- Research article
- Open Access
Does a shift in host plants trigger speciation in the Alpine leaf beetle Oreina speciosissima(Coleoptera, Chrysomelidae)?
© Borer et al; licensee BioMed Central Ltd. 2011
Received: 21 June 2011
Accepted: 20 October 2011
Published: 20 October 2011
Within the Coleoptera, the largest order in the animal kingdom, the exclusively herbivorous Chrysomelidae are recognized as one of the most species rich beetle families. The evolutionary processes that have fueled radiation into the more than thirty-five thousand currently recognized leaf beetle species remain partly unresolved. The prominent role of leaf beetles in the insect world, their omnipresence across all terrestrial biomes and their economic importance as common agricultural pest organisms make this family particularly interesting for studying the mechanisms that drive diversification. Here we specifically focus on two ecotypes of the alpine leaf beetle Oreina speciosissima (Scop.), which have been shown to exhibit morphological differences in male genitalia roughly corresponding to the subspecies Oreina speciosissima sensu stricto and Oreina speciosissima troglodytes. In general the two ecotypes segregate along an elevation gradient and by host plants: Oreina speciosissima sensu stricto colonizes high forb vegetation at low altitude and Oreina speciosissima troglodytes is found in stone run vegetation at higher elevations. Both host plants and leaf beetles have a patchy geographical distribution. Through use of gene sequencing and genome fingerprinting (AFLP) we analyzed the genetic structure and habitat use of Oreina speciosissima populations from the Swiss Alps to examine whether the two ecotypes have a genetic basis. By investigating a wide range of altitudes and focusing on the structuring effect of habitat types, we aim to provide answers regarding the factors that drive adaptive radiation in this phytophagous leaf beetle.
While little phylogenetic resolution was observed based on the sequencing of four DNA regions, the topology and clustering resulting from AFLP genotyping grouped specimens according to their habitat, mostly defined by plant associations. A few specimens with intermediate morphologies clustered with one of the two ecotypes or formed separate clusters consistent with habitat differences. These results were discussed in an ecological speciation framework.
The question of whether this case of ecological differentiation occurred in sympatry or allopatry remains open. Still, the observed pattern points towards ongoing divergence between the two ecotypes which is likely driven by a recent shift in host plant use.
The debate about the relative importance of ecological speciation in species diversification spans several decades [1–20]. However, concrete cases based on empirical evidence remain relatively scarce [1, 21–25]. In essence, ecological speciation is related to the "ecological species concept", which was defined as follows : "a species is a lineage (or a closely related set of lineages), which occupies an adaptive zone minimally different from that of any other lineage in its range and which evolves separately from all lineages outside its range". The driving force behind ecological speciation is thus divergent natural selection between environments or, in other words, reproductive isolation of populations by means of adaptation to different environments or niches [18, 19, 21, 27, 28]. Ecological selection is a consequence of individual-based interactions with the environment. From this interaction follows that divergent selection between ecological niches is a major driving force differentiating lineages until reproductive isolation occurs . Ecologically divergent pairs of populations will show higher levels of reproductive incompatibility and lower levels of gene flow than ecologically more similar population pairs . A resulting corollary is that ecological speciation is more likely to arise in regions with patchworks of contrasting habitats and/or distinct environmental gradients.
The number of taxa within the insect order Coleoptera exceeds that of any known plant or animal group . More than half of the beetles are phytophagous, including the species rich superfamilies Curculionoidea and Chrysomeloidea, of which a majority feeds on angiosperms . The increase in phytophagous beetle diversity was facilitated by the rise of flowering plants . The family Chrysomelidae currently consists of more than thirty-five thousand recognized species including economically important pest species such as the Colorado potato beetle (Leptinotarsa decemlineata), the Northern corn rootworm (Diabrotica virgifera), the Cereal leaf beetle (Oulema melanopus), and the Striped turnip flea beetle (Phyllotreta nemorum). The biological and economic importance of the superfamily Chrysomeloidea make it vital to understand the factors that drive diversification in this group.
Here, we present a case of ecological niche differentiation in the alpine leaf beetle Oreina speciosissima that may represent the early stages of ecological speciation. The genus Oreina currently includes twenty-eight species, of which only seven early-diverging taxa do not exclusively occur in high forbs (i.e. five develop in stone run vegetation and two can be found in both high forbs and stone runs) . According to current knowledge , the most parsimonious explanation is that high forbs vegetation is the ancestral niche for the remaining twenty-one Oreina lineages, among which only our focal taxon Oreina speciosissima shows a partial reversal, since it is found both in high forbs and stone run vegetation.
Are ecotypes monophyletic?
