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Sullivan, John T.

Publications and source records attributed to Sullivan, John T..

Rhizobial Secretion of Truncated Exopolysaccharides Severely Impairs the Mesorhizobium-Lotus Symbiosis

The symbiosis between Mesorhizobium japonicum R7A and Lotus japonicus Gifu is an important model system for investigating the role of bacterial exopolysaccharides (EPS) in plant-microbe interactions. Previously, we showed that R7A exoB mutants that are affected at an early stage of EPS synthesis and in lipopolysaccharide (LPS) synthesis induce effective nodules on L. japonicus Gifu after a delay, whereas exoU mutants affected in the biosynthesis of the EPS side chain induce small uninfected nodule primordia and are impaired in infection. The presence of a halo around the exoU mutant when grown on Calcofluor-containing media suggested the mutant secreted a truncated version of R7A EPS. A nonpolar ΔexoA mutant defective in the addition of the first glucose residue to the EPS backbone was also severely impaired symbiotically. Here, we used a suppressor screen to show that the severe symbiotic phenotype of the exoU mutant was due to the secretion of an acetylated pentasaccharide, as both monomers and oligomers, by the same Wzx/Wzy system that transports wild-type exopolysaccharide. We also present evidence that the ΔexoA mutant secretes an oligosaccharide by the same transport system, contributing to its symbiotic phenotype. In contrast, ΔexoYF and polar exoA and exoL mutants have a similar phenotype to exoB mutants, forming effective nodules after a delay. These studies provide substantial evidence that secreted incompatible EPS is perceived by the plant, leading to abrogation of the infection process.

59 BASIC BIOLOGICAL SCIENCES↗

A glycan receptor kinase facilitates intracellular accommodation of arbuscular mycorrhiza and symbiotic rhizobia in the legume Lotus japonicus

Receptors that distinguish the multitude of microbes surrounding plants in the environment enable dynamic responses to the biotic and abiotic conditions encountered. In this study, we identify and characterise a glycan receptor kinase, EPR3a, closely related to the exopolysaccharide receptor EPR3. Epr3a is up-regulated in roots colonised by arbuscular mycorrhizal (AM) fungi and is able to bind glucans with a branching pattern characteristic of surface-exposed fungal glucans. Expression studies with cellular resolution show localised activation of the Epr3a promoter in cortical root cells containing arbuscules. Fungal infection and intracellular arbuscule formation are reduced in epr3a mutants. In vitro , the EPR3a ectodomain binds cell wall glucans in affinity gel electrophoresis assays. In microscale thermophoresis (MST) assays, rhizobial exopolysaccharide binding is detected with affinities comparable to those observed for EPR3, and both EPR3a and EPR3 bind a well-defined β-1,3/β-1,6 decasaccharide derived from exopolysaccharides of endophytic and pathogenic fungi. Both EPR3a and EPR3 function in the intracellular accommodation of microbes. However, contrasting expression patterns and divergent ligand affinities result in distinct functions in AM colonisation and rhizobial infection in Lotus japonicus . The presence of Epr3a and Epr3 genes in both eudicot and monocot plant genomes suggest a conserved function of these receptor kinases in glycan perception.

59 BASIC BIOLOGICAL SCIENCES↗

TRACER NASA Goddard Space Flight Center TOLNet Field Campaign Report

In September 2021, the National Aeronautics and Space Administration (NASA) deployed assets to the Houston, Texas region to measure air-quality-relevant constituents at high spatial and temporal resolutions. This effort was conducted in partnership with the Texas Commission on Environmental Quality, the U.S. Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) user facility-led Tracking Aerosol Convection interactions ExpeRiment (TRACER) field campaign, and several academic collaborators.

54 ENVIRONMENTAL SCIENCES↗

Kinetic proofreading of lipochitooligosaccharides determines signal activation of symbiotic plant receptors

Plant cell surface receptors perceive carbohydrate signaling molecules and hereby establish communication with surrounding microbes. Genetic studies have identified two different classes of lysin motif receptor kinases as gatekeepers that together trigger the symbiotic pathway in plants; however, no structural or functional data of the perception mechanisms switching these receptors from resting state into activation is known. In this study, we use structural biology, biochemical, and genetic approaches to demonstrate how the NFP/NFR5 class of lipochitooligosaccharide (LCO) receptors discriminate bacterial symbionts based on a kinetic proofreading mechanism that controls receptor activation and signaling specificity. We show that the LCO binding site can be engineered to support symbiotic functions, which greatly advance future opportunities for receptor engineering in legumes and nonlegumes.

