Search

Bacterial pathogen identification, which is critical for human health, has historically relied on culturing organisms from clinical specimens. More recently, the application of machine learning (ML) to whole-genome sequences (WGSs) has facilitated pathogen identification. However, relying solely on genetic information to identify emerging or new pathogens is fundamentally constrained, especially if novel virulence factors exist. In addition, even WGSs with ML pipelines are unable to discern phenotypes associated with cryptic genetic loci linked to virulence. Here, we set out to determine if ML using phenotypic hallmarks of pathogenesis could assess potential pathogenic threat without using any sequence-based analysis. This approach successfully classified potential pathogenetic threat associated with previously machine-observed and unobserved bacteria with 99% and 85% accuracy, respectively. This work establishes a phenotype-based pipeline for potential pathogenic threat assessment, which we term PathEngine, and offers strategies for the identification of bacterial pathogens.

Temporal variability contributes to uncertainty in inventories of methane emissions from the natural gas supply chain. Extrapolation of instantaneous, "snapshot-in-time" measurements, for example, can miss temporal intermittency and confound bottom-up/top-down comparisons. Importantly, no continuous long-term datasets record emission variability from underground natural gas storage facilities despite substantial contributions to sector-wide emissions. We present 11 months of continuous observations on a section of a storage site using dual-frequency comb spectroscopy (DCS observing system) and aircraft measurements. We find high emission variability and a skewed distribution in which the 10% highest 3 h emission periods observed by the continuous DCS observing system comprise 41% of the total observed 3-hourly emissions. Monthly emission rates differ by >12×, and 3-hourly rates vary by 17× in 24 h. We find links to the operating phase of the facility-emission rates, including as a percentage of the total gas flow rate, are significantly higher during periods of injection compared to those of withdrawal. We find that if a high frequency of aircraft flights can occur, then the ground- and aircraft-based approaches show excellent agreement in emission distributions. A better understanding of emission variability at underground natural gas storage sites will improve inventories and models of methane emissions and clarify pathways toward mitigation.

We demonstrate velocity measurements using dual frequency comb spectroscopy in a supersonic test engine at various flow conditions with a 1% calculated measurement uncertainty.

Accurate absorption models for gases at high pressure and temperature support advanced optical combustion diagnostics and aid in the study of harsh planetary atmospheres. Developing and validating absorption models for these applications requires recreating the extreme temperature and pressure conditions of these environments in static, uniform, well-known conditions in the laboratory. Here, we present the design of a new gas cell to enable reference-quality absorption spectroscopy at high pressure and temperature. The design centers on a carefully controlled quartz sample cell housed at the core of a pressurized ceramic furnace. The half-meter sample cell is relatively long compared to past high-pressure and -temperature absorption cells, and is surrounded by a molybdenum heat spreader that enables high temperature uniformity over the full length of the absorbing gas. We measure the temperature distribution of the sample gas using in situ thermocouples, and fully characterize the temperature uniformity across a full matrix of temperatures and pressures up to 1000 K and 50 bar. The results demonstrate that the new design enables highly uniform and precisely known temperature and pressure conditions across the full absorbing path length. Uniquely, we test the new gas cell with a broadband (~2500 cm−1), high-resolution (0.0066 cm−1) dual frequency comb spectrometer that enables highly resolved absorption spectroscopy across a wide range of temperature and pressure conditions. With this carefully characterized system, we measure the spectrum of CO2 between 6800 and 7000 cm−1 at pressures between 0.2 and 20 bar, and temperatures up to 1000 K. The measurements reveal discrepancies from spectra predicted by the HITRAN2016 database with a Voigt line shape at both low- and high-pressure conditions. These results motivate future work to expand absorption models and databases to accurately model high-pressure and -temperature spectra in combustion and planetary science research.

Open-path dual-comb spectroscopy (DCS) is an emerging technique for long open-path measurements across km-scale paths. It provides both broad spectral coverage over hundreds of wavenumbers with high spectral resolution and negligible instrument lineshape. In this chapter, we discuss the principle of open-path DCS; provide an overview of the necessary technology and analysis techniques; review field applications including near-infrared (NIR) measurements of urban CO2 emissions, CH4 emissions from drilling and agricultural operations, measurements to a unmanned aerial vehicle, and recent measurements of volatile organic compounds in the mid-infrared (MIR); and finally provide an outlook especially on how this technique can move to additional spectral regions beyond the NIR and MIR.

Advances in natural gas extraction technology have led to increased activity in the production and transport sectors in the United States and, as a consequence, an increased need for reliable monitoring of methane leaks to the atmosphere. We present a statistical methodology in combination with an observing system for the detection and attribution of fugitive emissions of methane from distributed potential source location landscapes such as natural gas production sites. We measure long (> 500 m), integrated open-path concentrations of atmospheric methane using a dual frequency comb spectrometer and combine measurements with an atmospheric transport model to infer leak locations and strengths using a novel statistical method, the non-zero minimum bootstrap (NZMB). The new statistical method allows us to determine whether the empirical distribution of possible source strengths for a given location excludes zero. Using this information, we identify leaking source locations (i.e., natural gas wells) through rejection of the null hypothesis that the source is not leaking. The method is tested with a series of synthetic data inversions with varying measurement density and varying levels of model–data mismatch. It is also tested with field observations of (1) a non-leaking source location and (2) a source location where a controlled emission of 3.1 × 10−5 kg s−1 of methane gas is released over a period of several hours. This series of synthetic data tests and outdoor field observations using a controlled methane release demonstrates the viability of the approach for the detection and sizing of very small leaks of methane across large distances (4+ km2 in synthetic tests). The field tests demonstrate the ability to attribute small atmospheric enhancements of 17 ppb to the emitting source location against a background of combined atmospheric (e.g., background methane variability) and measurement uncertainty of 5 ppb (1σ), when measurements are averaged over 2 min. The results of the synthetic and field data testing show that the new observing system and statistical approach greatly decreases the incidence of false alarms (that is, wrongly identifying a well site to be leaking) compared with the same tests that do not use the NZMB approach and therefore offers increased leak detection and sizing capabilities.

