Phylogeography of Iurus dufoureius (Brullé, 1832) (Scorpiones, Iuridae)

Aim  This study uses molecular data in conjunction with palaeogeography to infer the most plausible biogeographical scenario accounting for the current distributional pattern of Iurus dufoureius .
Location  North-eastern Mediterranean region.
Methods  Sequencing of a 441-bp segment of the mitochondrial 16S rRNA gene in seven populations covering the whole distributional range of the species. Phylogenetic analyses performed included neighbour joining, maximum parsimony and Bayesian inference.
Results  The molecular phylogeny showed that two Iurus clades are strongly supported. These clades correspond to the two subspecies Iurus dufoureius dufoureius and Iurus dufoureius asiaticus , currently recognized within the genus. The assumption of a clock-like evolution could not be rejected, and this enabled us to estimate an approximation of the local rate of evolution for the I. dufoureius lineages. Based on the estimated evolutionary rate (0.79 ± 0.17 Myr⁻¹), the split between the two Iurus clades occurred c. 8 Ma.
Main conclusions  Contrary to what was believed in the past, the genus Iurus is an old north-eastern Mediterranean genus that has been differentiating in southern Greece and south-west Turkey at least from the middle Miocene. According to the phylogenetic trees obtained and the dating of the divergence times of lineages, the genus dispersed into the Aegean Archipelago when the Aegean was still a uniform land mass. Although the phylogenetic relationships of I. d. dufoureius populations have been shaped by the most recent vicariant events, the phylogenetic relationships of I. d. asiaticus populations are mostly attributable to older palaeoevents occurring in the area.     

Phylogeography of Troglophilus (Orthoptera: Troglophilinae) based on Anatolian members of the genus: radiation of an old lineage following the Messinian

Active tectonic history of the Eastern Mediterranean, especially around Aegean area, through the Neogene led to interesting radiation patterns of animal lineages, allowing intriguing biogeographical hypotheses to be tested. Descendants of the ancestral stock in the Miocene Aegean Plate presently occur in the Anatolia, Aegean islands and the Balkan Penninsula. Troglophilus (Orthoptera, Rhaphidophoridae, Troglophilinae) is such a genus represented in these areas with approximately 15 species. The present study addresses the phylogeography of the genus, with a special emphasis on its Anatolian members, aiming to test the biogeographical patterns suggested for this area using mitochondrial [cytochome oxidase I (COI)] and nuclear (ITS1‐5.8S–ITS2) markers. Data matrices obtained from sequences of COI and ITS1‐5.8S–ITS2 were used for phylogenetic analyses using Dolichopoda lycia and Dolichopoda sbordonii as outgroups. All sets of the analyses suggested monophyly of the Anatolian haplotypes, although they are not congruent in revealing their relationships. Anatolian haplotypes constituted three main phylogroups in trees calculated from a matrix of short COI sequences: the ECMA (corresponding to the Eastern part of coastal Mediterranean Anatolia); the CWMA (from the Central and Western part of Mediterranean Anatolia); and NA (from Northern Anatolia). Trees obtained using longer sequences resulted in only two phylogroups, namely ECMA and CWMA + NA. The trees based on the ITS1‐5.8S–ITS2 data matrix supported monophyly of Anatolian phylogroups. BEAST analysis of the COI estimated the time to most recent common ancestor for Dolichopoda and Troglophilus as 10.8 Mya, to that for the Anatolian + Balkan Troglophilus as 7.2 Mya, and to that for the Anatolian Troglophilus as 6.3 Mya. BEAST analysis of ITS1–ITS2 intron regions is largely congruent with that of COI. From these results, several conclusions were drawn. First, the divergence of Dolichopoda and Troglophilus possibly started with the opening of the Mid‐Aegean Trench in the Tortonian. Second, Troglophilus possibly originated from an ancestral stock in the old Aegean Plate. It later diverged as Anatolian and Balkan lineages and, possibly, the Cretan population may be regarded the third lineage. Divergence within the Anatolian lineage is estimated to have occurred through the Pliocene and Pleistocene, although before the last four glacial periods in the late Pleistocene. Additionally, the northern Anatolian Troglophilus appears to originate from the dispersal of an ancestral stock from a mountainous lineage through the Taurus Way. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 108 , 335–348.     