59 BASIC BIOLOGICAL SCIENCES↗

Structural signatures in EPR3 define a unique class of plant carbohydrate receptors

Abstract Receptor-mediated perception of surface-exposed carbohydrates like lipo- and exo-polysaccharides (EPS) is important for non-self recognition and responses to microbial associated molecular patterns in mammals and plants. In legumes, EPS are monitored and can either block or promote symbiosis with rhizobia depending on their molecular composition. To establish a deeper understanding of receptors involved in EPS recognition, we determined the structure of the Lotus japonicus ( Lotus ) exopolysaccharide receptor 3 (EPR3) ectodomain. EPR3 forms a compact structure built of three putative carbohydrate-binding modules (M1, M2 and LysM3). M1 and M2 have unique βαββ and βαβ folds that have not previously been observed in carbohydrate binding proteins, while LysM3 has a canonical βααβ fold. We demonstrate that this configuration is a structural signature for a ubiquitous class of receptors in the plant kingdom. We show that EPR3 is promiscuous, suggesting that plants can monitor complex microbial communities though this class of receptors.

59 BASIC BIOLOGICAL SCIENCES↗

Ozonesonde Quality Assurance: JOSIE-SHADOZ (2017) and SHALLOTS (2018)

Ozonesonde data constitute a mainstay of satellite calibration and are used for climatologies and analysis of trends, especially in the lower stratosphere where satellites are most uncertain. The electrochemical-concentration cell (ECC) ozonesonde has been deployed at ~100 stations worldwide since the 1960s, with changes over time in manufacture and procedures, including details of the cell chemical solution and data processing. As a consequence, there are biases among different stations and discontinuities in profile timeseries from individual site records. Since 1996 the Jülich [Germany] Ozone Sonde Intercomparison Experiment (JOSIE) has periodically tested ozonesondes in a simulation chamber designated the World Calibration Centre for Ozonesondes by WMO. In October- November 2017 a JOSIE campaign evaluated the sondes and procedures used in SHADOZ (Southern Hemisphere Additional Ozonesondes), a 14-station tropical and subtropical network. A distinctive feature of the 2017 JOSIE was that the tests were conducted by operators from eight SHADOZ stations; Nairobi, Natal, Irene, Costa Rica, Paramaribo, Reunion, Hanoi, Kuala Lumpur. Experimental protocols and preliminary results for the SHADOZ sonde configurations, which represent most of those in use today, are described. SHADOZ stations that follow WMO-recommended protocols record total ozone within 3% of the JOSIE reference instrument. Instrument biases noted in prior JOSIE and field tests like BESOS (2004) were noted in JOSIE-2017, with maximum effect in the stratosphere. In June 2018 we organized a series of dual launches during the OWLETS II campaign in the Maryland and Chesapeake Bay area (SHALLOTS = SHADOZ-OWLETS ParaLLel Ozonesonde Test Study). Instrument and solution types were varied as in JOSIE-2017 and three radiosonde-ozonesonde variants were tested. An example of a parallel sampling in SHALLOTS, from a Greenbelt EnSCI-iMet sonde combination flown with the Wallops SPCLMS package, is illustrated in the Figure. The result was a range of biases but in general the instrument combination (EnSCI-iMet) deployed at 11 SHADOZ stations recorded ~5-10% less ozone in the stratosphere than the SPC ECC sonde flown with a Vaisala or LMS system. These 2017 and 2018 results and prior JOSIEs demonstrate that regular testing is essential to maintain best practices in ozonesonde operations and to ensure high-quality data for the ozone assessment communities.

Quality assurance↗

Lidar Validation Measurements at the NOAA Mauna Loa Observatory NDACC Station

NASA's Goddard Space Flight Center (GSFC) transported two lidar instruments to the NOAA facility at the Mauna Loa Observatory (MLO) on the Big Island of Hawaii, to participate in an official, extended validation campaign. This site is situated 11,141 ft. above sea level on the side of the mountain. The observatory has been making atmospheric measurements regularly since the 1950's, and has hosted the GSFC Stratospheric Ozone (STROZ) Lidar and the GSFC Aerosol and Temperature (AT) Lidar on several occasions, most recently between November, 2012 and November, 2015. The purpose of this extended deployment was to participate in Network for the Detection of Atmospheric Composition Change (NDACC) Validation campaigns with the JPL Stratospheric Ozone Lidar and the NOAA Temperature, Aerosol and Water Vapor instruments as part of the routine NDACC Validation Protocol.

