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Chartier, M., Pélozuelo, L., Buatois, B., Bessière, J. - M., & Gibernau, M. (2013). Geographical variations of odour and pollinators, and test for local adaptation by reciprocal transplant of two European Arum species. Funct. Ecol., 27(6), 1367–1381.
Abstract: Interactions between entomophilous plants and their pollinators are one of the major factors shaping the evolution of floral features. As species are distributed in more or less connected populations, they have evolved in a geographical mosaic of co-evolution were the outcome of the plant-pollinator interaction is likely to vary as a result of local adaptations. Arum italicum and Arum maculatum are two species of Araceae which deceive their fly pollinators by mimicking the odour of their oviposition sites. Whereas A. italicum is known to be pollinated by flies belonging to different families (i.e. opportunist), A. maculatum relies on only two pollinating species of the family Psychodidae throughout its European repartition area (i.e. specialist). The interannual and geographical variations of pollinators and pollinator-attractive odours were described in several populations of the two species over two consecutive years. Furthermore, local adaptation to pollinators was tested by transplanting inflorescence-bearing plants between two different sites and by recording the number and composition of the insect fauna trapped inside the inflorescences during anthesis as a measure of a fitness component. Pollinators and pollinator-attractive odours of the two Arum species varied in time and space, but there was no clear odour structure between populations. When transplanted, inflorescences of both species trapped the same composition and number of insects as native inflorescences at a given site; this indicates that pollinator composition is highly dependent on the local availability of insects. No pattern of local adaptation was found for these two species, but local pollination conditions were shown to strongly affect the degree of geographical variations of these interactions. The lack of a clear odour geographical structure might be due to high gene flow or to similar selective pressures exerted by pollinators, and the high interindividual odour variation may be linked to the deceptive strategy adopted by the two plant species. © 2013 British Ecological Society.
Keywords: Deception; Diptera; Floral scent; Geographical mosaic; Psychodidae; Sapromyophily; Transplant experiment
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Fukami, T., Nakajima, M., Fortunel, C., Fine, P. V. A., Baraloto, C., Russo, S. E., et al. (2017). Geographical variation in community divergence: insights from tropical forest monodominance by ectomycorrhizal trees. American Naturalist, 190, S105–S122.
Abstract: Convergence occurs in both species traits and community structure, but how convergence at the two scales influences each other remains unclear. To address this question, we focus on tropical forest monodominance, in which a single, often ectomycorrhizal (EM) tree species occasionally dominates forest stands within a landscape otherwise characterized by diverse communities of arbuscular mycorrhizal (AM) trees. Such monodominance is a striking potential example of community divergence resulting in alternative stable states. However, it is observed only in some tropical regions. A diverse suite of AM and EM trees locally codominate forest stands elsewhere. We develop a hypothesis to explain this geographical difference using a simulation model of plant community assembly. Simulation results suggest that in a region with a few EM species (e.g., South America), EM trees experience strong selection for convergent traits that match the abiotic conditions of the environment. Consequently, EM species successfully compete against other species to form monodominant stands via positive plant-soil feedbacks. By contrast, in a region with many EM species (e.g., Southeast Asia), species maintain divergent traits because of complex plant-soil feedbacks, with no species having traits that enablemonodominance. An analysis of plant trait data from Borneo and Peruvian Amazon was inconclusive. Overall, this work highlights the utility of geographical comparison in understanding the relationship between trait convergence and community convergence. © 2017 by The University of Chicago.
Keywords: Community assembly; Mycorrhizae; Plant traits; Plant-soil feedback; Priority effects; Species pools
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Franklin, J., Andrade, R., Daniels, M. L., Fairbairn, P., Fandino, M. C., Gillespie, T. W., et al. (2018). Geographical ecology of dry forest tree communities in the West Indies. J Biogeogr, 45(5), 1168–1181.