As infrared telescopes are finding evidence of methane in hot exoplanet atmospheres, it is becoming increasingly important to have accurate high-temperature methane absorption models. To evaluate and update several spectroscopic databases (HITRAN2016, HITEMP, ExoMol), we collected laboratory spectra of the methane icosad (6770–7570 cm-1) using a 200 MHz (0.0067 cm-1) dual frequency comb spectrometer. The pure methane data span 18 to 300 Torr and 296 to 1000 K. We found good agreement with the HITRAN2016 model spectrum at room temperature, and substantial mismatch between our spectra and all absorption models at elevated temperature. We present several updates to HITRAN2016 to improve agreement with the measured high-temperature spectra. Specifically, we assign 4283 lower-state energies which had previously been given a default value in HITRAN2016 ( E H I T ″ = 999 cm-1), update existing lower-state energies for 92 features, and add 293 new high-temperature features in order to improve HITRAN2016 above 300 K. Additionally, we update the band-wide line positions by ∼ 0.001 cm-1, the self-widths by +7%, and we estimate band-averaged temperature-dependence exponents for self-width (0.85) and self-shift (0.58). These measurements are an important step towards merging empirical and theoretical high-temperature methane databases, with the goal of enabling better understanding of exoplanet atmospheres.

We present the first quantitative intercomparison between two open-path dual-comb spectroscopy (DCS) instruments which were operated across adjacent 2 km open-air paths over a 2-week period. We used DCS to measure the atmospheric absorption spectrum in the near infrared from 6023 to 6376 cm−1 (1568 to 1660 nm), corresponding to a 355 cm−1 bandwidth, at 0.0067 cm−1 sample spacing. The measured absorption spectra agree with each other to within 5 × 10−4 in absorbance without any external calibration of either instrument. The absorption spectra are fit to retrieve path-integrated concentrations for carbon dioxide (CO2), methane (CH4), water (H2O), and deuterated water (HDO). The retrieved dry mole fractions agree to 0.14 % (0.57 ppm) for CO2, 0.35 % (7 ppb) for CH4, and 0.40 % (36 ppm) for H2O at ∼ 30 s integration time over the 2-week measurement campaign, which included 24 °C outdoor temperature variations and periods of strong atmospheric turbulence. This agreement is at least an order of magnitude better than conventional active-source open-path instrument intercomparisons and is particularly relevant to future regional flux measurements as it allows accurate comparisons of open-path DCS data across locations and time. We additionally compare the open-path DCS retrievals to a World Meteorological Organization (WMO)-calibrated cavity ring-down point sensor located along the path with good agreement. Short-term and long-term differences between the open-path DCS and point sensor are attributed, respectively, to spatial sampling discrepancies and to inaccuracies in the current spectral database used to fit the DCS data. Finally, the 2-week measurement campaign yields diurnal cycles of CO2 and CH4 that are consistent with the presence of local sources of CO2 and absence of local sources of CH4.

We demonstrate the first frequency comb laser absorption spectroscopy in an industrial environment. Recent advancements in robust frequency comb design enabled installation of the sensor in an operating power plant, where we simultaneously measured temperature, H 2 O and CO 2 concentration in the exhaust of a 16 MW stationary gas turbine. The frequency comb laser spectrometer probed 16,000 individual wavelengths of light spaced by 0.007 cm −1 (0.0014 nm) near 1440 nm, spanning 279 absorption features of H 2 O and 43 features of CO 2 . Fits to the measured absorption spectra yield simultaneous temperature, H 2 O and CO 2 concentrations with between 10 and 60 second time resolution. Measurements over a 5 hour period tracked variations in the exhaust consistent with various changes to the gas turbine operation. Much larger wavelength ranges (200+ nm) and different time resolutions are possible depending on the desired precision by changing various settings on the same spectrometer. Overall, this work demonstrates the potential for frequency comb laser absorption spectroscopy in industrial combustion environments.

The multiannual global mean of aerosol optical depth at 550 nm (AOD550) over land is ∼ 0.19, and that over oceans is ∼ 0.13. About 45 % of the Earth surface shows AOD550 smaller than 0.1. There is a need for measurement techniques that are optimized to measure aerosol optical properties under low AOD conditions. We present an inherently calibrated retrieval (i.e., no need for radiance calibration) to simultaneously measure AOD and the aerosol phase function parameter, g, based on measurements of azimuth distributions of the Raman scattering probability (RSP), the near-absolute rotational Raman scattering (RRS) intensity. We employ radiative transfer model simulations to show that for solar azimuth RSP measurements at solar elevation and solar zenith angle (SZA) smaller than 80°, RSP is insensitive to the vertical distribution of aerosols and maximally sensitive to changes in AOD and g under near-molecular scattering conditions. The University of Colorado two-dimensional Multi-AXis Differential Optical Absorption Spectroscopy (CU 2-D-MAX-DOAS) instrument was deployed as part of the Two Column Aerosol Project (TCAP) at Cape Cod, MA, during the summer of 2012 to measure direct sun spectra and RSP from scattered light spectra at solar relative azimuth angles (SRAAs) between 5 and 170°. During two case study days with (1) high aerosol load (17 July, 0.3 430 430 430 and g with data from a co-located CIMEL sun photometer, Multi-Filter Rotating Shadowband Radiometer (MFRSR), and an airborne High Spectral Resolution Lidar (HSRL-2). The average difference (relative to DOAS) for AOD430 is +0.012 ± 0.023 (CIMEL), −0.012 ± 0.024 (MFRSR), −0.011 ± 0.014 (HSRL-2), and +0.023 ± 0.013 (CIMELAOD − MFRSRAOD) and yields the following expressions for correlations between different instruments: DOASAOD = −(0.019 ± 0.006) + (1.03 ± 0.02) × CIMELAOD (R2 = 0.98), DOASAOD = −(0.006 ± 0.005) + (1.08 ± 0.02) × MFRSRAOD (R2 = 0.98), and CIMELAOD = (0.013 ± 0.004) + (1.05 ± 0.01) × MFRSRAOD (R2 = 0.99). The average g measured by DOAS on both days was 0.66 ± 0.03, with a difference of 0.014 ± 0.05 compared to CIMEL. Active steps to minimize the error in the RSP help to reduce the uncertainty in retrievals of AOD and g. As AOD decreases and SZA increases, the RSP signal-to-noise ratio increases. At AOD430 ∼ 0.4 and 0.10 the absolute AOD errors are ∼ 0.014 and 0.003 at 70° SZA and 0.02 and 0.004 at 35° SZA. Inherently calibrated, precise AOD and g measurements are useful to better characterize the aerosol direct effect in urban polluted and remote pristine environments.

