The geographic and temporal origins of Madagascar's biota have long been in the center of debate. We reconstructed a time-tree including nearly all native nonflying and nonmarine vertebrate clades present on the island, from DNA sequences of two single-copy protein-coding nuclear genes (BDNF and RAG1) and a set of congruent time constraints. Reconstructions calculated with autocorrelated or independent substitution rates over clades agreed in placing the origins of the 31 included clades in Cretaceous to Cenozoic times. The two clades with sister groups in South America were the oldest, followed by those of a putative Asian ancestry that were significantly older than the prevalent clades of African ancestry. No colonizations from Asia occurred after the Eocene, suggesting that dispersal and vicariance of Asian/Indian groups were favored over a comparatively short period during, and shortly after, the separation of India and Madagascar. Species richness of clades correlates with their age but those clades that have a large proportion of species diversity in rainforests are significantly more species-rich. This finding suggests an underlying pattern of continuous speciation through time in Madagascar's vertebrates, with accelerated episodes of adaptive diversification in those clades that succeeded radiating into the rainforests.Cretaceous-Tertiary | historical biogeography | lineage diversification | rainforest adaptation | overseas dispersal M adagascar's unique biodiversity has attracted the interest of evolutionary biologists and biogeographers for a long time. This island was part of the Gondwana supercontinent. As a part of Indo-Madagascar, it separated from Africa 160-130 Mya.

Transcription activator-like effector (TALE) proteins of the plant pathogenic bacterial genus Xanthomonas bind to and transcriptionally activate host susceptibility genes, promoting disease. Plant immune systems have taken advantage of this mechanism by evolving TALE binding sites upstream of resistance ( R ) genes. For example, the pepper Bs3 and rice Xa27 genes are hypersensitive reaction plant R genes that are transcriptionally activated by corresponding TALEs. Both R genes have a hallmark expression pattern in which their transcripts are detectable only in the presence and not the absence of the corresponding TALE. By transcriptome profiling using next-generation sequencing (RNA-seq), we tested whether we could avoid laborious positional cloning for the isolation of TALE-induced R genes. In a proof-of-principle experiment, RNA-seq was used to identify a candidate for Bs4C , an R gene from pepper that mediates recognition of the Xanthomonas TALE protein AvrBs4. We identified one major Bs4C candidate transcript by RNA-seq that was expressed exclusively in the presence of AvrBs4. Complementation studies confirmed that the candidate corresponds to the Bs4C gene and that an AvrBs4 binding site in the Bs4C promoter directs its transcriptional activation. Comparison of Bs4C with a nonfunctional allele that is unable to recognize AvrBs4 revealed a 2-bp polymorphism within the TALE binding site of the Bs4C promoter. Bs4C encodes a structurally unique R protein and Bs4C -like genes that are present in many solanaceous genomes seem to be as tightly regulated as pepper Bs4C . These findings demonstrate that TALE-specific R genes can be cloned from large-genome crops with a highly efficient RNA-seq approach.

BackgroundFunctional diversity illustrates the range of ecological functions in a community. It allows revealing the appearance of functional redundancy in communities and processes of community assembly. Functional redundancy illustrates the overlap in ecological functions of community members which may be an indicator of community resilience. We evaluated patterns of species richness, functional diversity and functional redundancy on tadpole communities in rainforest streams in Madagascar. This habitat harbours the world's most species-rich stream tadpole communities which are due to their occurrence in primary habitat of particular interest for functional diversity studies.ResultsSpecies richness of tadpole communities is largely determined by characteristics of the larval habitat (stream structure), not by adult habitat (forest structure). Species richness is positively correlated with a size-velocity gradient of the streams, i.e. communities follow a classical species-area relationship. While widely observed for other taxa, this is an unusual pattern for anuran larvae which usually is expected to be hump-shaped. Along the species richness gradient, we quantified functional diversity of all communities considering the similarity and dissimilarity of species in 18 traits related to habitat use and foraging. Especially species-rich communities were characterised by an overlap of species function, i.e. by functional redundancy. By comparing the functional diversity of the observed communities with functional diversity of random assemblages, we found no differences at low species richness level, whereas observed species-rich communities have lower functional diversity than respective random assemblages.ConclusionsWe found functional redundancy being a feature of communities also in primary habitat, what has not been shown before using such a continuous measure. The observed species richness dependent pattern of low functional diversity indicates that communities with low species richness accumulate functional traits randomly, whereas species in species-rich communities are more similar to each other than predicted by random assemblages and therefore exhibit an accumulation of stream-specific functional traits. Beyond a certain species richness level, therefore, stream-specific environmental filters exert influence whereas interspecific competition between species does not influence trait assemblage at any species richness level.

We provide detailed morphological descriptions of the tadpoles of Malagasy river bank frogs of the subgenera Ochthomantis and Maitsomantis (genus Mantidactylus, family Mantellidae), and data on relative abundance and habitat preferences of Ochthomantis species from Ranomafana National Park in southeastern Madagascar. Our study includes the tadpoles of six described and four undescribed candidate species. Eight of these larvae were previously unknown. Tadpoles were identified by DNA barcoding. Due to the very rudimentary taxonomic knowledge on Ochthomantis, we followed a ‘reverse taxonomy’ approach in which adult classification was to a great part determined on the basis of larval differences. By this procedure we even identified one candidate species whose adults remain still unknown. The majority of tadpoles in Ochthomantis and Maitsomantis have a rather similar body shape and they usually have similar habitat requirements. However, on the basis of the structure of their oral disk we identified three distinct groups: the first includes the femoralis-like tadpoles of Mantidactylus femoralis, M. ambreensis, M. zolitschka, M. argenteus, and of the candidate species named M. sp. 42, M. sp. 43 and M. sp. 47. They all have a reduced oral disk with poorly keratinized jaw sheaths and labial teeth. The mocquardi-like tadpoles of M. mocquardi and M. sp. 64 are placed in the second group and are characterized by a further reduction of oral disk structures, i.e. a complete lack of labial teeth. The third group includes only M. majori and is characterized by the transformation of the upper jaw sheath into three thorn-shaped projections. Based on a preliminary molecular phylogenetic analysis the reduction of keratinized oral structures in M. majori may have occurred convergently to that in M. mocquardi. The ecological data indicate that the tadpoles of the three most abundant species in Ranomafana (M. femoralis, M. majori and M. sp. 47) do not obviously differ in their choice of microhabitat although the differences in their oral structures indicate that they might use different food resources. They all show a preference for the stream areas with slow current and leaf litter substrate.