| 1. |
- Falster, Daniel, et al.
(författare)
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AusTraits, a curated plant trait database for the Australian flora
- 2021
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Ingår i: Scientific Data. - : Nature Portfolio. - 2052-4463. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- We introduce the AusTraits database - a compilation of values of plant traits for taxa in the Australian flora (hereafter AusTraits). AusTraits synthesises data on 448 traits across 28,640 taxa from field campaigns, published literature, taxonomic monographs, and individual taxon descriptions. Traits vary in scope from physiological measures of performance (e.g. photosynthetic gas exchange, water-use efficiency) to morphological attributes (e.g. leaf area, seed mass, plant height) which link to aspects of ecological variation. AusTraits contains curated and harmonised individual- and species-level measurements coupled to, where available, contextual information on site properties and experimental conditions. This article provides information on version 3.0.2 of AusTraits which contains data for 997,808 trait-by-taxon combinations. We envision AusTraits as an ongoing collaborative initiative for easily archiving and sharing trait data, which also provides a template for other national or regional initiatives globally to fill persistent gaps in trait knowledge.
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| 2. |
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| 3. |
- Alfoeldi, Jessica, et al.
(författare)
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The genome of the green anole lizard and a comparative analysis with birds and mammals
- 2011
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 477:7366, s. 587-591
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Tidskriftsartikel (refereegranskat)abstract
- The evolution of the amniotic egg was one of the great evolutionary innovations in the history of life, freeing vertebrates from an obligatory connection to water and thus permitting the conquest of terrestrial environments(1). Among amniotes, genome sequences are available for mammals and birds(2-4), but not for non-avian reptiles. Here we report the genome sequence of the North American green anole lizard, Anolis carolinensis. We find that A. carolinensis microchromosomes are highly syntenic with chicken microchromosomes, yet do not exhibit the high GC and low repeat content that are characteristic of avian microchromosomes(2). Also, A. carolinensis mobile elements are very young and diverse-more so than in any other sequenced amniote genome. The GC content of this lizard genome is also unusual in its homogeneity, unlike the regionally variable GC content found in mammals and birds(5). We describe and assign sequence to the previously unknown A. carolinensis X chromosome. Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins. An anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations.
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| 4. |
- Fuller, Franklin D, et al.
(författare)
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Drop-on-demand sample delivery for studying biocatalysts in action at X-ray free-electron lasers
- 2017
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Ingår i: Nature Methods. - : Macmillan Publishers Ltd.. - 1548-7091 .- 1548-7105. ; 14, s. 443-449
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Tidskriftsartikel (refereegranskat)abstract
- X-ray crystallography at X-ray free-electron laser sources is a powerful method for studying macromolecules at biologically relevant temperatures. Moreover, when combined with complementary techniques like X-ray emission spectroscopy, both global structures and chemical properties of metalloenzymes can be obtained concurrently, providing insights into the interplay between the protein structure and dynamics and the chemistry at an active site. The implementation of such a multimodal approach can be compromised by conflicting requirements to optimize each individual method. In particular, the method used for sample delivery greatly affects the data quality. We present here a robust way of delivering controlled sample amounts on demand using acoustic droplet ejection coupled with a conveyor belt drive that is optimized for crystallography and spectroscopy measurements of photochemical and chemical reactions over a wide range of time scales. Studies with photosystem II, the phytochrome photoreceptor, and ribonucleotide reductase R2 illustrate the power and versatility of this method.
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| 5. |
- Green, Richard E., et al.
(författare)
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Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs
- 2014
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 346:6215, s. 1335-
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Tidskriftsartikel (refereegranskat)abstract
- To provide context for the diversification of archosaurs-the group that includes crocodilians, dinosaurs, and birds-we generated draft genomes of three crocodilians: Alligator mississippiensis (the American alligator), Crocodylus porosus (the saltwater crocodile), and Gavialis gangeticus (the Indian gharial). We observed an exceptionally slow rate of genome evolution within crocodilians at all levels, including nucleotide substitutions, indels, transposable element content and movement, gene family evolution, and chromosomal synteny. When placed within the context of related taxa including birds and turtles, this suggests that the common ancestor of all of these taxa also exhibited slow genome evolution and that the comparatively rapid evolution is derived in birds. The data also provided the opportunity to analyze heterozygosity in crocodilians, which indicates a likely reduction in population size for all three taxa through the Pleistocene. Finally, these data combined with newly published bird genomes allowed us to reconstruct the partial genome of the common ancestor of archosaurs, thereby providing a tool to investigate the genetic starting material of crocodilians, birds, and dinosaurs.
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| 6. |
- Lee, Justin H., et al.