Stable carbon isotopic compositions of water-soluble organic carbon (WSOC) and organic molecular markers were measured to investigate the relative contributions of the sea surface sources to the water-soluble fraction of submicron organic aerosols collected over the eastern equatorial Pacific during the Tropical Ocean tRoposphere Exchange of Reactive halogens and Oxygenated VOCs (TORERO)/KA-12-01 cruise. On average, the water-soluble organic fraction of the total carbon (TC) mass in submicron aerosols was ∼ 30–35 % in the oceans with the low chlorophyll a (Chl a) concentrations, whereas it was ∼ 60 % in the high-Chl a regions. The average stable carbon isotope ratio of WSOC (δ13CWSOC) was −19.8 ± 2.0 ‰, which was systematically higher than that of TC (δ13CTC) (−21.8 ± 1.4 ‰). We found that in the oceans with both high and low Chl a concentrations the δ13CWSOC was close to the typical values of δ13C for dissolved organic carbon (DOC), ranging from −22 to −20 ‰ in surface seawater of the tropical Pacific Ocean. This suggests an enrichment of marine biological products in WSOC aerosols in the study region regardless of the oceanic area. In particular, enhanced levels of WSOC and biogenic organic marker compounds together with high values of WSOC / TC ( ∼ 60 %) and δ13CWSOC were observed over upwelling areas and phytoplankton blooms, which was attributed to planktonic tissues being more enriched in δ13C. The δ13C analysis estimated that, on average, marine sources contribute ∼ 90 ± 25 % of the aerosol carbon, indicating the predominance of marine-derived carbon in the submicron WSOC. This conclusion is supported by Lagrangian trajectory analysis, which suggests that the majority of the sampling points on the ship had been exposed to marine boundary layer (MBL) air for more than 80 % of the time during the previous 7 days. The combined analysis of the δ13C and monosaccharides, such as glucose and fructose, demonstrated that DOC concentration was closely correlated with the concentration levels of submicron WSOC across the study region regardless of the oceanic area. The result implies that DOC may characterize background organic aerosols in the MBL over the study region.

The elevated deposition of atmospheric mercury over the southeastern United States is currently not well understood. Here we measure partial columns and vertical profiles of bromine monoxide (BrO) radicals, a key component of mercury oxidation chemistry, to better understand the processes and altitudes at which mercury is being oxidized in the atmosphere. We use data from a ground-based MAX-DOAS instrument located at a coastal site ∼ 1 km from the Gulf of Mexico in Gulf Breeze, FL, where we had previously detected tropospheric BrO (Coburn et al., 2011). Our profile retrieval assimilates information about stratospheric BrO from the WACCM chemical transport model (CTM), and uses only measurements at moderately low solar zenith angles (SZAs) to estimate the BrO slant column density contained in the reference spectrum (SCDRef). The approach has 2.6 degrees of freedom, and avoids spectroscopic complications that arise at high SZA; knowledge about SCDRef further helps to maximize sensitivity in the free troposphere (FT). A cloud-free case study day with low aerosol load (9 April 2010) provided optimal conditions for distinguishing marine boundary layer (MBL: 0–1 km) and free-tropospheric (FT: 1–15 km) BrO from the ground. The average daytime tropospheric BrO vertical column density (VCD) of ∼ 2.3 × 1013 molec cm−2 (SZA 5 molec cm−2 s−1 for bromine, while the contribution from ozone (O3) is 0.8 × 105 molec cm−2 s−1. Chlorine-induced oxidation is estimated to add 2), and to a lesser extent also HO2 radicals. Using a 3-D CTM, we find that surface GOM variations are also typical of other days, and are mainly derived from the FT. Bromine chemistry is active in the FT over Gulf Breeze, where it forms water-soluble GOM that is subsequently available for wet scavenging by thunderstorms or transport to the boundary layer.

The output of a laser frequency comb is composed of 100,000+ perfectly spaced, discrete wavelength elements or comb teeth, that act as a massively parallel set of single frequency (CW) lasers with highly stable, well-known frequencies. In dual-comb spectroscopy, two such frequency combs are interfered on a single detector yielding absorption information for each individual comb tooth. This approach combines the strengths of both cw laser spectroscopy and broadband spectroscopy providing high spectral resolution and broad optical bandwidths, all with a single-mode, high-brightness laser beam and a simple, single photodetector, detection scheme. Here we show that this novel spectroscopy source can be employed for regional (~kilometer squared) monitoring using an array of stationed retros or in conjunction with an unmanned aerial systems (UAS). Both fixed and UAS systems combine the high-precision, multi-species detection capabilities of open-path DCS with the spatial scanning capabilities to enable spatial mapping of atmospheric gas concentrations. The DCS systems measure the atmospheric absorption over long, 100m to 1 km, open air paths with 0.007cm-1 resolution over 1.57 to 1.66 um, covering absorption bands of CO2, CH4, H2O and isotopologues.

Recent advances in frequency comb technology are enabling new applications of laser absorption spectroscopy to practical environments. We describe two such applications-locating and sizing specific methane leaks across large regions, and diagnostic development for high pressure combustion systems.