Lidar↗

The Ozone Water-Land Environmental Transition Study: An Innovative Strategy for Understanding Chesapeake Bay Pollution Events

Coastal regions have historically represented a significant challenge for air quality investigations because of water-land boundary transition characteristics and a paucity of measurements available over water. Prior studies have identified the formation of high levels of ozone over water bodies, such as the Chesapeake Bay, that can potentially recirculate back over land to significantly impact populated areas. Earth-observing satellites and forecast models face challenges in capturing the coastal transition zone where small-scale meteorological dynamics are complex and large changes in pollutants can occur on very short spatial and temporal scales. An observation strategy is presented to synchronously measure pollutants “over land” and “over water” to provide a more complete picture of chemical gradients across coastal boundaries for both the needs of state and local environmental management and new remote sensing platforms. Intensive vertical profile information from ozone lidar systems and ozonesondes, obtained at two main sites, one over land and the other over water, are complemented by remote sensing and in situ observations of air quality from ground-based, airborne (both personned and unpersonned), and shipborne platforms. These observations, coupled with reliable chemical transport simulations, such as the National Oceanic and Atmospheric Administration (NOAA) National Air Quality Forecast Capability (NAQFC), are expected to lead to a more fully characterized and complete land–water interaction observing system that can be used to assess future geostationary air quality instruments, such as the National Aeronautics and Space Administration (NASA) Tropospheric Emissions: Monitoring of Pollution (TEMPO), and current low-Earth-orbiting satellites, such as the European Space Agency’s Sentinel-5 Precursor (S5-P) with its Tropospheric Monitoring Instrument (TROPOMI).

Forecast Models↗

Quantifying TOLNet Ozone Lidar Accuracy During the 2014 DISCOVER-AQ and FRAPPE Campaigns

The Tropospheric Ozone Lidar Network (TOLNet) is a unique network of lidar systems that measure high-resolution atmospheric profiles of ozone. The accurate characterization of these lidars is necessary to determine the uniformity of the network calibration. From July to August 2014, three lidars, the TROPospheric OZone (TROPOZ) lidar, the Tunable Optical Profiler for Aerosol and oZone (TOPAZ) lidar, and the Langley Mobile Ozone Lidar (LMOL), of TOLNet participated in the Deriving Information on Surface conditions from Column and Vertically Resolved Observations Relevant to Air Quality (DISCOVER-AQ) mission and the Front Range Air Pollution and Photochemistry Experiment (FRAPPA) to measure ozone variations from the boundary layer to the top of the troposphere. This study presents the analysis of the intercomparison between the TROPOZ, TOPAZ, and LMOL lidars, along with comparisons between the lidars and other in situ ozone instruments including ozonesondes and a P-3B airborne chemiluminescence sensor. The TOLNet lidars measured vertical ozone structures with an accuracy generally better than +/-15 % within the troposphere. Larger differences occur at some individual altitudes in both the near-field and far-field range of the lidar systems, largely as expected. In terms of column average, the TOLNet lidars measured ozone with an accuracy better than +/-5 % for both the intercomparison between the lidars and between the lidars and other instruments. These results indicate that these three TOLNet lidars are suitable for use in air quality, satellite validation, and ozone modeling efforts.

TOLNet↗

Lidar Observations Revealing Transport of O3 in the Presence of a Nocturnal Low-Level Jet: Regional Implications for "Next-Day" Pollution

Remotely sensed profiles of ozone (O3) and wind are presented continuously for the first time during anocturnal low-level jet (NLLJ) event occurring after a severe O3 episode in the Baltimore-Washington D.C.(BW) urban corridor throughout 11-12 June 2015. High-resolution O3 lidar observations indicate a well mixedand polluted daytime O3 reservoir, which decayed into a contaminated nocturnal residual layer(RL) with concentrations between 70 and 100 ppbv near 1 km above the surface. Observations indicatethe onset of the NLLJ was responsible for transporting polluted O3 away from the region, while simultaneouslyaffecting the height and location of the nocturnal residual layer. High-resolution modelinganalyses and next-day (12 June) lidar, surface, and balloon-borne observations indicate the trajectory ofthe NLLJ and polluted residual layer corresponds with ''next-day'' high O3 at sites throughout thesouthern New England region (New York, Connecticut, Massachusetts). The novel O3 lidar observationsare evidence of both nocturnal advection (via high NLLJ wind fields) and entrainment of the pollutedresidual layer in the presence of the ''next-day'' convectively growing boundary layer. In the greatercontext, the novel observational suite described in this work has shown that the chemical budget in areasdownwind of major urban centers can be altered significantly overnight during transport events such asthe NLLJ.

ozone↗

Evaluating A Priori Ozone Profile Information Used in TEMPO Tropospheric Ozone Retrievals

