Lisa Ryno publishes with past and present members of her lab: Buck, Paladino, Nagashima, Brezel, Holtzman, and Urso

Luke Buck '21, Maddison Paladino '21, Kyogo Nagashima '24, Emma Brezel '17, Josh Holtzman '21, and Sarel J. Urso '16 coauthored a publication with Associate Professor of Chemistry and Biochemistry Lisa Ryno in Frontiers in Cellular and Infection Microbiology titled "Temperature-dependent influence of FliA overexpression on PHL628 E. coli biofilm growth and composition." [as noted on the Ryno Lab blog]

Front. Cell. Infect. Microbiol., 17 December 2021 | https://doi.org/10.3389/fcimb.2021.775270

New publications from current and emeriti faculty and senior Cal Colbert-Pollack

Ciftja, B., Colbert-Pollack, Cal (OC'22), Ciftja, O., & Littlejohn, L. (2021).Results for the electrostatic potential of a uniformly charged hemispherical surface. Results in Physics, 30 doi:10.1016/j.rinp.2021.104892 On ScienceDirect 

Getz, W. M., Salter, Richard (Emeritus Professor of Computer Science), Vissat, L. L., Koopman, J. S., & Simon, C. P. (2021). A runtime alterable epidemic model with genetic drift, waning immunity and vaccinations. Journal of the Royal Society Interface, 18 (184) doi:10.1098/rsif.2021.0648  OPEN ACCESS at Royal Society Publishing

McDowell, Ruth E. (Visiting Assistant Professor of Biology), Ali, K. F., Lad, S., San Martin, V. T., Bottino, R., Walsh, M., et al. (2021). Bioenergetics of islet preparations in a pilot clinical trial of peri-transplant hydroxychloroquine for autologous islet transplantation. Cell Transplantation, 30 doi:10.1177/09636897211057440  OPEN ACCESS at Sage Journals

Scofield, John H. (Professor of Physics). (2022). Another look at "2019 energy benchmarking data for LEED-certified buildings in washington". Journal of Building Engineering, 45 doi:10.1016/j.jobe.2021.103544 On ScienceDIrect

Weber, J. M., Henderson, B. L., LaRowe, D. E., Goldman, Aaron D. (Associate Professor of Biology), Perl, S. M., Billings, K., et al. Testing abiotic reduction of NAD(+) directly mediated by iron/sulfur minerals. Astrobiology, doi:10.1089/ast.2021.0035 Access for subscribers

Jillian Scudder publishes in MNRAS; senior Loubna El Meddah El Idrissi is one of three co-authors

 Jillian M. Scudder, Assistant Professor of Physics; Sara L. Ellison; Loubna El Meddah El Idrissi; Henry Poetrodjojo. Conversions between gas-phase metallicities in MaNGA. Monthly Notices of the Royal Astronomical Society (submitted 10 August, 2021; accepted 12 August 2021)  Pre-publication access: arXiv: 2108.04934  20 pages, 14 figures, 4 tables. Supplementary material available online

From the abstract: We present polynomial conversions between each of 11 different strong line gas-phase metallicity calibrations, each based on ∼ 1.1 million star-forming spaxels in the public Sloan Digital Sky Survey (SDSS) Data Release 15 (DR15) Mapping Nearby Galaxies at Apache Point Observatory (MaNGA) survey.  

New Publications: Dan Stinebring with NANOGrav in Astrophysical Journal, and Franne Kamhi in Journal of Experimental Biology

 

Turner, J. E., McLaughlin, M. A., Cordes, J. M., Lam, M. T., Shapiro-Albert, B. J., Stinebring, Dan R. ... NANOGrav Collaboration. (2021). The NANOGrav 12.5 year data set: monitoring interstellar scattering delays. Astrophysical Journal, 917(1), article 10.