(författare)
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MMS Measurements and Modeling of Peculiar Electromagnetic Ion Cyclotron Waves
- 2019
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Ingår i: Geophysical Research Letters. - : AMER GEOPHYSICAL UNION. - 0094-8276 .- 1944-8007.
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Tidskriftsartikel (refereegranskat)abstract
- Orbiting Earth's dayside outer magnetosphere on 29 September 2015, the Magnetospheric Multiscale (MMS) satellites measured plasma composition, simultaneous electromagnetic ion cyclotron waves, and intermittent fast plasma flows consistent with ultralow frequency waves or convection. Such flows can accelerate typically unobservable low-energy plasma into a measurable energy range of spacecraft plasma instrumentation. We exploit the flow occurrence to ensure measurement of cold ion species alongside the hot particles-consisting of ionospheric heavy ions and solar wind He++-during a subinterval of wave emissions with spectral properties previously described as peculiar. Through application of the composition and multisatellite wave vector data to linear theory, we demonstrate the emissions are in fact consistent with theory, growing naturally in the He++ band with sufficient free energy.
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| 7. |
- Wang, Rongsheng, et al.
(författare)
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An Electron-Scale Current Sheet Without Bursty Reconnection Signatures Observed in the Near-Earth Tail
- 2018
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Ingår i: Geophysical Research Letters. - : AMER GEOPHYSICAL UNION. - 0094-8276 .- 1944-8007. ; 45:10, s. 4542-4549
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Tidskriftsartikel (refereegranskat)abstract
- Observations of a current sheet as thin as the electron scale are extremely rare in the near-Earth magnetotail. By measurement from the novel Magnetospheric Multiscale mission in the near-Earth magnetotail, we identified such an electron-scale current sheet and determined its detailed properties. The electron current sheet was bifurcated, with a half-thickness of nine electron inertial lengths, and was sandwiched between the Hall field. Because of the strong Hall electric field, the super-Alfvenic electron bulk flows were created mainly by the electric field drift, leading to the generation of the strong electron current. Inevitably, a bifurcated current sheet was formed since the Hall electric field was close to zero at the center of the current sheet. Inside the electron current sheet, the electrons were significantly heated while the ion temperature showed no change. The ions kept moving at a low speed, which was not affected by this electron current sheet. The energy dissipation was negligible inside the current sheet. The observations indicate that a thin current sheet, even as thin as electron scale, is not the sufficient condition for triggering bursty reconnection.
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| 8. |
- Eriksson, Elin, 1989-, et al.
(författare)
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Electron Energization at a Reconnecting Magnetosheath Current Sheet
- 2018
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Ingår i: Geophysical Research Letters. - : American Geophysical Union (AGU). - 0094-8276 .- 1944-8007. ; 45:16, s. 8081-8090
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Tidskriftsartikel (refereegranskat)abstract
- We present observations of electron energization within a sub-ion-scale magnetosheath current sheet (CS). A number of signatures indicate ongoing reconnection, including the thickness of the CS (similar to 0.7 ion inertial length), nonzero normal magnetic field, Hall magnetic fields with electrons carrying the Hall currents, and electron heating. We observe localized electron acceleration and heating parallel to the magnetic field at the edges of the CS. Electrostatic waves observed in these regions have low phase velocity and small wave potentials and thus cannot provide the observed acceleration and heating. Instead, we find that the electrons are accelerated by a parallel potential within the separatrix regions. Similar acceleration has been reported based on magnetopause and magnetotail observations. Thus, despite the different plasma conditions in magnetosheath, magnetopause, and magnetotail, the acceleration mechanism and corresponding heating of electrons is similar. Plain Language Summary Magnetic reconnection is an important physical energy conversion process in astrophysical and laboratory plasmas. The easiest place to analyze magnetic reconnection is in near-Earth space. Due to lack of sufficient electron resolution of previous spacecraft missions, there are many unanswered questions regarding electron heating and acceleration processes at small scales. In particular, the regime where thermal pressure dominates over magnetic pressure, the most common state of plasmas in the Universe, is little explored. In this letter we study such a regime using the four-spacecraft Magnetospheric Multiscale mission. We analyze a reconnecting current sheet in the magnetosheath. We show that electrons are energized by a parallel potential, similar to what has been observed in the different plasma regimes the magnetopause and magnetotail. Thus, despite different plasma conditions, a similar acceleration mechanism and corresponding heating of electrons is occurring in all these regions.
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| 9. |
- Gull, Theodore R., et al.