Is adaptation to different habitats and host plants associated with genetic divergence?
Phylogenetic reconstruction of the DNA sequence data sets
Are ecotypes monophyletic?
Is adaptation to different habitats and host plants associated with genetic divergence?
Our results showed that genetic differentiation among Oreina speciosissima lineages was clearly associated with plant communities (Figure 3). Accordingly, clustering in Oreina speciosissima is well explained by differences in bedrock type and host plants (translated here into different plant associations) (Figures 1 and 3). While specimens feeding in the Petasition paradoxi association (in which the calcicolous Doronicum grandiflorum is the main host plant for Oreina speciosissima [unpublished observations MB, TVN]) cluster in sub-clan IIa, specimens developing in the Androsacion alpinae association (in which the silicicolous Doronicum clusii is largely dominant as a host plant for Oreina speciosissima [unpublished observations MB, TVN]) are restricted to sub-clan IIb. The effect of soil acidity is less striking in clan I, probably because the Adenostylion and Petasition officinalis associations, which are characteristic of all specimens within this clan, are defined by intermediate soil pHs. These two plant communities include species showing an intermediate tolerance to acidic-alkaline variation, such as Achillea macrophylla, Adenostyles alliarae and Petasites albus . Whereas the latter two represent the main host plant species of Oreina speciosissima in high forbs habitat [unpublished observations MB, TVN], other species (particularly in the Petasition paradoxi association) could play or have been playing the role of subalpine bridge species between the montane high forbs and alpine stone runs (see below). We are confident that these results are robust to potential shortcomings inherent to our limited sampling size (see  for a review). First, specimens were collected throughout the common geographical range of both ecotypes, a strategy that maximized both the phylogeographic and ecological representativity of our sampling. Second, robust and consistent results were obtained using both phylogenetic and clustering algorithms.
Towards a scenario of ecological speciation in Alpine Oreina speciosissima
Although our data does not allow for divergence time estimates between Oreina speciosissima ecotypes, it seems likely that they diverged relatively recently. Indeed, the current distribution of Oreina populations suggest that the ecotype divergence might have arisen after one of the last glacial maxima, given that populations were probably not able to survive cold periods at high altitudes due to the presence of ice caps (with the possible exception of the GRA population; see above). This hypothesis is consistent with the low level of genetic variation observed in nuclear sequences and the low resolution in the mtDNA topology, as well as with a preliminary dating of the Oreina genus, in which the origin of Oreina speciosissima is estimated at circa 0.4 million years ago .
Our results suggest that from an ancestral niche associated with high forbs (see above) beetle populations were able to colonize new habitats along an altitudinal gradient (Figure 1) and invaded the acidic siliceous stone run habitat (corresponding to the Androsacion alpinae association), which is typical for Alpine regions in Central Europe. We propose that this habitat change could have been associated with host shifting events. Accordingly, the plant communities on which Oreina ecotypes feed appear to be connected by phylogenetically related host species. In a framework of plant-insect coevolution [57, 58], adaptation to a given plant species might allow beetles to spread to other similarly-defended congeneric species [59, 60]. Accordingly, Doronicum species occur in the Petasition paradoxi and the Androsacion alpinae, Petasites species link the Petasition officinalis to the Petasition paradoxi and finally, Adenostyles species are shared among the Adenostylion, the Petasition paradoxi and the Androsacion alpinae. Assuming host-plant conservatism, the connections described above might represent "shifting" routes that could explain how Oreina speciosissima lineages transited among habitats via host switching. Furthermore, these connections could account for the presence of putatively admixed specimens showing intermediate morphologies (e.g. UMB), thereby outlining a possible ongoing migration of beetles from one habitat to the other.
Our study reveals a genetic structure in Oreina speciosissima as a function of the plant community in which beetles develop. We discussed several possible ecological features that could cause the divergence between ecotypes, among which the habitat and host-plant switches seem key factors. These results could be consistent with an ecological speciation scenario. Still, non-adaptive processes such as genetic drift, founder events and population bottlenecks might also have produced the observed pattern. Hence, further investigation is needed, for instance, fine scale studies relying on genomic approaches and targeting populations from a patchy distribution of the two ecotypes following an approach such as described by  could provide a powerful framework for detecting adaptive signatures associated to ecological speciation. Additionally reciprocal transplantation experiments in concert with crossings using local and non-local beetles could possibly reveal performance differences between locally adapted and non-adapted beetles and strengthen our argument for the existence of host races and ongoing or incomplete speciation (cf. [62, 63]).