Testing phylogenetic hypotheses for reconstructing the evolutionary history of Dolichopoda cave crickets in the eastern Mediterranean

Aim To investigate the molecular phylogenetic divergence and historical biogeography of cave crickets belonging to the genus Dolichopoda (Orthoptera, Rhaphidophoridae). Location Caves in continental and insular Greece. Methods We sequenced 1967 bp of mitochondrial DNA, corresponding to three fragments of the small and large subunit of the ribosomal RNA (16S and 12S rRNA, respectively) and to the subunit I of cytochrome oxidase (COI), to reconstruct phylogenetic relationships among all 30 known Greek species of Dolichopoda. Alternative hypotheses about the colonization of the Hellenic Peninsula by Dolichopoda species were tested by comparing the degree of discordance between species trees and gene trees under four plausible biogeographical scenarios. Results The present study revealed a rather well resolved phylogeny at species level, identifying a number of clades that represent long‐separated lineages and diverse evolutionary histories within the genus Dolichopoda. Two main clades were revealed within Hellenic–Aegean species, identifying a north‐western and a south‐eastern species group. Based on Bayesian analysis, we applied a relaxed molecular clock to estimate the divergence times between the lineages. The results revealed that the origins of eastern Mediterranean lineages are much older than those of previously studied western Mediterranean Dolichopoda. Tests of alternative biogeographical hypotheses showed that a double colonization of the Hellenic Peninsula, following separate continental and trans‐Aegean routes during the Messinian stage, best accounts for the present distribution of Greek Dolichopoda species. Main conclusions Reconstruction and biogeographical hypothesis testing indicated that the colonization of Greece by Dolichopoda species comprised two episodes and two different routes. The southern lineage probably arose from a trans‐Aegean colonization during the Messinian salinity crisis (5.96–5.33 Ma). The northern lineage could be the result of dispersal from the north through the Balkan Peninsula. The opening of the Mid‐Aegean Trench could have promoted an initial diversification within the uprising Anatolian Plateau, while the Messinian marine regression offered the conditions for a rapid dispersal through the whole Aegean–Hellenic region. In addition, climatic events during the Plio‐Pleistocene may have been responsible for the speciation within each of the two different phylogeographical units, principally attributable to vicariance events.     

Unravelling the evolutionary history of the polyploid complex Ranunculus parnassiifolius (Ranunculaceae)

Ranunculus L. represents the largest genus within Ranunculaceae, comprising more than 600 species with a worldwide distribution. However, there are still many gaps in our knowledge of the infrageneric taxonomy and evolution of Ranunculus. In this regard, intraspecific variation of the polyploid complex Ranunculus parnassiifolius remains under discussion. To reconstruct the biogeographical history of the polyploid complex R. parnassiifolius, 20 populations distributed throughout the Cantabrian Mountains, Pyrenees, and Alps were investigated. Phylogenetic studies were based on nuclear internal transcribed spacers (ITS) and plastid (rpl32‐trnL, rps16‐trnQ) sequence data, analysed using Bayesian approaches as well as the evolution of morphological characters. Additionally, biogeographical patterns were conducted using statistical dispersal–vicariance analysis. The analyses presented here support the recognition of two evolutionary independent units: R. cabrerensis sensu lato (s.l.) and R. parnassiifolius s.l. Furthermore gradual speciation depending on the biogeographical territory is proposed, and optimal reconstructions have probably favoured the ancestor of Ranunculus parnassiifolius as originating in the Iberian Peninsula. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 107 , 477–493.     

