Isolation and Monitoring of Cleanroom-Associated Microbial Contaminates From Geological Collections

Microbial contamination is of particular interest to geological curation as many microorganisms can change mineral composition and produce compounds used as biosignatures used for the detection of life. Microbial cells can change the mineral composition of rocks through organic acid production and direct enzymatic oxidation/reduction of transition metals. Enzymatic oxidation of iron and manganese can occur at a rate several orders of magnitude faster than under abiotic conditions and produce highly reactive nanoparticle- sized oxides that can react and sorb other metals and organic compounds. Many fungi can also produce organic acids that dissolve and chelate mineral matrices chemically reducing and dissolving rock surfaces. Finally, several common soil-associated bacteria and fungi produce secondary metabolites that contain unusual amino acid analogs and non-ribosomal peptides containing both L- and D- chirality used in characterizing carbonaceous chondrites and the detection of extraterrestrial life

Microbial Ecology of NASA Curation Clean Rooms

Clean room standards like ISO 14644 used for facilities that construct spacecraft and store returned samples do not explicitly account for microbial contamination. While there are associated ISO standards for monitoring and controlling bio-contamination in clean rooms it is not always standard practice to do so. The NASA Astromaterials Acquisition and Curation Office maintains seven separate clean labs for storing extraterrestrial samples from the Moon, meteorites, cosmic dust, asteroids, comets, solar wind particles, and microparticle impact samples. These labs are routinely monitored for particulate and trace metal contamination. However, the sample collections are either non-sterile at the time of collection (e.g., meteorites) or are no longer being used to address scientific questions that could be affected by non-sterile conditions (e.g., Lunar samples). Outside of isolated studies there has not been a systematic, longitudinal characterization of the microbial ecology of NASA curation clean rooms. In accordance with the advanced curation initiative, and to prepare for future sample return missions, we have initiated a routine microbiological monitoring program in the Antarctic Meteorite Lab. This monitoring program will be used to determine what microbes are capable of surviving in these oligotrophic environments and whether or not they are capable of altering the sample collections in any significant manner. Repeat sampling will allow us to understand how routine use of these labs affects the microbial ecology over time

Sum Rules for the Optical and Hall Conductivity in Graphene

Graphene has two atoms per unit cell with quasiparticles exhibiting the Dirac-like behavior. These properties lead to interband in addition to intraband optical transitions and modify the $f$-sum rule on the longitudinal conductivity. The expected dependence of the corresponding spectral weight on the applied gate voltage $V_g$ in a field effect graphene transistor is $\sim {const}- |V_g|^{3/2}$. For $V_g =0$, its temperature dependence is $T^3$ rather than the usual $T^2$. For the Hall conductivity, the corresponding spectral weight is determined by the Hall frequency $\omega_H$ which is linear in the carrier imbalance density $\rho$, and hence proportional to $V_g$, and is different from the cyclotron frequency for Dirac quasiparticles.Comment: 16 pages, RevTeX4, 4 EPS figures; v2: to match PRB versio

Microbial Monitoring of Astromaterials Curation Labs Reveals Inter-Lab Diversity

The Astromaterials Curation Division at NASAs Johnson Space Center houses seven sample collections stored in separate clean rooms to avoid cross-contamination. Prior to receiving new sample collections from carbon rich asteroids, we instituted a monitoring program to characterize the microbial ecology of these labs and to understand how organisms could interact with and potentially contaminate current and future collections. Methods: Beginning in Oct. 2017 we sampled the Meteorite (ISO 7 equivalent) and Pristine Lunar (ISO 5 equivalent) labs on a monthly basis. Surface samples were collected using dry swabs. Air samples were collected using an impactor style air sampler. Cultivable organisms were identified and characterized. Aliquots of each sample were also preserved for DNA sequencing. For each sampling event recovery rate was calculated as the percentage of samples showing microbial growth1. Fungal colonies were selected for amino acid extraction and analysis via Ultra- Performance Liquid Chromatography with Fluorescence Detection and Mass Spectrometry

