| 1. |
- Hillier, Ladeana W, et al.
(författare)
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Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
- 2004
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Ingår i: Nature. - 0028-0836 .- 1476-4687. ; 432:7018, s. 695-716
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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.
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| 2. |
- Nayak, S., et al.
(författare)
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Magnetic compensation, field-dependent magnetization reversal, and complex magnetic ordering in Co2TiO4
- 2015
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Ingår i: Physical Review B. Condensed Matter and Materials Physics. - 1098-0121 .- 1550-235X. ; 92:21
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Tidskriftsartikel (refereegranskat)abstract
- The complex nature of magnetic ordering in the spinel Co2TiO4 is investigated by analyzing the temperature and magnetic field dependence of its magnetization (M), specific heat (C-p), and ac magnetic susceptibilities chi' and chi ''. X-ray diffraction of the sample synthesized by the solid-state reaction route confirmed the spinel structure whereas x-ray photoelectron spectroscopy shows its electronic structure to be Co2TiO4 = [Co2+][Co3+ Ti3+]O-4. From analysis of the temperature dependence of the dc paramagnetic susceptibility, the magnetic moments mu(A) = 3.87 mu(B) and mu(B) = 5.19 mu B on the A and B sites are determined with mu(B) in turn yielding mu(Ti3+) = 1.73 mu(B) and mu(Co3+) = 4.89 mu(B). Analysis of the dc and ac susceptibilities combined with the weak anomalies observed in the C-p vs T data shows the existence of a quasi-long-range ferrimagnetic state below T-N similar to 47.8K and a compensation temperature T-comp similar to 32 K, the latter characterized by sign reversal of magnetization with its magnitude depending on the applied magnetic field and the cooling protocol. Analysis of the temperature dependence of M (field cooled) and M (zero field cooled) data and the hysteresis loop parameters is interpreted in terms of large spin clusters. These results in Co2TiO4, significantly different from those reported recently in isostructural Co2SnO4 = [Co2+][Co2+ Sn4+]O-4, warrant further investigations of its magnetic structure using neutron diffraction.
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| 3. |
- Normile, P. S., et al.
(författare)
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Demagnetization effects in dense nanoparticle assemblies
- 2016
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Ingår i: Applied Physics Letters. - : AIP Publishing. - 0003-6951 .- 1077-3118. ; 109:15
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Tidskriftsartikel (refereegranskat)abstract
- We highlight the relevance of demagnetizing-field corrections in the characterization of dense magnetic nanoparticle assemblies. By an analysis that employs in-plane and out-of-plane magnetometry on cylindrical assemblies, we demonstrate the suitability of a simple analytical formula-based correction method. This allows us to identify artifacts of the demagnetizing field in temperature-dependent susceptibility curves (e.g., shoulder peaks in curves from a disordered assembly of essentially bare magnetic nanoparticles). The same analysis approach is shown to be a straightforward procedure for determining the magnetic nanoparticle packing fraction in dense, disordered assemblies.
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| 4. |
- Thota, S., et al.
(författare)
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On the nature of magnetic state in the spinel Co2SnO4
- 2015
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Ingår i: Journal of Physics. - : IOP Publishing. - 0953-8984 .- 1361-648X. ; 27:16
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Tidskriftsartikel (refereegranskat)abstract
- In the spinel Co2SnO4, coexistence of ferrimagnetic ordering below T-N similar or equal to 41K followed by a spin glass state below T-SG similar or equal to 39K was proposed recently based on the temperature dependence of magnetization M(T) data. Here new measurements of the temperature dependence of the specific heat C-P(T), ac-susceptibilities chi'(T) and chi ''(T) measured at frequencies between 0.51 and 1.2 kHz, and the hysteresis loop parameters (coercivity H-C(T) and remanence M-R(T)) in two differently prepared samples of Co2SnO4 are reported. The presence of the Co2+ and Sn4+ states is confirmed by x-ray photoelectron spectroscopy (XPS) yielding the structure: Co2SnO4 = [Co2+][Co2+Sn4+]O-4. The data of C-P versus T shows only an inflection near 39K characteristic of spin-glass ordering. The analysis of the frequency dependence of ac-magnetic susceptibility data near 39K using the Vogel-Fulcher law and the power-law of the critical slowing-down suggests the presence of spin clusters in the system which is close to a spin-glass state. With a decrease in temperature below 39K, the temperature dependence of the coercivity H-C and remanence M-R for the zero-field cooled samples show both H-C and M-R reaching their peak magnitudes near 25 K, then decreasing with decreasing T and becoming negligible below 15K. The plot of C-P/T versus T also yields a weak inflection near 15 K. This temperature dependence of HC and remanence MR is likely associated with the different magnitudes of the magnetic moments of Co2+ ions on the 'A' and 'B' sites and their different temperature dependence.
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| 5. |
- Muneer, Faraz, et al.
(författare)
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Innovative Gliadin/Glutenin and Modified Potato Starch Green Composites : Chemistry, Structure, and Functionality Induced by Processing
- 2016
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Ingår i: ACS Sustainable Chemistry and Engineering. - : American Chemical Society (ACS). - 2168-0485. ; 4:12, s. 6332-6343
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Tidskriftsartikel (refereegranskat)abstract
- In this study, we combined two wheat proteins, gliadin (Gli)/glutenin (GT), and modified potato starch (MPS) into composites using extrusion. In the Gli/GT MPS composites, we studied the structural dynamics of proteins and starch, protein starch interactions, protein properties, and composite morphology in relation to mechanical and barrier properties. Materials with different ratios of Gli/GT and MPS were extruded using either glycerol or glycerol water at 110 and 130 degrees C. For the first time, a hierarchical hexagonal structure of Gli proteins was observed in Gli MPS composite at both extrusion temperatures. The higher temperature (130 degrees C) induced a higher degree of protein cross-links, an increase in the polymer size, and formation of beta-sheets compared to 110 degrees C. The combination of plasticizers (glycerol and water) favored a micro-structural morphology with improved gelatinization of starch, processability, as well as strength, stiffness, and extensibility of GT MPS composites. The highest amount of the oxidized proteins was observed in the samples with the highest protein content and at high extrusion temperature. The Gli- and GT MPS (30/70) samples showed promising oxygen barrier properties under ambient testing conditions. These findings provide in-depth information for tailoring the structural functional relationship of the Gli/GT-potato starch composites for their promising use in designing various green materials.
