Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “data analysis cluster”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 487 records · Page 27

Studying the hadron structure with PANDA and CLAS using machine learning techniques

The hadron spectroscopy and structure are currently very active fields of research to study the non-perturbative regime of quantum chronodynamics. The first one studies the complex structure of excited hadrons by looking at their decay products, while the latter uses lepton scattering on nucleons. Both methods require reconstruction algorithms with great efficiency and good particle identification and background rejection rates. This work aims to provide these by either improving the existing methods or developing new ones. The first part of this document presents a feasibility study of a predicted hybrid charmonium state for the PANDA experiment. Lattice QCD calculations predict the ground state hybrid charmonium to be a spin exotic with quantum numbers of JP C = 1?+ at a mass of around 4.3 GeV with a width to be around 20 MeV. A machine learning based data analysis scheme is proposed to further improve the signal efficiency and the background reduction, alongside with improvements of the analysis software (PandaRoot), that are vital for this study. These improvements include a reworked clustering algorithm for the electromagnetic calorimeter (EMC) and an optimized monte carlo matching for neutral particles. The second part of this document is about studying the proton structure. A multidimensional study of the structure function ratio Fsin(?)LU /FUU has been performed for K±, based on the measurement of beam-spin asymmetries. It uses the high statistics data recorded with the CLAS12 spectrometer at Jefferson Laboratory. Fsin(?)LU is a twist-3 quantity that provides information about the quark gluon correlations in the proton. This document will present for the first time a simultaneous analysis of two kaon channels over a large kinematic range of z, xB , PT and Q2 with virtualities Q2 ranging from 1 GeV2 up to 8 GeV2 using machine learning techniques for improved particle identification.

Kripko, Aron↗

An Improved Boosting to Amplify Signal with Isobaric Labeling (iBASIL) Strategy for Precise Quantitative Single-cell Proteomics

Mass spectrometry (MS)-based proteomics has great potential for overcoming the limitations of antibody-based immunoassays for antibody-independent, comprehensive, and quantitative proteomic analysis of single cells. Indeed, recent advances in nanoscale sample preparation have enabled effective processing of single cells. In particular, the concept of using boosting/carrier channels in isobaric labeling to increase the sensitivity in MS detection has also been increasingly used for quantitative proteomic analysis of small-sized samples including single cells. However, the full potential of such boosting/carrier approaches has not been significantly explored, nor has the resulting quantitation quality been carefully evaluated. Herein, we have further evaluated and optimized our recent boosting to amplify signal with isobaric labeling (BASIL) approach, originally developed for quantifying phosphorylation in small number of cells, for highly effective analysis of proteins in single cells. This improved BASIL (iBASIL) approach enables reliable quantitative single-cell proteomics analysis with greater proteome coverage by carefully controlling the boosting-to-sample ratio (e.g. in general <100×) and optimizing MS automatic gain control (AGC) and ion injection time settings in MS/MS analysis (e.g. 5E5 and 300 ms, respectively, which is significantly higher than that used in typical bulk analysis). By coupling with a nanodroplet-based single cell preparation (nanoPOTS) platform, iBASIL enabled identification of ~2500 proteins and precise quantification of ~1500 proteins in the analysis of 104 FACS-isolated single cells, with the resulting protein profiles robustly clustering the cells from three different acute myeloid leukemia cell lines. This study highlights the importance of carefully evaluating and optimizing the boosting ratios and MS data acquisition conditions for achieving robust, comprehensive proteomic analysis of single cells.

59 BASIC BIOLOGICAL SCIENCES↗

The cosmic web around the Coma cluster from constrained cosmological simulations

Galaxy clusters in the Universe occupy the important position of nodes of the cosmic web. They are connected among them by filaments, elongated structures composed of dark matter, galaxies, and gas. The connection of galaxy clusters to filaments is important, as it is related to the process of matter accretion onto the former. For this reason, investigating the connections to the cosmic web of massive clusters, especially well-known ones for which a lot of information is available, is a hot topic in astrophysics. In a previous work, we performed an analysis of the filament connections of the Coma cluster of galaxies, as detected from the observed galaxy distribution. In this work we resort to a numerical simulation whose initial conditions are constrained to reproduce the local Universe, including the region of the Coma cluster to interpret our observations in an evolutionary context. We detect the filaments connected to the simulated Coma cluster and perform an accurate comparison with the cosmic web configuration we detect in observations. We perform an analysis of the halos’ spatial and velocity distributions close to the filaments in the cluster outskirts. We conclude that, although not significantly larger than the average, the flux of accreting matter on the simulated Coma cluster is significantly more collimated close to the filaments with respect to the general isotropic accretion flux. This paper is the first example of such a result and the first installment in a series of publications which will explore the build-up of the Coma cluster system in connection to the filaments of the cosmic web as a function of redshift.