Sampled populations of Oreina speciosissima
Col des Mosses
Grand St. Bernard
DNA sequence data and phylogenetic analyses
The DNA extraction, amplification and sequencing protocols as well as primers for the nuclear (ITS2) region and the three mtDNA markers (16S, COI, COII) are provided in . The alignments of mtDNA markers (using the Clustal-Wallis algorithm ) were combined in a total evidence approach  after having performed pairwise incongruence length difference ILD tests . We followed the snowball procedure as implemented in the program mILD.
Phylogenetic analyses were performed using the maximum parsimony (MP) and Bayesian Markov chain Monte Carlo (MCMC) criteria. Each partition and the combined data set were analyzed using parsimony ratchet  as implemented in PAUPrat and further run in PAUP* 4b10 . Ten independent searches were performed with 200 iterations and 15% of the parsimony informative characters perturbed . The shortest most parsimonious trees were combined to produce a strict consensus tree. Branch supports were calculated using the Bremer support (also known as 'decay index')  as implemented in TreeRot and further run in PAUP* 4b10 . The Bremer support measures the number of extra steps in tree length required before a node collapses [45, 72]. Model selection for the mtDNA data partitions in the MCMC was carried out with MrModeltest2 v.2.3  based on the 'Akaike information criterion' . Two Metropolis-coupled Markov chains with incremental heating temperature of 0.1 were run in MrBayes 3.1.2  for 30 million generations and sampled every 1000th generation. The simulation was repeated six times, starting from random trees. Convergence of the MCMC was checked using the Potential Scale Reduction Factor (PSRF)  implemented in MrBayes 3.1.2  and the effective sample size (ESS) criterion for each parameter as implemented in Tracer 1.4 . To yield a single hypothesis of the phylogeny, the posterior distribution was summarized in a 50% majority rule consensus tree (the "halfcompat consensus tree" from MrBayes) after burn-in (for each analysis 10000 trees were discarded). The combined dataset was analysed using partition specific model parameters .
Genome fingerprinting was performed using the AFLP protocol described in . The selective amplifications were performed using 5-FAM fluorescently labelled Eco RI primer (i.e. Eco RI + ACA) with one of the following: MseI primer + AXX (AGC, ACG and AAC). All amplifications were run in a Biometra TGradient thermocycler (Biometra, Göttingen, Germany). Samples were randomly displayed on a 96-well PCR plate, with ten individuals being replicated to assess the overall reproducibility of reactions. PCR products were analysed using the GeneScan technology with a capillary sequencer (ABI 3730XL, Applied Biosystems, Foster City, CA; the service was provided by Macrogen Inc. Seoul, South Korea).
Resulting electropherograms were analysed with PeakScanner (ABI, peak detection parameters: default parameters with the addition of a light peak smoothing) in order to detect and calculate the size of AFLP bands. The scoring was performed using an automated scoring R CRAN package, RawGeno 2.0 [79, 80]. The library was settled as follows: scoring range = 100 - 250 bp for EcoRI-ACA/MseI-AGC, EcoRI- ACA/MseI-ACG and 100-280 for EcoRI-ACA/MseI-AAC, minimum intensity = 50 rfu, minimum bin width = 0, maximum bin width = 1 bp and closely sized bins (5%) were removed. Finally, the matrices of the three scored primer pairs were concatenated into a single binary matrix where individuals and bands were stored as lines and columns, respectively.
Phylogenetic and clustering analyses of the AFLP data set
Phylogenetic analyses of the AFLP data were performed using the MP and Bayesian MCMC criteria. The MP analysis (including Bremer support analysis) was performed as described above. Parameters for the Bayesian MCMC analysis performed in MrBayes 3.1.2 were set as follows: "datatype = restriction" and "coding = noabsencesites". Four metropolis-coupled Markov chains with incremental heating temperature of 0.1 were run for 5 million generations and sampled every 1000th generation. The simulation was repeated six times, starting from random trees. Convergence of the analysis was checked using the PSRF and ESS criteria (see above for more details). The posterior distribution was summarized in a halfcompat consensus tree (see above) after burn-in (for each analysis 1500 trees were discarded).
Two independent clustering algorithms were used to assign Oreina speciosissima specimens into a user-defined number of groups (hereafter K). First, we used non-hierarchical K-means clustering , a distance-based algorithm that proves reliable in an AFLP framework [49, 50, 82]. A total of 100 000 independent runs was carried out for each value of K clusters assumed (i.e. ranging from two to seven) and only runs yielding the highest inter-cluster variance were considered for further analysis. The optimal K value was determined based on the second derivative of the intercluster inertia, as in . Computations were performed using R CRAN  (script available upon request to NAR). Second, we performed a model-based Bayesian inference clustering as implemented in STRUCTURE 2.2 [47, 48]. The analysis assumed an admixture model and independent allele frequencies between clusters. Five independent runs were carried out for each value of K (i.e. ranging from one to seven), with parameters and model likelihood estimated over 1 000 000 MCMC generations (following a burn-in period of 200 000 generations). For each K value, only runs that obtained the highest likelihood value were taken into account for further analyses. The majority-rule criterion (>0.5 in the assignment probability) was applied to assign samples to a given cluster as in . Both clustering approaches provided fully congruent insights and therefore only results from STRUCTURE are displayed here.
