| 41. |
- Kessous, I. M., et al.
(författare)
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Pollinators drive floral evolution in an Atlantic Forest genus
- 2020
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Ingår i: Aob Plants. - : Oxford University Press (OUP). - 2041-2851. ; 12:5
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Tidskriftsartikel (refereegranskat)abstract
- Pollinators are important drivers of angiosperm diversification at both micro- and macroevolutionary scales. Both hummingbirds and bats pollinate the species-rich and morphologically diverse genus Vriesea across its distribution in the Brazilian Atlantic Forest. Here, we (i) determine if floral traits predict functional groups of pollinators as documented, confirming the pollination syndromes in Vriesea and (ii) test if genetic structure in Vriesea is driven by geography (latitudinal and altitudinal heterogeneity) or ecology (pollination syndromes). We analysed 11 floral traits of 58 Vriesea species and performed a literature survey of Vriesea pollination biology. The genealogy of haplotypes was inferred and phylogenetic analyses were performed using chloroplast (rps16-trnk and matK) and nuclear (PHYC) molecular markers. Floral traits accurately predict functional groups of pollinators in Vriesea. Genetic groupings match the different pollination syndromes. Species with intermediate position were found between the groups, which share haplotypes and differ morphologically from the typical hummingbird- and bat-pollinated flowers of Vriesea. The phylogeny revealed moderately to well-supported clades which may be interpreted as species complexes. Our results suggest a role of pollinators driving ecological isolation in Vriesea clades. Incipient speciation and incomplete lineage sorting may explain the overall low genetic divergence within and among morphologically defined species, precluding the identification of clear species boundaries. The intermediate species with mixed floral types likely represent a window into shifts between pollinator syndromes. This study reports the morphological-genetic continuum that may be typical of ongoing pollinator-driven speciation in biodiversity hotspots.
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| 42. |
- Messias, M. J, et al.
(författare)
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The Greenland Sea tracer experiment 1996–2002: Horizontal mixing and transport of Greenland Sea Intermediate Water
- 2008
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Ingår i: Progress In Oceanography. - : Elsevier BV. - 0079-6611. ; 78:1, s. 85-105
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Tidskriftsartikel (refereegranskat)abstract
- In summer 1996, a tracer release experiment using sulphur hexafluoride (SF6) was launched in the intermediate-depth waters of the central Greenland Sea (GS), to study the mixing and ventilation processes in the region and its role in the northern limb of the Atlantic overturning circulation. Here we describe the hydrographic context of the experiment, the methods adopted and the results from the monitoring of the horizontal tracer spread for the 1996–2002 period documented by 10 shipboard surveys. The tracer marked “Greenland Sea Arctic Intermediate Water” (GSAIW). This was redistributed in the gyre by variable winter convection penetrating only to mid-depths, reaching at most 1800 m depth during the strongest event observed in 2002. For the first 18 months, the tracer remained mainly in the Greenland Sea. Vigorous horizontal mixing within the Greenland Sea gyre and a tight circulation of the gyre interacting slowly with the other basins under strong topographic influences were identified. We use the tracer distributions to derive the horizontal shear at the scale of the Greenland Sea gyre, and rates of horizontal mixing at 10 and 300 km scales. Mixing rates at small scale are high, several times those observed at comparable depths at lower latitudes. Horizontal stirring at the sub-gyre scale is mediated by numerous and vigorous eddies. Evidence obtained during the tracer release suggests that these play an important role in mixing water masses to form the intermediate waters of the central Greenland Sea. By year two, the tracer had entered the surrounding current systems at intermediate depths and small concentrations were in proximity to the overflows into the North Atlantic. After 3 years, the tracer had spread over the Nordic Seas basins. Finally by year six, an intensive large survey provided an overall synoptic documentation of the spreading of the tagged GSAIW in the Nordic Seas. A circulation scheme of the tagged water originating from the centre of the GS is deduced from the horizontal spread of the tracer. We present this circulation and evaluate the transport budgets of the tracer between the GS and the surroundings basins. The overall residence time for the tagged GSAIW in the Greenland Sea was about 2.5 years. We infer an export of intermediate water of GSAIW from the GS of 1 to 1.85 Sv (1 Sv = 106 m3 s−1) for the period from September 1998 to June 2002 based on the evolution of the amount of tracer leaving the GS gyre. There is strong exchange between the Greenland Sea and Arctic Ocean via Fram Strait, but the contribution of the Greenland Sea to the Denmark Strait and Iceland Scotland overflows is modest, probably not exceeding 6% during the period under study.
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| 43. |
- Neves, B., et al.