Ozone (O3) is a greenhouse gas and toxic pollutant which plays a major role in air quality. Typically, monitoring of surface air quality and O3 mixing ratios is primarily conducted using in situ measurement networks. This is partially due to high-quality information related to air quality being limited from space-borne platforms due to coarse spatial resolution, limited temporal frequency, and minimal sensitivity to lower tropospheric and surface-level O3. The Tropospheric Emissions: Monitoring of Pollution (TEMPO) satellite is designed to address these limitations of current space-based platforms and to improve our ability to monitor North American air quality. TEMPO will provide hourly data of total column and vertical profiles of O3 with high spatial resolution to be used as a near-real-time air quality product. TEMPO O3 retrievals will apply the Smithsonian Astrophysical Observatory profile algorithm developed based on work from GOME, GOME-2, and OMI. This algorithm uses a priori O3 profile information from a climatological data-base developed from long-term ozone-sonde measurements (tropopause-based (TB) O3 climatology). It has been shown that satellite O3 retrievals are sensitive to a priori O3 profiles and covariance matrices. During this work we investigate the climatological data to be used in TEMPO algorithms (TB O3) and simulated data from the NASA GMAO Goddard Earth Observing System (GEOS-5) Forward Processing (FP) near-real-time (NRT) model products. These two data products will be evaluated with ground-based lidar data from the Tropospheric Ozone Lidar Network (TOLNet) at various locations of the US. This study evaluates the TB climatology, GEOS-5 climatology, and 3-hourly GEOS-5 data compared to lower tropospheric observations to demonstrate the accuracy of a priori information to potentially be used in TEMPO O3 algorithms. Here we present our initial analysis and the theoretical impact on TEMPO retrievals in the lower troposphere.

ozone↗

Quantifying the Contribution of Thermally Driven Recirculation to a High-Ozone Event Along the Colorado Front Range Using Lidar

A high-ozone (O3) pollution episode was observed on 22 July 2014 during the concurrent Deriving Information on Surface Conditions from Column and Vertically Resolved Observations Relevant to Air Quality (DISCOVER-AQ) and Front Range Air Pollution and Photochemistry Experiment (FRAPPE) campaigns in northern Colorado. Surface O3 monitors at three regulatory sites exceeded the Environmental Protection Agency (EPA) 2008 National Ambient Air Quality Standard (NAAQS) daily maximum 8h average (MDA8) of 75ppbv. To further characterize the polluted air mass and assess transport throughout the event, measurements are presented from O3 and wind profilers, O3-sondes, aircraft, and surface-monitoring sites. Observations indicate that thermally driven upslope flow was established throughout the Colorado Front Range during the pollution episode. As the thermally driven flow persisted throughout the day, O3 concentrations increased and affected high-elevation Rocky Mountain sites. These observations, coupled with modeling analyses, demonstrate a westerly return flow of polluted air aloft, indicating that the mountain-plains solenoid circulation was established and impacted surface conditions within the Front Range.

Front Range Air Pollution and Photochemistry Exper↗

Ozone Lidar Observations for Air Quality Studies

Tropospheric ozone lidars are well suited to measuring the high spatio-temporal variability of this important trace gas. Furthermore, lidar measurements in conjunction with balloon soundings, aircraft, and satellite observations provide substantial information about a variety of atmospheric chemical and physical processes. Examples of processes elucidated by ozone-lidar measurements are presented, and modeling studies using WRF-Chem, RAQMS, and DALES/LES models illustrate our current understanding and shortcomings of these processes.

Ozone↗

Characterizing the Vertical Processes of Ozone in Colorado's Front Range Using the GSFC Ozone Dial

Although characterizing the interactions of ozone throughout the entire troposphere are important for health and climate processes, there is a lack of routine measurements of vertical profiles within the United States. In order to monitor this lower ozone more effectively, the National Aeronautics and Space Administration (NASA) Goddard Space Flight Center TROPospheric OZone DIfferential Absorption Lidar (GSFC TROPOZDIAL) has been developed and validated within the Tropospheric Ozone Lidar Network (TOLNet). Two scientifically interesting ozone episodes are presented that were observed during the 2014 Deriving Information on Surface Conditions from Column and Vertically Resolved Observations Relevant to Air Quality (DISCOVER AQ) campaign at Ft. Collins,Colorado.The first case study, occurring between 22-23 July 2014, indicates enhanced concentrations of ozone at Ft. Collins during nighttime hours, which was due to the complex recirculation of ozone within the foothills of the Rocky Mountain region. Although quantifying the ozone increase a loft during recirculation episodes has been historically difficult, results indicate that an increase of 20 -30 ppbv of ozone at the Ft. Collins site has been attributed to this recirculation. The second case, occurring between Aug 4-8th 2014, characterizes a dynamical exchange of ozone between the stratosphere and the troposphere. This case, along with seasonal model parameters from previous years, is used to estimate the stratospheric contribution to the Rocky Mountain region. Results suggest that a large amount of stratospheric air is residing in the troposphere in the summertime near Ft. Collins, CO. The results also indicate that warmer tropopauses are correlated with an increase in stratospheric air below the tropopause in the Rocky Mountain Region.

Sullivan, John T.↗