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All-Sky Search For Long-Duration Gravitational Wave Transients In The First Advanced Ligo Observing Run, B. P. Abbott, R. Abbott, T. D. Abbott, M. R. Abernathy, F. Acernese, K. Ackley, C. Adams, T. Adams, P. Addesso, R. X. Adhikari, V. B. Adya, C. Affeldt, M. Agathos, K. Agatsuma, N. Aggarwal, O. D. Aguiar, L. Aiello, A. Ain, P. Ajith, B. Allen, A. Allocca, P. A. Altin, A. Ananyeva, S. B. Anderson, W. G. Anderson, S. Appert, K. Arai, M. C. Araya, J. S. Areeda, N. Arnaud, K. G. Arun, S. Ascenzi, G. Ashton Feb 2018

All-Sky Search For Long-Duration Gravitational Wave Transients In The First Advanced Ligo Observing Run, B. P. Abbott, R. Abbott, T. D. Abbott, M. R. Abernathy, F. Acernese, K. Ackley, C. Adams, T. Adams, P. Addesso, R. X. Adhikari, V. B. Adya, C. Affeldt, M. Agathos, K. Agatsuma, N. Aggarwal, O. D. Aguiar, L. Aiello, A. Ain, P. Ajith, B. Allen, A. Allocca, P. A. Altin, A. Ananyeva, S. B. Anderson, W. G. Anderson, S. Appert, K. Arai, M. C. Araya, J. S. Areeda, N. Arnaud, K. G. Arun, S. Ascenzi, G. Ashton

Faculty Publications

We present the results of a search for long-duration gravitational wave transients in the data of the LIGO Hanford and LIGO Livingston second generation detectors between September 2015 and January 2016, with a total observational time of 49 d. The search targets gravitational wave transients of 10500 s duration in a frequency band of 242048 Hz, with minimal assumptions about the signal waveform, polarization, source direction, time of occurrence. No significant events were observed. As a result we set 90% confidence upper limits on the rate of long-duration gravitational wave transients for different types of gravitational wave signals. We also …

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Effects Of Data Quality Vetoes On A Search For Compact Binary Coalescences In Advanced Ligo's First Observing Run, B. P. Abbott, R. Abbott, T. D. Abbott, M. R. Abernathy, F. Acernese, K. Ackley, C. Adams, T. Adams, P. Addesso, R. X. Adhikari, V. B. Adya, C. Affeldt, M. Agathos, K. Agatsuma, N. Aggarwal, O. D. Aguiar, L. Aiello, A. Ain, B. Allen, A. Allocca, P. A. Altin, S. B. Anderson, W. G. Anderson, K. Arai, M. C. Araya, C. C. Arceneaux, J. S. Areeda, N. Arnaud, K. G. Arun, S. Ascenzi, G. Ashton, M. Ast, S. M. Aston Feb 2018

Effects Of Data Quality Vetoes On A Search For Compact Binary Coalescences In Advanced Ligo's First Observing Run, B. P. Abbott, R. Abbott, T. D. Abbott, M. R. Abernathy, F. Acernese, K. Ackley, C. Adams, T. Adams, P. Addesso, R. X. Adhikari, V. B. Adya, C. Affeldt, M. Agathos, K. Agatsuma, N. Aggarwal, O. D. Aguiar, L. Aiello, A. Ain, B. Allen, A. Allocca, P. A. Altin, S. B. Anderson, W. G. Anderson, K. Arai, M. C. Araya, C. C. Arceneaux, J. S. Areeda, N. Arnaud, K. G. Arun, S. Ascenzi, G. Ashton, M. Ast, S. M. Aston

Faculty Publications

The first observing run of Advanced LIGO spanned 4 months, from 12 September 2015 to 19 January 2016, during which gravitational waves were directly detected from two binary black hole systems, namely GW150914 and GW151226. Confident detection of gravitational waves requires an understanding of instrumental transients and artifacts that can reduce the sensitivity of a search. Studies of the quality of the detector data yield insights into the cause of instrumental artifacts and data quality vetoes specific to a search are produced to mitigate the effects of problematic data. In this paper, the systematic removal of noisy data from analysis …

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A Practical Beginner's Guide To Cyclic Voltammetry, Noémie Elgrishi, Kelley J. Rountree, Brian D. Mccarthy, Eric S. Rountree, Thomas T. Eisenhart, Jillian L. Dempsey Feb 2018

A Practical Beginner's Guide To Cyclic Voltammetry, Noémie Elgrishi, Kelley J. Rountree, Brian D. Mccarthy, Eric S. Rountree, Thomas T. Eisenhart, Jillian L. Dempsey

