Rapid in situ imaging and whole genome sequencing of biofilm in neonatal feeding tubes: a clinical proof of concept

The bacterial flora of nasogastric feeding tubes and faecal samples were analysed for a low-birth weight (725g) neonate EGA 25 weeks in intensive care. Samples were collected at age 6 and 8 weeks of life. Optical coherence tomography (OCT) was used to visualise bacterial biofilms inside the nasogastric feeding tubes. The biofilm was heterogeneously distributed along the tube lumen wall, and had a depth of up to 500µm. The bacterial biofilm and faecal samples included Enterococcus faecalis and Enterobacter hormaechei. Representative strains, recovered from both feeding tubes and faecal samples, were whole genome sequenced using Illumina, Mi-Seq, which revealed indistinguishable strains, each with less than 28 SNP differences, of E. faecalis and E. hormaechei. The E. faecalis strains were from two sequence types (ST191 and ST211) and encoded for a number of traits related to biofilm formation (BopD), adherence (Epb pili), virulence (cps loci, gelatinase, SprE) and antibiotic resistances (IsaA, tetM). The E. hormaechei were all ST106, and encoded for blaACT-15 β–lactamase and fosfomycin resistance (fosA). This proof of concept study demonstrates that bacterial flora within the neonatal feeding tubes may influence the bacterial colonisation of the intestinal tract and can be visualised nondestructively using OCT

Do All Stars in the Solar Neighbourhood Form in Clusters?

We present a global study of low mass, young stellar object (YSO) surface densities (Sigma) in nearby (< 500 pc) star forming regions based on a comprehensive collection of Spitzer Space Telescope surveys. We show that the distribution of YSO surface densities is a smooth distribution, being adequately described by a lognormal function from a few to 10^3 YSOs per pc^2, with a peak at ~22 stars pc^-2. The observed lognormal Sigma is consistent with predictions of hierarchically structured star-formation at scales below 10 pc, arising from the molecular cloud structures. We do not find evidence for multiple discrete modes of star-formation (e.g. clustered and distributed). Comparing the observed Sigma distribution to previous Sigma threshold definitions of clusters show that they are arbitrary. We find that only a low fraction (< 26$) of stars are formed in dense environments where their formation/evolution (along with their circumstellar disks and/or planets) may be affected by the close proximity of their low-mass neighbours.Comment: 7 Pages, 2 Figures, JENAM conference (Lisbon

Circumstellar disks and planets. Science cases for next-generation optical/infrared long-baseline interferometers

We present a review of the interplay between the evolution of circumstellar disks and the formation of planets, both from the perspective of theoretical models and dedicated observations. Based on this, we identify and discuss fundamental questions concerning the formation and evolution of circumstellar disks and planets which can be addressed in the near future with optical and infrared long-baseline interferometers. Furthermore, the importance of complementary observations with long-baseline (sub)millimeter interferometers and high-sensitivity infrared observatories is outlined.Comment: 83 pages; Accepted for publication in "Astronomy and Astrophysics Review"; The final publication is available at http://www.springerlink.co

Connecting Planetary Composition with Formation

The rapid advances in observations of the different populations of exoplanets, the characterization of their host stars and the links to the properties of their planetary systems, the detailed studies of protoplanetary disks, and the experimental study of the interiors and composition of the massive planets in our solar system provide a firm basis for the next big question in planet formation theory. How do the elemental and chemical compositions of planets connect with their formation? The answer to this requires that the various pieces of planet formation theory be linked together in an end-to-end picture that is capable of addressing these large data sets. In this review, we discuss the critical elements of such a picture and how they affect the chemical and elemental make up of forming planets. Important issues here include the initial state of forming and evolving disks, chemical and dust processes within them, the migration of planets and the importance of planet traps, the nature of angular momentum transport processes involving turbulence and/or MHD disk winds, planet formation theory, and advanced treatments of disk astrochemistry. All of these issues affect, and are affected by the chemistry of disks which is driven by X-ray ionization of the host stars. We discuss how these processes lead to a coherent end-to-end model and how this may address the basic question.Comment: Invited review, accepted for publication in the 'Handbook of Exoplanets', eds. H.J. Deeg and J.A. Belmonte, Springer (2018). 46 pages, 10 figure

Formation of Terrestrial Planets

The past decade has seen major progress in our understanding of terrestrial planet formation. Yet key questions remain. In this review we first address the growth of 100 km-scale planetesimals as a consequence of dust coagulation and concentration, with current models favoring the streaming instability. Planetesimals grow into Mars-sized (or larger) planetary embryos by a combination of pebble- and planetesimal accretion. Models for the final assembly of the inner Solar System must match constraints related to the terrestrial planets and asteroids including their orbital and compositional distributions and inferred growth timescales. Two current models -- the Grand-Tack and low-mass (or empty) primordial asteroid belt scenarios -- can each match the empirical constraints but both have key uncertainties that require further study. We present formation models for close-in super-Earths -- the closest current analogs to our own terrestrial planets despite their very different formation histories -- and for terrestrial exoplanets in gas giant systems. We explain why super-Earth systems cannot form in-situ but rather may be the result of inward gas-driven migration followed by the disruption of compact resonant chains. The Solar System is unlikely to have harbored an early system of super-Earths; rather, Jupiter's early formation may have blocked the ice giants' inward migration. Finally, we present a chain of events that may explain why our Solar System looks different than more than 99\% of exoplanet systems