Genetic structure of Hypochaeris uniflora (Asteraceae) suggests vicariance in the Carpathians and rapid post-glacial colonization of the Alps from an eastern Alpine refugium

Aim The range of the subalpine species Hypochaeris uniflora covers the Alps, Carpathians and Sudetes Mountains. Whilst the genetic structure and post‐glacial history of many high‐mountain plant taxa of the Alps is relatively well documented, the Carpathian populations have often been neglected in phylogeographical studies. The aim of the present study is to compare the genetic variation of the species in two major European mountain systems – the Alps and the Carpathians. Location Alps and Carpathians. Methods The genetic variation of 77 populations, each consisting of three plants, was studied using amplified fragment length polymorphism (AFLP). Results Neighbour joining and principal coordinate analyses revealed three well‐supported phylogeographical groups of populations corresponding to three disjunct geographical regions – the Alps and the western and south‐eastern Carpathians. Moreover, two further clusters could be distinguished within the latter mountain range, one consisting of populations from the eastern Carpathians and the second consisting of populations from the southern Carpathians. Populations from the Apuseni Mountains had an intermediate position between the eastern and southern Carpathians. The genetic clustering of populations into four groups was also supported by an analysis of molecular variance, which showed that most genetic variation (almost 46%) was found among these four groups. By far the highest within‐population variation was found in the eastern Carpathians, followed by populations from the southern and western Carpathians. Generally, the populations from the Alps were considerably less variable and displayed substantially fewer region‐diagnostic markers than those from the south‐eastern Carpathians. Although no clear geographical structure was found within the Alps, based on neighbour joining or principal coordinate analyses, some trends were obvious: populations from the easternmost part were genetically more variable and, together with those from the south‐western part, exhibited a higher proportion of rare AFLP fragments than populations in other areas. Moreover, the total number of AFLP fragments per population, the percentage of polymorphic loci and the proportion of rare AFLP fragments significantly decreased from east to west. Main conclusions Deep infraspecific phylogeographical gaps between the populations from the Alps and the western and south‐eastern Carpathians suggest the survival of H. uniflora in three separate refugia during the last glaciation. Our AFLP data provide molecular evidence for a long‐term geographical disjunction between the eastern and western Carpathians, previously suggested from the floristic composition at the end of 19th century. It is likely that Alpine populations survived the Last Glacial in the eastern part of the Alps, from where they rapidly colonized the rest of the Alps after the ice sheet retreated. Multiple founder effects may explain a gradual loss of genetic variation during westward colonization of the Alps.     

Biogeography and diversity among montane populations of mouse shrew (Soricidae: Myosorex) in Tanzania

We assess variation in morphological and molecular characters among three species of Myosorex (the mouse shrew) –Myosorex geata, Myosorex kihaulei, and Myosorex zinki– as a means to test previously proposed biogeographic hypotheses for Tanzanian ‘sky islands’ and systematic hypotheses for Tanzanian mouse shrews. We analyse 17 cranial and dental variables using multivariate statistics and perform phylogenetic and phylogeographic analyses on sequences of mitochondrial and nuclear DNA; samples are drawn from every known Tanzanian population of Myosorex. Morphometric and phylogenetic analyses reveal that M. zinki is distinct, but that currently isolated populations of M. geata and M. kihaulei are relatively similar to one another, and may not have been isolated over geological time scales. Analyses of molecular variance identify statistically significant, but limited, genetic variation within and between isolated populations of M. geata and M. kihaulei. Between two putative regional biogeographic boundaries, greater genetic variation is explained by grouping populations on either side of the Ruaha River than by grouping populations on either side of the Makambako Gap. Our results are in agreement with recent studies illustrating the close relationship between faunas of the Southern Highlands and southern Eastern Arc Mountains, diminishing the apparent importance of the Makambako Gap as a historical biogeographic barrier. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100 , 669–680.     