From the abstract: "We extract interstellar scintillation parameters for pulsars observed by the NANOGrav radio pulsar timing program.  ...For most pulsars for which scattering delays are measurable, we find that time-of-arrival uncertainties for a given epoch are larger than our scattering delay measurements, indicating that variable scattering delays are currently subdominant in our overall noise budget but are important for achieving precisions of tens of nanoseconds or less."

Islam, M., Deeti, S., Kamhi, J. Frances, & Cheng, K. (2021). Minding the gap: learning and visual scanning behaviour in nocturnal bull ants. Journal of Experimental Biology, 224(14), jeb242245.

From the abstract: "Insects possess small brains but exhibit sophisticated behaviour, specifically their ability to learn to navigate within complex environments. To understand how they learn to navigate in a cluttered environment, we focused on learning and visual scanning behaviour in the Australian nocturnal bull ant, Myrmecia midas, which are exceptional visual navigators."

Dan Stinebring publishes in Astrophysical Journal with NANOGrav Collaboration

Emeritus Professor of Physics Dan Stinebring is a senior member of the NANOGrav Collaboration.  See the recent story of his work in Campus Digest. 

New publication from the Collaboration:

Arzoumanian, Zaven; Paul T. Baker; Adam Brazier; Paul R. Brook, et al.  2021. The NANOGrav 11 yr Data Set: Limits on Supermassive Black Hole Binaries in Galaxies within 500 Mpc.  Astrophysical Journal 914:121.  Access in OhioLINK Electronic Journal Center or pre-published version on ArXiv.

Learn more about NANOGrav, The North American Nanohertz Observatory for Gravitational Waves

Photo: The 100-meter Green Bank Telescope, the world's largest fully steerable telescope. Image credit: NRAO

Source:  http://nanograv.org/telescopes/

New publication from Dan Stinebring with alumnus Hengrui Zhu, and from Michael Moore with collaborators in China and Missouri

AAS and IOP publication

As found in the Web of Science:

• a recent publication from Emeritus Professor of Physics and Astronomy Dan Stinebring and May graduate Hengrui Zhu. 

Dolch, T., Daniel R. Stinebring, G. Jones, Hengrui Zhu '21, R. S. Lynch, T. Cohen, P. B. Demorest, M. T. Lam, L. Levin, M. A. McLaughlin, and N. T. Palliyaguru. 2021. Deconvolving pulsar signals with cyclic spectroscopy: a systematic evaluation. Astrophysical Journal 913:98.

From the abstract: "We show that cyclic spectroscopy is most effective for high [signal-to-noise ratio] and/or highly scattered pulsars. We conclude that cyclic spectroscopy could play an important role in scattering correction to distant populations of highly scattered pulsars not currently included in PTAs."

• and from Professor of Biology Mike Moore:

Zhang, Y., T. Deng, L. Sun, J. B. Landis, Michael J. Moore, H. Wang, Y. Wang, X. Hao, J. Chen, S. Li, M. Xu, P. Puno, P. H. Raven, and H. Sun. 2021. Phylogenetic patterns suggest frequent multiple origins of secondary metabolites across the seed-plant 'tree of life'. National Science Review 8:nwaa105.

The concluding sentence of the abstract notes that "the distribution patterns for [plant secondary metabolites] observed in this study may also be useful in the search for natural compounds for medicinal purposes."

Michael Moore and alumni Noah Last and Riva Bruenn are co-authors in Botanical Journal of the Linnean Society

This recent publication from Professor of Biology Mike Moore explores the evolution of fruiting structures in Nyctaginaceae, known as the Four-o'clock family of flowering trees, shrubs, and herbs.

