Development and characterization of the first microsatellite markers in the mangrove species Pelliciera rhizophorae Triana & Planchon

Pelliciera rhizophorae is a unique Neotropical mangrove species belonging to Pelliciera genus. We isolated eight microsatellite loci from this species. All loci were polymorphic and showed three to nine alleles per locus in Colombian Pacific and Caribbean populations. Polymorphic information content ranged from 0.46 to 0.69. Two loci (PeRh‐14 and PeRh‐19) showed null alleles on the Caribbean coast, which suggest genetic differentiation between Pacific and Caribbean populations of P. rhizophorae. Development of these microsatellite loci constitutes a new molecular tool to carry out studies in the genome of the species and to evaluate its population dynamics.     

Evolutionary history of two allopatric Terricola species (Arvicolinae, Rodentia) from molecular, morphological, and palaeontological data

To investigate the phylogenetic and phylogeographical relationships of arvicolines, we use several Western European ground voles. More particularly, our study is focused on Microtus ( Terricola ) savii and M. ( T. ) pyrenaicus . These two allopatric species are usually considered as having originated from the same ancestor, possibly M . ( T. ) mariaclaudiae . We propose molecular and morphological approaches: nucleotidic data from the mitochondrial cytochrome b and 12S rRNA genes and global morphological analyses from the first lower molar. Four other Terricola species ( multiplex , lusitanicus , duodecimcostatus , subterraneus ) were added to the data set for both analyses, and two other vole species ( Clethrionomys glareolus and Chionomys nivalis ) as outgroup to the molecular analysis, and five fossil populations to the morphological one. Palaeontological data are also widely taken into account. Both molecular and morphological analyses indicate that intra- Terricola relationships reflect the present-day geographical distribution of our data set species. Our results show that M. ( T. ) savii and M. ( T. ) pyrenaicus are from separate speciation events leading to two different biogeographical groups, respectively the Alpine–Italian group and the French–Iberian group, the latter being much more homogeneous. These speciation events could be related to Quaternary climatic changes, which induced southward migration, leading first to M. ( T. ) savii and second to M. ( T. ) pyrenaicus . The classical hypothesis of a geographical speciation for these two taxa from M. ( T. ) mariaclaudiae is invalid. However, the morphological data suggest a potential phylogenetic relationship between M. ( T. ) mariaclaudiae (ancestor) and M. ( T. ) pyrenaicus (descendant).  © 2008 The Linnean Society of London, Biological Journal of the Linnean Society , 2008, 93 , 309–323.     

Biogeography and incipient speciation in Ophryotrocha labronica (Polychaeta, Dorvilleidae)

Crossing experiments were conducted between the Naples I (NI) strain of Ophryotrocha labronica labronica, three strains of O. l. pacifica from Japan (M3), Hawaii (WH) and Los Angeles (LA), two strains of O. labronica from Australia and one from an unknown origin, discovered in a Moscow aquarium, to determine the relationships between the European and Pacific subspecies, and the newly discovered strains. Previously published data combined with new results revealed several stages in the process of speciation within the sibling group. Interpopulation crosses yielded an increased sex ratio that appears to be positively related to genetic distance and to the sex ratio of the parent strains. Fecundity data demonstrated that the three northern Pacific strains are more closely related to each other than to any other strain, confirming that they are a valid subspecies, and indicate that they are the result of natural distribution. The strain of unknown origin as well as the Australian strains clearly belong to O. l. labronica. Its isolated presence in the South Pacific may be a remnant of an earlier wider distribution or an introduction of the Mediterranean population, as the life histories of Ophryotrocha species have made them prime candidates for anthropogenic dispersals.     