Old Aegean palaeoevents driving the diversification of an endemic isopod species (Oniscidea,Trachelipodidae)

The Greek endemic isopod species Trachelipus aegaeus is distributed in Aegean islands and the adjacent coastal parts of the Greek mainland. Major palaeogeographic events of the Aegean archipelago, such as the formation of the mid‐Aegean trench and the Messinian Salinity Crisis, have been often employed as major causal factors of evolutionary events and phylogeographic patterns exhibited by several taxa. Herein, we infer phylogenetic relationships among T. aegaeus populations using partial cytochrome oxidase subunit I (COI) and 16S rRNA sequences. Due to the poor preservation of the specimens, we propose a modified DNA extraction protocol, which returned highly positive results in terms of the quality of the total extracted DNA. We implement a calibrated molecular clock and path sampling analysis, using alternative palaeogeographic events and rates of substitution, to evaluate the biogeographic history of the species and to estimate the chronology of diversification events among its populations. Our results are clearly in favour of the scenario of the MAT triggering vicariance among most T. aegaus populations. Moreover, the large intraspecific genetic divergence (0–19% for COI and 0–20.3% for the 16S rRNA) and the overall phylogeographic patterns depicted herein seem not to have been obscured by more recent palaeogeological events. A role of dispersal, probably human‐aided, is assumed for certain ‘deviant’ cases.     

Molecular phylogeny of the Greek legless skink Ophiomorus punctatissimus (Squamata: Scincidae): the impact of the mid-Aegean trench in its phylogeography

Sequence data derived from three mitochondrial markers (cytochrome b, 16S rRNA and 12S rRNA genes) were used to infer the evolutionary history of several insular and mainland populations of the Greek legless skink (Ophiomorus punctatissimus), covering most of its distributional range. All phylogenetic analyses produced topologically identical trees that revealed a well-resolved phylogeny. These trees support two O. punctatissimus clades, which are geographically separated (west and east of the mid-Aegean trench). The assumption of a clock-like evolution could not be rejected, and thus a local clock was calibrated for the O. punctatissimus lineages. The non-overlapping geographic distributions of the major clades suggest a spatial and temporal sequence of diversification that coincides with paleogeographic separations during the geological history of the Aegean region. It seems that O. punctatissimus is an old eastern Mediterranean species that has been differentiating in this region at least from middle Miocene. It is possible that the ancestral form of O. punctatissimus invaded the Aegean region from Anatolia before the complete formation of the mid-Aegean trench, when the Aegean was still a uniform landmass, while other vicariant events have led to its present distribution.     

Intraspecific variation in segment number in Pachymerium ferrugineum (C. L. Koch, 1835) (Chilopoda: Geophilomorpha) in the south Aegean Archipelago (north-east Mediterranean, Greece)

Geophilomorph centipedes have numerous leg-bearing segments, always an odd number. Previous research has shown the significant role of latitudinal clines and temperature on intraspecific variation, supporting the view that species of geophilomorphs from cold and temperate regions tend to have fewer segments than those from warmer regions. Here, data are presented on segment numbers of Pachymerium ferrugineum (C. L. Koch, 1835) from the south Aegean Archipelago. Within the framework of a study of the centipede fauna of the south Aegean Islands, three adjacent geographical areas with discrete geological histories were studied (Crete, Cyclades, and Dodecanese). There is no evidence to indicate that a latitudinal trend is present across these three main geographical regions. Apart from Crete, there is no demonstration of a cline along the longitudinal axis of the Aegean. However, the insular characteristics of the central and south-east Cyclades could possibly support higher modal segment numbers. In addition, examination of males and females of P. ferrugineum confirmed the existence of latitudinal clines in certain cases among the islands of Crete, Cyclades, and Dodecanese.  © 2006 The Linnean Society of London, Biological Journal of the Linnean Society , 2006, 88 , 533–539.     

Increased molecular divergence of two endemic Trachelipus (Isopoda,Oniscidea) species from Greece reveals patterns not congruent with current taxonomy

In the present study, we employed three mitochondrial DNA genetic markers in a phylogenetic analysis aiming at the delineation of the relationships amongst nominal Trachelipus kytherensis populations, as well as between populations of this species and of Trachelipus aegaeus and a new form, occurring syntopically with the latter. Both the phylogenetic analysis and the genetic distances separating populations, show the presence of several distinct and well differentiated clades that undermine the monophyly of T. kytherensis. On the other hand, despite the insular distribution of T. aegaeus populations, their divergence is low and the monophyly of this taxon can be rescued by the inclusion of two more insular populations previously assigned to T. kytherensis. The patterns of genetic divergence among clades are only partially congruent with the geographic distribution of populations. The validity of taxonomic characters used so far in the genus appears to be questionable; therefore, a more comprehensive phylogenetic study at a population level is deemed necessary for understanding the divergence of Trachelipus lineages. © 2008 The Linnean Society of London, Biological Journal of the Linnean Society, 2008, 95 , 361–370.     

