| 1. |
- Clark, Andrew G., et al.
(författare)
-
Evolution of genes and genomes on the Drosophila phylogeny
- 2007
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
-
Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
|
|
| 2. |
- Leebens-Mack, James H., et al.
(författare)
-
One thousand plant transcriptomes and the phylogenomics of green plants
- 2019
-
Ingår i: Nature. - : Nature Publishing Group. - 0028-0836 .- 1476-4687. ; 574:7780, s. 679-
-
Tidskriftsartikel (refereegranskat)abstract
- Green plants (Viridiplantae) include around 450,000-500,000 species(1,2) of great diversity and have important roles in terrestrial and aquatic ecosystems. Here, as part of the One Thousand Plant Transcriptomes Initiative, we sequenced the vegetative transcriptomes of 1,124 species that span the diversity of plants in a broad sense (Archaeplastida), including green plants (Viridiplantae), glaucophytes (Glaucophyta) and red algae (Rhodophyta). Our analysis provides a robust phylogenomic framework for examining the evolution of green plants. Most inferred species relationships are well supported across multiple species tree and supermatrix analyses, but discordance among plastid and nuclear gene trees at a few important nodes highlights the complexity of plant genome evolution, including polyploidy, periods of rapid speciation, and extinction. Incomplete sorting of ancestral variation, polyploidization and massive expansions of gene families punctuate the evolutionary history of green plants. Notably, we find that large expansions of gene families preceded the origins of green plants, land plants and vascular plants, whereas whole-genome duplications are inferred to have occurred repeatedly throughout the evolution of flowering plants and ferns. The increasing availability of high-quality plant genome sequences and advances in functional genomics are enabling research on genome evolution across the green tree of life.
|
|
| 3. |
- Hillier, Ladeana W, et al.
(författare)
-
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
- 2004
-
Ingår i: Nature. - 0028-0836 .- 1476-4687. ; 432:7018, s. 695-716
-
Tidskriftsartikel (refereegranskat)abstract
- We present here a draft genome sequence of the red jungle fowl, Gallus gallus. Because the chicken is a modern descendant of the dinosaurs and the first non-mammalian amniote to have its genome sequenced, the draft sequence of its genome--composed of approximately one billion base pairs of sequence and an estimated 20,000-23,000 genes--provides a new perspective on vertebrate genome evolution, while also improving the annotation of mammalian genomes. For example, the evolutionary distance between chicken and human provides high specificity in detecting functional elements, both non-coding and coding. Notably, many conserved non-coding sequences are far from genes and cannot be assigned to defined functional classes. In coding regions the evolutionary dynamics of protein domains and orthologous groups illustrate processes that distinguish the lineages leading to birds and mammals. The distinctive properties of avian microchromosomes, together with the inferred patterns of conserved synteny, provide additional insights into vertebrate chromosome architecture.
|
|
| 4. |
- Niga, Petru, et al.
(författare)
-
Interactions between model cell membranes and the neuroactive drug propofol
- 2018
-
Ingår i: Journal of Colloid and Interface Science. - : Elsevier BV. - 0021-9797 .- 1095-7103. ; 526, s. 230-243
-
Tidskriftsartikel (refereegranskat)abstract
- phospholipid, NR data reveal that propofol is located exclusively in the head group region, which is rationalized in the context of previous studies. The results imply a non-homogeneous distribution of propofol in the plane of real cell membranes, which is an inference that requires urgent testing and may help to explain why such low concentration of the drug are required to induce general anaesthesia.
|
|
| 5. |
- Niga, Petru, et al.