Halogens in the troposphere are increasingly recognized as playing an important role for atmospheric chemistry, and possibly climate. Bromine and iodine react catalytically to destroy ozone (O3), oxidize mercury, and modify oxidative capacity that is relevant for the lifetime of greenhouse gases. Most of the tropospheric O3 and methane (CH4) loss occurs at tropical latitudes. Here we report simultaneous measurements of vertical profiles of bromine oxide (BrO) and iodine oxide (IO) in the tropical and subtropical free troposphere (10 °N to 40 °S), and show that these halogens are responsible for 34% of the column-integrated loss of tropospheric O3. The observed BrO concentrations increase strongly with altitude (∼ 3.4 pptv at 13.5 km), and are 2-4 times higher than predicted in the tropical free troposphere. BrO resembles model predictions more closely in stratospheric air. The largest model low bias is observed in the lower tropical transition layer (TTL) over the tropical eastern Pacific Ocean, and may reflect a missing inorganic bromine source supplying an additional 2.5-6.4 pptv total inorganic bromine (Bry), or model overestimated Bry wet scavenging. Our results highlight the importance of heterogeneous chemistry on ice clouds, and imply an additional Bry source from the debromination of sea salt residue in the lower TTL. The observed levels of bromine oxidize mercury up to 3.5 times faster than models predict, possibly increasing mercury deposition to the ocean. The halogen-catalyzed loss of tropospheric O3 needs to be considered when estimating past and future ozone radiative effects.

Tropospheric chemistry of halogens and organic carbon over tropical oceans modifies ozone and atmospheric aerosols, yet atmospheric models remain largely untested for lack of vertically resolved measurements of bromine monoxide (BrO), iodine monoxide (IO) and small oxygenated hydrocarbons like glyoxal (CHOCHO) in the tropical troposphere. BrO, IO, glyoxal, nitrogen dioxide (NO2), water vapor (H2O) and O2–O2 collision complexes (O4) were measured by the University of Colorado Airborne Multi-AXis Differential Optical Absorption Spectroscopy (CU AMAX-DOAS) instrument, aerosol extinction by high spectral resolution lidar (HSRL), in situ aerosol size distributions by an ultra high sensitivity aerosol spectrometer (UHSAS) and in situ H2O by vertical-cavity surface-emitting laser (VCSEL) hygrometer. Data are presented from two research flights (RF12, RF17) aboard the National Science Foundation/National Center for Atmospheric Research Gulfstream V aircraft over the tropical Eastern Pacific Ocean (tEPO) as part of the "Tropical Ocean tRoposphere Exchange of Reactive halogens and Oxygenated hydrocarbons" (TORERO) project (January/February 2012). We assess the accuracy of O4 slant column density (SCD) measurements in the presence and absence of aerosols. Our O4-inferred aerosol extinction profiles at 477 nm agree within 6% with HSRL in the boundary layer and closely resemble the renormalized profile shape of Mie calculations constrained by UHSAS at low (sub-Rayleigh) aerosol extinction in the free troposphere. CU AMAX-DOAS provides a flexible choice of geometry, which we exploit to minimize the SCD in the reference spectrum (SCDREF, maximize signal-to-noise ratio) and to test the robustness of BrO, IO and glyoxal differential SCDs. The RF12 case study was conducted in pristine marine and free tropospheric air. The RF17 case study was conducted above the NOAA RV Ka'imimoana (TORERO cruise, KA-12-01) and provides independent validation data from ship-based in situ cavity-enhanced DOAS and MAX-DOAS. Inside the marine boundary layer (MBL) no BrO was detected (smaller than 0.5 pptv), and 0.2–0.55 pptv IO and 32–36 pptv glyoxal were observed. The near-surface concentrations agree within 30% (IO) and 10% (glyoxal) between ship and aircraft. The BrO concentration strongly increased with altitude to 3.0 pptv at 14.5 km (RF12, 9.1 to 8.6° N; 101.2 to 97.4° W). At 14.5 km, 5–10 pptv NO2 agree with model predictions and demonstrate good control over separating tropospheric from stratospheric absorbers (NO2 and BrO). Our profile retrievals have 12–20 degrees of freedom (DoF) and up to 500 m vertical resolution. The tropospheric BrO vertical column density (VCD) was 1.5 × 1013 molec cm−2 (RF12) and at least 0.5 × 1013 molec cm−2 (RF17, 0–10 km, lower limit). Tropospheric IO VCDs correspond to 2.1 × 1012 molec cm−2 (RF12) and 2.5 × 1012 molec cm−2 (RF17) and glyoxal VCDs of 2.6 × 1014 molec cm−2 (RF12) and 2.7 × 1014 molec cm−2 (RF17). Surprisingly, essentially all BrO as well as the dominant IO and glyoxal VCD fraction was located above 2 km (IO: 58 ± 5%, 0.1–0.2 pptv; glyoxal: 52 ± 5%, 3–20 pptv). To our knowledge there are no previous vertically resolved measurements of BrO and glyoxal from aircraft in the tropical free troposphere. The atmospheric implications are briefly discussed. Future studies are necessary to better understand the sources and impacts of free tropospheric halogens and oxygenated hydrocarbons on tropospheric ozone, aerosols, mercury oxidation and the oxidation capacity of the atmosphere.