Response of a southern temperate marsupial, the Tasmanian pademelon (Thylogale billardierii), to historical and contemporary forest fragmentation

Despite only limited Pleistocene glacial activity in the southern hemisphere, temperate forest species experienced complex distributional changes resulting from the combined effects of glaciation, sea level change and increased aridity. The effects of these historical processes on population genetic structure are now overlain by the effects of contemporary habitat modification. In this study, 10 microsatellites and 629 bp of the mitochondrial control region were used to assess the effects of historical forest fragmentation and recent anthropogenic habitat change on the broad-scale population genetic structuring of a southern temperate marsupial, the Tasmanian pademelon. A total of 200 individuals were sampled from seven sites across Tasmania and two islands in Bass Strait. High mitochondrial and nuclear genetic diversity indicated the maintenance of large historical population sizes. There was weak phylogeographical structuring of haplotypes, although all King Island haplotypes and three Tasmanian haplotypes formed a divergent clade implying the mid-Pleistocene isolation of a far northwestern population. Both the mitochondrial and nuclear data indicated a division of Tasmanian populations into eastern and western regions. This was consistent with a historical barrier resulting from increased aridity in the lowland 'midlands' region during glacial periods, and with a contemporary barrier resulting from recent habitat modification in that region. In Tasmania, gene flow appears to have been relatively unrestricted during glacial maxima in the west, while in the east there was evidence for historical expansion from at least one large glacial refuge and recolonization of Flinders Island.     

Climate,sea level and culture in the Southeastern Mediterranean 20–4 ky BP

In this paper sediments accumulated between 20 and 4 ky BP on the Israeli coastal plain and their cultural contents are described. Sediments carried by the Nile River into the Mediterranean are transported northward along the Levant coast. These sediments are intermittently windblown on land and together with their derivative sandy loams form the bulk of sediments on the coastal plain of Israel. The younger these sediments are further west they are located. The sand beds apparently accumulated during cold and dry periods and pedogenesis occurred during warm and humid periods. Cultural remains on the coastal plain are encountered only in the soils. Hence in periods of sand transport humans avoided the coastal plain. Between the Last Glacial Maximum (LGM, ca. 18–20 ky BP) and about 4 ky BP, global sea level rose from −130 to 0 m. The coastal sediments accumulated during that period are here correlated with both sea level and climatic factors. From the last glacial the living space was continuously shrinking under the encroaching sea and human communities were continuously driven landward. Cultural evolution since 20 ky ago includes major leaps such as the move from hunting-gathering nomads to permanent, year-round settlements, the birth of religion, domestication and food production. Climatic events seemingly played a minor role in these leaps. They were apparently initiated by social factors possibly stemming from environmental constraints – the progressive loss of living space.     

The DNA history of a lonely oak: Quercus humboldtii phylogeography in the Colombian Andes

The climatic and geological changes that occurred during the Quaternary, particularly the fluctuations during the glacial and interglacial periods of the Pleistocene, shaped the population demography and geographic distribution of many species. These processes have been studied in several groups of organisms in the Northern Hemisphere, but their influence on the evolution of Neotropical montane species and ecosystems remains unclear. This study contributes to the understanding of the effect of climatic fluctuations during the late Pleistocene on the evolution of Andean mountain forests. First, we describe the nuclear and plastidic DNA patterns of genetic diversity, structure, historical demography, and landscape connectivity of Quercus humboldtii, which is a typical species in northern Andean montane forests. Then, these patterns were compared with the palynological and evolutionary hypotheses postulated for montane forests of the Colombian Andes under climatic fluctuation scenarios during the Quaternary. Our results indicated that populations of Q. humboldtii have high genetic diversity and a lack of genetic structure and that they have experienced a historical increase in connectivity from the last glacial maximum (LGM) to the present. Furthermore, our results showed a dramatic reduction in the effective population size followed by an expansion before the LGM, which is consistent with the results found by palynological studies, suggesting a change in dominance in Andean forests that may be related to ecological factors rather than climate change.     