Faculty Publications

© 2017 The American Chemical Society and Division of Chemical Education, Inc. Despite the growing popularity of cyclic voltammetry, many students do not receive formalized training in this technique as part of their coursework. Confronted with self-instruction, students can be left wondering where to start. Here, a short introduction to cyclic voltammetry is provided to help the reader with data acquisition and interpretation. Tips and common pitfalls are provided, and the reader is encouraged to apply what is learned in short, simple training modules provided in the Supporting Information. Armed with the basics, the motivated aspiring electrochemist will find existing …

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Hypertension, Genes, And Environment: Challenges For Prevention And Risk Prediction, Richard Cooper Feb 2018

Hypertension, Genes, And Environment: Challenges For Prevention And Risk Prediction, Richard Cooper

Faculty Publications

No abstract provided.

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Metal-Based Microchannel Heat Exchangers Made By Molding Replication And Assembly, Wen Jin Meng, Fanghua Mei Feb 2018

Metal-Based Microchannel Heat Exchangers Made By Molding Replication And Assembly, Wen Jin Meng, Fanghua Mei

College of Engineering Patents

Compression molding of metals is used to make microchannel heat exchangers. Heat transfer can be improved by employing controlled microchannel surface roughness. Flux-free bonding is achieved using a eutectic thin-film intermediate layer. Seals are leak-tight, mechanically strong, and uniform across multiple contact areas. The metal heat exchangers may be mass-produced inexpensively, and are useful for applications including the cooling of computer chips and other high-power electronic devices, air conditioning, refrigeration, condenser plates, radiators, fuel cell heat management, and instant water heating.

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Recently Integrated Alu Insertions In The Squirrel Monkey (Saimiri) Lineage And Application For Population Analyses, Jasmine N. Baker, Jerilyn A. Walker, Michael W. Denham, Charles D. Loupe, Mark A. Batzer Feb 2018

Recently Integrated Alu Insertions In The Squirrel Monkey (Saimiri) Lineage And Application For Population Analyses, Jasmine N. Baker, Jerilyn A. Walker, Michael W. Denham, Charles D. Loupe, Mark A. Batzer

Faculty Publications

© 2018 The Author(s). Background: The evolution of Alu elements has been ongoing in primate lineages and Alu insertion polymorphisms are widely used in phylogenetic and population genetics studies. Alu subfamilies in the squirrel monkey (Saimiri), a New World Monkey (NWM), were recently reported. Squirrel monkeys are commonly used in biomedical research and often require species identification. The purpose of this study was two-fold: 1) Perform locus-specific PCR analyses on recently integrated Alu insertions in Saimiri to determine their amplification dynamics, and 2) Identify a subset of Alu insertion polymorphisms with species informative allele frequency distributions between the Saimiri sciureus …

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Natural And Anthropogenic Impacts On Sediment Dynamics And Preservation In Contrasting Mississippi Deltaic Coastal Environments, Jiaze Wang Feb 2018

Natural And Anthropogenic Impacts On Sediment Dynamics And Preservation In Contrasting Mississippi Deltaic Coastal Environments, Jiaze Wang

LSU Doctoral Dissertations

Deltas worldwide share the same sinking problem in face of pressure from natural and anthropogenic activities. Many restoration strategies are being planned or have been implemented in the coasts around the world. However, many conventional hard structure constructions are energy-intensive. There are also associated uncertainties and limitations on the effectiveness and sustainability of these restoration plans. Soft or ecological engineering strategies normally take advantage of or mimic the coastal system self-response and feedbacks to natural and anthropogenic activities. The successful implementation of soft strategies relies on process-based studies on the change of complex coastal system. In addition, post-implementation monitoring work …

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Innovative Monte Carlo Methods For Sampling Molecular Conformations, Aliasghar Sepehri Feb 2018

Innovative Monte Carlo Methods For Sampling Molecular Conformations, Aliasghar Sepehri

LSU Doctoral Dissertations

Sampling molecular conformations is an important step in evaluating physical, mechanical, hydrodynamic, and optical properties of flexible molecules especially polymers. One powerful method for this purpose is configurational-bias Monte Carlo in which one random segment of a molecule is chosen, all segments toward one random end are removed, and then regrown segment by segment to produce a new geometry to be accepted/rejected according to probability laws. The advantage of this method is the ability to generate acceptable conformations that are favorable for intra- and intermolecular energies to save computational costs. However, when there are several interdependent energetic terms, trial generation …

