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result(s) for
"Mitchell, Logan T."
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Atmospheric processing and aerosol aging responsible for observed increase in absorptivity of long-range-transported smoke over the southeast Atlantic
by
Segal-Rozenhaimer, Michal
,
Eck, Thomas
,
Redemann, Jens
in
Absorption
,
Absorption coefficient
,
Absorptivity
2025
Biomass burning aerosol (BBA) from agricultural fires in southern Africa contributes about one-third of the global carbonaceous aerosol load. These particles have strong radiative effects in the southeast Atlantic (SEA), which depend in part on the radiative contrast between the aerosol layer in the free troposphere (FT) and the underlying cloud layer. However, there is large disagreement in model estimates of aerosol-driven climate forcing due to uncertainties in the vertical distribution, optical properties, and life cycle of these particles. This study applies a novel method combining remote sensing observations with regional model outputs to investigate the aging of the BBA and its impact on the optical properties during transatlantic transport from emission sources in Africa to the SEA. Results show distinct variations in extinction Ångström exponent (EAE) and single-scattering albedo (SSA) as aerosols age. Near the source, fresh aerosols are characterized by low mean SSA (0.84) and high EAE (1.85), indicating smaller, highly absorbing particles. By isolating marine contributions from the total column during BBA transport across the SEA, our analysis reveals an initial decrease in BBA absorptivity, with mean FT SSA of 0.87 after 6–7 d, followed by increased absorptivity with mean FT SSA of 0.84 after 10 d, suggesting enhanced absorption due to chemical aging. These findings indicate that BBA becomes more absorbing during extended transport across the SEA, with implications for reducing model uncertainties. Our remote-sensing-based results agree well with previous in situ studies and offer new insights into aerosol–radiation interactions and the energy balance over the SEA.
Journal Article
The complete 3-year dataset of 4STAR sky-scans from ORACLES 2016–2018
by
Mitchell, Logan T.
,
LeBlanc, Samuel E.
,
Flynn, Connor J.
in
Aerosol optical properties
,
Aerosol properties
,
Aerosols
2025
The NASA ORACLES (ObseRvations of Aerosols above CLouds and their intEractionS) airborne field campaigns deployed a 4STAR (Spectrometer for Sky-Scanning, Sun-Tracking Atmospheric Research) instrument onboard a P-3 aircraft to measure columnar optical properties of biomass burning aerosol smoke plumes over the Southeast Atlantic Ocean from 2016 to 2018. Although 4STAR's retrievals of aerosol optical properties from direct solar irradiances and diffuse sky radiances were performed, analyzed, and compared against other field campaigns via Single Scattering Albedo (SSA) campaign medians by Pistone et al. (2019) for ORACLES 2016, such an analysis was not extended to 2017 and 2018 due to previously unquantified instrument performance issues. As a result, only the 4STAR 2016 dataset was available to the public via https://doi.org/10.5067/Suborbital/ORACLES/P3/2016_V3 (ORACLES Science Team, 2021a). The instrument issues were diagnosed and mitigated through use of a four-wavelength set, instead of the previous five-wavelength set. Uniform Quality Control (QC) standards were established to ensure consistent data quality across all three campaigns. This resulted in research-quality, four-wavelength 4STAR datasets for 2017 and 2018 that have since been archived along with the original five-wavelength 4STAR 2016 dataset on the NASA Earth Science Project Office website, replacing the older versions at https://doi.org/10.5067/Suborbital/ORACLES/P3/2017_V3 (ORACLES Science Team, 2021b) and https://doi.org/10.5067/Suborbital/ORACLES/P3/2018_V3 (ORACLES Science Team, 2021c). The four-wavelength 4STAR 2016 dataset, although not on the archival site, is also publicly available via https://doi.org/10.5281/zenodo.16933793 (Mitchell, 2025). Potential improvements to these initial releases, such as broadening the spectral range, substituting for missing flight-level albedo, and removing unreliable scattering angles, are discussed. The complete 3-year ORACLES 4STAR 2016–2018 has many uses, including the determination of subseasonal changes in aerosol properties, modelling aerosol evolution, and the validation of satellite-retrieved aerosol products.