We present the first quantitative intercomparison between two open-path dual-comb spectroscopy (DCS) instruments which were operated across adjacent 2 km open-air paths over a 2-week period. We used DCS to measure the atmospheric absorption spectrum in the near infrared from 6023 to 6376 cm −1 (1568 to 1660 nm), corresponding to a 355 cm −1 bandwidth, at 0.0067 cm −1 sample spacing. The measured absorption spectra agree with each other to within 5 × 10 −4 in absorbance without any external calibration of either instrument. The absorption spectra are fit to retrieve path-integrated concentrations for carbon dioxide (CO 2 ), methane (CH 4 ), water (H 2 O), and deuterated water (HDO). The retrieved dry mole fractions agree to 0.14 % (0.57 ppm) for CO 2 , 0.35 % (7 ppb) for CH 4 , and 0.40 % (36 ppm) for H 2 O at ∼ 30 s integration time over the 2-week measurement campaign, which included 24 °C outdoor temperature variations and periods of strong atmospheric turbulence. This agreement is at least an order of magnitude better than conventional active-source open-path instrument intercomparisons and is particularly relevant to future regional flux measurements as it allows accurate comparisons of open-path DCS data across locations and time. We additionally compare the open-path DCS retrievals to a World Meteorological Organization (WMO)-calibrated cavity ring-down point sensor located along the path with good agreement. Short-term and long-term differences between the open-path DCS and point sensor are attributed, respectively, to spatial sampling discrepancies and to inaccuracies in the current spectral database used to fit the DCS data. Finally, the 2-week measurement campaign yields diurnal cycles of CO 2 and CH 4 that are consistent with the presence of local sources of CO 2 and absence of local sources of CH 4 .

Recent advancements in mobile frequency comb technology and inverse methods are enabling the location and sizing of small methane leaks across large regions.

Measurements from a field-deployed dual frequency comb spectrometer are coupled with gas transport models in a Bayesian inversion to quantify small, variable trace gas emissions from distances over 1 km.

The University of Colorado Airborne Multi-Axis Differential Optical Absorption Spectroscopy (CU AMAX-DOAS) instrument uses solar stray light to detect and quantify multiple trace gases, including nitrogen dioxide (NO2), glyoxal (CHOCHO), formaldehyde (HCHO), water vapor (H2O), nitrous acid (HONO), iodine monoxide (IO), bromine monoxide (BrO), and oxygen dimers (O4) at multiple wavelengths (absorption bands at 360, 477, 577, 632 nm) simultaneously in the open atmosphere. The instrument is unique as it (1) features a motion compensation system that decouples the telescope field of view from aircraft movements in real time ( The instrument is described, and data from flights over California during the CalNex (California Research at the Nexus of Air Quality and Climate Change) and CARES (Carbonaceous Aerosols and Radiative Effects Study) air quality field campaigns is presented. Horizontal distributions of NO2 VCD (below the aircraft) maps are sampled with typically 1 km resolution, and show good agreement with two ground-based MAX-DOAS instruments (slope = 0.95 ± 0.09, R2 = 0.86). As a case study vertical profiles of NO2, CHOCHO, HCHO, and H2O concentrations and aerosol extinction coefficients, ε, at 477 nm calculated from O4 measurements from a low approach at Brackett airfield inside the South Coast Air Basin (SCAB) are presented. These profiles contain ~12 degrees of freedom (DOF) over a 3.5 km altitude range, an independent information approximately every 250 m. The boundary layer NO2 concentration, and the integral aerosol extinction over height (aerosol optical depth, AOD) agrees well with nearby ground-based in situ NO2 measurement, and AERONET station. The detection limits of NO2, CHOCHO, HCHO, H2O442, ϵ360, ϵ477 for 30 s integration time spectra recorded forward of the plane are 5 ppt, 3 ppt, 100 ppt, 42 ppm, 0.004 km−1, 0.002 km−1 in the free troposphere (FT), and 30 ppt, 16 ppt, 540 ppt, 252 ppm, 0.012 km−1, 0.006 km−1 inside the boundary layer (BL), respectively. Mobile column observations of trace gases and aerosols are complimentary to in situ observations, and help bridge the spatial scales that are probed by satellites and ground-based observations, and predicted by atmospheric models.

Chromophoric water-soluble organic matter in atmospheric aerosols potentially plays an important role in aqueous reactions and light absorption by organics. The fluorescence and chemical-structural characteristics of the chromophoric water-soluble organic matter in submicron aerosols collected in urban, forest, and marine environments (Nagoya, Kii Peninsula, and the tropical Eastern Pacific) were investigated using excitation-emission matrices (EEMs) and a high-resolution aerosol mass spectrometer. A total of three types of water-soluble chromophores, two with fluorescence characteristics similar to those of humiclike substances (HULIS-1 and HULIS-2) and one with fluorescence characteristics similar to those of protein compounds (PLOM), were identified in atmospheric aerosols by parallel factor analysis (PARAFAC) for EEMs. We found that the chromophore components of HULIS-1 and -2 were associated with highly and less-oxygenated structures, respectively, which may provide a clue to understanding the chemical formation or loss of organic chromophores in atmospheric aerosols. Whereas HULIS-1 was ubiquitous in water-soluble chromophores over different environments, HULIS-2 was abundant only in terrestrial aerosols, and PLOM was abundant in marine aerosols. These findings are useful for further studies regarding the classification and source identification of chromophores in atmospheric aerosols.

Recent advancements in robust frequency comb laser design have enabled the first industrial implementations of dual-comb gas sensors. As an example, we demonstrate dual-comb spectroscopy in the exhaust of a 16 MW stationary gas turbine.

Near-infrared frequency-comb spectroscopy is a powerful tool with which to measure absorption of CO 2 , CH 4 , H 2 O over turbulent paths such as meter scale paths in active furnaces or 11 km horizontal paths over cities. Work of the U.S. government, not subject to copyright.

Near-infrared frequency-comb spectroscopy is a powerful tool with which to measure concentrations of gasses relevant to combustion and atmospheric monitoring (CO2, CH4, H2O, HDO) over meter and kilometer scale paths.