(författare)
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Drivers of bromeliad leaf and floral bract variation across a latitudinal gradient in the Atlantic Forest
- 2020
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Ingår i: Journal of Biogeography. - : Wiley. - 0305-0270 .- 1365-2699. ; 47:1, s. 261-274
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Tidskriftsartikel (refereegranskat)abstract
- Aim Understanding the complex interaction and relative contributions of factors involved in species and trait diversification is crucial to gain insights into the evolution of Neotropical biodiversity. Here, we investigated the drivers of morphological variation in bromeliads along a latitudinal gradient in a biodiversity hotspot. Location Atlantic Forest, Brazil. Taxon A species complex in the genus Vriesea (Bromeliaceae). Methods We measured shape and size variation for 208 floral bracts and 176 leaves in individuals from 14 localities using geometric morphometrics. We compiled data for two chloroplast regions (matK and trnL-F) from 89 individuals to assess genetic diversity, population structure and phylogenetic relationships. We tested the influence of climate, altitude and genetic distance on morphological traits using linear statistical models. Results Temperature seasonality is a main driver of floral bract shape. Together with precipitation, it also explains changes in leaf size across the latitudinal gradient. Shifts in morphological traits are correlated with genetic structure and partly support the recent taxonomic delimitation proposed for the species complex. The species started to diversify in the Pliocene ca. 5 Mya. We detected a phylogeographical break in species distribution into northern and southern clades between the Bocaina region and the southern portion of the Atlantic Forest. Main Conclusions We identify how geography and environmental changes through time shape floral bracts and leaves in similar ways. At highly seasonal sites with lower annual precipitation (in the southern subtropical portion of the Atlantic Forest), leaves are larger and floral bracts are wide-elliptic, making them better suited for increased water accumulation. In contrast, at less seasonal sites (in the tropical north, where rainfall is more abundant and temperatures are higher), leaves are narrower and floral bracts are lanceolate-shaped, facilitating water drainage. The biogeographical break we identified suggests a role of tectonic activity and climatic oscillations in promoting species divergence and diversification.
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| 44. |
- Ross, Owen A., et al.
(författare)
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Association of LRRK2 exonic variants with susceptibility to Parkinson's disease: a case-control study
- 2011
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Ingår i: Lancet Neurology. - 1474-4465. ; 10:10, s. 898-908
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Tidskriftsartikel (refereegranskat)abstract
- Background The leucine-rich repeat kinase 2 gene (LRRK2) harbours highly penetrant mutations that are linked to familial parkinsonism. However, the extent of its polymorphic variability in relation to risk of Parkinson's disease (PD) has not been assessed systematically. We therefore assessed the frequency of LRRK2 exonic variants in individuals with and without PD, to investigate the role of the variants in PD susceptibility. Methods LRRK2 was genotyped in patients with PD and controls from three series (white, Asian, and Arab-Berber) from sites participating in the Genetic Epidemiology of Parkinson's Disease Consortium. Genotyping was done for exonic variants of LRRK2 that were identified through searches of literature and the personal communications of consortium members. Associations with PD were assessed by use of logistic regression models. For variants that had a minor allele frequency of 0.5% or greater, single variant associations were assessed, whereas for rarer variants information was collapsed across variants. Findings 121 exonic LRRK2 variants were assessed in 15 540 individuals: 6995 white patients with PD and 5595 controls, 1376 Asian patients and 962 controls, and 240 Arab-Berber patients and 372 controls. After exclusion of carriers of known pathogenic mutations, new independent risk associations were identified for polymorphic variants in white individuals (M1646T, odds ratio 1.43, 95% CI 1.15-1.78; p=0.0012) and Asian individuals (A419V, 2.27, 1.35-3.83; p=0.0011). A protective haplotype (N551K-R1398H-K1423K) was noted at a frequency greater than 5% in the white and Asian series, with a similar finding in the Arab-Berber series (combined odds ratio 0.82, 0.72-0.94; p=0.0043). Of the two previously reported Asian risk variants, G2385R was associated with disease (1.73, 1.20-2.49; p=0.0026), but no association was noted for R1628P (0.62, 0.36-1.07; p=0.087). In the Arab-Berber series, Y2189C showed potential evidence of risk association with PD (4.48, 133-15.09; p=0.012). Interpretation The results for LRRK2 show that several rare and common genetic variants in the same gene can have independent effects on disease risk. LRRK2, and the pathway in which it functions, is important in the cause and pathogenesis of PD in a greater proportion of patients with this disease than previously believed. These results will help discriminate those patients who will benefit most from therapies targeted at LRRK2 pathogenic activity. Funding Michael J Fox Foundation and National Institutes of Health.
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| 45. |
- Sanín, M. J., et al.