A new Pyrenean hybrid Cirsium (Asteraceae) as revealed by morphological and molecular analyses

A new nothosubspecies Cirsium  ×  vivantii is described after a molecular and morphological characterization of eight individuals collected in two separate valleys of the French central Pyrenees. Both hypervariable Amplified Fragment Length Polymorphism (AFLP) markers and nuclear rDNA (ITS) and plastid ( trn L-F, TRNT-L) DNA sequences were analysed. The profiles of these hybrid samples were compared to those of 43 individuals belonging to their presumed parental taxa C. carniolicum ssp. rufescens and C. palustre . A total of 133 AFLP bands were scored from three primer-pair combinations. All 130 AFLP bands that amplified in the hybrid samples were present in either C. carniolicum ssp. rufescens , C. palustre or both taxa, supporting the participation of these plant genomes in the resulting hybrids. Several Additive Polymorphic Sites (APS) detected in the ITS sequences of the hybrid samples also confirmed their derived origins from ribotypes of the two parental taxa. The lack of exclusive AFLP markers and the nonconcerted evolution of rDNA polymorphisms towards either of the parental ribotypes indicated their recent origin. Plastid trn T-L sequences were used to identify C. palustre as the maternal parent of six of these hybrid individuals; either parent could have acted as the plastid genome donor for the other two individuals. The morphological study revealed that all hybrid individuals were morphologically intermediate between their parents showing largely lobed and less spiny basal leaves as in C. carniolicum ssp. rufescens and decurrent leaf bases and pinkish corollas as in C. palustre .  © 2007 The Linnean Society of London, Botanical Journal of the Linnean Society , 2007, 154 , 421–434.     

Population Genetic Structure of Neotropical Mangrove Species on the Colombian Pacific Coast: Pelliciera rhizophorae (Pellicieraceae)1

Pelliciera rhizophorae is a Neotropical mangrove species whose distribution is mostly restricted to the Pacific Coast, between the Gulf of Nicoya (Costa Rica) and the Esmeraldas River (Ecuador). In the Caribbean, patches of Pelliciera have been found in Nicaragua, Panama, and Colombia. The genetic variation and the population structure of P. rhizophorae were evaluated in six zones of the Colombian Pacific, using AFLP molecular markers. Of the 225 amplified fragments produced, 155 (69%) were polymorphic in 57 individuals of P. rhizophorae collected in the localities of Virudó, Charambirá, La Plata Island, Tumaco, Milagros, and Chontal. Genetic diversity within populations varied significantly, with the lowest levels of within‐population variation (H_ep= 0.081 and 0.090, respectively) in La Plata Island and Tumaco; and the highest level of variation (H_ep= 0.187) in Chontal. In the Colombian Pacific, P. rhizophorae was significantly structured, with 26.5 percent of the variation found among populations, which was an evidence of substructure within populations. Genetic differentiation was not related to the geographic distance between zones. This suggests that the population dynamics of P. rhizophorae could be associated with historic processes influenced by ecological and environmental factors such as the movement of pollen by birds, the displacement of propagules by marine currents, and the spatial distribution of favorable habitats.     

Relation between climatic fluctuation and morphological variability in Microtus (Terricola) grafi (Arvicolinae, Rodentia) from Bacho Kiro (Bulgaria, Upper Pleistocene)

Morphological variability within the species Microtus (Terricola) grafi is investigated in relation to the parameters of time and climate. Microtus (Terricola) grafi has been described from the Upper Pleistocene cave of Bacho Kiro (Bulgaria), which has yielded numerous teeth from several levels reflecting climatic fluctuations. The first lower molars are analyzed by 23 biometric variables so as to quantify tooth shape and its variation with time and climate. This morphological analysis reveals a number of shape indexes reflecting whether an individual lived in warm or cold conditions. The most significant result is that individuals living in warm conditions exhibit the more primitive feature of having a less tilted pitymyan rhombus.     

Sexual isolation and extreme morphological divergence in the Cumana guppy: a possible case of incipient speciation

Theory predicts that sexual selection can promote the evolution of reproductive isolation and speciation. Those cases in which sexual selection has led to speciation should be characterized by significant differentiation in male display traits and correlated female preferences in the absence of post-zygotic isolation, accompanied by little genetic or other morphological differentiation. Previous evidence indicates that a cluster of populations of the guppy (Poecilia reticulata Peters) from Cumana, Venezuela, the 'Cumana guppy', differs significantly in female preferences from a nearby guppy population (A. Lindholm & F. Breden, Am. Nat., 160: 2002, S214). Here, we further document sexual isolation between these populations. In addition, these populations exhibit significant divergence in male display traits correlated to differences in between-population mating success, little mitochondrial genetic differentiation, and we find no evidence for genetic incompatibility between a Cumana population and several geographically isolated populations. These results suggest that divergent sexual selection has contributed to differentiation of the Cumana guppy, and this may be the first example of incipient speciation in the guppy.     