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Assessment Of Hydrologic Connectivity In An Ungauged Wetland With Insar Observations, Fernando Jaramillo, Ian Brown, Pascal Castellazzi, Luisa Espinosa, Alice Guittard, Sang Hoon Hong, Victor H. Rivera-Monroy, Shimon Wdowinski Feb 2018

Assessment Of Hydrologic Connectivity In An Ungauged Wetland With Insar Observations, Fernando Jaramillo, Ian Brown, Pascal Castellazzi, Luisa Espinosa, Alice Guittard, Sang Hoon Hong, Victor H. Rivera-Monroy, Shimon Wdowinski

Faculty Publications

The Ciénaga Grande de Santa Marta (CGSM) is one of the world's most productive tropical wetlands and one that has witnessed some of the greatest recorded dieback of mangroves. Human-driven loss of hydrologic connectivity by roads, artificial channels and water flow regulation appears to be the reason behind mangrove mortality in this ungauged wetland. In this study, we determined the CGSM's current state of hydrologic connectivity by combining a remote sensing technique, termed as Wetland Interferometric Synthetic Aperture Radar (InSAR), with a hydrologic study of river water discharge. For this research, we processed 29 ALOS-PALSAR acquisitions taken during the period …

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Weather-Induced Transport Through A Tidal Channel Calibrated By An Unmanned Boat, Chunyan Li, Eddie Weeks, Wei Huang, Brian Milan, Renhao Wu Feb 2018

Weather-Induced Transport Through A Tidal Channel Calibrated By An Unmanned Boat, Chunyan Li, Eddie Weeks, Wei Huang, Brian Milan, Renhao Wu

Faculty Publications

An unmanned surface vehicle (USV) was designed and constructed to operate continuously for covering both flood and ebb and preferably a complete tidal cycle (e.g., ~24 h) to measure the vertical profiles of horizontal flow velocity. It was applied in a tidal channel at Port Fourchon, Louisiana. A bottom-mounted ADCP was deployed for 515 days. The first EOF mode of the velocity profiles showed a barotropic type of flow that explained more than 98.2% of the variability. The second mode showed a typical estuarine flow with two layers, which explained 0.47% of the variability. Using a linear regression of the …

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Hemodynamics Of The Corpus Luteum In Mares During Experimentally Impaired Luteogenesis And Partial Luteolysis, J. C. Ferreira, L. F.Novaes Filho, Y. L. Boakari, H. S. Canesin, D. L. Thompson, F. S. Lima, C. Meira Feb 2018

Hemodynamics Of The Corpus Luteum In Mares During Experimentally Impaired Luteogenesis And Partial Luteolysis, J. C. Ferreira, L. F.Novaes Filho, Y. L. Boakari, H. S. Canesin, D. L. Thompson, F. S. Lima, C. Meira

Faculty Publications

© 2017 The aim of the current project was to characterize the luteal vascularity and the plasma concentrations of progesterone (P4), prolactin (PRL) and 13,14-dihydro-15-keto-PGF2α (PGFM) in mares with luteal disturbances during early and mid-diestrus. In Experiment 1, twenty-one mares were treated with 2 mL of 0.9% NaCl, or 1 mg Dinoprost, or 10 mg Dinoprost on day two after ovulation (Control-D2, 1/10PGF-D2 and PGF-D2 groups, respectively; n = 7 mares/group). In Experiment 2, similar treatments were performed eight days post-ovulation using a different cohort of 21 mares (Control-D8, 1/10PGF-D8 and PGF-D8 groups, respectively; n = 7 mares/group). Blood samples …

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The Absence Of Dhhc3 Affects Primary And Latent Herpes Simplex Virus 1 Infection, Shaohui Wang, Kevin R. Mott, Marianne Cilluffo, Casey L. Kilpatrick, Shoko Murakami, Alexander V. Ljubimov, Konstantin G. Kousoulas, Sita Awasthi, Bernhard Luscher, Homayon Ghiasi Feb 2018

The Absence Of Dhhc3 Affects Primary And Latent Herpes Simplex Virus 1 Infection, Shaohui Wang, Kevin R. Mott, Marianne Cilluffo, Casey L. Kilpatrick, Shoko Murakami, Alexander V. Ljubimov, Konstantin G. Kousoulas, Sita Awasthi, Bernhard Luscher, Homayon Ghiasi

Faculty Publications

© 2018 American Society for Microbiology. UL20, an essential herpes simplex virus 1 (HSV-1) protein, is involved in cytoplasmic envelopment of virions and virus egress. We reported recently that UL20 can bind to a host protein encoded by the zinc finger DHHC-type containing 3 (ZDHHC3) gene (also known as Golgi-specific DHHC zinc finger protein [GODZ]). Here, we show for the first time that HSV-1 replication is compromised in murine embryonic fibroblasts (MEFs) isolated from GODZ-/- mice. The absence of GODZ resulted in blocking palmitoylation of UL20 and altered localization and expression of UL20 and glycoprotein K (gK); the expression of …