(författare)
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Volcanic events coincide with plant dispersal across the Northern Andes
- 2022
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Ingår i: Global and Planetary Change. - : Elsevier BV. - 0921-8181. ; 210
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Tidskriftsartikel (refereegranskat)abstract
- Biological dispersal is increasingly seen as a primary driver of speciation across the tropical Andes. Similarly, growing evidence suggests that the Northern Andes cordilleras formed as disconnected segments, at least until the late Miocene. For montane species, this discontinuity can hinder dispersal to the different mountain segments. Hence, understanding which processes involved in mountain formation are related to species capacity to disperse between mountains is crucial to understanding Andean biogeography. Volcanic eruptions are known to affect biodiversity in different ways, but their effects on species connectivity through the creation of topographic growth remains largely unknown. Species that are distributed in the different geographic units of the Andes can be informative with respect to how and when the different mountains have formed. The wax palms, genus Ceroxylon, comprise 13 strictly Andean species of which three species complexes are widely distributed in the tropical Andes, inhabiting cloud forests at elevations of 1400–3500 m. We sequenced 129 individuals of all but one described species using target sequence capture to reconstruct the phylogenetic history of Ceroxylon. We inferred chronograms using secondary calibrations and demographic modeling, which along with ancestral area reconstructions, allowed us to estimate the relative contributions of dispersal and speciation in the diversification history of Ceroxylon. Geological samples of ignimbritic rocks record a Plio-Pleistocene volcanic eruption of great magnitude that connected the three Colombian cordilleras by increasing topographic growth where a former lowland pass disconnected the northern mountain segments. The timing of this topographic change coincides with an increase in dispersal events to the Western and Central Cordilleras of Colombia from adjacent Andean cordilleras (i.e. the Andes outside of Colombia). Taken together, we determine that local topographic growth resulting from volcanic eruptions played a key role in augmenting mountain chain connectivity by uplift and valley filling, which favored dispersal throughout the Northern Andes. We can spatially and temporally link a biogeographical distribution pattern to a traceable geological event. © 2022 Elsevier B.V.
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| 46. |
- Vilarino-Gueell, Carles, et al.
(författare)
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VPS35 Mutations in Parkinson Disease
- 2011
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Ingår i: American Journal of Human Genetics. - : Elsevier BV. - 0002-9297. ; 89:1, s. 162-167
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Tidskriftsartikel (refereegranskat)abstract
- The identification of genetic causes for Mendelian disorders has been based on the collection of multi-incident families, linkage analysis, and sequencing of genes in candidate intervals. This study describes the application of next-generation sequencing technologies to a Swiss kindred presenting with autosomal-dominant, late-onset Parkinson disease (PD). The family has tremor-predominant dopa-responsive parkinsonism with a mean onset of 50.6 +/- 7.3 years. Exome analysis suggests that an aspartic-acid-to-asparagine mutation within vacuolar protein sorting 35 (VPS35 c.1858G>A; p.Asp620Asn) is the genetic determinant of disease. VPS35 is a central component of the retromer cargo-recognition complex, is critical for endosome-trans-golgi trafficking and membrane-protein recycling, and is evolutionarily highly conserved. VPS35 c.1858G>A was found in all affected members of the Swiss kindred and in three more families and one patient with sporadic PD, but it was not observed in 3,309 controls. Further sequencing of familial affected probands revealed only one other missense variant, VPS35 c.946C>T; (p.Pro316Ser), in a pedigree with one unaffected and two affected carriers, and thus the pathogenicity of this mutation remains uncertain. Retromer-mediated sorting and transport is best characterized for acid hydrolase receptors. However, the complex has many types of cargo and is involved in a diverse array of biologic pathways from developmental Wnt signaling to lysosome biogenesis. Our study implicates disruption of VPS35 and retromer-mediated trans-membrane protein sorting, rescue, and recycling in the neurodegenerative process leading to PD.
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| 47. |
- Andermann, Tobias, et al.
(författare)
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A Guide to Carrying Out a Phylogenomic Target Sequence Capture Project
- 2020
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Ingår i: Frontiers in Genetics. - : Frontiers Media SA. - 1664-8021. ; 10
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Tidskriftsartikel (refereegranskat)abstract
- High-throughput DNA sequencing techniques enable time- and cost-effective sequencing of large portions of the genome. Instead of sequencing and annotating whole genomes, many phylogenetic studies focus sequencing effort on large sets of pre-selected loci, which further reduces costs and bioinformatic challenges while increasing coverage. One common approach that enriches loci before sequencing is often referred to as target sequence capture. This technique has been shown to be applicable to phylogenetic studies of greatly varying evolutionary depth. Moreover, it has proven to produce powerful, large multi-locus DNA sequence datasets suitable for phylogenetic analyses. However, target capture requires careful considerations, which may greatly affect the success of experiments. Here we provide a simple flowchart for designing phylogenomic target capture experiments. We discuss necessary decisions from the identification of target loci to the final bioinformatic processing of sequence data. We outline challenges and solutions related to the taxonomic scope, sample quality, and available genomic resources of target capture projects. We hope this review will serve as a useful roadmap for designing and carrying out successful phylogenetic target capture studies.