(författare)
-
Propofol adsorption at the air/water interface : a combined vibrational sum frequency spectroscopy, nuclear magnetic resonance and neutron reflectometry study
- 2019
-
Ingår i: Soft Matter. - : ROYAL SOC CHEMISTRY. - 1744-683X .- 1744-6848. ; 15:1, s. 38-46
-
Tidskriftsartikel (refereegranskat)abstract
- Propofol is an amphiphilic small molecule that strongly influences the function of cell membranes, yet data regarding interfacial properties of propofol remain scarce. Here we consider propofol adsorption at the air/water interface as elucidated by means of vibrational sum frequency spectroscopy (VSFS), neutron reflectometry (NR), and surface tensiometry. VSFS data show that propofol adsorbed at the air/ water interface interacts with water strongly in terms of hydrogen bonding and weakly in the proximity of the hydrocarbon parts of the molecule. In the concentration range studied there is almost no change in the orientation adopted at the interface. Data from NR show that propofol forms a dense monolayer with a thickness of 8.4 angstrom and a limiting area per molecule of 40 angstrom(2), close to the value extracted from surface tensiometry. The possibility that islands or multilayers of propofol form at the air/water interface is therefore excluded as long as the solubility limit is not exceeded. Additionally, measurements of the 1H NMR chemical shifts demonstrate that propofol does not form dimers or multimers in bulk water up to the solubility limit.
|
|
| 6. |
- Alm, Hajer Kamal, et al.
(författare)
-
Effect of excess dispersant on surface properties and liquid interactions on calcium carbonate containing coatings
- 2010
-
Ingår i: Nordic Pulp & Paper Research Journal. - 0283-2631 .- 2000-0669. ; 25:1, s. 82-92
-
Tidskriftsartikel (refereegranskat)abstract
- The aim of this work was to identify what effects excess amount of sodium polyacrylate, a commonly used dispersant, has on the coating properties and the interaction between ink and the paper coating in offset printing. Since polyacrylate strongly interacts with calcium ions, soluble calcium salt was added to some coating colours to illustrate the impact of charge neutralization by calcium ions. It was found that the coating structure was only slightly affected by the extra addition of polyacrylate, showing some weak flocculation, whereas the surface chemistry was strongly influenced. The coatings became more polar and interacted more strongly with water. This resulted in slower ink setting and reduced ink-paper coating adhesion, especially in the presence of applied water/dampening solution, which are identified as contributory factors in ink piling and print mottle.
|
|
| 7. |
- Brandner, Birgit D., et al.
(författare)
-
Solvent segregation and capillary evaporation at a superhydrophobic surface investigated by confocal Raman microscopy and force measurements
- 2011
-
Ingår i: SOFT MATTER. - : Royal Society of Chemistry (RSC). - 1744-683X .- 1744-6848. ; 7:3, s. 1045-1052
-
Tidskriftsartikel (refereegranskat)abstract
- Wetting of water, a 1 : 1 water/ethanol mixture and an aqueous dodecylbenzene sulfonic acid surfactant solution on hydrophobic and superhydrophobic surfaces were studied using confocal Raman microscopy. The superhydrophobic surfaces were prepared by immersion of a glass substrate in a silica particle/fluoropolymer formulation followed by silanization. Preparation of hydrophobic surfaces was done in the same way with the exception that the silica particles were excluded from the formulation. The hydrophobic and superhydrophobic surfaces were characterized with respect to surface roughness using AFM, and by contact angle measurements using different liquids. Confocal Raman microscopy measurements in a 1 : 1 water/ethanol mixture showed an enrichment of ethanol close to the superhydrophobic surface, which could not be observed for the hydrophobic surface. Unexpectedly, the Raman spectrum of a pure water film in close proximity to the superhydrophobic surface displayed some differences compared to that of bulk water and indicated a stronger hydrogen-bonding close to the superhydrophobic surface. Evidence for capillary evaporation next to the superhydrophobic surface was also found, and this results in very long-range capillary attraction between one superhydrophobic surface and a hydrophobic colloidal probe as shown by AFM colloidal probe force measurements. Addition of a surfactant or ethanol suppresses capillary evaporation.
|
|
| 8. |
- Eriksson, Mimmi, et al.