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Ecological Drivers Of Song Evolution In Birds: Disentangling The Effects Of Habitat And Morphology, Elizabeth Perrault Derryberry, Nathalie Seddon, Graham Earnest Derryberry, Santiago Claramunt, Glenn Fairbanks Seeholzer, Robb Thomas Brumfield, Joseph Andrew Tobias Feb 2018

Ecological Drivers Of Song Evolution In Birds: Disentangling The Effects Of Habitat And Morphology, Elizabeth Perrault Derryberry, Nathalie Seddon, Graham Earnest Derryberry, Santiago Claramunt, Glenn Fairbanks Seeholzer, Robb Thomas Brumfield, Joseph Andrew Tobias

Faculty Publications

© 2018 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. Environmental differences influence the evolutionary divergence of mating signals through selection acting either directly on signal transmission (“sensory drive”) or because morphological adaptation to different foraging niches causes divergence in “magic traits” associated with signal production, thus indirectly driving signal evolution. Sensory drive and magic traits both contribute to variation in signal structure, yet we have limited understanding of the relative role of these direct and indirect processes during signal evolution. Using phylogenetic analyses across 276 species of ovenbirds (Aves: Furnariidae), we compared the extent to …

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Kelt-21b: A Hot Jupiter Transiting The Rapidly Rotating Metal-Poor Late-A Primary Of A Likely Hierarchical Triple System, Marshall C. Johnson, Joseph E. Rodriguez, George Zhou, Erica J. Gonzales, Phillip A. Cargile, Justin R. Crepp, Kaloyan Penev, Keivan G. Stassun, B. Scott Gaudi, Knicole D. Colón, Daniel J. Stevens, Klaus G. Strassmeier, Ilya Ilyin, Karen A. Collins, John F. Kielkopf, Thomas E. Oberst, Luke Maritch, Phillip A. Reed, Joao Gregorio, Valerio Bozza, Sebastiano Calchi Novati, Giuseppe D'Ago, Gaetano Scarpetta, Roberto Zambelli, David W. Latham, Allyson Bieryla, William D. Cochran, Michael Endl, Jamie Tayar, Aldo Serenelli, Victor Silva Aguirre, Seth P. Clarke, Maria Martinez Feb 2018

Kelt-21b: A Hot Jupiter Transiting The Rapidly Rotating Metal-Poor Late-A Primary Of A Likely Hierarchical Triple System, Marshall C. Johnson, Joseph E. Rodriguez, George Zhou, Erica J. Gonzales, Phillip A. Cargile, Justin R. Crepp, Kaloyan Penev, Keivan G. Stassun, B. Scott Gaudi, Knicole D. Colón, Daniel J. Stevens, Klaus G. Strassmeier, Ilya Ilyin, Karen A. Collins, John F. Kielkopf, Thomas E. Oberst, Luke Maritch, Phillip A. Reed, Joao Gregorio, Valerio Bozza, Sebastiano Calchi Novati, Giuseppe D'Ago, Gaetano Scarpetta, Roberto Zambelli, David W. Latham, Allyson Bieryla, William D. Cochran, Michael Endl, Jamie Tayar, Aldo Serenelli, Victor Silva Aguirre, Seth P. Clarke, Maria Martinez

Faculty Publications

We present the discovery of KELT-21b, a hot Jupiter transiting the V = 10.5 A8V star HD 332124. The planet has an orbital period of P = 3.6127647 ± 0.0000033 days and a radius of 1.586-0.040+0.039 RJ. We set an upper limit on the planetary mass of at confidence. We confirmed the planetary nature of the transiting companion using this mass limit and Doppler tomographic observations to verify that the companion transits HD 332124. These data also demonstrate that the planetary orbit is well-aligned with the stellar spin, with a sky-projected spin-orbit misalignment of λ = -5.6-1.91.7. The star has …

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An Indication Of Anisotropy In Arrival Directions Of Ultra-High-Energy Cosmic Rays Through Comparison To The Flux Pattern Of Extragalactic Gamma-Ray Sources, A. Aab, P. Abreu, M. Aglietta, I. F.M. Albuquerque, I. Allekotte, A. Almela, J. Alvarez Castillo, J. Alvarez-Muñiz, G. A. Anastasi, L. Anchordoqui, B. Andrada, S. Andringa, C. Aramo, N. Arsene, H. Asorey, P. Assis, G. Avila, A. M. Badescu, A. Balaceanu, F. Barbato, R. J. Barreira Luz, J. J. Beatty, K. H. Becker, J. A. Bellido, C. Berat, M. E. Bertaina, X. Bertou, P. L. Biermann, J. Biteau, S. G. Blaess, A. Blanco, J. Blazek, C. Bleve Feb 2018