Beyond Nanopore Sequencing in Space: Identifying the Unknown

Astronaut Kate Rubins sequenced DNA on the International Space Station (ISS) for the first time in August 2016 (Figure 1A). A 2D sequencing library containing an equal mixture of lambda bacteriophage, Escherichia coli, and Mus musculus was prepared on the ground with a SQK_MAP006 kit and sent to the ISS frozen and loaded into R7.3 flow cells. After a total of 9 on-orbit sequencing runs over 6 months, it was determined that there was no decrease in sequencing performance on-orbit compared to ground controls (1). A total of ~280,000 and ~130,000 reads generated on-orbit and on the ground, respectively, identified 90% of reads that were attributed to 30% lambda bacteriophage, 30% Escherichia coli, and 30% M. musculus (Figure 1B). Extensive bioinformatics analysis determined comparable 2D and 1D read accuracies between flight and ground runs (Figure 1C), and data collected from the ISS were able to construct directed assemblies of E.coli and lambda genomes at 100% and M. musculus mitochondrial genome at 96.7%. These findings validate sequencing as a viable option for potential on-orbit applications such as environmental microbial monitoring and disease diagnosis. Current microbial monitoring of the ISS applies culture-based techniques that provide colony forming unit (CFU) data for air, water, and surface samples. The identity of the cultured microorganisms in unknown until sample return and ground-based analysis, a process that can take up to 60 days. For sequencing to benefit ISS applications, spaceflight-compatible sample preparation techniques are required. Subsequent to the testing of the MinION on-orbit, a sample-to-sequence method was developed using miniPCR and basic pipetting, which was only recently proven to be effective in microgravity. The work presented here details the in- flight sample preparation process and the first application of DNA sequencing on the ISS to identify unknown ISS-derived microorganisms

Edge States of Monolayer and Bilayer Graphene Nanoribbons

On the basis of tight-binding lattice model, the edge states of monolayer and bilayer graphene nanoribbons (GNRs) with different edge terminations are studied. The effects of edge-hopping modulation, spin-orbital coupling (SOC), and bias voltage on bilayer GNRs are discussed. We observe the following: (i) Some new extra edge states can be created by edge-hopping modulation for monolayer GNRs. (ii) Intralayer Rashba SOC plays a role in depressing the band energy gap $E_g$ opened by intrinsic SOC for both monolayer and bilayer GNRs. An almost linear dependent relation, i.e., $E_g\sim \lambda_R$, is found. (iii) Although the bias voltage favors a bulk energy gap for bilayer graphene without intrinsic SOC, it tends to reduce the gap induced by intrinsic SOC. (iv) The topological phase of the quantum spin Hall effect can be destroyed completely by interlayer Rashba SOC for bilayer GNRs.Comment: 6 pages, 6 figure

Placental vascularity and markers of angiogenesis in relation to prenatal growth status in overnourished adolescent ewes.

INTRODUCTION: Placental vascularity may be important in the development of fetal growth restriction (FGR). The overnourished adolescent ewe is a robust model of the condition, with ∼50% of offspring demonstrating FGR (birthweight >2 standard deviations below optimally-fed control mean). We studied whether placental vascularity, angiogenesis and glucose transport reflect FGR severity. METHODS: Singleton pregnancies were established in adolescent ewes either overnourished to putatively restrict fetoplacental growth (n = 27) or control-fed (n = 12). At 131d (term = 145d) pregnancies were interrupted and fetuses classified as FGR (n = 17,  Non-FGR > FGR and fetal:placental weight ratios were higher in overnourished versus Control groups. COT vascular indices were Non-FGR > FGR > Control. COT-CAD, CSD and APC were significantly greater in Non-FGR overnourished versus Control and intermediate in FGR groups. CAR vascularity did not differ. CAR-VEGFA/FLT1/KDR/ANGPT1/ANGPT2/SLC2A1/SLC2A3 mRNA was lower and COT-ANGPT2 higher in overnourished versus Control groups. DISCUSSION: Relative to control-intake pregnancy, overnourished pregnancies are characterised by higher COT vascularity, potentially a compensatory response to reduced nutrient supply, reflected by higher fetal:placental weight ratios. Compared with overnourished pregnancies where fetal growth is relatively preserved, overnourished pregnancies culminating in marked FGR have less placental vascularity, suggesting incomplete adaptation to the prenatal insult