Sukhorukov, A. P., M. Nilova V.,

Journal cover from Oxford Univ Press

Michael J. Moore, Riva Bruenn, Noah Last, E. F. Sandoli Rossetto, and N. A. Douglas. 2021. Anatomical diversity and evolution of the anthocarp in Nyctaginaceae. Botanical Journal of the Linnean Society 196:21-52.  Access at OhioLINK Journal Center

From the abstract: We investigate anthocarp evolution in Nyctaginaceae through extensive anatomical studies (159 species from 28 genera representing six of seven tribes) and phylogenetic character state reconstructions. We found highly diverse anthocarp anatomy across Nyctaginaceae, with most traits analysed evolving multiple times throughout the family.

More about Nyctaginaceae, from ScienceDirect.

Assistant Professor of Physics Jillian Scudder is a coauthor on two new publications

Teimoorinia, H., M. Jalilkhany, Jillian M. Scudder, J. Jensen, and S. L. Ellison. 2021. A reassessment of strong line metallicity conversions in the machine learning era. Monthly Notices of the Royal Astronomical Society 503:1082-1095. https://doi.org/10.1093/mnras/stab466

From the Abstract: 

The random forest (RF) algorithm [developed by the authors] is non-parametric and therefore more flexible than polynomial conversions, due to its ability to capture non-linear behaviour in the data. The RF method yields the same accuracy as the (updated) polynomial conversions, but has the significant advantage that a single model can be applied over a wide range of metallicities, without the need to distinguish upper and lower branches in R-23 calibrations. The trained RF is made publicly available for use in the community. Access on ArXiv (preprint version, Feb. 16, 2021)

---

Also accessible on ArXiv is this publication describing a project that allows easier study of distant galaxies across wavelength.

Shirley, R., K. Duncan ...J. Scudder, et al. 2021. HELP: The Herschel Extragalactic Legacy Project. arXiv:2105.05659 [astro-ph.GA]

From the Abstract: 
With this project definition paper we provide full access to the first data release of HELP; Data Release 1 (DR1), including a monolithic map of the largest SPIRE extragalactic field at 385 deg2 and 18 million measurements of PACS and SPIRE fluxes. We also provide tools to access and analyse the full HELP database. This new data set includes far-infrared photometry, photometric redshifts, and derived physical properties estimated from modelling the spectral energy distributions.

New publications by Geology and Physics faculty

 Zeb Page and Dan Stinebring published these papers in the past two months:

Cruz-Uribe, A. M., F. Zeb Page, Associate Professor of Geology, et al. 2021. Trace element and isotopic zoning of garnetite veins in amphibolitized eclogite, Franciscan Complex, California, USA. Contributions to Mineralogy and Petrology 176:41.

Pol, N. S. … Daniel R. Stinebring, Emeritus Professor of Physics, et al., and NANOGrav Collaboration. 2021. Astrophysics milestones for pulsar timing array gravitational-wave detection. Astrophysical Journal Letters 911:L34.

Yao, J. … Daniel R. Stinebring, Emeritus Professor of Physics, et al. Evidence for three-dimensional spin-velocity alignment in a pulsar. Nature Astronomy, early access May 2021.

Geology faculty publish in Frontiers in Marine Science; Earth and Planetary Science

Assistant Professor Rachel Eveleth and Associate Professor Amanda Schmidt, both of the Geology Department, published journal articles recently.  Alex Grande, Class of 2020, is the first author on the paper with Prof. Schmidt.

Grande, Alexandra, Amanda H. Schmidt, P. R. Bierman, L. B. Corbett, C. Lopez-Lloreda, J. Willenbring, W. H. McDowell, and M. W. Caffee. 2021. Landslides, hurricanes, and sediment sourcing impact basin-scale erosion estimates in Luquillo, Puerto Rico. Earth and Planetary Science Letters 562:116821.

Eveleth, Rachel, D. M. Glover, M. C. Long, I. D. Lima, A. P. Chase, and S. C. Doney. 2021. Assessing the Skill of a High-resolution marine biophysical model using geostatistical analysis of mesoscale ocean chlorophyll variability from field observations and remote sensing. Frontiers in Marine Science 8:612764.