An Indication Of Anisotropy In Arrival Directions Of Ultra-High-Energy Cosmic Rays Through Comparison To The Flux Pattern Of Extragalactic Gamma-Ray Sources, A. Aab, P. Abreu, M. Aglietta, I. F.M. Albuquerque, I. Allekotte, A. Almela, J. Alvarez Castillo, J. Alvarez-Muñiz, G. A. Anastasi, L. Anchordoqui, B. Andrada, S. Andringa, C. Aramo, N. Arsene, H. Asorey, P. Assis, G. Avila, A. M. Badescu, A. Balaceanu, F. Barbato, R. J. Barreira Luz, J. J. Beatty, K. H. Becker, J. A. Bellido, C. Berat, M. E. Bertaina, X. Bertou, P. L. Biermann, J. Biteau, S. G. Blaess, A. Blanco, J. Blazek, C. Bleve

Faculty Publications

A new analysis of the data set from the Pierre Auger Observatory provides evidence for anisotropy in the arrival directions of ultra-high-energy cosmic rays on an intermediate angular scale, which is indicative of excess arrivals from strong, nearby sources. The data consist of 5514 events above 20 EeV with zenith angles up to 80 recorded before 2017 April 30. Sky models have been created for two distinct populations of extragalactic gamma-ray emitters: active galactic nuclei from the second catalog of hard Fermi-LAT sources (2FHL) and starburst galaxies from a sample that was examined with Fermi-LAT. Flux-limited samples, which include all …

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Measurement Of The Single Π 0 Production Rate In Neutral Current Neutrino Interactions On Water, K. Abe, J. Amey, C. Andreopoulos, M. Antonova, S. Aoki, A. Ariga, Y. Ashida, S. Assylbekov, D. Autiero, S. Ban, M. Barbi, G. J. Barker, G. Barr, C. Barry, P. Bartet-Friburg, M. Batkiewicz, V. Berardi, S. Berkman, S. Bhadra, S. Bienstock, A. Blondel, S. Bolognesi, S. Bordoni, S. B. Boyd, D. Brailsford, A. Bravar, C. Bronner, M. Buizza Avanzini Feb 2018

Measurement Of The Single Π 0 Production Rate In Neutral Current Neutrino Interactions On Water, K. Abe, J. Amey, C. Andreopoulos, M. Antonova, S. Aoki, A. Ariga, Y. Ashida, S. Assylbekov, D. Autiero, S. Ban, M. Barbi, G. J. Barker, G. Barr, C. Barry, P. Bartet-Friburg, M. Batkiewicz, V. Berardi, S. Berkman, S. Bhadra, S. Bienstock, A. Blondel, S. Bolognesi, S. Bordoni, S. B. Boyd, D. Brailsford, A. Bravar, C. Bronner, M. Buizza Avanzini

Faculty Publications

The single π0 production rate in neutral current neutrino interactions on water in a neutrino beam with a peak neutrino energy of 0.6 GeV has been measured using the PØD, one of the subdetectors of the T2K near detector. The production rate was measured for data taking periods when the PØD contained water (2.64×1020 protons-on-target) and also periods without water (3.49×1020 protons-on-target). A measurement of the neutral current single π0 production rate on water is made using appropriate subtraction of the production rate with water in from the rate with water out of the target region. The subtraction analysis yields …

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Peptide Ligands For Targeting The Extracellular Domain Of Egfr: Comparison Between Linear And Cyclic Peptides, Tyrslai M. Williams, Rushikesh Sable, Sitanshu Singh, Maria Graca H. Vicente, Seetharama D. Jois Feb 2018

Peptide Ligands For Targeting The Extracellular Domain Of Egfr: Comparison Between Linear And Cyclic Peptides, Tyrslai M. Williams, Rushikesh Sable, Sitanshu Singh, Maria Graca H. Vicente, Seetharama D. Jois

Faculty Publications

© 2017 John Wiley & Sons A/S Colorectal cancer (CRC) is the third most common solid internal malignancy among cancers. Early detection of cancer is key to increasing the survival rate of colorectal cancer patients. Overexpression of the EGFR protein is associated with CRC. We have designed a series of peptides that are highly specific for the extracellular domain of EGFR, based on our earlier studies on linear peptides. The previously reported linear peptide LARLLT, known to bind to EGFR, was modified with the goals of increasing its stability and its specificity toward EGFR. Peptide modifications, including D-amino acid substitution, …