Palaeoenvironmental and palaeoclimatic reconstruction of the Middle to Late Pleistocene sequence of Scladina Cave (Namur,Belgium) using the small-mammal assemblages

The habitat weighting, the bioclimatic model methods and the Simpson diversity index are applied to the small-mammals assemblage of Scladina Cave (border between High and Middle Belgium) in order to reconstruct the environmental and climatic fluctuations that are reflected on the Middle to Late Pleistocene sequence of the cave. The small-mammal data analyzed come from two surveys carried out at the entrance of the cave and allow us to identify within the section one cold episode: a dry, cool phase in the upper part of the sequence (probably associated with the MIS 3). The environmental and climatic data show an alternation of open meadows and woodland formations through both sequences, punctuated by peaks in local watery environments together with lower temperatures and higher precipitations rates than at present. Finally, a comparison of the small-mammal fossil assemblage from the studied surveys with the small-mammals assemblage from the Holocene deposits of Scladina Cave shows that layers related with MIS 5 temperate sub-stages (MIS 5c and MIS 5a) present environmental characteristics similar to those prevailing nowadays (a landscape dominated by woodland formations and water streams) in the area surrounding the cave. This is coherent with the available chronostratigraphic datasets on this part of the sequence, suggesting the record of the humid and temperate phases at the beginning of the Late Pleistocene.     

The first lithic industry of mainland Southeast Asia: Evidence of the earliest hominin in a tropical context

Recent discoveries of ancient sites in mainland Southeast Asia confirm the presence of old lithic industries as early as 0.8 Ma, i.e., at the transition between the Early to Middle Pleistocene. Although these open-air sites still require geochronological and biostratigraphic precisions, they allow us to understand the oldest vestiges of human presence in the tropics and the technical orientations chosen by these hominins. This article aims to present an objective and critical synthesis of the material discovered at the main sites. Some sites in Cambodia and Thailand have been the subject of archaeological field missions by the Ministère de l’Europe et des Affaires Étrangères (MEAE). The diversity of lithic tool types and manufacture methods encountered from the Middle Pleistocene in peninsular Asia shows a technical variability that stands out as a counterexample to diffusionist hypotheses of a cultural fabrication inherited from the West. The diversity of production methods, tools, and raw material matrices remains incomparable to those encountered in the West, Africa, or South Asia. To date, only evidence from China has allowed us to put forward the hypothesis of a common technical basis that would have spread from its southern territories; however, this hypothesis is currently under debate. Researchers have proposed the idea of continuous technical progress and the shift from heavy industry to a lighter and polished stone in Southeast Asia. However, the omnipresence of the pebble prevents a clear conclusion because these technical objects from Southeast Asia are quite simply incommensurable; a chopper in these regions may not be comparable with another chopper from the terraces of the Garonne or the Roussillon in France, for example. In other words, these tools are above all ‘tropical’ tools, and they belong to a distant cognitive world(s) with specific use(s), gesture(s), and meaning(s), making it impossible for them to be compared or evaluated by our faculty of Western judgment.     

Progress in palynology of the Gelasian-Calabrian Stages in Europe: Ten messages

Europe has at present the most extensive network of palynological sites covering the Late Pliocene and the Early Pleistocene or roughly the Gelasian-Calabrian Stages. This paper covers 10 points of recent progress in the palynology of this time period: 1) the contribution of palynology to truly global stratigraphy, 2) the existence and steps of vegetation succession after a glacial period, 3) the causes for the disappearance from Europe of some taxa, 4) the location and the types of vegetation refugia, 5) the causes of the low arboreal pollen representation in glacial times, 6) the extent of extreme glacial conditions, 7) the input of long marine records to short terrestrial ones, 8-9) cyclopalynostratigraphy for wiggle matching dating and duration estimations and, finally, 10) short glacial periods and long interglacial ones in an obliquity-forced climate.