The publisher notes that this article is part of the research topic "Unraveling Mechanisms Underlying Annual Plankton Blooms in the North Atlantic and their Implications for Biogenic Aerosol Properties and Cloud Formation"  View all 17 articles on the topic from Frontiers in Marine Science.  Open Access.

New faculty publications in Astronomy, Biology, and Physics from Jillian Scudder, Mike Moore, and Bruce Richards

 Recently published, as found in Web of Science 

Jillian Scudder, Assistant Professor, Department of Physics and Astronomy

Ellison, S. L., L. Lin, M. D. Thorp, H. Pan, J. M. Scudder, S. F. Sanchez, A. F. L. Bluck, and R. Maiolino. 2021. The ALMaQUEST Survey - V. The non-universality of kpc-scale star formation relations and the factors that drive them. Monthly Notices of the Royal Astronomical Society 501:4777-4797.
  repository copy, open access

Mike Moore, Professor of Biology

Morales-Briones, D. F., G. Kadereit, D. T. Tefarikis, Michael J. Moore, S. A. Smith, S. F. Brockington, A. Timoneda, W. C. Yim, J. C. Cushman, and Y. Yang. 2021. Disentangling sources of gene tree discordance in phylogenomic data sets: testing ancient hybridizations in Amaranthaceae s.l. Systematic Biology 70:219-235.
https://doi.org/10.1093/sysbio/syaa066

Bruce Richards, Emeritus Professor of Physics

Richards, W. Bruce 2021. Understanding a paradox in special relativity. Physics Teacher 59:284-285. https://doi.org/10.1119/10.0004159

Rich Salter and collaborators create web app for assessment of COVID-19 mitigation measures

Professor Emeritus of Computer Science Richard Salter is one of the developers of a new web application, described in this publication and indexed in Web of Science and the Directory of Open Access Journals (DOAJ)

Getz, Wayne M.; Salter, Richard; Luisa Vissat, Ludovica; Horvitz, Nir.  2021.  A versatile web app for identifying the drivers of COVID-19 epidemics.  Journal of Translational Medicine 19 (1): article number 109.   DOI: 10.1186/s12967-021-02736-2

From the abstract: "Our web app provides policy makers and health officers who have no epidemiological modelling or computer coding expertise with an invaluable tool for assessing the impacts of different outbreak mitigation policies and measures. This includes an ability to generate an epidemic-suppression or curve-flattening index that measures the intensity with which behavioural responses suppress or flatten the epidemic curve in the region under consideration."

Michael Moore, Professor of Biology, publishes with colleagues from Spain in American Journal of Botany

Blanco-Sanchez M; Moore Michael J; Ramos-Munoz M; Pias B; Garcia-Fernandez A; Prieto M; Plaza L; Isabel I; Escudero A; Matesanz S. Phylogeography of a gypsum endemic plant across its entire distribution range in the western Mediterranean. American Journal of Botany, Early View, March 2021. DOI: 10.1002/ajb2.1625

Conclusions of this research, from the abstract: "Lepidium subulatum diverged from its nearest relatives similar to 3 million years ago, and ITS and psbA/matK trees supported the monophyly of the species. These results suggest that both geological and climatic changes in the region around the Plio-Pleistocene promoted its origin, compared to other evolutionary processes... Despite being an edaphic endemic, Lepidium subulatum possesses high genetic diversity probably related to its relatively old age and high population sizes across its range. Our study highlights the value of using different markers to fully understand the phylogeographic history of plant species."

Co-authors He Ren '20, Jane Sedlak '19, and Matthew Elrod publish in Environmental Science and Technology

 This latest article from alumni Ren and Sedlak, former research students in the Elrod lab, describes a method "that allows for the study of the reaction of sulfate radicals and several olefinic precursors." 