Diversity of Anisoptera (Odonata): infering speciation processes from patterns of morphological diversity

With roughly 2500 described species Anisoptera are among the species-poor suborders within insects. However, morphological and ecological variability are truly impressive. Anisoptera are classified into about 15 families of variable species richness. In this analysis phylogenetic research is integrated with comparative approaches to investigate possible explanations of differential speciation rates within this suborder. A short review of phylogenetic work based on morphological characters is compared to published molecular phylogenies. Sistergroup comparisons are used to elucidate whether a) sexual selection, b) duration of life cycles, or c) differentiation in body size, have had a detectable effect on speciation rate. In all three analyses effects of distributional range and latitudinal distribution were controlled. These analyses suggest sexual selection promotes speciation and an increase in body size is positively correlated with speciation rate. The evolutionary significance of these results is discussed and experimental approaches that should advance our understanding of anisopteran diversity are suggested.     

Molecular and morphological divergence in the butterfly genus Lycaeides (Lepidoptera: Lycaenidae) in North America: evidence of recent speciation

Male genital morphology, allozyme allele frequencies and mtDNA sequence variation were surveyed in the butterfly species Lycaeides idas and L. melissa from across much of their range in North America. Despite clear differences in male genital morphology, wing colour patterns and habitat characteristics, genetic variation was not taxonomically or geographically structured and the species were not identifiable by either genetic data set. Genetic distances (Nei's D=0.002–0.078, calculated from allozyme data) between all populations of both species were within the range commonly observed for conspecific populations of other butterflies. The most frequent mtDNA haplotype was present in individuals of both species in populations from southern California to Wisconsin. We conclude that speciation has probably happened recently and the lack of genetic differentiation between the species is the product of either (1) recent or ongoing gene flow at neutral loci, and/or (2) an insufficiency of time for lineage sorting. The evolution of male genital morphology, wing colour patterns and ecological characteristics has proceeded more rapidly than allozyme or mtDNA evolution.     

Genetic divergence in the Atlantic-Mediterranean Montagu's blenny, Coryphoblennius galerita (Linnaeus 1758) revealed by molecular and morphological characters

Coryphoblennius galerita is a small intertidal fish with a wide distribution and limited dispersal ability, occurring in the northeastern Atlantic and Mediterranean. In this study, we examined Atlantic and Mediterranean populations of C. galerita to assess levels of genetic divergence across populations and to elucidate historical and contemporary factors underlying the distribution of the genetic variability. We analyse three mitochondrial and one nuclear marker and 18 morphological measurements. The combined dataset clearly supports the existence of two groups of C. galerita: one in the Mediterranean and another in the northeastern Atlantic. The latter group is subdivided in two subgroups: Azores and the remaining northeastern Atlantic locations. Divergence between the Atlantic and the Mediterranean can be the result of historical isolation between the populations of the two basins during the Pleistocene glaciations. Present-day barriers such as the Gibraltar Strait or the 'Almeria-Oran jet' are also suggested as responsible for this isolation. Our results show no signs of local extinctions during the Pleistocene glaciations, namely at the Azores, and contrast with the biogeographical pattern that has been observed for Atlantic-Mediterranean warm-water species, in which two groups of populations exist, one including the Mediterranean and the Atlantic coast of western Europe, and another encompassing the western tropical coast of Africa and the Atlantic islands of the Azores, Madeira and Canaries. Species like C. galerita that tolerate cooler waters, may have persisted during the Pleistocene glaciations in moderately affected locations, thus being able to accumulate genetic differences in the more isolated locations such as the Azores and the Mediterranean. This study is one of the first to combine morphological and molecular markers (mitochondrial and nuclear) with variable rates of molecular evolution to the study of the relationships of the Atlantic and Mediterranean populations of a cool-water species.     

A morphological and molecular assessment of the genus Sinotubimorpha (Halymeniaceae, Rhodophyta)

A critical reassessment of the morphological features of two closely related red algal genera,Grateloupia C.Agardh and Sinotubimorpha W.X.Li & Z.F.Ding (Halymeniaceae),pointed out that members of the t...     

