally. Genetic diversity was not correlated with rainforest patch size. However, there was significant heterogeneity among populations ( F _ST = 0.379), with infrequent effective gene flow among populations ( Nm = 0.39). Genetic diversity was negatively correlated with increasing distance between neighbouring C. acuminata populations, but geographical distance was not a good predictor of genetic similarity. C. acuminata is a favoured food of mobile frugivores such as Torres Strait pigeons and flying foxes. The decreased diversity with decreasing density of populations indicated that seed dispersal by frugivores has been important for the maintenance of diversity in this species. Populations known to have originated on relatively young, Holocene landforms were not necessarily genetically depauperate. Gene flow by pollen is apparently limited because C. acuminata populations are significantly inbred regardless of genetic diversity ( F = 0.641). The distribution and diversity of rare alleles, i.e. those occurring in few populations, is consistent with the theory of rainforest contraction during the Pleistocene.     

A new scenario for the quaternary history of European beech populations: palaeobotanical evidence and genetic consequences

Here, palaeobotanical and genetic data for common beech (Fagus sylvatica) in Europe are used to evaluate the genetic consequences of long-term survival in refuge areas and postglacial spread. Four large datasets are presented, including over 400 fossil-pollen sites, 80 plant-macrofossil sites, and 450 and 600 modern beech populations for chloroplast and nuclear markers, respectively. The largely complementary palaeobotanical and genetic data indicate that: (i) beech survived the last glacial period in multiple refuge areas; (ii) the central European refugia were separated from the Mediterranean refugia; (iii) the Mediterranean refuges did not contribute to the colonization of central and northern Europe; (iv) some populations expanded considerably during the postglacial period, while others experienced only a limited expansion; (v) the mountain chains were not geographical barriers for beech but rather facilitated its diffusion; and (vi) the modern genetic diversity was shaped over multiple glacial-interglacial cycles. This scenario differs from many recent treatments of tree phylogeography in Europe that largely focus on the last ice age and the postglacial period to interpret genetic structure and argue that the southern peninsulas (Iberian, Italian and Balkan) were the main source areas for trees in central and northern Europe.     

西双版纳热带雨林下砂仁拔除后的生态恢复

 种植砂仁（Amomum villosum）对西双版纳热带雨林植物多样性的影响引起了人们的关注。通过西双版纳热带雨林下种植的砂仁拔除后的生态恢复两年的研究工作,结果表明砂仁排除后：1）林下植物数量显著增加,超过同等类型的没种过砂仁的原始热带雨林;植物种类、物种多样性和均匀度都有大幅度增加,与原始热带雨林差别不大;群落组成成分仍向着热带雨林演替,优势种不明显,其中,草本和蕨类植物增加显著;2）林下植物生长速率在旱季与原始林差别不大,但在雨季可有较快生长;生物量在两年内可达到(636.1±43.4) g·m-2,超过原始林,特别是草本和蕨类植物生长较快;3）土壤含水量得到提高,与原始林相比差异不显著,并且,涵养水源的能力有所增加;深层土壤有机质的含量增加显著,速效磷含量需要更长时间的植被恢复才能有所提高,速效钾受淋洗作用的影响,地表有大量损失。文中最后讨论指出,热带林下砂仁实现斑块式的轮歇种植是协调保护与发展的较好方法,这在偏远少数民族地区有着较好的可行性。     

海南石梅湾青皮林最小取样面积与物种多样性研究

石梅湾海岸青皮(Vatica hainanensis)林是海南独特的雨林群落之一。本文选用8种“种-面积渐近线”对该群落的最小取样面积进行了拟合研究。结果表明,其中5条曲线的R^2大于0．97,拟合状况很好,但所得出的最小取样面积各不相同。进一步经过“重要值-面积曲线”的群落特征分析,确认群落的最小取样面积只有800m^2。石梅湾青皮林最小取样面积比海南其他类型雨林、滇南热带雨林、东南亚热带雨林以及非洲雨林都要小。通过对1000m^2样地的物种多样性分析,结果表明：在垂直结构上,石梅湾青皮林B层乔木的Gleason指数大于A层乔木,和海南山地雨林的情况不同。海岸青皮林为物种多样性不高的单优林,群落的物种多样性、均匀度远小于海南其他类型的山地雨林与混合青皮林;在海岸青皮林群落内,青皮的相对密度、相对优势度、重要值大大高于其他物种。此研究表明：海南热带雨林同样存在物种多样性不高、单优特征显著的顶极群落;海南海岸青皮林是迄今为止热带雨林取样面积最小的森林类型。