Ren, He; Sedlak, Jane A.; Elrod, Matthew J. 2021. General mechanism for sulfate radical addition to olefinic volatile organic compounds in secondary organic aerosol.  Environmental Science & Technology 55(3): 1456-1465  DOI: 10.1021/acs.est.0c05256 (goes to American Chemical Society publications site)

From the abstract:

"Specific mechanisms for each olefinic precursor were developed, as well as a generalized mechanism that can be used to predict the sulfate radical reaction pathways for any olefin. The product yield results indicate that this mechanism is dominated by carbon backbone fragmentation pathways: 61, 83, 79, and 100% for AA, MVK, MBO, and MA, respectively. Several of the observed organosulfate products have also been detected in field observations of SOA, which indicates the potential relevance of this mechanism in the atmosphere."  Learn more about Professor Elrod's research interests.

New Publications from Matt Elrod, Oberlin alumni, and Aaron Goldman

New Publications from Chemistry Faculty and Alumni, and Biology Faculty:

Elrod, Matthew J., Professor of Chemistry; Jane A. Sedlak (OC '19); He Ren (OC '20). Accurate Computational Model for the Hydration Extent of Atmospherically Relevant Carbonyls on Aqueous Atmospheric Particles. ACS Earth and Space Chemistry 2021, 5, 348-355.  (full-text access through Interlibrary Loan)

Goldman, Aaron D., Associate Professor of Biology; Liberles, D. A. The Journal of Molecular Evolution Turns 50. Journal of Molecular Evolution.  DOI: 10.1007/s00239-021-10000-w, Early Access, Feb. 2021.

Kevin Woods publishes in Semigroup Forum; Aaron Goldman in Journal of Molecular Evolution

Two new publications from Math and Biology faculty; as indexed in Web of Science 

Bogart, T., Goodrick, J. and Woods, Kevin (Professor and Chair of Mathematics). Periodic behavior in families of numerical and affine semigroups via parametric Presburger arithmetic. - Semigroup Forum DOI: 10.1007/s00233-021-10164-3 (Early access; no volume or pagination available)  Subscriber access at publisher's website (SpringerLink)

From the abstract: The tool we use is expressibility in the logical system of parametric Presburger arithmetic. Generalizing to higher dimensional families of semigroups, we also examine affine semigroups  𝑆𝑛⊆ℕ𝑚$S_n\subseteq {\mathbb{N}}^m$ generated by vectors whose coordinates are polynomial functions of n, and we prove that in this case the Betti numbers are also eventually quasi-polynomial functions of n.

Goldman, Aaron. D. (Associate Professor of Biology) and Kacar, B. Cofactors are Remnants of Life's Origin and Early Evolution. - Journal of Molecular Evolution  DOI: 10.1007/s00239-020-09988-4 (Early access; no volume or pagination available)  Free full text at publisher's website (SpringerLink)

From the abstract: The RNA World is one of the most widely accepted hypotheses explaining the origin of the genetic system used by all organisms today. It proposes that the tripartite system of DNA, RNA, and proteins was preceded by one consisting solely of RNA, which both stored genetic information and performed the molecular functions encoded by that genetic information. Current research into a potential RNA World revolves around the catalytic properties of RNA-based enzymes, or ribozymes....Evidence from prebiotic geochemistry, ribozyme biochemistry, and evolutionary biology, increasingly supports these hypotheses. Certain coenzymes and cofactors may bridge modern biology with the past and can thus provide insights into the elusive and poorly-recorded period of the origin and early evolution of life.

From LEED office buildings to Mars rover: new publications from John Scofield and Christina Smith

Recent publications from John Scofield, Professor of Physics, and Christina Smith, Visiting Assistant Professor of Physics, as reported in Web of Science

Scofield, John H., Brodnitz, S., Cornell, J., Liang, T. and Scofield, T. 2021. Energy and Greenhouse Gas Savings for LEED-Certified US Office Buildings.  Energies. 