Acknowledgements and funding
The work was funded by the Swiss National Science Foundation (grants 3100-064864.01 and 3100-AO-118031(TVN) the SNSF National Centre of Competence in Research Plant Survival, and a university doctoral assistantship to MB. NAR and NAL were funded by the Swiss National Science Foundation (grant No. 132747 and an Ambizione fellowship PZ00P3_126624, respectively). Financial support to SB was provided by Marie-Curie Intra-European Fellowship (CRADLE; no 253866). TVN wishes to thank CP for beetle collection at GRA and Carolien Jacobs for useful advice. We thank Pascal Vittoz for sharing his botanical knowledge, Jessica Litman for language editing, and three anonymous referees for their helpful and constructive remarks that led to a substantial improvement of the manuscript.
- Berlocher SH, Feder JL: Sympatric speciation in phytophagous insects: Moving beyond controversy?. Annual Review of Entomology. 2002, 47 (1): 773-815. 10.1146/annurev.ento.47.091201.145312.View ArticlePubMedGoogle Scholar
- Bolnick DI, Fitzpatrick BM: Sympatric speciation: Models and empirical evidence. Annual Review of Ecology Evolution and Systematics. 2007, 38: 459-487. 10.1146/annurev.ecolsys.38.091206.095804.View ArticleGoogle Scholar
- Dieckmann U, Doebeli M: On the origin of species by sympatric speciation. Nature. 1999, 400 (6742): 354-357. 10.1038/22521.View ArticlePubMedGoogle Scholar
- Drès M, Mallet J: Host races in plant-feeding insects and their importance in sympatric speciation. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences. 2002, 357 (1420): 471-492. 10.1098/rstb.2002.1059.View ArticlePubMedPubMed CentralGoogle Scholar
- Futuyma DJ, Peterson SC: Genetic-variation in the use of resources by insects. Annual Review of Entomology. 1985, 30: 217-238. 10.1146/annurev.en.30.010185.001245.View ArticleGoogle Scholar
- Craig TP, Itami JK, Abrahamson WG, Horner JD: Behavioral Evidence for Host-Race Formation in Eurosta solidaginis. Evolution. 1993, 47 (6): 1696-1710. 10.2307/2410214.View ArticleGoogle Scholar
- Nosil P, Harmon LJ, Seehausen O: Ecological explanations for (incomplete) speciation. Trends in Ecology & Evolution. 2009, 24 (3): 145-156. 10.1016/j.tree.2008.10.011.View ArticleGoogle Scholar
- Nosil P, Sandoval CP, Crespi BJ: The evolution of host preference in allopatric vs. parapatric populations of Timema cristinae walking-sticks. Journal of Evolutionary Biology. 2006, 19 (3): 929-942. 10.1111/j.1420-9101.2005.01035.x.View ArticlePubMedGoogle Scholar
- Feder JL, Berlocher SH, Roethele JB, Dambroski H, Smith JJ, Perry WL, Gavrilovic V, Filchak KE, Rull J, Aluja M: Allopatric Genetic Origins for Sympatric Host-Plant Shifts and Race Formation in Rhagoletis. Proceedings of the National Academy of Sciences of the United States of America. 2003, 100 (18): 10314-10319. 10.1073/pnas.1730757100.View ArticlePubMedPubMed CentralGoogle Scholar
- Feder JL, Chilcote CA, Bush GL: Genetic differentiation between sympatric host races of the apple maggot fly Rhagoletis pomonella. Nature. 1988, 336 (6194): 61-64. 10.1038/336061a0.View ArticleGoogle Scholar
- Feder JL, Xie X, Rull J, Velez S, Forbes A, Leung B, Dambroski H, Filchak KE, Aluja M: Mayr, Dobzhansky, and Bush and the Complexities of Sympatric Speciation in Rhagoletis. Proceedings of the National Academy of Sciences of the United States of America. 2005, 102: 6573-6580. 10.1073/pnas.0502099102.View ArticlePubMedPubMed CentralGoogle Scholar
- Filchak KE, Roethele JB, Feder JL: Natural selection and sympatric divergence in the apple maggot Rhagoletis pomonella. Nature. 2000, 407 (6805): 739-742. 10.1038/35037578.View ArticlePubMedGoogle Scholar
