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Probing the gas and dust in proto-planetary disks is central for understanding the process of planet formation. In disks surrounding solar type protostars, the bulk of the disk mass resides in the outer midplane, which is cold ($leq$20 K), dense ($geq 10^7$ cm$^{-3}$) and depleted of CO. Observing the disk midplane has proved, therefore, to be a formidable challenge. Ceccarelli et al. (2004) detected H$_2$D$^+$ emission in a proto-planetary disk and claimed that it probes the midplane gas. Indeed, since all heavy-elements bearing molecules condense out onto the grain mantles, the most abundant ions in the disk midplane are predicted to be H$_3^+$ and its isotopomers. In this article, we carry out a theoretical study of the chemical structure of the outer midplane of proto-planetary disks. Using a self-consistent physical model for the flaring disk structure, we compute the abundances of H$_3^+$ and its deuterated forms across the disk midplane. We also provide the average column densities across the disk of H$_3^+$, H$_2$D$^+$, HD$_2^+$ and D$_3^+$, and line intensities of the ground transitions of the ortho and para forms of H$_2$D$^+$ and HD$_2^+$ respectively. We discuss how the results depend on the cosmic ray ionization rate, dust-to-gas ratio and average grain radius, and general stellar/disk parameters. An important factor is the poorly understood freeze-out of N$_2$ molecules onto grains, which we investigate in depth. We finally summarize the diagnostic values of observations of the H$_3^+$ isotopomers.
We report the first detection of the ground transition of the deuterated water at 464 GHz in the young proto-planetary disk surrounding the solar type protostar DM Tau. The line is observed in absorption against the continuum from the cold dust in th
We review the properties of dust in protoplanetary disks around optically visible pre-main sequence stars obtained with a variety of observational techniques, from measurements of scattered light at visual and infrared wavelengths to mid-infrared spe
At the low temperatures ($sim$10 K) and high densities ($sim$100,000 H$_2$ molecules per cc) of molecular cloud cores and protostellar envelopes, a large amount of molecular species (in particular those containing C and O) freeze-out onto dust grain
(abridged) We used the IRAM 30-m to perform a sensitive wideband survey of 30 protoplanetary disks in the Taurus Auriga region. We simultaneously observed HCO$^+$(3-2), HCN(3-2), C$_2$H(3-2), CS(5-4), and two transitions of SO. We combine the results
By performing local three-dimensional MHD simulations of stratified accretion disks, we investigate disk winds driven by MHD turbulence. Initially given weak vertical magnetic fields are effectively amplified by magnetorotational instability and wind