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| 48. |
- Bacon, Christine D., et al.
(författare)
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Endemic palm species shed light on habitat shifts and the assembly of the Cerrado and Restinga floras
- 2017
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Ingår i: Molecular Phylogenetics and Evolution. - : Elsevier BV. - 1055-7903. ; 110, s. 127-133
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Tidskriftsartikel (refereegranskat)abstract
- Species expansions into new habitats are often associated with physiological adaptations, for instance when rain forest lineages colonize dry habitats. Although such shifts have been documented for the Brazilian savanna (Cerrado), little is known about the biogeographic origin of species occupying an extreme South American habitat type, the coastal dunes (Restinga). We examined the formation of this poorly known, endangered habitat by reconstructing the evolutionary history of two endemic species. Due to the proposed recency and uniqueness of this habitat, we hypothesized that Restinga species of the palm genus Allagoptera to be recently evolved and to present derived morphological characters. To detect habit shifts in absolute time, we used one plastid and nine nuclear genes to reconstruct the phylogenetic and biogeographic history of Allagoptera. We used light microscopy and stable isotope analysis to explore whether morphological adaptations occurred concomitantly with habitat shifts. Phylogenetic relationships were well supported and we found ancestral lineages of Allagoptera to be widely distributed throughout habitats that are currently occupied by extant species. Over the last ca. 7 Ma Allagoptera has shifted its preference to increasingly dry habitats. Coincident with the colonization of the Cerrado and Restinga, morphological adaptations also evolved, including subterranean stems that are fire-resistant and long underground stem and root systems that facilitate water access. We did not find differences in metabolic pathway or modifications to pollen morphology when compared to other palm lineages. Assuming that the evolutionary history of Allagoptera is indicative of the habitat in which it occurs, our results infer a recent origin for Cerrado species. Although little is known about the formation of the Restinga habitat, our results also suggest a longer history than currently proposed; with an origin of Restinga habitats dating back to the Late Pliocene. (C) 2017 Elsevier Inc. All rights reserved.
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| 49. |
- Bacon, Christine D., et al.
(författare)
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Evolutionary persistence in Gunnera and the contribution of southern plant groups to the tropical Andes biodiversity hotspot
- 2018
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Ingår i: PeerJ. - : PeerJ. - 2167-8359. ; 2018:3
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Tidskriftsartikel (refereegranskat)abstract
- Several studies have demonstrated the contribution of northern immigrants to the flora of the tropical Andesthe world's richest and most diverse biodiversity hotspot. However, much less is known about the biogeographic history and diversification of Andean groups with southern origins, although it has been suggested that northern and southern groups have contributed roughly equally to the high Andean (i.e., páramo) flora. Here we infer the evolutionary history of the southern hemisphere plant genus Gunnera, a lineage with a rich fossil history and an important ecological role as an early colonising species characteristic of wet, montane environments. Our results show striking contrasts in species diversification, where some species may have persisted for some 90 million years, and whereas others date to less than 2 Ma since origination. The outstanding longevity of the group is likely linked to a high degree of niche conservatism across its highly disjunct range, whereby Gunnera tracks damp and boggy soils in cool habitats. Colonisation of the northern Andes is related to Quaternary climate change, with subsequent rapid diversification appearing to be driven by their ability to take advantage of environmental opportunities. This study demonstrates the composite origin of a mega-diverse biota.
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| 50. |
- Bacon, Christine D., et al.
(författare)
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Quaternary glaciation and the Great American Biotic Interchange
- 2016
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Ingår i: Geology. - : Geological Society of America. - 0091-7613 .- 1943-2682. ; 44:5, s. 375-378
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Tidskriftsartikel (refereegranskat)abstract
- Recent geological studies demonstrate that the Isthmus of Panama emerged some 10 m.y. earlier than previously assumed. Although absent today in Panama, Central American savanna environments likely developed in connection with the onset of Northern Hemisphere glaciations. As is widely recognized, most of the mammals crossing the isthmus since 2.5 Ma lived in savannas. Could climate-induced vegetational changes across Panama explain the delayed migration of mammals, rather than terrestrial connectivity? We investigate the congruence between cross-continental mammal migration and climate change through analysis of fossil data and molecular phylogenies. Evidence from fossil findings shows that the vast majority of mammals crossed between South and North America after ca. 3 Ma. By contrast, dated mammal phylogenies suggest that migration events started somewhat earlier, ca. 4-3 Ma, but allowing for biases toward greater ages of molecular than geologic dating and uncertainties in the former, we consider this age range not to be significantly earlier than 3 Ma. We conclude that savanna-like environments developed in response to the vast Laurentide ice sheet at the first Quaternary glaciation triggered the initiation of the Great American Biotic Interchange in mammals.
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