Abstract: Abstract Aim Seasonally dry tropical forest (SDTF) of the Caribbean Islands (primarily West Indies) is floristically distinct from Neotropical SDTF in Central and South America. We evaluate whether tree species composition was associated with climatic gradients or geographical distance. Turnover (dissimilarity) in species composition of different islands or among more distant sites would suggest communities structured by speciation and dispersal limitations. A nested pattern would be consistent with a steep resource gradient. Correlation of species composition with climatic variation would suggest communities structured by broad-scale environmental filtering. Location The West Indies (The Bahamas, Cuba, Hispaniola, Jamaica, Puerto Rico, US Virgin Islands, Guadeloupe, Martinique, St. Lucia), Providencia (Colombia), south Florida (USA) and Florida Keys (USA). Taxon Seed plants?woody taxa (primarily trees). Methods We compiled 572 plots from 23 surveys conducted between 1969 and 2016. Hierarchical clustering of species in plots, and indicator species analysis for the resulting groups of sites, identified geographical patterns of turnover in species composition. Nonparametric analysis of variance, applied to principal components of bioclimatic variables, determined the degree of covariation in climate with location. Nestedness versus turnover in species composition was evaluated using beta diversity partitioning. Generalized dissimilarity modelling partitioned the effect of climate versus geographical distance on species composition. Results Despite a set of commonly occurring species, SDTF tree community composition was distinct among islands and was characterized by spatial turnover on climatic gradients that covaried with geographical gradients. Greater Antillean islands were characterized by endemic indicator species. Northern subtropical areas supported distinct, rather than nested, SDTF communities in spite of low levels of endemism. Main conclusions The SDTF species composition was correlated with climatic variation. SDTF on large Greater Antillean islands (Hispaniola, Jamaica and Cuba) was characterized by endemic species, consistent with their geological history and the biogeography of plant lineages. These results suggest that both environmental filtering and speciation shape Caribbean SDTF tree communities.
Keywords: beta diversity; Caribbean; community composition; seasonally dry tropical forest; species turnover; tropical dry forest; West Indies
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Strasburg, J. L., Scotti-Saintagne, C., Scotti, I., Lai, Z., & Rieseberg, L. H. (2009). Genomic Patterns of Adaptive Divergence between Chromosomally Differentiated Sunflower Species. Mol. Biol. Evol., 26(6), 1341–1355.
Abstract: Understanding the genetic mechanisms of speciation and basis of species differences is among the most important challenges in evolutionary biology. Two questions of particular interest are what roles divergent selection and chromosomal differentiation play in these processes. A number of recently proposed theories argue that chromosomal rearrangements can facilitate the development and maintenance of reproductive isolation and species differences by suppressing recombination within rearranged regions. Reduced recombination permits the accumulation of alleles contributing to isolation and adaptive differentiation and protects existing differences from the homogenizing effects of introgression between incipient species. Here, we examine patterns of genetic diversity and divergence in rearranged versus collinear regions in two widespread, extensively hybridizing sunflower species, Helianthus annuus and Helianthus petiolaris, using sequence data from 77 loci distributed throughout the genomes of the two species. We find weak evidence for increased genetic divergence near chromosomal break points but not within rearranged regions overall. We find no evidence for increased rates of adaptive divergence on rearranged chromosomes; in fact, collinear chromosomes show a far greater excess of fixed amino acid differences between the two species. A comparison with a third sunflower species indicates that much of the nonsynonymous divergence between H. annuus and H. petiolaris probably occurred during or soon after their formation. Our results suggest a limited role for chromosomal rearrangements in genetic divergence, but they do document substantial adaptive divergence and provide further evidence of how species integrity and genetic identity can be maintained at many loci in the face of extensive hybridization and gene flow.
Keywords: species boundaries; chromosomal rearrangements; positive selection; hybridization; sunflowers; Helianthus
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Woolfit, M., Iturbe-Ormaetxe, I., Brownlie, J. C., Walker, T., Riegler, M., Seleznev, A., et al. (2013). Genomic evolution of the pathogenic Wolbachia strain, wMelPop. Genome Biolog. Evol., 5(11), 2189–2204.