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Hidden Endemism, Deep Polyphyly, And Repeated Dispersal Across The Isthmus Of Tehuantepec: Diversification Of The White-Collared Seedeater Complex (Thraupidae: Sporophila Torqueola), Nicholas A. Mason, Arturo Olvera-Vital, Irby J. Lovette, Adolfo G. Navarro-Sigüenza Feb 2018

Hidden Endemism, Deep Polyphyly, And Repeated Dispersal Across The Isthmus Of Tehuantepec: Diversification Of The White-Collared Seedeater Complex (Thraupidae: Sporophila Torqueola), Nicholas A. Mason, Arturo Olvera-Vital, Irby J. Lovette, Adolfo G. Navarro-Sigüenza

Faculty Publications

© 2018 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. Phenotypic and genetic variation are present in all species, but lineages differ in how variation is partitioned among populations. Examining phenotypic clustering and genetic structure within a phylogeographic framework can clarify which biological processes have contributed to extant biodiversity in a given lineage. Here, we investigate genetic and phenotypic variation among populations and subspecies within a Neotropical songbird complex, the White-collared Seedeater (Sporophila torqueola) of Central America and Mexico. We combine measurements of morphology and plumage patterning with thousands of nuclear loci derived from ultraconserved elements …

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Optimal Data Partitioning, Multispecies Coalescent And Bayesian Concordance Analyses Resolve Early Divergences Of The Grape Family (Vitaceae), Limin Lu, Cymon J. Cox, Sarah Mathews, Wei Wang, Jun Wen, Zhiduan Chen Feb 2018

Optimal Data Partitioning, Multispecies Coalescent And Bayesian Concordance Analyses Resolve Early Divergences Of The Grape Family (Vitaceae), Limin Lu, Cymon J. Cox, Sarah Mathews, Wei Wang, Jun Wen, Zhiduan Chen

Faculty Publications

© The Willi Hennig Society 2017 Evolutionary rate heterogeneity and rapid radiations are common phenomena in organismal evolution and represent major challenges for reconstructing deep-level phylogenies. Here we detected substantial conflicts in and among data sets as well as uncertainty concerning relationships among lineages of Vitaceae from individual gene trees, supernetworks and tree certainty values. Congruent deep-level relationships of Vitaceae were retrieved by comprehensive comparisons of results from optimal partitioning analyses, multispecies coalescent approaches and the Bayesian concordance method. We found that partitioning schemes selected by PartitionFinder were preferred over those by gene or by codon position, and the unpartitioned …

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Cambial Phenology Informs Tree-Ring Analysis Of Fire Seasonality In Coastal Plain Pine Savannas, Monica T. Rother, Jean M. Huffman, Grant L. Harley, William J. Platt, Neil Jones, Kevin M. Robertson, Steve L. Orzell Feb 2018

Cambial Phenology Informs Tree-Ring Analysis Of Fire Seasonality In Coastal Plain Pine Savannas, Monica T. Rother, Jean M. Huffman, Grant L. Harley, William J. Platt, Neil Jones, Kevin M. Robertson, Steve L. Orzell

Faculty Publications

© 2018, The Author(s). Understanding of historical fire seasonality should facilitate development of concepts regarding fire as an ecological and evolutionary process. In tree-ring based fire-history studies, the seasonality of fire scars can be classified based on the position of the fire scar within or between growth rings. Cambial phenology studies are needed to precisely relate a fire-scar position to months within a year because the timing of dormancy, earlywood production, and latewood production varies by species and location. We examined cambial phenology patterns of longleaf pine (Pinus palustris Mill.), slash pine (P. elliottii Engelm.), and South Florida slash pine …

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Aromatic Interactions At The Ligand–Protein Interface: Implications For The Development Of Docking Scoring Functions, Michal Brylinski Feb 2018

Aromatic Interactions At The Ligand–Protein Interface: Implications For The Development Of Docking Scoring Functions, Michal Brylinski

Faculty Publications

© 2017 John Wiley & Sons A/S The ability to design and fine-tune non-covalent interactions between organic ligands and proteins is indispensable to rational drug development. Aromatic stacking has long been recognized as one of the key constituents of ligand–protein interfaces. In this communication, we employ a two-parameter geometric model to conduct a large-scale statistical analysis of aromatic contacts in the experimental and computer-generated structures of ligand–protein complexes, considering various combinations of aromatic amino acid residues and ligand rings. The geometry of interfacial π–π stacking in crystal structures accords with experimental and theoretical data collected for simple systems, such as …