Meta-action research with pre-service teachers: a case study

This article analyses a case of action research collaboratively conducted by a university teacher and 50 students in a master's course in teacher training. Its originality resides in the socio-economic, academic, and conceptual nature of the obstacles encountered in the module; in the meta-theoretical orientation of the action research that was chosen to overcome them; and in how triangulation strategies were devised to compensate for the limitations imposed by the academic framing of the course. In spite of the brevity of the research cycle, both the structure of the course and teacher-student interaction improved rapidly and significantly, as did the latter's trust in the teacher. As a result, important advances in learning also ensued, and the pedagogical potential of this research method was thereby confirmed

The Biomolecule Sequencer Project: Nanopore Sequencing as a Dual-Use Tool for Crew Health and Astrobiology Investigations

Human missions to Mars will fundamentally transform how the planet is explored, enabling new scientific discoveries through more sophisticated sample acquisition and processing than can currently be implemented in robotic exploration. The presence of humans also poses new challenges, including ensuring astronaut safety and health and monitoring contamination. Because the capability to transfer materials to Earth will be extremely limited, there is a strong need for in situ diagnostic capabilities. Nucleotide sequencing is a particularly powerful tool because it can be used to: (1) mitigate microbial risks to crew by allowing identification of microbes in water, in air, and on surfaces; (2) identify optimal treatment strategies for infections that arise in crew members; and (3) track how crew members, microbes, and mission-relevant organisms (e.g., farmed plants) respond to conditions on Mars through transcriptomic and genomic changes. Sequencing would also offer benefits for science investigations occurring on the surface of Mars by permitting identification of Earth-derived contamination in samples. If Mars contains indigenous life, and that life is based on nucleic acids or other closely related molecules, sequencing would serve as a critical tool for the characterization of those molecules. Therefore, spaceflight-compatible nucleic acid sequencing would be an important capability for both crew health and astrobiology exploration. Advances in sequencing technology on Earth have been driven largely by needs for higher throughput and read accuracy. Although some reduction in size has been achieved, nearly all commercially available sequencers are not compatible with spaceflight due to size, power, and operational requirements. Exceptions are nanopore-based sequencers that measure changes in current caused by DNA passing through pores; these devices are inherently much smaller and require significantly less power than sequencers using other detection methods. Consequently, nanopore-based sequencers could be made flight-ready with only minimal modifications

Low-Energy Effective Hamiltonian and the Surface States of Ca_3PbO

The band structure of Ca_3PbO, which possesses a three-dimensional massive Dirac electron at the Fermi energy, is investigated in detail. Analysis of the orbital weight distributions on the bands obtained in the first-principles calculation reveals that the bands crossing the Fermi energy originate from the three Pb-p orbitals and three Ca-dx2y2 orbitals. Taking these Pb-p and Ca-dx2y2 orbitals as basis wave functions, a tight-binding model is constructed. With the appropriate choice of the hopping integrals and the strength of the spin-orbit coupling, the constructed model sucessfully captures important features of the band structure around the Fermi energy obtained in the first-principles calculation. By applying the suitable basis transformation and expanding the matrix elements in the series of the momentum measured from a Dirac point, the low-energy effective Hamiltonian of this model is explicitely derived and proved to be a Dirac Hamiltonain. The origin of the mass term is also discussed. It is shown that the spin-orbit coupling and the orbitals other than Pb-p and Ca-dx2y2 orbitals play important roles in making the mass term finite. Finally, the surface band structures of Ca_3PbO for several types of surfaces are investigated using the constructed tight-binding model. We find that there appear nontrivial surface states that cannot be explained as the bulk bands projected on the surface Brillouin zone. The relation to the topological insulator is also discussed.Comment: 11 page