- Egan SP, Nosil P, Funk DJ: Selection and genomic differentiation during ecological speciation: isolating the contributions of host association via a comparative genome scan of Neochlamisus bebbianae leaf beetles. Evolution. 2008, 62 (5): 1162-1181. 10.1111/j.1558-5646.2008.00352.x.View ArticlePubMedGoogle Scholar
- Funk DJ: Isolating a Role for Natural Selection in Speciation: Host Adaptation and Sexual Isolation in Neochlamisus bebbianae Leaf Beetles. Evolution. 1998, 52 (6): 1744-1759. 10.2307/2411347.View ArticleGoogle Scholar
- Egan SP, Funk DJ: Ecologically dependent postmating isolation between sympatric host forms of Neochlamisus bebbianae leaf beetles. Proceedings of the National Academy of Sciences of the United States of America. 2009, 106 (46): 19426-19431. 10.1073/pnas.0909424106.View ArticlePubMedPubMed CentralGoogle Scholar
- Nosil P, Mooers AÃ: Testing Hypotheses about Ecological Specialization Using Phylogenetic Trees. Evolution. 2005, 59 (10): 2256-2263.View ArticlePubMedGoogle Scholar
- Rundle HD, Nosil P: Ecological speciation. Ecology Letters. 2005, 8 (3): 336-352. 10.1111/j.1461-0248.2004.00715.x.View ArticleGoogle Scholar
- Schluter D: Evidence for Ecological Speciation and Its Alternative. Science. 2009, 323 (5915): 737-741. 10.1126/science.1160006.View ArticlePubMedGoogle Scholar
- Via S: Reproductive isolation between sympatric races of pea aphids. I. Gene flow restriction and habitat choice. Evolution. 1999, 53 (5): 1446-1457. 10.2307/2640891.View ArticleGoogle Scholar
- Pappers S, van der Velde G, Ouborg J: Host preference and larval performance suggest host race formation in Galerucella nymphaeae. Oecologia. 2002, 130 (3): 433-440. 10.1007/s00442-001-0822-3.View ArticleGoogle Scholar
- Via S: Sympatric speciation in animals: the ugly duckling grows up. Trends in Ecology & Evolution. 2001, 16 (7): 381-390. 10.1016/S0169-5347(01)02188-7.View ArticleGoogle Scholar
- Singer MC, McBride CS: Multitrait, host-associated divergence among sets of butterfly populations: implications for reproductive isolation and ecological speciation. Evolution. 2009, 64 (4): 921-933. 10.1111/j.1558-5646.2009.00866.x.View ArticlePubMedGoogle Scholar
- Mopper S: Adaptive genetic structure in phytophagous insect populations. Trends in Ecology & Evolution. 1996, 11 (6): 235-238. 10.1016/0169-5347(96)10036-7.View ArticleGoogle Scholar
- Mopper S, Beck M, Simberloff D, Stiling P: Local Adaptation and Agents of Selection in a Mobile Insect. Evolution. 1995, 49 (5): 810-815. 10.2307/2410404.View ArticleGoogle Scholar
- de Jong PW, Breuker CJ, de Vos H, Vermeer KMCA, Oku K, Verbaarschot P, Nielsen JK, Brakefield PM: Genetic differentiation between resistance phenotypes in the phytophagous flea beetle, Phyllotreta nemorum. Journal of Insect Science. 2009, 6 (69):Google Scholar
- Van Valen L: Ecological species, multispecies, and oaks. Taxon. 1976, 25: 233-239. 10.2307/1219444.View ArticleGoogle Scholar
- Schluter D: The ecology of adaptive radiation. 2000, Oxford: Oxford University PressGoogle Scholar
- Schluter D: Ecology and the origin of species. Trends in Ecology & Evolution. 2001, 16 (7): 372-380. 10.1016/S0169-5347(01)02198-X.View ArticleGoogle Scholar
- Slatkin M: Gene Flow in Natural Populations. Annual Review of Ecology and Systematics. 1985, 16: 393-430.View ArticleGoogle Scholar
- Stork N: Insect diversity: facts, fiction and speculation*. Biological Journal of the Linnean Society. 1988, 35 (4): 321-337. 10.1111/j.1095-8312.1988.tb00474.x.View ArticleGoogle Scholar
- Farrell BD: "Inordinate Fondness" Explained: Why Are There So Many Beetles?. Science. 1998, 281 (5376): 555-559.View ArticlePubMedGoogle Scholar
- Kippenberg H: 88. Familie Chrysomelidae. Die Käfer Mitteleuropas. Edited by: Lohse GA, Lucht WH. 1994, Supplementband mit Katalogteil. -Bd. 14. Krefeld, Germany: Goecke & Evers Verlag, 3: 65-83.Google Scholar