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Reference Quality Genome Assemblies Of Three Parastagonospora Nodorum Isolates Differing In Virulence On Wheat, Jonathan K. Richards, Nathan A. Wyatt, Zhaohui Liu, Justin D. Faris, Timothy L. Friesen Feb 2018

Reference Quality Genome Assemblies Of Three Parastagonospora Nodorum Isolates Differing In Virulence On Wheat, Jonathan K. Richards, Nathan A. Wyatt, Zhaohui Liu, Justin D. Faris, Timothy L. Friesen

Faculty Publications

Parastagonospora nodorum, the causal agent of Septoria nodorum blotch in wheat, has emerged as a model necrotrophic fungal organism for the study of host-microbe interactions. To date, three necrotrophic effectors have been identified and characterized from this pathogen, including SnToxA, SnTox1, and SnTox3. Necrotrophic effector identification was greatly aided by the development of a draft genome of Australian isolate SN15 via Sanger sequencing, yet it remained largely fragmented. This research presents the development of nearly finished genomes of P. nodorum isolates Sn4, Sn2000, and Sn79-1087 using long-read sequencing technology. RNAseq analysis of isolate Sn4, consisting of eight time points covering …

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Insect Effects On Ecosystem Services—Introduction, T. D. Schowalter, J. A. Noriega, T. Tscharntke Feb 2018

Insect Effects On Ecosystem Services—Introduction, T. D. Schowalter, J. A. Noriega, T. Tscharntke

Faculty Publications

Natural ecosystems provide a variety of services on which humans, and other organisms, depend for survival and well-being. These ecosystem services can be categorized as provisioning (production of food, fiber, water and other resources), cultural (non-material benefits, such as recreation, spiritual and other aesthetic values), supporting (primary production, pollination, decomposition and soil formation necessary for resource production) and regulating (biological control and other feedback mechanisms that maintain relatively consistent delivery of services). Ecosystems also have been viewed as producing “disservices” such as pests, litter, biological hazards such as diseases, animal attacks, allergenic and poisonous organisms, and geophysical hazards such as …

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Recently Integrated Alu Insertions In The Squirrel Monkey (Saimiri) Lineage And Application For Population Analyses, Mark Batzer, Jasmine N. Baker, Jerilyn A. Walker, Michael W. Denham, Charles D. Loupe Feb 2018

Recently Integrated Alu Insertions In The Squirrel Monkey (Saimiri) Lineage And Application For Population Analyses, Mark Batzer, Jasmine N. Baker, Jerilyn A. Walker, Michael W. Denham, Charles D. Loupe

Faculty Publications

Background: The evolution of Alu elements has been ongoing in primate lineages and Alu insertion polymorphisms are widely used in phylogenetic and population genetics studies. Alu subfamilies in the squirrel monkey (Saimiri), a New World Monkey (NWM), were recently reported. Squirrel monkeys are commonly used in biomedical research and often require species identification. The purpose of this study was two-fold: 1) Perform locus-specific PCR analyses on recently integrated Alu insertions in Saimiri to determine their amplification dynamics, and 2) Identify a subset of Alu insertion polymorphisms with species informative allele frequency distributions between the Saimiri sciureus and Saimiri boliviensis groups. …

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An Ancient Estuarine-Circulation Nutrient Trap: The Late Pennsylvanian Midcontinent Sea Of North America, Thomas J. Algeo, Achim D. Herrmann Feb 2018

An Ancient Estuarine-Circulation Nutrient Trap: The Late Pennsylvanian Midcontinent Sea Of North America, Thomas J. Algeo, Achim D. Herrmann

Faculty Publications

© 2018 Geological Society of America. The Late Pennsylvanian Midcontinent Sea (LPMS) of North America, which existed during glacioeustatic highstands of the late Paleozoic ice age, was an immense ( > 1 × 106 km2) cratonic interior sea exhibiting large-scale estuarine circulation, with a low-salinity surface plume overlying a high-salinity, anoxic, deep water mass. As in river estuaries, these conditions resulted in trapping and recycling of nutrients and organic-reactive elements (e.g., trace metals such as Mo, U, and Zn) in the subpycnoclinal water mass, leading to total organic carbon (TOC) to 40% and peak trace metal enrichment factors (EFs) of 540 …

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Reflection Positivity On Real Intervals, Palle E.T. Jorgensen, Karl Hermann Neeb, Gestur Ólafsson Feb 2018