Journal Article
Chromothripsis as an on-target consequence of CRISPR–Cas9 genome editing
2021
Genome editing has therapeutic potential for treating genetic diseases and cancer. However, the currently most practicable approaches rely on the generation of DNA double-strand breaks (DSBs), which can give rise to a poorly characterized spectrum of chromosome structural abnormalities. Here, using model cells and single-cell whole-genome sequencing, as well as by editing at a clinically relevant locus in clinically relevant cells, we show that CRISPR–Cas9 editing generates structural defects of the nucleus, micronuclei and chromosome bridges, which initiate a mutational process called chromothripsis. Chromothripsis is extensive chromosome rearrangement restricted to one or a few chromosomes that can cause human congenital disease and cancer. These results demonstrate that chromothripsis is a previously unappreciated on-target consequence of CRISPR–Cas9-generated DSBs. As genome editing is implemented in the clinic, the potential for extensive chromosomal rearrangements should be considered and monitored.
Chromothripsis, a chromosomal shattering event, can be elicited by micronuclei and chromosome bridges formed by CRISPR–Cas9-generated double-stranded breaks. Extensive chromosomal rearrangements may thus be an on-target effect of genome editing.
Journal Article
Whole chromosome loss and genomic instability in mouse embryos after CRISPR-Cas9 genome editing
2021
Karyotype alterations have emerged as on-target complications from CRISPR-Cas9 genome editing. However, the events that lead to these karyotypic changes in embryos after Cas9-treatment remain unknown. Here, using imaging and single-cell genome sequencing of 8-cell stage embryos, we track both spontaneous and Cas9-induced karyotype aberrations through the first three divisions of embryonic development. We observe the generation of abnormal structures of the nucleus that arise as a consequence of errors in mitosis, including micronuclei and chromosome bridges, and determine their contribution to common karyotype aberrations including whole chromosome loss that has been recently reported after editing in embryos. Together, these data demonstrate that Cas9-mediated germline genome editing can lead to unwanted on-target side effects, including major chromosome structural alterations that can be propagated over several divisions of embryonic development.
A possible undesired outcome of CRISPR-Cas9 germline editing is unwanted karyotype alterations. Here the authors track aberrations through three divisions of embryonic development following Cas9 editing.
Journal Article
Progress and Perspectives Beyond Traditional RAFT Polymerization
by
Allison‐Logan, Stephanie
,
Jung, Kenward
,
Zhu, Jian
in
controlled/living polymerization
,
Electric fields
,
Photocatalysis
2020
The development of advanced materials based on well‐defined polymeric architectures is proving to be a highly prosperous research direction across both industry and academia. Controlled radical polymerization techniques are receiving unprecedented attention, with reversible‐deactivation chain growth procedures now routinely leveraged to prepare exquisitely precise polymer products. Reversible addition‐fragmentation chain transfer (RAFT) polymerization is a powerful protocol within this domain, where the unique chemistry of thiocarbonylthio (TCT) compounds can be harnessed to control radical chain growth of vinyl polymers. With the intense recent focus on RAFT, new strategies for initiation and external control have emerged that are paving the way for preparing well‐defined polymers for demanding applications. In this work, the cutting‐edge innovations in RAFT that are opening up this technique to a broader suite of materials researchers are explored. Emerging strategies for activating TCTs are surveyed, which are providing access into traditionally challenging environments for reversible‐deactivation radical polymerization. The latest advances and future perspectives in applying RAFT‐derived polymers are also shared, with the goal to convey the rich potential of RAFT for an ever‐expanding range of high‐performance applications. Preparing precision vinyl polymers using reversible addition‐fragmentation chain transfer (RAFT) polymerization is a powerful tool in modern materials design. Unprecedented recent focus on RAFT has revealed new strategies for activation and spatio‐temporal control, eclipsing the role of traditional radical initiators. Herein, the latest advances in RAFT initiation are outlined and the challenging reaction settings and innovative applications now within reach are revealed.