79 ASTRONOMY AND ASTROPHYSICS↗

Two-proton decay from α-cluster states in 10 C and 11 N

Two-proton decay from excited states in 10 C and 11 N has been characterized from an analysis of the 2p + 2α and 3p + 2α exit channels. Data from four previously published invariant-mass studies associated with inelastic excitation, multinucleon knockout, and neutron pickup reactions have been considered. A rotational band in 10 C was identified built on the second 0 + state which has strong α-cluster molecular structure. The members of this band were tentatively identified up to J π = 4 + and all identified states have a prompt 2p decay branch. The spins of the 0 + and 2 + members were deduced from comparisons of the momentum correlations in their 2p branches to those from known 2p emitters. The 2 + and the tentative 4 + members are both above the α threshold and exhibit large reduced decay widths for α emission. This band exhibits a similar moment of inertia to its analog in the mirror nucleus 10 Be. Evidence is also presented for a molecular band in 11 N built on the second 3/2 – state which 2p decays. Furthermore, tentative members of this band have been assigned up to J π = 9/2 – and their excitation energies also match their likely analogs in the mirror nucleus 11 Be.

6 ≤ A ≤ 19↗

Spectral characteristics and the extent of paleosols of the Palouse formation

Thematic mapping data was analyzed and verified by comparison to previously gathered transect samples and to aerial photographs. A bare-soil field with exposed paleosols characterized by slight enrichment of iron was investigated. Spectral relationships were first investigated statistically by creating a data set with DN values spatially matched as nearly as possible to field sample points. Chemical data for each point included organic carbon, free iron oxide, and amorphous iron content. The chemical data, DN values, and various band ratios were examined with the program package Statistix in order to find the combinations of reflectance data most likely to show a relationship which would dependably separate the exposed paleosols from the other soils. Cluster analysis and Fastclas classification procedures were applied to the most promising of the band ratio combinations.

Frazier, B. E.↗

Earth Science Data Fusion with Event Building Approach

Objectives of the NASA Information And Data System (NAIADS) project are to develop a prototype of a conceptually new middleware framework to modernize and significantly improve efficiency of the Earth Science data fusion, big data processing and analytics. The key components of the NAIADS include: Service Oriented Architecture (SOA) multi-lingual framework, multi-sensor coincident data Predictor, fast into-memory data Staging, multi-sensor data-Event Builder, complete data-Event streaming (a work flow with minimized IO), on-line data processing control and analytics services. The NAIADS project is leveraging CLARA framework, developed in Jefferson Lab, and integrated with the ZeroMQ messaging library. The science services are prototyped and incorporated into the system. Merging the SCIAMACHY Level-1 observations and MODIS/Terra Level-2 (Clouds and Aerosols) data products, and ECMWF re- analysis will be used for NAIADS demonstration and performance tests in compute Cloud and Cluster environments.

Lukashin, C.↗

DESI 2024 V: Full-Shape galaxy clustering from galaxies and quasars

We present the measurements and cosmological implications of the galaxy two-point clustering using over 4.7 million unique galaxy and quasar redshifts in the range 0.1 < z < 2.1 divided into six redshift bins over a ∼ 7,500 square degree footprint, from the first year of observations with the Dark Energy Spectroscopic Instrument (DESI Data Release 1). By fitting the full power spectrum, we extend previous DESI DR1 baryon acoustic oscillation (BAO) measurements to include redshift-space distortions and signals from the matter-radiation equality scale. For the first time, this Full-Shape analysis is blinded at the catalogue-level to avoid confirmation bias and the systematic errors are accounted for at the two-point clustering level, which automatically propagates them into any cosmological parameter. When analyzing the data in terms of compressed model-agnostic variables, we obtain a combined precision of 4.7% on the amplitude of the redshift space distortion (RSD) signal reaching a similar precision with just one year of DESI data than with twenty years of observation from the previous generation survey. We also analyze the data to directly constrain the cosmological parameters within the ΛCDM model using perturbation theory and combine this information with the reconstructed DESI DR1 galaxy BAO. Using a Big Bang Nucleosynthesis Gaussian prior on the baryon density parameter, ω b , and a weak Gaussian prior on the spectral index, n s , we constrain the matter density is Ω m = 0.296±0.010 and the Hubble constant H 0 = (68.63 ± 0.79)[km s -1 Mpc -1 ]. Additionally, we measure the amplitude of clustering σ 8 = 0.841±0.034. The DESI DR1 galaxy clustering results are in agreement with the ΛCDM model based on general relativity with parameters consistent with those from Planck. The cosmological interpretation of these results in combination with DESI DR1 Ly-α forest data and external datasets are presented in the companion paper [1].