Cryptic speciation and recombination in the fungus Paracoccidioides brasiliensis as revealed by gene genealogies

Paracoccidioides brasiliensis is the etiologic agent of paracoccidioidomycosis, a disease confined to Latin America and of marked importance in the endemic areas due to its frequency and severity. This species is considered to be clonal according to mycological criteria and has been shown to vary in virulence. To characterize natural genetic variation and reproductive mode in this fungus, we analyzed P. brasiliensis phylogenetically in search of cryptic species and possible recombination using concordance and nondiscordance of gene genealogies with respect to phylogenies of eight regions in five nuclear loci. Our data indicate that this fungus consists of at least three distinct, previously unrecognized species: S1 (species 1 with 38 isolates), PS2 (phylogenetic species 2 with six isolates), and PS3 (phylogenetic species 3 with 21 isolates). Genealogies of four of the regions studied strongly supported the PS2 clade, composed of five Brazilian and one Venezuelan isolate. The second clade, PS3, composed solely of 21 Colombian isolates, was strongly supported by the alpha-tubulin genealogy. The remaining 38 individuals formed S1. Two of the three lineages of P. brasiliensis, S1 and PS2, are sympatric across their range, suggesting barriers to gene flow other than geographic isolation. Our study provides the first evidence for possible sexual reproduction in P. brasiliensis S1, but does not rule it out in the other two species.     

Cryptic speciation in Protoceratium reticulatum (Dinophyceae): Evidence from morphological,molecular and ecophysiological data

The cosmopolitan, potentially toxic dinoflagellate Protoceratium reticulatum possesses a fossilizable cyst stage which is an important paleoenvironmental indicator. Slight differences in the internal transcribed spacer ribosomal DNA (ITS rDNA) sequences of P. reticulatum have been reported, and both the motile stage and cyst morphology of P. reticulatum display phenotypic plasticity, but how these morpho-molecular variations are related with ecophysiological preferences is unknown. Here, 55 single cysts or cells were isolated from localities in the Northern (Arctic to subtropics) and Southern Hemispheres (Chile and New Zealand), and in total 34 strains were established. Cysts and/or cells were examined with light microscopy and/or scanning electron microscopy. Large subunit ribosomal DNA (LSU rDNA) and/or ITS rDNA sequences were obtained for all strains/isolates. All strains/isolates of P. reticulatum shared identical LSU sequences except for one strain from the Mediterranean Sea that differs in one position, however ITS rDNA sequences displayed differences at eight positions. Molecular phylogeny was inferred using maximum likelihood and Bayesian inference based on ITS rDNA sequences. The results showed that P. reticulatum comprises at least three ribotypes (designated as A, B, and C). Ribotype A included strains from the Arctic and temperate areas, ribotype B included strains from temperate regions only, and ribotype C included strains from the subtropical and temperate areas. The average ratios of process length to cyst diameter of P. reticulatum ranged from 15% in ribotype A, 22% in ribotype B and 17% in ribotype C but cyst size could overlap. Theca morphology was indistinguishable among ribotypes. The ITS-2 secondary structures of ribotype A displayed one CBC (compensatory change on two sides of a helix pairing) compared to ribotypes B and C. Growth response of one strain from each ribotype to various temperatures was examined. The strains of ribotypes A, B and C exhibited optimum growth at 15 °C, 20 °C and 20–25 °C, respectively, thus corresponding to cold, moderate and warm ecotypes. The profiles of yessotoxins (YTXs) were examined for 25 strains using liquid chromatography coupled with tandem mass spectrometry (LC–MS/MS). The parent compound yessotoxin (YTX) was produced by strains of ribotypes A and B, but not by ribotype C strains, which only produced the structural variant homoyessotoxin (homoYTX). Our results support the notion that there is significant intra-specific variability in Protoceratium reticulatum and the biogeography of the different ribotypes is consistent with specific ecological preferences.     