We designed and assembled the University of Colorado Ground Multi AXis Differential Optical Absorption Spectroscopy (CU GMAX-DOAS) instrument to retrieve bromine oxide (BrO), iodine oxide (IO), formaldehyde (HCHO), glyoxal (CHOCHO), nitrogen dioxide (NO2) and the oxygen dimer (O4) in the coastal atmosphere of the Gulf of Mexico. The detection sensitivity of DOAS measurements is proportional to the root mean square (RMS) of the residual spectrum that remains after all absorbers have been subtracted. Here we describe the CU GMAX-DOAS instrument and demonstrate that the hardware is capable of attaining RMS of ∼6 × 10−6 from solar stray light noise tests using high photon count spectra (compatible within a factor of two with photon shot noise). Laboratory tests revealed two critical instrument properties that, in practice, can limit the RMS: (1) detector non-linearity noise, RMSNLin, and (2) temperature fluctuations that cause variations in optical resolution (full width at half the maximum, FWHM, of atomic emission lines) and give rise to optical resolution noise, RMSFWHM. The non-linearity of our detector is low (∼10−2) yet – unless actively controlled – is sufficiently large to create RMSNLin of up to 2 × 10−4. The optical resolution is sensitive to temperature changes (0.03 detector pixels °C−1 at 334 nm), and temperature variations of 0.1°C can cause RMSFWHM of ~1 × 10−4. Both factors were actively addressed in the design of the CU GMAX-DOAS instrument. With an integration time of 60 s the instrument can reach RMS noise of 3 × 10−5, and typical RMS in field measurements ranged from 6 × 10−5 to 1.4 × 10−4. The CU GMAX-DOAS was set up at a coastal site near Pensacola, Florida, where we detected BrO, IO and CHOCHO in the marine boundary layer (MBL), with daytime average tropospheric vertical column densities (average of data above the detection limit), VCDs, of ∼2 × 1013 molec cm−2, 8 × 1012 molec cm−2 and 4 × 1014 molec cm−2, respectively. HCHO and NO2 were also detected with typical MBL VCDs of 1 × 1016 and 3 × 1015 molec cm−2. These are the first measurements of BrO, IO and CHOCHO over the Gulf of Mexico. The atmospheric implications of these observations for elevated mercury wet deposition rates in this area are briefly discussed. The CU GMAX-DOAS has great potential to investigate RMS-limited problems, like the abundance and variability of trace gases in the MBL and possibly the free troposphere (FT).

We present the first detection of glyoxal (CHOCHO) over the remote tropical Pacific Ocean in the Marine Boundary Layer (MBL). The measurements were conducted by means of the University of Colorado Ship Multi-Axis Differential Optical Absorption Spectroscopy (CU SMAX-DOAS) instrument aboard the research vessel Ronald H. Brown. The research vessel was on a cruise in the framework of the VAMOS Ocean-Cloud-Atmosphere-Land Study – Regional Experiment (VOCALS-REx) and the Tropical Atmosphere Ocean (TAO) projects lasting from October 2008 through January 2009 (74 days at sea). The CU SMAX-DOAS instrument features a motion compensation system to characterize the pitch and roll of the ship and to compensate for ship movements in real time. We found elevated mixing ratios of up to 140 ppt CHOCHO located inside the MBL up to 3000 km from the continental coast over biologically active upwelling regions of the tropical Eastern Pacific Ocean. This is surprising since CHOCHO is very short lived (atmospheric life time ~2 h) and highly water soluble (Henry's Law constant H = 4.2 × 105 M/atm). This CHOCHO cannot be explained by transport of it or its precursors from continental sources. Rather, the open ocean must be a source for CHOCHO to the atmosphere. Dissolved Organic Matter (DOM) photochemistry in surface waters is a source for Volatile Organic Compounds (VOCs) to the atmosphere, e.g. acetaldehyde. The extension of this mechanism to very soluble gases, like CHOCHO, is not straightforward since the air-sea flux is directed from the atmosphere into the ocean. For CHOCHO, the dissolved concentrations would need to be extremely high in order to explain our gas-phase observations by this mechanism (40–70 μM CHOCHO, compared to ~0.01 μM acetaldehyde and 60–70 μM DOM). Further, while there is as yet no direct measurement of VOCs in our study area, measurements of the CHOCHO precursors isoprene, and/or acetylene over phytoplankton bloom areas in other parts of the oceans are too low (by a factor of 10–100) to explain the observed CHOCHO amounts. We conclude that our CHOCHO data cannot be explained by currently understood processes. Yet, it supports first global source estimates of 20 Tg/year CHOCHO from the oceans, which likely is a significant source of secondary organic aerosol (SOA). This chemistry is currently not considered by atmospheric models.

Identification and quantification of trace-gas sources is a major challenge for understanding and regulating air quality and greenhouse gas emissions. Current approaches provide either continuous but localized monitoring, or quasi-instantaneous “snapshot-in-time” regional monitoring. There is a need for emissions detection that provides both continuous and regional coverage, because sources and sinks can be episodic and spatially variable. We field deploy a dual frequency comb laser spectrometer for the first time, enabling an observing system that provides continuous detection of trace-gas sources over multiple-square-kilometer regions. Field tests simulating methane emissions from oil and gas production demonstrate detection and quantification of a 1.6 g min−1 source (less than the average emissions from a small pneumatic controller) from a distance of 1 km, and the ability to discern two leaks among a field of many potential sources. The technology achieves the goal of detecting, quantifying, and attributing emissions sources continuously through time, over large areas, and at emissions rates ∼1000× lower than current regional approaches. It therefore provides a useful tool for monitoring and mitigating undesirable sources and closes a major information gap in the atmospheric sciences.