Journal Article
Long-term urban carbon dioxide observations reveal spatial and temporal dynamics related to urban characteristics and growth
by
Gurney, Kevin R.
,
Schauer, Andrew J.
,
Holland, Lacey
in
Earth, Atmospheric, and Planetary Sciences
,
ENVIRONMENTAL SCIENCES
,
Physical Sciences
2018
Cities are concentrated areas of CO₂ emissions and have become the foci of policies for mitigation actions. However, atmospheric measurement networks suitable for evaluating urban emissions over time are scarce. Here we present a unique long-term (decadal) record of CO₂ mole fractions from five sites across Utah’s metropolitan Salt Lake Valley. We examine “excess” CO₂ above background conditions resulting from local emissions and meteorological conditions. We ascribe CO₂ trends to changes in emissions, since we did not find longterm trends in atmospheric mixing proxies. Three contrasting CO₂ trends emerged across urban types: negative trends at a residential-industrial site, positive trends at a site surrounded by rapid suburban growth, and relatively constant CO₂ over time at multiple sites in the established, residential, and commercial urban core. Analysis of population within the atmospheric footprints of the different sites reveals approximately equal increases in population influencing the observed CO₂, implying a nonlinear relationship with CO₂ emissions: Population growth in rural areas that experienced suburban development was associated with increasing emissions while population growth in the developed urban core was associated with stable emissions. Four state-of-the-art global-scale emission inventories also have a nonlinear relationship with population density across the city; however, in contrast to our observations, they all have nearly constant emissions over time. Our results indicate that decadal scale changes in urban CO₂ emissions are detectable through monitoring networks and constitute a valuable approach to evaluate emission inventories and studies of urban carbon cycles.
Journal Article
Simulating atmospheric tracer concentrations for spatially distributed receptors: updates to the Stochastic Time-Inverted Lagrangian Transport model's R interface (STILT-R version 2)
by
Bowling, David R
,
Lin, John C
,
Logan, Mitchell
in
Advection
,
Atmospheric models
,
Computer simulation
2018
The Stochastic Time-Inverted Lagrangian Transport (STILT) model is comprised of a compiled Fortran executable that carries out advection and dispersion calculations as well as a higher-level code layer for simulation control and user interaction, written in the open-source data analysis language R. We introduce modifications to the STILT-R code base with the aim to improve the model's applicability to fine-scale (< 1 km) trace gas measurement studies. The changes facilitate placement of spatially distributed receptors and provide high-level methods for single- and multi-node parallelism. We present a kernel density estimator to calculate influence footprints and demonstrate improvements over prior methods. Vertical dilution in the hyper near field is calculated using the Lagrangian decorrelation timescale and vertical turbulence to approximate the effective mixing depth. This framework provides a central source repository to reduce code fragmentation among STILT user groups as well as a systematic, well-documented workflow for users. We apply the modified STILT-R to light-rail measurements in Salt Lake City, Utah, United States, and discuss how results from our analyses can inform future fine-scale measurement approaches and modeling efforts.
Journal Article
Ultraviolet A absorption coefficients of contact lenses for use in contact lens assisted corneal crosslinking for thin Corneas
by
Ogbuehi, Kelechi C.
,
Wynn-Williams, Giles M.
,
Mitchell, Logan V.