Hybridization and speciation in the carabid beetles of the subgenusOhomopterus (Coleoptera, Carabidae, genusCarabus)

Natural hybridization among wingless carabid beetles of the subgenusOhomopterus (Carabidae, genusCarabus) is reviewed, and its significance in the evolution of this subgenus discussed. Natural hybridization occurs between parapatric species of similar size. Two case studies of natural hybridization suggest that natural hybridization could have affected the evolution of this subgenus in different ways. When there is a large difference in genital morphology between hybridizing species, interspecific copulation often results in genital injuries that causes mortality of copulating individuals, and hence reduces the fitness of hybridizing individuals greatly. In such a case, hybridization may be effective in maintaining the parapatric distribution of the two species, and in the long term, may promote reinforcement selection for traits which are effective in prezygotic reproductive isolation. When the morphological difference in genitalia is not so large as to cause genital injury, a hybrid population may be established at the intermediate zone between two parental species, provided that the immigration rates of the two species into the intermediate zone are small. Thus, natural hybridization may have contributed to both divergence and reticulate evolution in this subgenus.     

Evolutionary divergence and possible incipient speciation in post-glacial populations of a cosmopolitan aquatic plant

Habitat configuration is expected to have a major influence on genetic exchange and evolutionary divergence among populations. Aquatic organisms occur in two fundamentally different habitat types, the sea and freshwater lakes, making them excellent models to study the contrasting effects of continuity vs. isolation on genetic divergence. We compared the divergence in post-glacial populations of a cosmopolitan aquatic plant, the pondweed Potamogeton pectinatus that simultaneously occurs in freshwater lakes and coastal marine sites. Relative levels of gene flow were inferred in 12 lake and 14 Baltic Sea populations in northern Germany using nine highly polymorphic microsatellite markers developed for P. pectinatus. We found highly significant isolation-by-distance in both habitat types (P < 0.001). Genetic differentiation increased approximately 2.5-times faster among freshwater populations compared with those from the Baltic Sea. As different levels of genetic drift or population history cannot explain these differences, higher population connectivity in the sea relative to freshwater populations is the most likely source of contrasting evolutionary divergence. These findings are consistent with the notion that freshwater angiosperms are more conducive to allopatric speciation than their life-history counterparts in the sea, the relative species poor seagrasses. Surprisingly, population pairs from different habitat types revealed almost maximal genetic divergence expected for complete reproductive isolation, regardless of their respective geographical distance. Hence, the barrier to gene flow between lake and sea habitat types cannot be due to dispersal limitation. We may thus have identified a case of rapid incipient speciation in post-glacial populations of a widespread aquatic plant.     

Range expansion during the Pleistocene drove morphological radiation of the fir genus (Abies,Pinaceae) in the Qinghai‐Tibet Plateau and Himalayas

Range expansion caused by climate oscillations in the past probably promoted morphological radiation in a few plant groups. In this study, we aim to test this hypothesis through phylogeographical analysis of the cold‐tolerant fir genus (Abies) in the Qinghai‐Tibet Plateau (QTP) and Himalayas, where it comprises 12 described species. We examined sequence variation in two maternally inherited mitochondrial (mt) DNA fragments (nad5‐4 and nad7‐1) and two paternally inherited plastid DNA fragments (trnS‐G and trnL‐F) for 733 individuals from 75 populations of the species in a monophyletic group. Only six mtDNA haplotypes were recovered, but five were shared between multiple species and one occurred at a high frequency, providing strong evidence of range expansion. Forty‐three plastid DNA haplotypes were detected, 19 of which were shared between species and three occurred at high frequency. Network, mismatch and Bayesian skyline plot analyses of all plastid DNA haplotypes from this clade clearly suggested range expansion. This expansion was dated as having occurred during the longest and most extensive glaciation in the Pleistocene. Our results therefore supported the range expansion hypothesis for this clade of Abies during the Pleistocene; expansion probably drove the morphological radiation of the clade in the QTP and Himalayas, although it remains unclear whether the different morphotypes should be acknowledged as independent, reproductively isolated species. © 2015 The Linnean Society of London, Botanical Journal of the Linnean Society, 2015, 179 , 444–453.     