Abstract: Most strains of the widespread endosymbiotic bacterium Wolbachia pipientis are benign or behave as reproductive parasites. The pathogenic strain wMelPop is a striking exception, however: it overreplicates in its insect hosts and causes severe life shortening. The mechanism of this pathogenesis is currently unknown. We have sequenced the genomes of three variants of wMelPop and of the closely related nonpathogenic strain wMelCS. We show that the genomes of wMelCS and wMelPop appear to be identical in the nonrepeat regions of the genome and differ detectably only by the triplication of a 19-kb region that is unlikely to be associated with life shortening, demonstrating that dramatic differences in the host phenotype caused by this endosymbiont may be the result of only minor genetic changes. We also compare the genomes of the original wMelPop strain from Drosophila melanogaster and two sequentialderivatives, wMelPop-CLA and wMelPop-PGYP. To develop wMelPop as a novel biocontrol agent, it was first transinfected into and passaged in mosquito cell lines for approximately 3.5 years, generating wMelPop-CLA. This cell line-passaged strain was then transinfected into Aedesaegypti mosquitoes, creating wMelPop-PGYP,which wassequenced after 4yearsin the insecthost. We observe a rapid burst of genomic changes during cell line passaging, but no further mutations were detected after transinfection into mosquitoes, indicating either that host preadaptation had occurred in cell lines, that cell lines are a more selectively permissive environment than animal hosts, or both. Our results provide valuable data on the rates of genomic and phenotypic change in Wolbachia associated with host shifts over short time scales. © The Author(s) 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.
Keywords: Endosymbiont; Evolution; Genomics; Wolbachia
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Malé, P. - J. G., Bardon, L., Besnard, G., Coissac, E., Delsuc, F., Engel, J., et al. (2014). Genome skimming by shotgun sequencing helps resolve the phylogeny of a pantropical tree family. Mol. Ecol. Resour., 14(5), 966–975.
Abstract: Whole genome sequencing is helping generate robust phylogenetic hypotheses for a range of taxonomic groups that were previously recalcitrant to classical molecular phylogenetic approaches. As a case study, we performed a shallow shotgun sequencing of eight species in the tropical tree family Chrysobalanaceae to retrieve large fragments of high-copy number DNA regions and test the potential of these regions for phylogeny reconstruction. We were able to assemble the nuclear ribosomal cluster (nrDNA), the complete plastid genome (ptDNA) and a large fraction of the mitochondrial genome (mtDNA) with approximately 1000×, 450× and 120× sequencing depth respectively. The phylogenetic tree obtained with ptDNA resolved five of the seven internal nodes. In contrast, the tree obtained with mtDNA and nrDNA data were largely unresolved. This study demonstrates that genome skimming is a cost-effective approach and shows potential in plant molecular systematics within Chrysobalanaceae and other under-studied groups. © 2014 John Wiley & Sons Ltd.
Keywords: Next-generation sequencing; Organellar genome; Phylogenomics; Tropical trees
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Scotti-Saintagne, C., Mariette, S., Porth, I., Goicoechea, P. G., Barreneche, T., Bodenes, K., et al. (2004). Genome scanning for interspecific differentiation between two closely related oak species [Quercus robur L. and Q petraea (Matt.) Liebl.]. Genetics, 168(3), 1615–1626.
Abstract: Interspecific differentiation values (G(ST)) between two closely related oak species (Quercus petraea and Q. robur) were compiled across different studies with the aim to explore the distribution of differentiation at the genome level. The study was based on a total set of 389 markers (isozymes, AFLPs, SCARs, microsatellites, and SNPs) for which allelic frequencies were estimated in pairs of populations sampled throughout the sympatric distribution of the two species. The overall distribution of GST values followed an L-shaped curve with most markers exhibiting low species differentiation (G(ST) < 0.01) and only a few loci reaching >10% levels. Twelve percent of the loci exhibited significant G(ST) deviations to neutral expectations, suggesting that selection contributed to species divergence. Coding regions expressed higher differentiation than noncoding regions. Among the 389 markers, 158 could be mapped on the 12 linkage groups of the existing Q. robur genetic map. Outlier loci with large G, values were distributed over 9 linkage groups. One cluster of three outlier loci was found within 0.51 cM; but significant autocorrelation of GST was observed at distances <2 cM. The size and distribution of genomic regions involved in species divergence are discussed in reference to hitchhiking effects and disruptive selection.
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Vendramin, G. G., Fady, B., Gonzalez-Martinez, S. C., Hu, F. S., Scotti, I., Sebastiani, F., et al. (2008). Genetically depauperate but widespread: The case of an emblematic mediterranean pine. Evolution, 62(3), 680–688.