- Delarze R, Gonseth Y: Guide des milieux naturels de Suisse. 2008, Bussigny: Rossolis, 2Google Scholar
- Hsiao TH, Pasteels JM: Evolution of host-plant affiliation and chemical defense in Chrysolina-Oreina leaf beetles as revealed by mtDNA phylogenies. Advances in Chrysomelidae Biology 1. Edited by: Cox ML. 1999, Leiden, The Netherlands: Backhuys Publishers, 321-342.Google Scholar
- Borer M, Van Noort T, Rahier M, Naisbit RE: Positive frequency-dependent selection on warning color in alpine leaf beetles. Evolution. 2010, 64 (12): 3629-3633. 10.1111/j.1558-5646.2010.01137.x.View ArticlePubMedGoogle Scholar
- Borer M, Alvarez N, Buerki S, Margraf N, Rahier M, Naisbit RE: The phylogeography of an alpine leaf beetle: Divergence within Oreina elongata spans several ice ages. Molecular Phylogenetics and Evolution. 2010, 57 (2): 703-709. 10.1016/j.ympev.2010.08.017.View ArticlePubMedGoogle Scholar
- Triponez Y, Buerki S, Borer M, Naisbit RE, Rahier M, Alvarez N: Discordances between phylogenetic and morphological patterns in alpine leaf beetles attest to an intricate biogeographic history of lineages in postglacial Europe. Molecular Ecology. 2011, 20 (11): 2442-2463. 10.1111/j.1365-294X.2011.05096.x.View ArticlePubMedGoogle Scholar
- Rowell-Rahier M: Genetic-structure of leaf-beetles populations -Microgeographic and sexual-differentiation in Oreina cacaliae and Oreina speciosissima. Entomologia Experimentalis Et Applicata. 1992, 65 (3): 247-257. 10.1111/j.1570-7458.1992.tb00678.x.View ArticleGoogle Scholar
- Margraf N, Verdon A, Rahier M, Naisbit RE: Glacial survival and local adaptation in an alpine leaf beetle. Molecular Ecology. 2007, 16 (11): 2333-2343. 10.1111/j.1365-294X.2007.03318.x.View ArticlePubMedGoogle Scholar
- Kalberer NM, Turlings TCJ, Rahier M: An alternative hibernation strategy involving sun-exposed 'hotspots', dispersal by flight, and host plant finding by olfaction in an alpine leaf beetle. Entomologia Experimentalis Et Applicata. 2005, 114 (3): 189-196. 10.1111/j.1570-7458.2005.00244.x.View ArticleGoogle Scholar
- Hasegawa M, Kishino H, Yano Ta: Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution. 1985, 22 (2): 160-174. 10.1007/BF02101694.View ArticlePubMedGoogle Scholar
- Yang ZH: Maximum-likelihood phylogenetic estimation from DNA-sequences with variable rates over sites - approximate methods. Journal of Molecular Evolution. 1994, 39 (3): 306-314. 10.1007/BF00160154.View ArticlePubMedGoogle Scholar
- Farris JS, Kallersjo M, Kluge AG, Bult C: Testing significance of incongruence. Cladistics-the International Journal of the Willi Hennig Society. 1994, 10 (3): 315-319.View ArticleGoogle Scholar
- Nixon KC: The Parsimony Ratchet, a new method for rapid parsimony analysis. Cladistics. 1999, 15: 407-414. 10.1111/j.1096-0031.1999.tb00277.x.View ArticleGoogle Scholar
- Bremer K: The limits of amino-acid sequence data in angiosperm phylogenetic reconstruction. Evolution. 1988, 42 (4): 795-803. 10.2307/2408870.View ArticleGoogle Scholar
- Wilkinson M, McInerney J, Hirt R, Foster P, Embley M: Of clades and clans: terms for phylogenetic relationships in unrooted trees. Trends in Ecology & Evolution. 2007, 22 (3): 114-115. 10.1016/j.tree.2007.01.002.View ArticleGoogle Scholar
- Falush D, Stephens M, Pritchard JK: Inference of population structure using multilocus genotype data: dominant markers and null alleles. Molecular Ecology Notes. 2007, 7 (4): 574-578. 10.1111/j.1471-8286.2007.01758.x.View ArticlePubMedPubMed CentralGoogle Scholar
- Pritchard JK, Stephens M, Donnelly P: Inference of population structure using multilocus genotype data. Genetics. 2000, 155 (2): 945-959.PubMedPubMed CentralGoogle Scholar