Phylogenetic and molecular evidence for allochronic speciation in gall-forming aphids (Pemphigus)

Sympatric populations can diverge when variation in phenology or life cycle causes them to mate at distinctly different times. We report patterns consistent with this process (allochronic speciation) in North American gall-forming aphids, in the absence of a host or habitat shift. Pemphigus populi-transversus Riley and P. obesinymphae Aoki form a monophyletic clade within the North American Pemphigus group. They are sympatric on the eastern cottonwood, Populus deltoides (Salicaceae), but have distinctly different life cycles, with sexual stages offset by approximately six months. Field evidence indicates that intermediate phenotypes do not commonly occur, and mitochondrial and bacterial endosymbiont DNA sequences show no maternal gene flow between the two species. Because a genetically distinct population of P. obesinymphae occurs in the southwestern United States on Populus fremontii, we consider the possibility of an initial allopatric phase in the divergence. We discuss the likely origins of the host use patterns in P. obesinymphae, and the larger sequence of evolutionary changes that likely led to the sympatric divergence of P. populi-transversus and P. obesinymphae. A plausible interpretation at this stage of investigation is that a shift in timing of the life cycle in an ancestral population, correlated with an underlying phenological complexity in its host plant, spurred divergence between the incipient species.     

A morphological and molecular assessment of the genus Prionitis J. Agardh (Halymeniaceae, Rhodophyta)

A critical reassessment of the morphological features of two closely related red algal genera, Grateloupia C. Agardh and Prionitis J. Agardh (Halymeniaceae), shows that members of the two genera share very similar reproductive (including the Grateloupia‐type auxiliary‐cell ampullae) and vegetative characters. Diagnostic features hitherto used for distinguishing these two genera, the texture of blades (lubricous to leathery in Grateloupia vs cartilaginous in Prionitis) and the position of reproductive structures (scattered over the entire blade in Grateloupia vs confined to particular portions of the blade in Prionitis), are continuous across some 75 species of both genera, thus making it difficult to draw a clear‐cut distinction between the two genera. In ribulose‐1,5‐bisphosphate carboxylase/oxygenase gene (rbcL) sequence analyses, the species of Grateloupia and Prionitis, including the two generitypes, constitute a large monophyletic clade in the Halymeniaceae. It is therefore proposed that Prionitis be included in the synonymy under Grateloupia and the appropriate combinations are proposed.     

A reappraisal of the genus Megacaryon (Boraginaceae,Lithospermeae) based on molecular,morphological, and karyological evidence

The systematic position and phylogenetic relationships of Echium orientale, a rare endemic of the mountains of northern Turkey, were elucidated based on morphological, molecular, and karyological evidence.

Using nuclear and plastid DNA sequences, we found that this species is not included in Echium, but is rather at least as divergent from it as other related lineages, namely the South African Lobostemon and Echiostachys. Pollen characters revealed a strong affinity with Onosma, especially in the non-reticulate ornamentation of the tectum. Fruit morphology is unique in the genera of the Echium ‘alliance' (e.g. Echium, Pontechium, Lobostemon, and Echiostachys), because of the large size and the smooth, glossy nutlet surface as in most species of Onosma. Karyological observations show that this species is diploid with 2n = 12, and differing from both Lobostemon or Echium, where nearly all species have higher numbers (usually 2n = 14 and 2n = 16, respectively). Combined with a ‘megaherb' habit, the weak zygomorphism of the large flowers and a restricted range in the humid mountain forests of the Black Sea region, fruit, pollen and chromosome characters suggest an isolated position for E. orientale in the Echium alliance. We therefore propose its placement in the monotypic Megacaryon, a genus originally described by Boissier, but largely disregarded by later botanists. An original specimen is designated as generic lectotype.     

Redescription of Notarius grandicassis and Notarius parmocassis (Siluriformes; Ariidae), with insights into morphological plasticity and evidence of incipient speciation

The Thomas sea catfish is characterized by a highly variable parietosupraoccipital process, which has been recognized as intraspecific variation or phenotypic plasticity. On the basis of this variation, three nominal species have been described, with two of them currently considered to be junior synonyms. Here, the Notarius grandicassis species complex is reviewed, considering the geographic variation of its morphological traits. Notarius grandicassis from north-eastern South America, and Notarius parmocassis, from eastern and southern Brazil, are redescribed as distinct evolutionary units, even though they are not differentiated by partial sequences of the mitochondrial genes CytB and ATPase 8/6. This condition is interpreted as a consequence of the recent evolutionary history of these species, which are found in distinct geographic areas with different environmental conditions.