(författare)
-
Direct Observation of Gas Meniscus Formation on a Superhydrophobic Surface
- 2019
-
Ingår i: ACS Nano. - : American Chemical Society (ACS). - 1936-0851 .- 1936-086X. ; 13:2, s. 2246-2252
-
Tidskriftsartikel (refereegranskat)abstract
- The formation of a bridging gas meniscus via cavitation or nanobubbles is considered the most likely origin of the submicrometer long-range attractive forces measured between hydrophobic surfaces in aqueous solution. However, the dynamics of the formation and evolution of the gas meniscus is still under debate, in particular, in the presence of a thin air layer on a superhydrophobic surface. On superhydrophobic surfaces the range can even exceed 10 μm. Here, we report microscopic images of the formation and growth of a gas meniscus during force measurements between a superhydrophobic surface and a hydrophobic microsphere immersed in water. This is achieved by combining laser scanning confocal microscopy and colloidal probe atomic force microscopy. The configuration allows determination of the volume and shape of the meniscus, together with direct calculation of the Young-Laplace capillary pressure. The long-range attractive interactions acting on separation are due to meniscus formation and volume growth as air is transported from the surface layer.
|
|
| 9. |
- Eriksson, Mimmi, et al.
(författare)
-
Effects of Gas Layer Thickness on Capillary Interactions at Superhydrophobic Surfaces
- 2024
-
Ingår i: Langmuir. - : American Chemical Society (ACS). - 0743-7463 .- 1520-5827. ; 40:9, s. 4801-4810
-
Tidskriftsartikel (refereegranskat)abstract
- Strongly attractive forces act between superhydrophobic surfaces across water due to the formation of a bridging gas capillary. Upon separation, the attraction can range up to tens of micrometers as the gas capillary grows, while gas molecules accumulate in the capillary. We argue that most of these molecules come from the pre-existing gaseous layer found at and within the superhydrophobic coating. In this study, we investigate how the capillary size and the resulting capillary forces are affected by the thickness of the gaseous layer. To this end, we prepared superhydrophobic coatings with different thicknesses by utilizing different numbers of coating cycles of a liquid flame spraying technique. Laser scanning confocal microscopy confirmed an increase in gas layer thickness with an increasing number of coating cycles. Force measurements between such coatings and a hydrophobic colloidal probe revealed attractive forces caused by bridging gas capillaries, and both the capillary size and the range of attraction increased with increasing thickness of the pre-existing gas layer. Hence, our data suggest that the amount of available gas at and in the superhydrophobic coating determines the force range and capillary growth.
|
|
| 10. |
- Eriksson, Mimmi, et al.
(författare)
-
Effects of liquid surface tension on gas capillaries and capillary forces at superamphiphobic surfaces
- 2023
-
Ingår i: Scientific Reports. - : Springer Nature. - 2045-2322. ; 13:1
-
Tidskriftsartikel (refereegranskat)abstract
- The formation of a bridging gas capillary between superhydrophobic surfaces in water gives rise to strongly attractive interactions ranging up to several micrometers on separation. However, most liquids used in materials research are oil-based or contain surfactants. Superamphiphobic surfaces repel both water and low-surface-tension liquids. To control the interactions between a superamphiphobic surface and a particle, it needs to be resolved whether and how gas capillaries form in non-polar and low-surface-tension liquids. Such insight will aid advanced functional materials development. Here, we combine laser scanning confocal imaging and colloidal probe atomic force microscopy to elucidate the interaction between a superamphiphobic surface and a hydrophobic microparticle in three liquids with different surface tensions: water (73 mN m−1), ethylene glycol (48 mN m−1) and hexadecane (27 mN m−1). We show that bridging gas capillaries are formed in all three liquids. Force-distance curves between the superamphiphobic surface and the particle reveal strong attractive interactions, where the range and magnitude decrease with liquid surface tension. Comparison of free energy calculations based on the capillary menisci shapes and the force measurements suggest that under our dynamic measurements the gas pressure in the capillary is slightly below ambient.
|
|