Phylogeography of two cryptic species of African desert jerboas (Dipodidae: Jaculus)

The lesser Egyptian jerboa Jaculus jaculus is a desert dwelling rodent that inhabits a broad Arabian–Saharan arid zone. Recently, two distant sympatric lineages were described in North‐West Africa, based on morphometric and molecular data, which may correspond to two cryptic species. In the current study, phylogenetic relationships and phylogeographical structure among those lineages and geographical populations from North Africa and the Middle East were investigated. The phylogeographical patterns and genetic diversity of the cytochrome b gene (1110 bp) were addressed on 111 jerboas from 41 localities. We found that the variation in Africa is partitioned into two divergent mitochondrial clades (10.5% divergence relating to 1.65–4.92 Mya) that corresponds to the two cryptic species: J. jaculus and J. deserti. Diversifications within those cryptic species/clades were dated to 0.23–1.13 Mya, suggesting that the Middle Pleistocene climatic change and its environmental consequences affected the evolutionary history of African jerboas. The third distant clade detected, found in the Middle East region, most likely represents a distinct evolutionary unit, independent of the two African lineages. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, ??, ??–??.     

Colonization history of Mallorca Island by the European rabbit,Oryctolagus cuniculus,and the Iberian hare,Lepus granatensis (Lagomorpha: Leporidae)

The Mediterranean islands have a long history of human‐mediated introductions resulting in frequent replacements of their fauna and flora. Although these histories are sometimes well documented or may be inferred from paleontological studies, the use of phylogenetic and population genetic reconstruction methods provides a complementary perspective for answering questions related to the history of insular species. In the present study, we infer the colonization history of Mallorca (Balearic Islands) by the European rabbit (Oryctolagus cuniculus) and the Iberian hare (Lepus granatensis) using sequence variation of the mitochondrial DNA control region from continental and insular specimens (total of 489 sequences). Additionally, the taxonomic identity of Mallorcan L. granatensis was confirmed using a diagnostic nuclear marker. For both Mallorcan rabbits and hares, genetic diversity was comparable to the continental populations, suggesting the introduction of multiple lineages. Two Mallorcan haplogroups were found in hares, which likely correspond to two introduction events. Rabbits from Mallorca were identified as belonging to the subspecies Oryctolagus cuniculus cuniculus, and may have been originated both from Iberian and French populations. The molecular estimates of the timing of the colonization events of the Mallorcan lagomorphs are consistent with human‐mediated introductions by early settlers on the islands. © 2014 The Linnean Society of London, Biological Journal of the Linnean Society, 2014, 111 , 748–760.     

Explosive evolution of an ancient group of Cyphophthalmi (Arachnida: Opiliones) in the Balkan Peninsula

Aim  To investigate the phylogeny of the genus Cyphophthalmus in the Balkan Peninsula and to test the current recognition of 'phyletic lines' and phylogenetic groups proposed in previous studies in order to elucidate the biogeographical history of the region.
Location  Europe, Balkan Peninsula, Adria microplate.
Methods  Two mitochondrial (cytochrome c oxidase subunit I and 16S rRNA) and two nuclear (28S rRNA and 18S rRNA) markers were used to infer the phylogenetic history of the group. Molecular dating with relaxed molecular clocks was used to elucidate the relative time of diversification within the genus Cyphophthalmus and its constituent lineages.
Results  Our analyses confirm the monophyly of the genus Cyphophthalmus , and that of the Aegean and gjorgjevici lineages, whereas the 'Dinaric lineage' appears paraphyletic.
Main conclusions  We show that the genus Cyphophthalmus is an old endemic from the Balkan biogeographical region, which gave origin to at least three main lineages. Those lineages have diversified within overlapping ranges. According to our molecular dating, they have also diversified within the same timeframe. The Dinaric Alps, although presenting a large number of species, cannot be inferred as the centre of origin of the group. Instead, the biogeographical evolution of the genus could be related to the palaeogeographic history of the Adria microplate.     