Tropospheric chemistry of halogens and organic carbon over tropical oceans modifies ozone and atmospheric aerosols, yet atmospheric models remain largely untested for lack of vertically resolved measurements of bromine monoxide (BrO), iodine monoxide (IO), and small oxygenated hydrocarbons like glyoxal (CHOCHO) in the tropical troposphere. BrO, IO, glyoxal, nitrogen dioxide (NO2), water vapor (H2O) and O2-O2 collision complexes (O4) were measured by the CU Airborne Multi AXis Differential Optical Absorption Spectroscopy (CU AMAX-DOAS) instrument, in situ aerosol size distributions by an Ultra High Sensitivity Aerosol Spectrometer (UHSAS), and in situ H2O by Vertical-Cavity Surface-Emitting Laser hygrometer (VCSEL). Data are presented from two research flights (RF12, RF17) aboard the NSF/NCAR GV aircraft over the tropical Eastern Pacific Ocean (tEPO) as part of the "Tropical Ocean tRoposphere Exchange of Reactive halogens and Oxygenated hydrocarbons" (TORERO) project. We assess the accuracy of O4 slant column density (SCD) measurements in the presence and absence of aerosols, and find O4-inferred aerosol extinction profiles at 477 nm agree within 5% with Mie calculations of extinction profiles constrained by UHSAS. CU AMAX-DOAS provides a flexible choice of geometry which we exploit to minimize the SCD in the reference spectrum (SCDREF, maximize signal-to-noise), and to test the robustness of BrO, IO, and glyoxal differential SCDs. The RF12 case study was conducted in pristine marine and free tropospheric air. The RF17 case study was conducted above the NOAA RV Ka'imimoana (TORERO cruise, KA-12-01), and provides independent validation data from ship-based in situ Cavity Enhanced- and MAX-DOAS. Inside the marine boundary layer (MBL) no BrO was detected (smaller than 0.5 pptv), and 0.2–0.55 pptv IO and 32–36 pptv glyoxal were observed. The near surface concentrations agree within 20% (IO) and 10% (glyoxal) between ship and aircraft. The BrO concentration strongly increased with altitude to 3.0 pptv at 14.5 km (RF12, 9.1 to 8.6° N; 101.2 to 97.4° W). At 14.5 km 5–10 pptv NO2 agree with model predictions, and demonstrate good control over separating tropospheric from stratospheric absorbers (NO2 and BrO). Our profile retrievals have 12–20 degrees of freedom (DoF), and up to 500 m vertical resolution. The tropospheric BrO VCD was 1.5 × 1013 molec cm−2 (RF12), and at least 0.5 × 1013 molec cm−2 (RF17, 0–10 km, lower limit). Tropospheric IO VCDs correspond to 2.1 × 1012 molec cm−2 (RF12) and 2.5 × 1012 molec cm−2 (RF17), and glyoxal VCDs of 2.6 × 1014 molec cm−2 (RF12) and 2.7 × 1014 molec cm−2 (RF17). Surprisingly, essentially all BrO, and the dominant IO and glyoxal VCD fraction was located above 2 km (IO: 58 ± 5%, 0.1–0.2 pptv; glyoxal: 52 ± 5%, 3–20 pptv). To our knowledge there are no previous vertically resolved measurements of BrO and glyoxal from aircraft in the tropical free troposphere.

Here we present first eddy covariance (EC) measurements of fluxes of glyoxal, the smallest α-dicarbonyl product of hydrocarbon oxidation, and a precursor for secondary organic aerosol (SOA). The unique physical and chemical properties of glyoxal – i.e., high solubility in water (effective Henry's law constant, KH = 4.2 × 105 M atm−1) and short atmospheric lifetime (~2 h at solar noon) – make it a unique indicator species for organic carbon oxidation in the marine atmosphere. Previous reports of elevated glyoxal over oceans remain unexplained by atmospheric models. Here we describe a Fast Light-Emitting Diode Cavity-Enhanced Differential Optical Absorption Spectroscopy (Fast LED-CE-DOAS) instrument to measure diurnal variations and EC fluxes of glyoxal and inform about its unknown sources. The fast in situ sensor is described, and first results are presented from a cruise deployment over the eastern tropical Pacific Ocean (20° N to 10° S; 133 to 85° W) as part of the Tropical Ocean tRoposphere Exchange of Reactive halogens and Oxygenated VOCs (TORERO) field experiment (January to March 2012). The Fast LED-CE-DOAS is a multispectral sensor that selectively and simultaneously measures glyoxal (CHOCHO), nitrogen dioxide (NO2), oxygen dimers (O4), and water vapor (H2O) with ~2 Hz time resolution (Nyquist frequency ~1 Hz) and a precision of ~40 pptv Hz−0.5 for glyoxal. The instrument is demonstrated to be a "white-noise" sensor suitable for EC flux measurements. Fluxes of glyoxal are calculated, along with fluxes of NO2, H2O, and O4, which are used to aid the interpretation of the glyoxal fluxes. Further, highly sensitive and inherently calibrated glyoxal measurements are obtained from temporal averaging of data (e.g., detection limit smaller than 2.5 pptv in an hour). The campaign average mixing ratio in the Southern Hemisphere (SH) is found to be 43 ± 9 pptv glyoxal, which is higher than the Northern Hemisphere (NH) average of 32 ± 6 pptv (error reflects variability over multiple days). The diurnal variation of glyoxal in the marine boundary layer (MBL) is measured for the first time, and mixing ratios vary by ~8 pptv (NH) and ~12 pptv (SH) over the course of 24 h. Consistently, maxima are observed at sunrise (NH: 35 ± 5 pptv; SH: 47 ± 7 pptv), and minima at dusk (NH: 27 ± 5 pptv; SH: 35 ± 8 pptv). In both hemispheres, the daytime flux was directed from the atmosphere into the ocean, indicating that the ocean is a net sink for glyoxal during the day. After sunset the ocean was a source for glyoxal to the atmosphere (positive flux) in the SH; this primary ocean source was operative throughout the night. In the NH, the nighttime flux was positive only shortly after sunset and negative during most of the night. Positive EC fluxes of soluble glyoxal over oceans indicate the presence of an ocean surface organic microlayer (SML) and locate a glyoxal source within the SML. The origin of most atmospheric glyoxal, and possibly other oxygenated hydrocarbons over tropical oceans, remains unexplained and warrants further investigation.

