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  • American Institute of Physics (AIP)  (2)
  • National Academy of Sciences  (1)
  • 1
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 112 (2000), S. 1395-1403 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: The spectral line shape of the fundamental vibration of nitrogen is calculated from molecular dynamics simulations by determining the Fourier transform of the relaxation function. It has been applied to the fluid phase at various pressures and temperatures, and to solid δ-N2. The validity of the assumption that the spectrum at relatively high temperatures and pressures can be calculated by assuming that these systems are in the fast modulation regime (Δτc(very-much-less-than)1), has been verified. A deviation of the vibrational line shape from the motional narrowing limit has been found for fluid nitrogen at low pressure, with a Kubo parameter, Δτc, equal to 0.23, and for the vibrational line of the molecules on the a sites in δ-N2, with Δτc equal to 0.075. It is concluded that the value of the Kubo parameter is not an unambiguous criterion for the fast modulation regime. Moreover, a detailed comparison reveals a difference in the dynamical behavior of the molecules on the a and c sites. It is shown that this procedure can also be used if one does not know whether or not closely spaced lines are to be expected. The present procedure is suited to calculate line shapes in the intermediate Kubo regime, e.g., in concentrated mixtures, where no simple relations are available. Finally it is shown that in nitrogen at low density and 126 K the ratio of the correlation time of the frequency autocorrelation function and the dephasing time is smaller than in CH3I, where the n dependence of the vibrational overtone is subquadratic. © 2000 American Institute of Physics.
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  • 2
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: The Raman spectra of nitrogen in the mixture neon–nitrogen have been measured for neon mole fractions, xM, of 0.10, 0.65, and 0.95 at 296 K and 408 K up to the solidification pressure. It was found that the frequency increases as a function of xM. The linewidth is strongly composition dependent, with a very large value for xM=0.65. Further, it is shown that the width decreases as a function of temperature. Molecular dynamics simulations have been performed in order to calculate the linewidth and shape, using the relaxation function. The simulations are in good agreement with experiment. It is shown that the increase in linewidth in the intermediate concentration range is due to an increase of the correlation time, rather than an increase of the amplitude of modulation. In this range inhomogeneous broadening due to concentration fluctuations occur: the vibrational line shape starts to deviate from a Lorentzian curve, and gets a Gaussian component. The simulations also provide insight into the relatively large decrease of the width as a function of temperature in the intermediate concentration range. When the temperature is increased from 296 to 408 K, the amplitude of modulation increases, but the correlation time decreases more. © 2000 American Institute of Physics.
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  • 3
    Publication Date: 2024-02-07
    Description: Significance A substantial component of the global nitrogen cycle is the production of biologically inaccessible dinitrogen attributed to anaerobic denitrification by prokaryotes. Recent evidence identified a eukaryote, foraminifera, as new key players in this “loss” of bioavailable nitrogen. The evolution of denitrification in eukaryotes is a rare event, and the genetic mechanisms of the denitrification pathway in foraminifera are just starting to be elucidated. We present large-scale sequencing analyses of 10 denitrifying foraminiferal species, which reveals the high conservation of the foraminiferal denitrification pathway. We further find evidence for a complementation of denitrification by the foraminiferal microbiome. Together, these findings provide insights into the early evolution of a previously overlooked component in the marine nitrogen cycle. Abstract: Benthic foraminifera are unicellular eukaryotes that inhabit sediments of aquatic environments. Several foraminifera of the order Rotaliida are known to store and use nitrate for denitrification, a unique energy metabolism among eukaryotes. The rotaliid Globobulimina spp. has been shown to encode an incomplete denitrification pathway of bacterial origin. However, the prevalence of denitrification genes in foraminifera remains unknown, and the missing denitrification pathway components are elusive. Analyzing transcriptomes and metagenomes of 10 foraminiferal species from the Peruvian oxygen minimum zone, we show that denitrification genes are highly conserved in foraminifera. We infer the last common ancestor of denitrifying foraminifera, which enables us to predict the ability to denitrify for additional foraminiferal species. Additionally, an examination of the foraminiferal microbiota reveals evidence for a stable interaction with Desulfobacteraceae, which harbor genes that complement the foraminiferal denitrification pathway. Our results provide evidence that foraminiferal denitrification is complemented by the foraminifera-associated microbiome. The interaction of foraminifera with their resident bacteria is at the basis of foraminiferal adaptation to anaerobic environments that manifested in ecological success in oxygen depleted habitats.
    Type: Article , PeerReviewed
    Format: text
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