Molecular systematics and biogeography of the western Mediterranean stonefly genus Tyrrhenoleuctra (Insecta, Plecoptera)

The stonefly genus Tyrrhenoleuctra includes species living in western Mediterranean temporary freshwater streams, sometimes also at sea level, a very unusual habitat for most Plecoptera. Traditional morphological approaches proved unsuccessful in drawing both taxonomic and phylogenetic patterns, thus hampering discussion of biogeographical patterns for this interesting group. We aimed at: (a) assessing the taxonomic status of populations of Tyrrhenoleuctra covering the geographic range of the genus; (b) studying the phylogenetic relationships among the recognized species; and (c) describing biogeographic patterns. We used phylogenetic analyses to infer the phylogenetic history of this group of stoneflies based on a combined data set of 1666 bp including fragments of the 12S ribosomal (12S) and cytochrome oxidase I (CO‐I) mtDNA genes, with maximum likelihood and Bayesian methods. Two main clades have been identified: a Sardo‐Corsican one, including Tyrrhenoleuctra zavattarii, and an Ibero‐Maghrebian one including four lineages of unkown taxonomic rank from the Balearic Islands (Maiorca), from northern Africa (Ceuta) and southernmost Spain (Algeciras), and a complex preliminarily referred herein to T. minuta (Klapálek, 1901), which includes two lineages, one from Cordoba, and one from Sierra de Grazalema (El Cerro) and Portugal (Tellhares) respectively. Dating the nodes by fixing the split of the Ibero‐Maghrebian clade from the Sardo‐Corsican one at 29 million years ago (Mya), yielded dates referring to the major geological events in the Mediterranean basin. Estimated molecular evolutionary rates ranged from 0.02–0.09% per million years (my) in the T. zavattarii lineages, to 0.2–0.7% per MY in the Ibero‐Maghrebian clade. The phylogenetic pattern emerged from the present study is congruent with the known paleo‐history of the western Mediterranean basin, with the divergence of the two main Tyrrhenoleuctra lineages corresponding to the split of the Sardo‐Corsican microplate from the Iberian block. Vicariance events have characterized the history of this stonefly group along its entire biogeographical history. Surprisingly low evolutionary rates, previously supposed by Fochetti (1991, 1994) and Fochetti et al. (2004) based on nuclear markers (allozymes), have been herein found also in mitochondrial markers.     

Inference of a radiation in Mastus (Gastropoda, Pulmonata, Enidae) on the island of Crete

The Mediterranean land snail genus Mastus (Beck, 1837) is highly divergent. Thirty-two Mastus species have been recorded throughout the genus range, and 23 of them are endemic to the islands of the Aegean Sea and mainland Greece. Of these, all 16 Mastus species reported from Crete are endemic to this island. A robust molecular phylogenetic framework based on mitochondrial and nuclear genes (1623 bp) allowed us to explore the temporal diversification pattern of lineages, using molecular clock approaches. Our results showed an initial radiation in the evolutionary history of the Cretan lineage, followed by a subsequent slowdown of lineage splitting rate. Using a dated major vicariant event of the Aegean area, we estimated the absolute time of the radiation event and proposed a biogeographic scenario accounting for the observed pattern. Additionally, we tried to infer the processes that led to the divergence of the Cretan Mastus species, by applying comparative methods in phylogenetically informated context. Overall, our results favoured a nonecological radiation scenario in the Cretan Mastus species due to an allopatric divergence of secondary sexual characters.     

Comparative phylogenetic analysis reveals long‐term isolation of lineages on the Three Kings Islands,New Zealand