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| 6. |
- Ţuţueanu, A. E., et al.
(författare)
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Non-destructive characterisation of dopant spatial distribution in cuprate superconductors
- 2020
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Ingår i: Physica C: Superconductivity and its Applications. - : Elsevier BV. - 0921-4534 .- 1873-2143. ; 575
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Tidskriftsartikel (refereegranskat)abstract
- Proper characterisation of investigated samples is vital when studying superconductivity as impurities and doping inhomogeneities can affect the physical properties of the measured system. We present a method where a polarised neutron imaging setup utilises the precession of spin-polarised neutrons in the presence of a trapped field in the superconducting sample to spatially map out the critical temperature for the phase transition between superconducting and non-superconducting states. We demonstrate this method on a superconducting crystal of the prototypical high-temperature superconductor (La,Sr)2CuO4. The results, which are backed up by complementary magnetic susceptibility measurements, show that the method is able to resolve minor variations in the transition temperature across the length of the LSCO crystal, caused by inhomogeneities in strontium doping.
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| 7. |
- Zamora, Juan Carlos, et al.
(författare)
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa
- 2018
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Ingår i: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185
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Tidskriftsartikel (refereegranskat)abstract
- Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
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| 8. |
- Andersson, Mikael, et al.
(författare)
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Super spin dimensionality of a mono-dispersed and densely packed magnetic nanoparticle system
- 2014
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Ingår i: Journal of Physics: Conference Series. - : IOP Publishing. - 1742-6588 .- 1742-6596.
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Konferensbidrag (refereegranskat)abstract
- The dynamics of a dense near mono-dispersed assembly of maghemite nanoparticles is investigated by measurements of the temperature dependence of the isothermal remnant magnetization induced by temporal application of weak magnetic fields at constant temperature. The results suggest that the dimensionality of the super spins of the particles is of Heisenberg character at high temperatures but crossover to become Ising like at lower temperatures.
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| 9. |
- Baptista, Marisa A. P., et al.
(författare)
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Deletion of Wiskott-Aldrich syndrome protein triggers Rac2 activity and increased cross-presentation by dendritic cells
- 2016
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Ingår i: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 7
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Tidskriftsartikel (refereegranskat)abstract
- Wiskott-Aldrich syndrome (WAS) is caused by loss-of-function mutations in the WASp gene. Decreased cellular responses in WASp-deficient cells have been interpreted to mean that WASp directly regulates these responses in WASp-sufficient cells. Here, we identify an exception to this concept and show that WASp-deficient dendritic cells have increased activation of Rac2 that support cross-presentation to CD8(+) T cells. Using two different skin pathology models, WASp-deficient mice show an accumulation of dendritic cells in the skin and increased expansion of IFN gamma-producing CD8(+) T cells in the draining lymph node and spleen. Specific deletion of WASp in dendritic cells leads to marked expansion of CD8(+) T cells at the expense of CD4(+) T cells. WASp-deficient dendritic cells induce increased cross-presentation to CD8(+) T cells by activating Rac2 that maintains a near neutral pH of phagosomes. Our data reveals an intricate balance between activation of WASp and Rac2 signalling pathways in dendritic cells.
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| 10. |
- Baranowska Körberg, Izabella, et al.
(författare)
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A Simple Repeat Polymorphism in the MITF-M Promoter Is a Key Regulator of White Spotting in Dogs
- 2014
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Ingår i: PLOS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 9:8, s. e104363-
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Tidskriftsartikel (refereegranskat)abstract
- The white spotting locus (S) in dogs is colocalized with the MITF (microphtalmia-associated transcription factor) gene. The phenotypic effects of the four S alleles range from solid colour (S) to extreme white spotting (s(w)). We have investigated four candidate mutations associated with the s(w) allele, a SINE insertion, a SNP at a conserved site and a simple repeat polymorphism all associated with the MITF-M promoter as well as a 12 base pair deletion in exon 1B. The variants associated with white spotting at all four loci were also found among wolves and we conclude that none of these could be a sole causal mutation, at least not for extreme white spotting. We propose that the three canine white spotting alleles are not caused by three independent mutations but represent haplotype effects due to different combinations of causal polymorphisms. The simple repeat polymorphism showed extensive diversity both in dogs and wolves, and allele-sharing was common between wolves and white spotted dogs but was non-existent between solid and spotted dogs as well as between wolves and solid dogs. This finding was unexpected as Solid is assumed to be the wild-type allele. The data indicate that the simple repeat polymorphism has been a target for selection during dog domestication and breed formation. We also evaluated the significance of the three MITF-M associated polymorphisms with a Luciferase assay, and found conclusive evidence that the simple repeat polymorphism affects promoter activity. Three alleles associated with white spotting gave consistently lower promoter activity compared with the allele associated with solid colour. We propose that the simple repeat polymorphism affects cooperativity between transcription factors binding on either flanking sides of the repeat. Thus, both genetic and functional evidence show that the simple repeat polymorphism is a key regulator of white spotting in dogs.
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