79 ASTRONOMY AND ASTROPHYSICS↗

Multivariate Statistical Analysis Software Technologies for Astrophysical Research Involving Large Data Bases

We developed a package to process and analyze the data from the digital version of the Second Palomar Sky Survey. This system, called SKICAT, incorporates the latest in machine learning and expert systems software technology, in order to classify the detected objects objectively and uniformly, and facilitate handling of the enormous data sets from digital sky surveys and other sources. The system provides a powerful, integrated environment for the manipulation and scientific investigation of catalogs from virtually any source. It serves three principal functions: image catalog construction, catalog management, and catalog analysis. Through use of the GID3* Decision Tree artificial induction software, SKICAT automates the process of classifying objects within CCD and digitized plate images. To exploit these catalogs, the system also provides tools to merge them into a large, complex database which may be easily queried and modified when new data or better methods of calibrating or classifying become available. The most innovative feature of SKICAT is the facility it provides to experiment with and apply the latest in machine learning technology to the tasks of catalog construction and analysis. SKICAT provides a unique environment for implementing these tools for any number of future scientific purposes. Initial scientific verification and performance tests have been made using galaxy counts and measurements of galaxy clustering from small subsets of the survey data, and a search for very high redshift quasars. All of the tests were successful and produced new and interesting scientific results. Attachments to this report give detailed accounts of the technical aspects of the SKICAT system, and of some of the scientific results achieved to date. We also developed a user-friendly package for multivariate statistical analysis of small and moderate-size data sets, called STATPROG. The package was tested extensively on a number of real scientific applications and has produced real, published results.

Djorgovski, S. G.↗

Utilization of Machine Learning Techniques for Managing the Tracking and Data Relay Satellite Constellation