We have used comparative phylogenetic analysis to infer the age and biogeographical origins of the Three Kings Islands insect fauna, an archipelago only 56 km off the northern tip of New Zealand. We densely sampled six insect lineages (five Coleoptera, Brachynopus latus, Brachynopus scutellaris, Tarphiomimus spp., Epistranus lawsoni, and Syrphetodes spp., and one Phasmatodea, Pseudoclitarchus sentus) throughout New Zealand and sequenced mitochondrial DNA to assess phylogenetic relationships and determine ages of haplotype lineages on the Three Kings Islands. We recovered two biogeographical patterns. The first pattern was seen in three taxa, B. latus, Syrphetodes spp., and E. lawsoni, which had sister group relationships between the Three Kings and the adjacent North Cape region at the very northern tip of New Zealand. The second pattern, inferred in P. sentus, B. scutellaris, and Tarphiomimus spp., was where Three Kings lineages had sister groups that were widespread throughout most or all of New Zealand. The divergence dates, estimated using a range of previously estimated substitution rates, ranged from as old as 24 Mya in B. scutellaris to as young as 2.24 Mya in Tarphiomimus. These results are consistent with continual emergent land on the Three Kings Ridge since at least the Miocene and a lack of land connections between the Three Kings Islands and mainland New Zealand during Pleistocene sea‐level lowering. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 108 , 361–377.     

The Evolutionary History of the Rediscovered Austrian Population of the Giant Centipede Scolopendra cingulata Latreille 1829 (Chilopoda,Scolopendromorpha)

The thermophilous giant centipede Scolopendra cingulata is a voracious terrestrial predator, which uses its modified first leg pair and potent venom to capture prey. The highly variable species is the most common of the genus in Europe, occurring from Portugal in the west to Iran in the east. The northernmost occurrences are in Hungary and Romania, where it abides in small isolated fringe populations. We report the rediscovery of an isolated Austrian population of Scolopendra cingulata with the first explicit specimen records for more than 80 years and provide insights into the evolutionary history of the northernmost populations utilizing fragments of two mitochondrial genes, COI and 16S, comprising 1,155 base pairs. We test the previously proposed hypothesis of a speciation by distance scenario, which argued for a simple range expansion of the species from the southeast, via Romania, Hungary and finally to Austria, based on a comprehensive taxon sampling from seven countries, including the first European mainland samples. We argue that more complex patterns must have shaped the current distribution of S. cingulata and that the Austrian population should be viewed as an important biogeographical relict in a possible microrefugium. The unique haplotype of the Austrian population could constitute an important part of the species genetic diversity and we hope that this discovery will initiate protective measures not only for S. cingulata, but also for its habitat, since microrefugia are likely to host further rare thermophilous species. Furthermore, we take advantage of the unprecedented sampling to provide the first basic insights into the suitability of the COI fragment as a species identifying barcode within the centipede genus Scolopendra.     

Molecular phylogeny and phylogeography of the Greek populations of the genus Orthometopon (Isopoda, Oniscidea) based on mitochondrial DNA sequences

We infer phylogenetic relationships among isopod species of the genus Orthometopon distributed in the Greek area, comparing partial mitochondrial DNA sequences for cytochrome oxidase I (COI). All phylogenetic analyses produced topologically identical trees that revealed a well-resolved phylogeny. These trees support the monophyly of the genus Orthometopon , and suggest two clades that correspond to separate geographical regions (west and east of the mid-Aegean trench). However, the phylogenetic relationships among Greek populations of Orthometopon spp. are different from the presumed pattern on the basis of morphological evidence. The distinct geographical distribution of the major clades of the phylogenetic tree and its topology suggest a spatial and temporal sequence of phylogenetic separations, which coincide with some major palaeogeographical separations during the geological history of the Aegean Sea. The results stress the need for a reconsideration of the evolutionary history of Orthometopon species, which will help overcome difficulties encountered in classical taxonomy at the species level. © 2008 The Linnean Society of London, Zoological Journal of the Linnean Society , 2008, 152 , 707–715.     

Extreme population subdivision throughout a continuous range: phylogeography of Batrachoseps attenuatus (Caudata: Plethodontidae) in western North America