in
692/699/3161/3163
,
692/699/3161/3178
,
Absorption
2025
The purpose of this study was to compare the UVA absorption coefficients of multiple hydrogel and silicone hydrogel lenses (with and without pre-soaking in riboflavin) to those reported for the human cornea. The study also assessed the effect of different contact lens pre-soak times (in riboflavin) on the measured UVA absorption coefficients. Five lenses each of Omafilcon A, Nelfilcon A and Somofilcon A were pre-soaked in riboflavin and UVA absorption was assessed. Six lenses each of two hydrogel (Omafilcon A and Nelfilcon A) and three silicone hydrogel (Comfilcon A, Lotrafilcon A, and Samfilcon A) lenses were assessed before and after a 30-minute soak in riboflavin. One-way ANOVA was used for all comparisons. Absorption coefficients, without riboflavin, for Omafilcon A, Nelfilcon A and Somofilcon A were: 8.6 ± 1.2 cm
−1
; 11.7 ± 3.4 cm
−1
; 51.9 ± 2.9 cm
−1
, respectively. These absorption coefficients were all significantly greater (
p
< 0.0001) after pre-soaking in riboflavin. The average (+/- SD) coefficients of the different lenses in the main study, without riboflavin, were: 9.1 +/- 0.7 cm-1; 10.9 +/- 2.1 cm-1; 6.9 +/- 2.0 cm-1; 16.2 +/- 2.8 cm-1; and 17.8 +/- 3.2 cm-1, respectively, for: Omafilcon A; Nelfilcon A; Comfilcon A; Lotrafilcon A; and Samfilcon A. Absorption coefficients were all significantly greater (two-tailed, paired Student’s t-test,
p
< 0.0001) with riboflavin. Oxygen permeability is a better predictor of the absorption coefficient (and therefore of the contact lens-assisted corneal collagen crosslinking effectivity) of a soft contact lens than water-content.
Journal Article
Constraints on the Late Holocene Anthropogenic Contribution to the Atmospheric Methane Budget
by
Buizert, Christo
,
Sowers, Todd
,
Mitchell, Logan
in
Agriculture
,
Antarctic Regions
,
Anthropogenic factors
2013
The origin of the late preindustrial Holocene (LPIH) increase in atmospheric methane concentrations has been much debated. Hypotheses invoking changes in solely anthropogenic sources or solely natural sources have been proposed to explain the increase in concentrations. Here two high-resolution, high-precision ice core methane concentration records from Greenland and Antarctica are presented and are used to construct a high-resolution record of the methane inter-polar difference (IPD). The IPD record constrains the latitudinal distribution of emissions and shows that LPIH emissions increased primarily in the tropics, with secondary increases in the subtropical Northern Hemisphere. Anthropogenic and natural sources have different latitudinal characteristics, which are exploited to demonstrate that both anthropogenic and natural sources are needed to explain LPIH changes in methane concentration.
Journal Article
Polygenic modifiers impact penetrance and expressivity in telomere biology disorders
2025
BACKGROUNDTelomere biology disorders (TBDs) exhibit incomplete penetrance and variable expressivity, even among individuals harboring the same pathogenic variant. We assessed whether common genetic variants associated with telomere length combine with large-effect variants to impact penetrance and expressivity in TBDs.METHODSWe constructed polygenic scores (PGS) for telomere length in the UK Biobank to quantify common variant burden and assessed the PGS distribution across patient cohorts and biobanks to determine whether individuals with severe TBD presentations have increased polygenic burden causing short telomeres. We also characterized rare TBD variant carriers in the UK Biobank.RESULTSIndividuals with TBDs in cohorts enriched for severe pediatric presentations have polygenic scores predictive of short telomeres. In the UK Biobank, we identified carriers of pathogenic TBD variants who were enriched for adult-onset manifestations of TBDs. Unlike individuals in disease cohorts, the PGS of adult carriers did not show a common variant burden for shorter telomeres, consistent with the absence of childhood-onset disease. Notably, TBD variant carriers were enriched for idiopathic pulmonary fibrosis diagnoses and telomere length PGS stratified pulmonary fibrosis risk. Finally, common variants affecting telomere length were enriched in enhancers regulating known TBD genes.CONCLUSIONCommon genetic variants combined with large-effect causal variants to impact clinical manifestations in rare TBDs. These findings offer a framework for understanding phenotypic variability in other presumed monogenic disorders.FUNDINGThis work was supported by NIH grants R01DK103794, R01HL146500, R01CA265726, R01CA292941, and the Howard Hughes Medical Institute.
Journal Article