Abstract: Genetic variation is generally considered a prerequisite for adaptation to new environmental conditions. Thus the discovery of genetically depauperate but geographically widespread species is unexpected. We used 12 paternally inherited chloroplast microsatellites to estimate population genetic variation across the full range of an emblematic circum-Mediterranean conifer, stone pine (Pinus pinea L.). The same chloroplast DNA haplotype is fixed in nearly all of the 34 investigated populations. Such a low level of variation is consistent with a previous report of very low levels of diversity at nuclear loci in this species. Stone pine appears to have passed through a severe and prolonged demographic bottleneck, followed by subsequent natural- and human-mediated dispersal across the Mediterranean Basin. No other abundant and widespread plant species has as little genetic diversity as P. pinea at both chloroplast and nuclear markers. However, the species harbors a nonnegligible amount of variation at adaptive traits. Thus a causal relationship between genetic diversity, as measured by marker loci, and the evolutionary precariousness of a species, cannot be taken for granted.
Keywords: chloroplast microsatellites; conservation genetics; diversity depletion; human impact; Pinus pinea
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Scotti, I., Calvo-Vialettes, L., Scotti-Saintagne, C., Citterio, M., Degen, B., & Bonal, D. (2010). Genetic variation for growth, morphological, and physiological traits in a wild population of the Neotropical shade tolerant rainforest tree Sextonia rubra (Mez) van der Werff (Lauraceae). Tree Genet. Genomes, 6(2), 319–329.
Abstract: Quantitative genetic diversity is a fundamental component of the interaction between natural populations and their environment. In breeding programmes, quantitative genetic studies on tropical trees have so far focused on fast-growing, light-demanding species, but no information exists on shade-tolerant, slow-growing species. For this study, 27 3-year-old open-pollinated families of the Neotropical shade-tolerant rainforest tree Sextonia rubra were measured in semicontrolled conditions for 20 morphological, growth, and photosynthesis traits; the effect of genetic relatedness, habitat of provenance, and mother tree status on seedling traits was analysed. Nine traits displayed significant genetic effects, while mother tree status and habitat effects were not significant (P > 0.05) for an y trait. Estimated heritability varied between 0.14 and 0.28, with growth-related traits having the highest values. Additive genetic variation correlated positively with nonheritable variation, suggesting that ecological-evolutionary factors increasing or decreasing additive genetic variance may also affect nonheritable variation in the same direction. Our results suggest that quantitative genetic variability should be taken into account in ecological studies on, and in the management of, natural tropical rainforests; further research is needed to investigate genetic x environment interactions, in particular from the point of view of the genetic response of shade-tolerant plant species to variations in light availability.
Keywords: Ecophysiological traits; Heritability; Guiana shield; Amazon; Ecological genetics
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Ciminera, M., Auger-Rozenberg, M. - A., Caron, H., Herrera, M., Scotti-Saintagne, C., Scotti, I., et al. (2019). Genetic Variation and Differentiation of Hylesia metabus (Lepidoptera: Saturniidae): Moths of Public Health Importance in French Guiana and in Venezuela. J. Med. Entomol., 56(1), 137–148.
Abstract: Hylesia moths impact human health in South America, inducing epidemic outbreaks of lepidopterism, a puriginous dermatitis caused by the urticating properties of females' abdominal setae. The classification of the Hylesia genus is complex, owing to its high diversity in Amazonia, high intraspecific morphological variance, and lack of interspecific diagnostic traits which may hide cryptic species. Outbreaks of Hylesia metabus have been considered responsible for the intense outbreaks of lepidopterism in Venezuela and French Guiana since the C20, however, little is known about genetic variability throughout the species range, which is instrumental for establishing control strategies on H. metabus. Seven microsatellites and mitochondrial gene markers were analyzed from Hylesia moths collected from two major lepidopterism outbreak South American regions. The mitochondrial gene sequences contained significant genetic variation, revealing a single, widespread, polymorphic species with distinct clusters, possibly corresponding to populations evolving in isolation. The microsatellite markers validated the mitochondrial results, and suggest the presence of three populations: one in Venezuela, and two in French Guiana. All moths sampled during outbreak events in French Guiana were assigned to a single coastal population. The causes and implications of this finding require further research.
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