Low-vagility species with deep evolutionary histories are key to our understanding of the biogeographical history of geologically complex areas, such as the west coast of North America. We present a detailed study of the phylogeography of the salamander Batrachoseps attenuatus (Caudata: Plethodontidae) using sequences of the mitochondrial gene cob from 178 individuals sampled from throughout the species' range. Sequences of three other mitochondrial genes (16S, cox1, nad4) and a nuclear gene (RAG-1) were used to investigate the deeper evolutionary history of the species. We found high levels of genetic diversity and deep divergences within a mostly continuous distribution, with five genetically well-differentiated and geographically structured mitochondrial DNA clades. Significant association between geographical and genetic distances within these clades suggests demographic stability, whereas Fu's FS tests suggest demographic expansions in three of them. Mantel tests identify two biogeographical barriers, the San Andreas Fault and the Sacramento-San Joaquin Delta, as important in the diversification of lineages. The timing of the main splitting events between intraspecific lineages was estimated by applying relaxed molecular clock methods combining several mutation rates and a fossil calibration. The earliest splitting events are old (Pliocene/Miocene), with more recent (Pleistocene) subdivisions in some clades. Disjunct populations distributed along the western foothills of the Sierra Nevada colonized this area relatively recently from a single refugium east of San Francisco Bay. The combination of fine-scale, comprehensive sampling with phylogenetic, historical demographic and hypothesis-based tests allowed delineation of a complex biogeographical scenario with general implications for the study of codistributed taxa.     

Molecular phylogeography of Troglophilus cave crickets (Orthoptera,Rhaphidophoridae): A combination of vicariance and dispersal drove diversification in the East Mediterranean region

In this study, we investigated the molecular phylogenetic divergence and historical biogeography of cave crickets belonging to the genus Troglophilus (Orthoptera, Rhaphidophoridae) from caves in eastern Mediterranean and Anatolia regions. Three mitochondrial DNA genes (COI, 12S rDNA, and 16S rDNA) and two nuclear ones (18S rDNA and 28S rDNA) were amplified and partially sequenced to reconstruct phylogenetic relationships among most of the known Troglophilus species. Results showed a well‐resolved phylogeny with three main clades representing the Balkan, the Anatolian, and the Cycladian–Cretan lineages. Based on Bayesian analyses, we applied a relaxed molecular clock model to estimate the divergence times between these three lineages. Dating estimates indicate that radiation of the ingroup might have been triggered by the opening of the Mid‐Aegean trench, while the uplift of the Anatolian Plateau in Turkey and the changes of relief, emergence, and disappearance of orographic and hydrographical barriers in the Balkan Peninsula are potential paleogeographic events responsible for the initial diversification of the genus Troglophilus. A possible biogeographic scenario, reconstructed using S‐DIVA with RASP software, suggested that the current distribution of Troglophilus species can be explained by a combination of both dispersal and vicariance events that occurred in particular in the ancestral populations. The radiation of Troglophilus species likely started from the Aegean and proceeded eastward to Anatolia and westward to the Balkan region. Results are additionally compared to those available for Dolichopoda, the only other representative genus of Rhaphidophoridae present in the Mediterranean area.     

Multiple refugia and barriers explain the phylogeography of the Valais shrew,Sorex antinorii (Mammalia: Soricomorpha)

The aim of the present study was to investigate the genetic structure of the Valais shrew (Sorex antinorii) by a combined phylogeographical and landscape genetic approach, and thereby to infer the locations of glacial refugia and establish the influence of geographical barriers. We sequenced part of the mitochondrial cytochrome b (cyt b) gene of 179 individuals of S. antinorii sampled across the entire species' range. Six specimens attributed to S. arunchi were included in the analysis. The phylogeographical pattern was assessed by Bayesian molecular phylogenetic reconstruction, population genetic analyses, and a species distribution modelling (SDM)‐based hindcasting approach. We also used landscape genetics (including isolation‐by‐resistance) to infer the determinants of current intra‐specific genetic structure. The phylogeographical analysis revealed shallow divergence among haplotypes and no clear substructure within S. antinorii. The starlike structure of the median‐joining network is consistent with population expansion from a single refugium, probably located in the Apennines. Long branches observed on the same network also suggest that another refugium may have existed in the north‐eastern part of Italy. This result is consistent with SDM, which also suggests several habitable areas for S. antinorii in the Italian peninsula during the LGM. Therefore S. antinorii appears to have occupied disconnected glacial refugia in the Italian peninsula, supporting previous data for other species showing multiple refugia within southern refugial areas. By coupling genetic analyses and SDM, we were able to infer how past climatic suitability contributed to genetic divergence of populations. The genetic differentiation shown in the present study does not support the specific status of S. arunchi. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 105 , 864–880.