(författare)
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Eta Carinae : A Tale of Two Periastron Passages
- 2021
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Ingår i: Astrophysical Journal. - : Institute of Physics (IOP). - 0004-637X .- 1538-4357. ; 923:1, s. 102-102
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Tidskriftsartikel (refereegranskat)abstract
- Since 2002, the far-ultraviolet (FUV) flux (1150–1680 Å) of Eta Carinae, monitored by the Hubble Space Telescope/Space Telescope Imaging Spectrograph, has increased by an order of magnitude. This increase is attributed to partial dissipation of a line-of-sight (LOS) occulter that blocks the central core of the system. Across the 2020 February periastron passage, changes in the FUV emission show a stronger wavelength dependence than occurred across the 2003 July periastron passage. Across both periastron passages, most of the FUV spectrum dropped in flux then recovered a few months later. The 2020 periastron passage included enhancements of FUV flux in narrow spectral intervals near periastron followed by a transient absorption and recovery to pre-periastron flux levels. The drop in flux is due to increased absorption by singly ionized species as the secondary star plunges deep into the wind of the primary star, which blocks the companion's ionizing radiation. The enhanced FUV emission is caused by the companion's wind-blown cavity briefly opening a window to deeper layers of the primary star. This is the first time transient brightening has been seen in the FUV comparable to transients previously seen at longer wavelengths. Changes in resonance line-velocity profiles hint that the dissipating occulter is associated with material in LOS moving at −100 to −300 km s−1, similar in velocity of structures previously associated with the 1890s lesser eruption
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| 10. |
- Li, Jinxing, et al.
(författare)
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Local Excitation of Whistler Mode Waves and Associated Langmuir Waves at Dayside Reconnection Regions
- 2018
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Ingår i: Geophysical Research Letters. - : American Geophysical Union (AGU). - 0094-8276 .- 1944-8007. ; 45:17, s. 8793-8802
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Tidskriftsartikel (refereegranskat)abstract
- In the Earth's dayside reconnection boundary layer, whistler mode waves coincide with magnetic field openings and the formation of the resultant anisotropic electrons. Depending on the energy range of anisotropic electrons, whistlers can grow at frequencies in the upper and/or lower band. Observations show that whistler mode waves modulate Langmuir wave amplitude as they propagate toward the X line. Observations of whistler mode wave phase and Langmuir waves packets, as well as coincident electron measurements, reveal that whistler mode waves can accelerate electrons via Landau resonance at locations where E(parallel to)is antiparallel to the wave propagation direction. The accelerated electrons produce localized beams, which subsequently drive the periodically modulated Langmuir waves. The close association of those two wave modes reveals the microscale electron dynamics in the exhaust region, and the proposed mechanism could potentially be applied to explain the modulation events observed in planetary magnetospheres and in the solar wind. Plain Language Summary The Sun's and Earth's magnetic field can merge and reconnect on dayside magnetopause. Using measurements from NASA's MMS spacecraft, we report that a class of electromagnetic wave, named whistler mode wave, coincides with the reconnected magnetic field lines. Besides, those whistlers are observed to modulate the electric field oscillations, known as Langmuir waves. Using high-resolution wave and particle measurements, we explain that the whistlers are locally excited when electrons from both sides of the magnetopause mix and form an unstable distribution. The modulated Langmuir waves are generated due to localized electron acceleration, which occurs when the velocity of electrons matches that of whistlers in the direction along the magnetic field. The whistler mode waves and associated Langmuir waves can be used as an additional tool to remotely sense the occurrence of magnetic reconnections.
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| 11. |
- Li, Xing Yu, et al.
(författare)
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Ion Acceleration and Corresponding Bounce Echoes Induced by Electric Field Impulses: MMS Observations
- 2024
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Ingår i: Journal of Geophysical Research - Space Physics. - : American Geophysical Union (AGU). - 2169-9380 .- 2169-9402. ; 129:2
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Tidskriftsartikel (refereegranskat)abstract
- Dayside magnetosphere interactions are essential for energy and momentum transport between the solar wind and the magnetosphere. In this study, we investigate a new phenomenon within this regime. Sudden enhancements of ion fluxes followed by repeating dropouts and recoveries were observed by Magnetospheric Multiscale on 5 November 2016, which is the very end of the recovery phase from a moderate geomagnetic storm. These repetitive flux variations display energy-dispersive characteristics with periods relevant to ion bounce motion, suggesting they are corresponding echoes. Alongside the flux variations, bipolar electric field impulses originating from external sources were detected. We traced the source region of the initial injection and found it is located near the spacecraft's position. To elucidate the underlying physics, a test-particle simulation is conducted. The results reveal that radial transport resulting from impulse-induced acceleration can give rise to these echoes. Observations demonstrate dayside magnetosphere interactions are more common than we previously considered, which warrants further research.
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| 12. |
- Li, Xing-Yu, et al.