- Arrigo N, Felber F, Parisod C, Buerki S, Alvarez N, David J, Guadagnuolo R: Origin and expansion of the allotetraploid Aegilops geniculata, a wild relative of wheat. New Phytologist. 2010, 187 (4): 1170-1180. 10.1111/j.1469-8137.2010.03328.x.View ArticlePubMedGoogle Scholar
- Burnier J, Buerki S, Arrigo N, Küpfer P, Alvarez N: Genetic structure and evolution of Alpine polyploid complexes: Ranunculus kuepferi (Ranunculaceae) as a case study. Molecular Ecology. 2009, 18 (17): 3730-3744. 10.1111/j.1365-294X.2009.04281.x.View ArticlePubMedGoogle Scholar
- Ribera I, Vogler AP: Speciation of Iberian diving beetles in Pleistocene refugia (Coleoptera, Dytiscidae). Molecular Ecology. 2004, 13 (1): 179-193. 10.1046/j.1365-294X.2003.02035.x.View ArticlePubMedGoogle Scholar
- Simon C, Frati F, Beckenbach A, Crespi B, Liu H, Flook P: Evolution, weighting, and phylogenetic utility of mitochondrial gene-sequences and a compilation of conserved polymerase chain-reaction primers. Annals of the Entomological Society of America. 1994, 87 (6): 651-701.View ArticleGoogle Scholar
- Zehnder GW, Sandall L, Tisler AM, Powers TO: Mitochondrial DNA Diversity Among 17 Geographic Populations of Leptinotarsa decemlineata (Coleoptera: Chrysomelidae). Annals of the Entomological Society of America. 1992, 85: 234-240.View ArticleGoogle Scholar
- Emerson BC, Hewitt GM: Phylogeography. Current Biology. 2005, 15 (10): 367-371. 10.1016/j.cub.2005.05.016.View ArticleGoogle Scholar
- Aeschimann D, Lauber K, Moser DM, Theurillat JP: Flora alpina. Bern: Hauptverlag; 2004.Google Scholar
- Funk DJ: Molecular systematics of cytochrome oxidase I and 16S from Neochlamisus leaf beetles and the importance of sampling. Molecular Biology and Evolution. 1999, 16 (1): 67-82.View ArticlePubMedGoogle Scholar
- Thompson JN: Specific Hypotheses on the Geographic Mosaic of Coevolution. The American Naturalist. 1999, 153: S1-S14. 10.1086/303208.View ArticleGoogle Scholar
- Thompson JN, Cunningham BM: Geographic structure and dynamics of coevolutionary selection. Nature. 2002, 417 (6890): 735-738. 10.1038/nature00810.View ArticlePubMedGoogle Scholar
- Alvarez N, Romero Napoles J, Anton KW, Benrey B, Hossaert-McKey M: Phylogenetic relationships in the Neotropical bruchid genus Acanthoscelides (Bruchinae, Bruchidae, Coleoptera). Journal of Zoological Systematics and Evolutionary Research. 2006, 44 (1): 63-74. 10.1111/j.1439-0469.2005.00344.x.View ArticleGoogle Scholar
- Kergoat GJ, Alvarez N, Hossaert-Mckey M, Faure N, Silvain JF: Parallels in the evolution of the two largest New and Old World seed-beetle genera (Coleoptera, Bruchidae). Molecular Ecology. 2005, 14 (13): 4003-4021. 10.1111/j.1365-294X.2005.02702.x.View ArticlePubMedGoogle Scholar
- Vermeer KMCA, Dicke M, de Jong PW: The potential of a population genomics approach to analyse geographic mosaics of plant-insect coevolution. Evolutionary Ecology. 2011, 25: 977-992. 10.1007/s10682-010-9452-8.View ArticleGoogle Scholar
- de Jong PW, Nielsen JK: Host plant use of Phyllotreta nemorum: do coadapted gene complexes play a role?. Entomologia Experimentalis Et Applicata. 2002, 104 (1): 207-215. 10.1046/j.1570-7458.2002.01008.x.View ArticleGoogle Scholar
- Nosil P: Divergent Host Plant Adaptation and Reproductive Isolation between Ecotypes of Timema cristinae Walking Sticks. The American Naturalist. 2007, 169 (2): 151-162. 10.1086/510634.View ArticlePubMedGoogle Scholar
- Nosil P, Crespi BJ, Sandoval CP: Host-plant adaptation drives the parallel evolution of reproductive isolation. Nature. 2002, 417 (6887): 440-443. 10.1038/417440a.View ArticlePubMedGoogle Scholar
- Nosil P, Crespi BJ, Sandoval CP: Reproductive Isolation Driven by the Combined Effects of Ecological Adaptation and Reinforcement. Proceedings of the Royal Society B: Biological Sciences. 2003, 270 (1527): 1911-1918. 10.1098/rspb.2003.2457.View ArticlePubMedPubMed CentralGoogle Scholar