National Aeronautics and Space Administration’s (NASA) Goddard Space Flight Center (GSFC) operates a constellation of ten geosynchronous Tracking and Data Relay Satellites (TDRS). The TDRS constellation consists of multiple geosynchronous communication relay satellites located around the equator so they can provide continual coverage of any mission in low earth orbit. The TDRS are located primarily in three oceanic regions around the earth. NASA’s White Sands Complex provides the ground communication support for TDRS located over the Atlantic and Pacific Oceans. Another TDRS ground station in Guam supports the TDRS over the Indian Ocean. With these satellites the TDRS network can provide continuous coverage of satellites in low-earth orbit. The NASA Space Network (SN) project office at GSFC manages the constellation of spacecraft. Major customers of the TDRS constellation include, but are not limited to, the International Space Station and the Hubble Space Telescope. The TDRS constellation has three generations of satellites and has been active for over 30 years providing reliable communication links between customer satellites and corresponding ground stations. However, one of the major concerns for TDRS, and in any space mission, is to ensure the health and safety of the spacecraft. Generally, engineers use telemetry data to monitor and analyze the performance and state of health of the spacecraft. Telemetry data contains hundreds of parameters that monitor each important component in the spacecraft, which can be utilized to recognize and characterize the behavior of the spacecraft. Each parameter contains considerable information to represent time-dependent properties of each spacecraft subsystem and component. During the entire life of a TDRS spacecraft, thousands of gigabytes of telemetry data are transmitted in real-time from the spacecraft to the ground station at the White Sands Complex in Las Cruces, New Mexico, and recorded as historical data sets for engineers to process and analyze the events that occurred on-orbit. These parameters contain the function of multiple spacecraft subsystems, such as the attitude control system (ACS), Thermal, Electrical Power Subsystem (EPS), etc. . The first and second generations have exceeded their required lifetime and NASA is keen to manage these spacecrafts carefully in order to maximize the remaining life using the spacecraft telemetry. The challenge is to know when the risk of losing a spacecraft in geosynchronous orbit exceeds the benefit of continued operations for customer support. In the TDRS fleet, the EPS is the most critical subsystem related to spacecraft operations. Failure of the EPS would strand a spacecraft in geosynchronous orbit. Since EPS provides power to the spacecraft, component failures ultimately lead to the inability to support the spacecraft loads and the communications payload. For instance, TDRS-8 has several anomalies in EPS including the Bus Voltage Limiter (BVL) shunt current, solar array loss of circuits, and failed battery cells. Any of these anomalies can cause critical issues to the spacecraft. Therefore, developing a system to analyze and perform early detection of a potential anomaly is an important issue in telemetry data analysis. In recent years, Telemetry Mining (TM) has been proposed to process telemetry data by using Data Mining (DM) techniques such as classification, clustering, regression and anomaly detection. Anomaly detection, also known as outlier detection, has been widely used in many data mining areas such as remote sensing, medical data processing and digital image processing. The goal of anomaly detection is to detect abnormal data, which contains a relatively low probability of occurrence among the entire data set. Early detection of anomalies is one of the most significant issues in managing the spacecraft configuration. If anomalies can be detected early enough, then the redundant resources can be used to extend the life of the operational spacecraft. We present an unsupervised anomaly detection method to process the EPS data extracted from TDRS-8. This is different from traditional analytical methods, which use telemetry data to illustrate behavior and physical meaning of each spacecraft component. TM connects multiple parameters as a vector and then conducts data analysis on this high dimension telemetry vector. This method is looking at the properties of a high dimensional vector that is able to consider the relationship between different parameters in the anomaly detection problem. This kind of method performs much better than the traditional limit checking method. In addition, we propose a new approach of real-time anomaly detection to process telemetry data in real-time, which can then be applied to spacecraft monitoring with high reliability, low cost and high accuracy.

Machine Learning (ML)↗

On the Unusually High Temperature of the Cluster of Galaxies 1E 0657-56

A recent X-ray observation of the cluster 1E 0657-56 (z = 0.296) with ASC,4 implied an unusually high temperature of approx. 17 keV. Such a high temperature would make it the hottest known cluster and severely constrain cosmological models since, in a Universe with critical density (Omega = 1) the probability of observing such a cluster is only approx. 4 x 10(exp -5). Here we test the robustness of this observational result since it has such important implications. We analysed the data using a variety of different data analysis methods and spectral analysis assumptions and find a temperature of approx. 11 - 12 keV in all cases, except for one class of spectral fits. These are fits in which the absorbing column density is fixed at the Galactic value. Using simulated data for a 12 keV cluster, we show that a high temperature of approx. 17 keV is artificially obtained if the true spectrum has a stronger low-energy cut-off than that for Galactic absorption only. The apparent extra absorption may be astrophysical in origin, (either intrinsic or line-of-sight), or it may be a problem with the low-energy CCD efficiency. Although significantly lower than previous measurements, this temperature of kT approx. 11 - 12 keV is still relatively high since only a few clusters have been found to have temperatures higher than 10 keV and the data therefore still present some difficulty for an Omega = 1 Universe. Our results will also be useful to anyone who wants to estimate the systematic errors involved in different methods of background subtraction of ASCA data for sources with similar signal-to-noise to that of the IE 0657-56 data reported here.

Yaqoob, Tahir↗

MVP: a modular viromics pipeline to identify, filter, cluster, annotate, and bin viruses from metagenomes

While numerous computational frameworks and workflows are available for recovering prokaryote and eukaryote genomes from metagenome data, only a limited number of pipelines are designed specifically for viromics analysis. With many viromics tools developed in the last few years alone, it can be challenging for scientists with limited bioinformatics experience to easily recover, evaluate quality, annotate genes, dereplicate, assign taxonomy, and calculate relative abundance and coverage of viral genomes using state-of-the-art methods and standards. Here, we describe Modular Viromics Pipeline (MVP) v.1.0, a user-friendly pipeline written in Python and providing a simple framework to perform standard viromics analyses. MVP combines multiple tools to enable viral genome identification, characterization of genome quality, filtering, clustering, taxonomic and functional annotation, genome binning, and comprehensive summaries of results that can be used for downstream ecological analyses. Overall, MVP provides a standardized and reproducible pipeline for both extensive and robust characterization of viruses from large-scale sequencing data including metagenomes, metatranscriptomes, viromes, and isolate genomes. As a typical use case, we show how the entire MVP pipeline can be applied to a set of 20 metagenomes from wetland sediments using only 10 modules executed via command lines, leading to the identification of 11,656 viral contigs and 8,145 viral operational taxonomic units (vOTUs) displaying a clear beta-diversity pattern. Further, acting as a dynamic wrapper, MVP is designed to continuously incorporate updates and integrate new tools, ensuring its ongoing relevance in the rapidly evolving field of viromics. MVP is available at https://gitlab.com/ccoclet/mvp and as versioned packages in PyPi and Conda.