The University of Colorado Airborne Multi Axis Differential Optical Absorption Spectroscopy (CU AMAX-DOAS) instrument uses solar stray light remote sensing to detect and quantify multiple trace gases, including nitrogen dioxide (NO2), glyoxal (CHOCHO), formaldehyde (HCHO), water vapor (H2O), nitrous acid (HONO), iodine monoxide (IO), bromine monoxide (BrO), and oxygen dimers (O4) at multiple wavelengths (360 nm, 477 nm, 577 nm and 632 nm) simultaneously, and sensitively in the open atmosphere. The instrument is unique, in that it presents the first systematic implementation of MAX-DOAS on research aircraft, i.e. (1) includes measurements of solar stray light photons from nadir, zenith, and multiple elevation angles forward and below the plane by the same spectrometer/detector system, and (2) features a motion compensation system that decouples the telescope field of view (FOV) from aircraft movements in real-time (< 0.35° accuracy). Sets of solar stray light spectra collected from nadir to zenith scans provide some vertical profile information within 2 km above and below the aircraft altitude, and the vertical column density (VCD) below the aircraft is measured in nadir view. Maximum information about vertical profiles is derived simultaneously for trace gas concentrations and aerosol extinction coefficients over similar spatial scales and with a vertical resolution of typically 250 m during aircraft ascent/descent. The instrument is described, and data from flights over California during the CalNex and CARES air quality field campaigns is presented. Horizontal distributions of NO2 VCDs (below the aircraft) maps are sampled with typically 1 km resolution, and show good agreement with two ground based CU MAX-DOAS instruments (slope 0.95 ± 0.09, R2 = 0.86). As a case study vertical profiles of NO2, CHOCHO, HCHO, and H2O mixing ratios and aerosol extinction coefficients, ε, at 477nm calculated from O4 measurements from a low approach at Brackett airfield inside the South Coast Air Basin (SCAB) are presented. These profiles contain ~ 12 degrees of freedom (DOF) over a 3.5 km altitude range, independent of signal-to-noise at which the trace gas is detected. The boundary layer NO2 concentration, and the integral aerosol extinction over height (aerosol optical depth, AOD) agrees well with nearby ground-based in-situ NO2 measurement, and AERONET station. The detection limits of NO2, CHOCHO, HCHO, ε360, ε477 from 30 s integration time spectra recorded forward of the plane are 5 ppt, 3 ppt, 100 ppt, 0.004 km−1, 0.002 km−1 in the free troposphere (FT), and 30 ppt, 16 ppt, 540 ppt, 0.012 km−1, 0.006 km−1 inside the boundary layer (BL), respectively. Mobile column observations of trace gases and aerosols are complimentary to in-situ observations, and help bridge the spatial scales probed by ground-based observations, satellites, and predicted by atmospheric models.

We designed and assembled the University of Colorado Ground Multi AXis Differential Optical Absorption Spectroscopy (CU GMAX-DOAS) instrument to retrieve bromine oxide (BrO), iodine oxide (IO), formaldehyde (HCHO), glyoxal (CHOCHO), nitrogen dioxide (NO2) and the oxygen dimer O4 in the coastal atmosphere of the Gulf of Mexico. The detection sensitivity of DOAS measurements is directly proportional to the root mean square (RMS) of the residual spectrum that remains after all absorbers have been subtracted. Here we describe the CU GMAX-DOAS instrument and demonstrate that the hardware is capable of attaining RMS values of ~6 × 10-6 without apparent limitations other than photon shot noise. Laboratory tests revealed two factors that, in practice, limit the RMS: (1) detector non-linearity noise, RMSNLin, and (2) temperature fluctuations that cause variations in optical resolution (full width at half the maximum, FWHM, of atomic emission lines) and give rise to optical resolution noise, RMSFWHM. The non-linearity of our detector is low (~10−3) yet – unless actively controlled – is sufficiently large to create a RMSNLin limit of up to 1.4 × 10-4. The optical resolution is sensitive to temperature changes (0.03 detector pixels/°C at 334 nm), and temperature variations of 0.1 °C can cause residual RMSFWHM of ~1 × 10-4. Both factors were actively addressed in the design of the CU GMAX-DOAS instrument. The CU GMAX-DOAS was set up at a coastal site near Pensacola, FL, where we detected BrO, IO and CHOCHO in the marine boundary layer (MBL), with daytime average tropospheric vertical column densities, VCDs, of ~2 × 1013 molec cm−2, 8 × 1012 molec cm−2 and 4 × 1014 molec cm−2, respectively. HCHO and NO2 were also detected with typical MBL VCDs of 1 × 1016 and 3 × 1015. These are the first measurements of BrO, IO and CHOCHO over the Gulf of Mexico. The atmospheric implications of these observations for elevated mercury wet deposition rates in this area are briefly discussed. The CU GMAX-DOAS has great potential to investigate RMS-limited problems, like the abundance and variability of trace gases in the MBL and possibly the free troposphere (FT).

Multi AXis Differential Optical Absorption Spectroscopy (MAX-DOAS) instruments, as solar straylight satellites, require an accurate characterization and elimination of Fraunhofer lines from solar straylight spectra to measure the atmospheric column abundance of reactive gases that destroy toxic and heat trapping ozone and form climate cooling aerosols, like glyoxal (CHOCHO), iodine oxide (IO), or bromine oxide (BrO). The currently achievable noise levels with state-of-the-art DOAS instruments are limited to δ' DL ≈ 10- 4 (noise equivalent differential optical density, 8'); further noise reductions are typically not straightforward, and the reason for this barrier is not well understood. Here we demonstrate that the nonlinearity of state-of-the-art CCD detectors poses a limitation to accurately characterize Fraunhofer lines; the incomplete elimination of Fraunhofer lines is found to cause residual structures of δ' ≈ 10 -4 , and only partially accounted by fitting of an "offset" spectrum. We have developed a novel software tool, the CU Data Acquisition Code that overcomes this barrier by actively controlling the CCD saturation level, and demonstrates that 8' DL on the order of 10 -5 are possible without apparent limitations from the presence of Fraunhofer lines. The software also implements active control of the elevation angle (angle with respect to the horizon) by means of a Motion Compensation System for use with mobile MAX-DOAS deployments from ships and aircraft. Finally, a novel approach to convert slant column densities into line-of-sight averaged concentrations is discussed.

We present the results of a single-blind field test assessing the capability of a dual-frequency comb spectrometer coupled with atmospheric inversion methods for detecting and quantifying methane emissions from natural gas production infrastructure.