Reflection Positivity On Real Intervals, Palle E.T. Jorgensen, Karl Hermann Neeb, Gestur Ólafsson

Faculty Publications

We study functions f: (a, b) → R on open intervals in R with respect to various kinds of positive and negative definiteness conditions. We say that f is positive definite if the kernel f(x+y2) is positive definite. We call f negative definite if, for every h> 0 , the function e-hf is positive definite. Our first main result is a Lévy–Khintchine formula (an integral representation) for negative definite functions on arbitrary intervals. For (a, b) = (0 , ∞) it generalizes classical results by Bernstein and Horn. On a symmetric interval (- a, a) , we call f reflection …

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Multigrid Methods For Saddle Point Problems: Darcy Systems, Susanne C. Brenner, Duk Soon Oh, Li Yeng Sung Feb 2018

Multigrid Methods For Saddle Point Problems: Darcy Systems, Susanne C. Brenner, Duk Soon Oh, Li Yeng Sung

Faculty Publications

We design and analyze multigrid methods for the saddle point problems resulting from Raviart–Thomas–Nédélec mixed finite element methods for the Darcy system in porous media flow. Uniform convergence of the W-cycle algorithm in a nonstandard energy norm is established. Extensions to general second order elliptic problems are also addressed.

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The Galex View Of "Boyajian's Star" (Kic 8462852), James R.A. Davenport, Kevin R. Covey, Riley W. Clarke, Zachery Laycock, Scott W. Fleming, Tabetha S. Boyajian, Benjamin T. Montet, Bernie Shiao, Chase C. Million, David J. Wilson, Manuel Olmedo, Eric E. Mamajek, Daniel Olmedo, Miguel Chávez, Emanuele Bertone Feb 2018

The Galex View Of "Boyajian's Star" (Kic 8462852), James R.A. Davenport, Kevin R. Covey, Riley W. Clarke, Zachery Laycock, Scott W. Fleming, Tabetha S. Boyajian, Benjamin T. Montet, Bernie Shiao, Chase C. Million, David J. Wilson, Manuel Olmedo, Eric E. Mamajek, Daniel Olmedo, Miguel Chávez, Emanuele Bertone

Faculty Publications

The enigmatic star KIC 8462852, informally known as "Boyajian's Star," has exhibited unexplained variability from both short timescale (days) dimming events, and years-long fading in the Kepler mission. No single physical mechanism has successfully explained these observations to date. Here we investigate the ultraviolet variability of KIC 8462852 on a range of timescales using data from the GALEX mission that occurred contemporaneously with the Kepler mission. The wide wavelength baseline between the Kepler and GALEX data provides a unique constraint on the nature of the variability. Using 1600 s of photon-counting data from four GALEX visits spread over 70 days …

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Modelling The Kic8462852 Light Curves: Compatibility Of The Dips And Secular Dimming With An Exocomet Interpretation, M. C. Wyatt, R. Van Lieshout, G. M. Kennedy, T. S. Boyajian Feb 2018

Modelling The Kic8462852 Light Curves: Compatibility Of The Dips And Secular Dimming With An Exocomet Interpretation, M. C. Wyatt, R. Van Lieshout, G. M. Kennedy, T. S. Boyajian

Faculty Publications

This paper shows how the dips and secular dimming in the KIC8462852 light curve can originate in circumstellar material distributed around a single elliptical orbit (e.g. exocomets). The expected thermal emission and wavelength dependent dimming is derived for different orbital parameters and geometries, including dust that is optically thick to stellar radiation, and for a size distribution of dust with realistic optical properties. We first consider dust distributed evenly around the orbit, then show how to derive its uneven distribution from the optical light curve and to predict light curves at different wavelengths. The fractional luminosity of an even distribution …

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Non-Grey Dimming Events Of Kic 8462852 From Gtc Spectrophotometry, Hans J. Deeg, Roi Alonso, David Nespral, Tabetha S. Boyajian Feb 2018

Non-Grey Dimming Events Of Kic 8462852 From Gtc Spectrophotometry, Hans J. Deeg, Roi Alonso, David Nespral, Tabetha S. Boyajian

Faculty Publications

We report ground-based spectrophotometry of KIC 8462852 obtained during its first dimming events since the end of the Kepler mission. The dimmings show a clear colour signature and are deeper in visual blue than in red wavelengths. The wavelength dependency of the flux loss can be described with an absorption Ångström coefficient of 2.19 ± 0.45, which is compatible with absorption by optically thin dust with particle sizes of the order of 0.0015 to 0.15 μm. These particles would be smaller than is required to be resistant against blow-out by radiation pressure when close to the star. During occultation events, …

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