From the abstract: [Here]we present results from the largest study of measured, whole-building energy performance for commercial LEED-certified buildings, using 2016 energy use data that were obtained for 4417 commercial office buildings... Only LEED offices certified at the gold level demonstrated statistically significant savings in source energy and greenhouse gas emissions as compared with non-LEED offices. 

Energies is a peer-reviewed, open access journal from MDPI, "a pioneer in scholarly open access publishing".

Smith, Christina L., Lemmon, M., Moores, J. E., et al. 2020. The Line-of-Sight Extinction Record at Gale Crater as Observed by MSL's Mastcam and Navcam through similar to 2,500 Sols.  Journal of Geophysical Research-Planets 125: e2020JE006465.

From the abstract: [Finding based on monitoring by Mars rover Curiosity]... Extinction as a function of azimuth and elevation angle were investigated and the extinction as a function of azimuth was generally found to be smooth and thus the dust well-mixed horizontally. The extinction as a function of elevation shows increased dust loading at lower elevations during dusty seasons, indicative of dust lifting from the base of the crater.

JGR-Planets is one of dozens of journals published by the American Geophysical Union, accessible in the Wiley Online Library.

Dan Stinebring collaborates in NANOGrav, resulting in three new publications

 These three articles were published in December 2020, from the North American Nanohertz Observatory for Gravitational Waves.  Professor of Physics Dan Stinebring has long collaborated in the NANOGrav Collective.

 

• Alam, M. F., Arzoumanian, Z., Baker, P. T., et al. 2021a. The NANOGrav 12.5 yr Data Set: Observations and Narrowband Timing of 47 Millisecond Pulsars. - Astrophysical Journal Supplement Series 252: 4.
• Alam, M. F., Arzoumanian, Z., Baker, P. T., et al. 2021b. The NANOGrav 12.5 yr Data Set: Wideband Timing of 47 Millisecond Pulsars. - Astrophysical Journal Supplement Series 252: 5.
• Arzoumanian, Z., Baker, P. T., Blumer, H., et al. 2020. The NANOGrav 12.5 yr Data Set: Search for an Isotropic Stochastic Gravitational-wave Background. - Astrophysical Journal Letters 905: L34.

 Learn more about NANOGrav.

Access Astrophysical Journal Letters and Astrophysical Journal Supplement Series at The Institute of Physics, IOP Science website (subscribers only).

Research of Michael Moore and collaborators featured in "Plants Are Cool, Too!"

 Reposted from the Oberlin College Campus Digest, February 5, 2021: 

The research of Professor of Biology Mike Moore and collaborators (including several Oberlin students) on rare Hawaiian plants is the subject of the January 28, 2021 episode of the "Plants Are Cool, Too!" video series. The episode "How to save a species from going extinct," documents the many biologists involved in preventing the extinction of ultra-rare plants that grow only on the island of Kaua'i.

(see Faculty and Staff Notes)

Image extracted from the video

Roger Laushman publishes in Plant and Soil, with Jake Nash '16 (now at Duke Univ) and C. Schadt, Univ Tennesee

Nash, Jake, Laushman, Roger, Professor of Biology, & Schadt, Christopher. (2020). Ectomycorrhizal fungal diversity interacts with soil nutrients to predict plant growth despite weak plant-soil feedbacks. Plant and Soil, 453(1-2), 445-458. doi:10.1007/S11104-020-04616-Y  

From a special issue:  Agroforestry: a belowground perspective.

Burr Oak leaves and acorn, image from USDA
via Wikimedia Commons

Partial abstract: "We investigated whether plant-soil feedbacks of an ectomycorrhizal tree (Quercus macrocarpa) [Burr Oak] varied based on soil nutrient status and whether fungal community composition and diversity could explain feedback patterns. ...There was a positive home vs. away plant-soil feedback, though feedbacks with individual hosts were not significant regardless of fertilization. Still, hosts harbored distinctive fungal communities that were predictive of plant growth." 

Full-text at OhioLINK Electronic Journal Center