59 BASIC BIOLOGICAL SCIENCES↗

Unsupervised classification of remote multispectral sensing data

The new unsupervised classification technique for classifying multispectral remote sensing data which can be either from the multispectral scanner or digitized color-separation aerial photographs consists of two parts: (a) a sequential statistical clustering which is a one-pass sequential variance analysis and (b) a generalized K-means clustering. In this composite clustering technique, the output of (a) is a set of initial clusters which are input to (b) for further improvement by an iterative scheme. Applications of the technique using an IBM-7094 computer on multispectral data sets over Purdue's Flight Line C-1 and the Yellowstone National Park test site have been accomplished. Comparisons between the classification maps by the unsupervised technique and the supervised maximum liklihood technique indicate that the classification accuracies are in agreement.

Su, M. Y.↗

Classification of surface units in the equatorial region of Mars based on Viking Orbiter color, albedo, and thermal data

Clusters corresponding to mappable surface units are sought in Viking Orbiter color, albedo, and thermal inertia data for the equatorial region of Mars. A principal components analysis indicated that 84% of the variance within the data for this region can be carried along two vector directions which typify the dominant trend of Martian surface materials. These dominant trends were deemphasized by stretching the data from a five-dimensional elliptical swarm into a hypersphere, through the use of principal component techniques. The decorrelated data were then plotted in a triangle diagram with red/violet, albedo and thermal inertia apices to facilitate inherent cluster discrimination. As many as eight clusters can be identified, with important mixing between them. The three major clusters consist of red and grey material extremes, along with intermediate value materials.

Arvidson, R. E.↗

Utah FORGE: Seismic DAS and Geophone Borehole Data Processing and 3D Imaging of Vp/Vs Ratio in the 2024 Stimulated Reservoir

This dataset includes a final report and a 3D velocity model derived from seismic DAS and geophone borehole data collected during the April 2024 stimulation of the reservoir at Utah FORGE. The report details the processing of over 50,000 P- and S-wave travel times used in a tomographic inversion to estimate the Vp/Vs ratio, revealing anomalies adjacent to wells 16A and 16B that may be associated with injected fracturing fluids. Additionally, Wadati analysis of more than 27,000 pairs of differential P- and S-wave travel times supports this interpretation with a high Vp/Vs estimate of 1.86, averaged over the dimensions of the earthquake cluster. The accompanying data file provides a 3D model of P- and S-wave velocities and Vp/Vs ratios, structured with spatial coordinates and velocity values.

15 GEOTHERMAL ENERGY↗

Gaussian mixture model clustering algorithms for the analysis of high-precision mass measurements

The development of the phase-imaging ion-cyclotron resonance (PI-ICR) technique for use in Penning trap mass spectrometry (PTMS) increased the speed and precision with which PTMS experiments can be carried out. In PI-ICR, data sets of the locations of individual ion hits on a detector are created showing how ions cluster together into spots according to their cyclotron frequency. Ideal data sets would consist of a single, 2D-spherical spot with no other noise, but in practice data sets typically contain multiple spots, non-spherical spots, or significant noise, all of which can make determining the locations of spot centers non-trivial. A method for assigning groups of ions to their respective spots and determining the spot centers is therefore essential for further improving precision and confidence in PI-ICR experiments. Here, we present the class of Gaussian mixture model (GMM) clustering algorithms as an optimal solution. We show that on simulated PI-ICR data, several types of GMM clustering algorithms perform better than other clustering algorithms over a variety of typical scenarios encountered in PI-ICR. The mass spectra of 163Gd, 163 mGd, 162 Tb, and 162 mTb measured using PI-ICR at the Canadian Penning trap mass spectrometer were checked using GMMs, producing results that were in close agreement with the previously published values.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Remote Sensing and GIS data at 1km-grid over Chesapeake Bay used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”