- Thompson JD, Higgins DG, Gibson TJ: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalities and weight matrix choice. Nucleic Acids Research. 1994, 22 (22): 4673-4680. 10.1093/nar/22.22.4673.View ArticlePubMedPubMed CentralGoogle Scholar
- Kluge AG: A concern for evidence and a phylogenetic hypothesis of relationships among Epicrates (Boidae, Serpentes). Systematic Zoology. 1989, 38 (1): 7-25. 10.2307/2992432.View ArticleGoogle Scholar
- Planet PJ, Sarkar IN: mILD: a tool for constructing and analyzing matrices of pairwise phylogenetic character incongruence tests. Bioinformatics. 2005, 21 (24): 4423-4424. 10.1093/bioinformatics/bti744.View ArticlePubMedGoogle Scholar
- Sikes DS, Lewis PO: PAUPRat: PAUP implementation of the parsimony ratchet. Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs. 2001Google Scholar
- Swofford DL: PAUP*. Phylogenetic Analysis Using Parsimony (*and other methods). 2002, Sinauer Associates, Sunderland, MassachusettsGoogle Scholar
- Sorenson MD, Franzosa EA: TreeRot, version 3. Boston University, Boston, MA. 2007Google Scholar
- Baker RH, DeSalle R: Multiple sources of character information and the phylogeny of Hawaiian Drosophilids. Systematic Biology. 1997, 46 (4): 654-673. 10.1093/sysbio/46.4.654.View ArticlePubMedGoogle Scholar
- Nylander JAA: MrModeltest v2. Program distributed by the author Evolutionary Biology Centre, Uppsala University. 2004Google Scholar
- Akaike H: Information theory and an extension of the maximum likelihood principle. Second International Symposium on Information Theory. Edited by: Kiado A. Budapest. 1973, 267-281.Google Scholar
- Ronquist F, Huelsenbeck JP: MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics. 2003, 19 (12): 1572-1574. 10.1093/bioinformatics/btg180.View ArticlePubMedGoogle Scholar
- Gelman A, Rubin DB: Inference from Iterative Simulation Using Multiple Sequences. Statistical Science. 1992, 7 (4): 457-511. 10.1214/ss/1177011136.View ArticleGoogle Scholar
- Rambaut A, Drummond AJ: Tracer v1.4. 2007, [http://tree.bio.ed.ac.uk/software/tracer]Google Scholar
- Gugerli F, Englisch T, Niklfeld H, Tribsch A, Mirek Z, Ronikier M, Zimmermann NE, Holderegger R, Taberlet P: Relationships among levels of biodiversity and the relevance of intraspecific diversity in conservation - a project synopsis. Perspectives in Plant Ecology, Evolution and Systematics. 2008, 10 (4): 259-281. 10.1016/j.ppees.2008.07.001.View ArticleGoogle Scholar
- Arrigo N, Holderegger R, Alvarez N: From raw AFLP chromatograms to ready-to-use binary matrices using RawGeno 2.0, an user-friendly interface for automatized and semi-automatized bining and scoring of genotypes in the open-source R environment. Population Genomics: Methods and Protocols. Edited by: Bonin A, Pompanon F. New York, USA: Humana Press.Google Scholar
- Arrigo N, Tuszynski JW, Ehrich D, Gerdes T, Alvarez N: Evaluating the impact of scoring parameters on the structure of intra-specific genetic variation using RawGeno, an R package for automating AFLP scoring. BMC Bioinformatics. 2009, 10 (33):Google Scholar
- Hartigan JA, Wong MA: A K-means clustering algorithm. Applied Statistics. 1979, 28: 100-108. 10.2307/2346830.View ArticleGoogle Scholar
- Arrigo N, Guadagnuolo R, Lappe S, Pasche S, Parisod C, Felber F: Gene flow between wheat and wild relatives: empirical evidence from Aegilops geniculata, Ae. neglecta and Ae. triuncialis. Evolutionary Applications. , 4 (5): 685-695.Google Scholar
- Team RDC: R: A language and environment for statistical computing. 2009, Vienna, Austria: R Foundation for Statistical ComputingGoogle Scholar
This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.