(författare)
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Off-Equatorial Minima Effects on ULF Wave-Ion Interaction in the Dayside Outer Magnetosphere
- 2021
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Ingår i: Geophysical Research Letters. - : American Geophysical Union (AGU). - 0094-8276 .- 1944-8007. ; 48:18
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Tidskriftsartikel (refereegranskat)abstract
- The ultra-low frequency wave-particle drift-bounce resonance in the inner magnetosphere has been studied in detail, due to its important role in particle energization. However, it remains an open question how drift-bounce resonance manifests in the dayside outer magnetosphere, where particles' orbits show bifurcations because of off-equatorial magnetic field minima. In this study, we investigate this question, by analyzing Magnetospheric Multiscale observations of the January 20, 2017 event. A test-particle simulation is conducted to help us understand the observations. The observed pitch angle-time spectrograms show "pawtrack-like" structures. We find there are more than two resonant pitch angles at fixed energy, since off-equatorial minima change the relationship between the bounce (drift) frequency and pitch angle from unimodal function to trimodal function. These results reveal a new drift-bounce acceleration mechanism in the dayside outer magnetosphere, which potentially affects the efficiency of particle energization during geomagnetic activities like geomagnetic storms.
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| 13. |
- Li, Xing-Yu, et al.
(författare)
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ULF Wave-Induced Ion Pitch Angle Evolution in the Dayside Outer Magnetosphere
- 2022
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Ingår i: Geophysical Research Letters. - : American Geophysical Union (AGU). - 0094-8276 .- 1944-8007. ; 49:8
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Tidskriftsartikel (refereegranskat)abstract
- Drift-bounce resonance between ultralow frequency (ULF) waves and ions is essential for ion energization in the magnetosphere. Here, we present the first comprehensive study of drift-bounce resonance in the dayside outer magnetosphere, where off-equatorial magnetic field minima would strongly distort ions' bounce and drift motion. A generalized theory is proposed, in which the effects of off-equatorial minima, time-evolving fields and ion bounce motion are taken into account. In consequence of these effects, ion pitch angle distributions undergo dramatic changes. In the presence of off-equatorial minima, the time-of-flight effect of ion bounce motion forms latitude-dependent dispersions besides "paw-track shaped" structures, while evolving wave fields cause time-dependent phase shifts in "paw-tracks." All the predicted signatures have been confirmed by 5 years of Magnetospheric Multiscale spacecraft data and numerical simulations. These results allow us to better understand the interactions between ULF waves and thermal ion species in global magnetospheric dynamics.
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| 14. |
- Toledo-Redondo, Sergio, et al.
(författare)
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Cold ion demagnetization near the X-line of magnetic reconnection
- 2016
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Ingår i: Geophysical Research Letters. - : Blackwell Publishing. - 0094-8276 .- 1944-8007. ; 43:13, s. 6759-6767
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Tidskriftsartikel (refereegranskat)abstract
- Although the effects of magnetic reconnection in magnetospheres can be observed at planetary scales, reconnection is initiated at electron scales in a plasma. Surrounding the electron diffusion region, there is an Ion-Decoupling Region (IDR) of the size of the ion length scales (inertial length and gyroradius). Reconnection at the Earth's magnetopause often includes cold magnetospheric (few tens of eV), hot magnetospheric (10keV), and magnetosheath (1keV) ions, with different gyroradius length scales. We report observations of a subregion inside the IDR of the size of the cold ion population gyroradius (approximate to 15km) where the cold ions are demagnetized and accelerated parallel to the Hall electric field. Outside the subregion, cold ions follow the E x B motion together with electrons, while hot ions are demagnetized. We observe a sharp cold ion density gradient separating the two regions, which we identify as the cold and hot IDRs.
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| 15. |
- Warren, Wesley C, et al.
(författare)
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The genome of a songbird
- 2010
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 464:7289, s. 757-762
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Tidskriftsartikel (refereegranskat)abstract
- The zebra finch is an important model organism in several fields with unique relevance to human neuroscience. Like other songbirds, the zebra finch communicates through learned vocalizations, an ability otherwise documented only in humans and a few other animals and lacking in the chicken-the only bird with a sequenced genome until now. Here we present a structural, functional and comparative analysis of the genome sequence of the zebra finch (Taeniopygia guttata), which is a songbird belonging to the large avian order Passeriformes. We find that the overall structures of the genomes are similar in zebra finch and chicken, but they differ in many intrachromosomal rearrangements, lineage-specific gene family expansions, the number of long-terminal-repeat-based retrotransposons, and mechanisms of sex chromosome dosage compensation. We show that song behaviour engages gene regulatory networks in the zebra finch brain, altering the expression of long non-coding RNAs, microRNAs, transcription factors and their targets. We also show evidence for rapid molecular evolution in the songbird lineage of genes that are regulated during song experience. These results indicate an active involvement of the genome in neural processes underlying vocal communication and identify potential genetic substrates for the evolution and regulation of this behaviour.
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