The package contains the data layers used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”. The study aims to use multi-source remote sensing and GIS datasets to investigate the spatial heterogeneity and identify spatial zones with similar environmental characteristics and understand the primary driving factors affecting soil respiration within sub-ecosystems of the coastal ecosystem. We employed unsupervised hierarchical clustering analysis to identify spatial regions with distinct environmental characteristics, then determined the main driving factors using Random Forest regression and SHapley Additive exPlanations (SHAP). Spatial data layers include soil respiration, kernel Normalized Difference Vegetation Index (kNDVI) computed from Harmonized Landsat 8 and Sentinel-2 time series, climate variables from the Daymet dataset, land cover, biodiversity, topographical metrics, soil property, and tidal elevation.

54 ENVIRONMENTAL SCIENCES↗

Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma

Many gene products exhibit great structural heterogeneity because of an array of modifications. These modifications are not directly encoded in the genomic template but often affect the functionality of proteins. Protein glycosylation plays a vital role in proper protein functions. However, the analysis of glycoproteins has been challenging compared with other protein modifications, such as phosphorylation. Here, we perform an integrated proteomic and glycoproteomic analysis of 83 prospectively collected high-grade serous ovarian carcinoma (HGSC) and 23 non-tumor tissues. Integration of the expression data from global proteomics and glycoproteomics reveals tumor-specific glycosylation, uncovers different glycosylation associated with three tumor clusters, and identifies glycosylation enzymes that were correlated with the altered glycosylation. In addition to providing a valuable resource, these results provide insights into the potentialroles of glycosylation in the pathogenesis of HGSC, with the possibility of distinguishing pathological outcomes of ovarian tumors from non-tumors, as well as classifying tumor clusters.

Hu, Yingwei↗

Functional analysis of the methylerythritol phosphate pathway terminal enzymes IspG and IspH from Zymomonas mobilis

ABSTRACT Isoprenoids are a diverse family of compounds that are synthesized from two isomeric compounds, isopentenyl diphosphate and dimethylallyl diphosphate. In most bacteria, isoprenoids are produced from the essential methylerythritol phosphate (MEP) pathway. The terminal enzymes of the MEP pathway IspG and IspH are [4Fe-4S] cluster proteins, and in Zymomonas mobilis, the substrates of IspG and IspH accumulate in cells in response to O 2 , suggesting possible lability of their [4Fe-4S] clusters. Here, we show using complementation assays in Escherichia coli that even under anaerobic conditions, Z. mobilis IspG and IspH are not as functional as their E. coli counterparts, requiring higher levels of expression to rescue viability. A deficit of the sulfur utilization factor (SUF) Fe-S cluster biogenesis pathway did not explain the reduced function of Z. mobilis IspG and IspH since no improvement in viability was observed in E. coli expressing the Z. mobilis SUF pathway or having increased expression of the E. coli SUF pathway. Complementation of single and double mutants with various combinations of Z. mobilis and E. coli IspG and IspH indicated that optimal growth required the pairing of IspG and IspH from the same species. Furthermore, Z. mobilis IspH conferred an O 2 -sensitive growth defect to E. coli that could be partially rescued by co-expression of Z. mobilis IspG. In vitro analysis showed O 2 sensitivity of the [4Fe-4S] cluster of both Z. mobilis IspG and IspH. Altogether, our data indicate an important role of the cognate protein IspG in Z. mobilis IspH function under both aerobic and anaerobic conditions. IMPORTANCE Isoprenoids are one of the largest classes of natural products, exhibiting diversity in structure and function. They also include compounds that are essential for cellular life across the biological world. In bacteria, isoprenoids are derived from two precursors, isopentenyl diphosphate and dimethylallyl diphosphate, synthesized primarily by the methylerythritol phosphate pathway. The aerotolerant Z. mobilis has the potential for methylerythritol phosphate pathway engineering by diverting some of the glucose that is typically efficiently converted into ethanol to produce isoprenoid precursors to make bioproducts and biofuels. Our data revealed the surprising finding that Z. mobilis IspG and IspH need to be co-optimized to improve flux via the methyl erythritol phosphate pathway in part to evade the oxygen sensitivity of IspH.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