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8,260 results on '"Barry, K."'

2. The complex polyploid genome architecture of sugarcane

Author

Healey, AL, Garsmeur, O, Lovell, JT, Shengquiang, S, Sreedasyam, A, Jenkins, J, Plott, CB, Piperidis, N, Pompidor, N, Llaca, V, Metcalfe, CJ, Doležel, J, Cápal, P, Carlson, JW, Hoarau, JY, Hervouet, C, Zini, C, Dievart, A, Lipzen, A, Williams, M, Boston, LB, Webber, J, Keymanesh, K, Tejomurthula, S, Rajasekar, S, Suchecki, R, Furtado, A, May, G, Parakkal, P, Simmons, BA, Barry, K, Henry, RJ, Grimwood, J, Aitken, KS, Schmutz, J, and D’Hont, A

Subjects
Agricultural, Veterinary and Food Sciences, Biological Sciences, Genetics, Agricultural Biotechnology, Crop and Pasture Production, Horticultural Production, Human Genome, Biotechnology, Zero Hunger, Chromosomes, Plant, Genome, Plant, Haplotypes, Hybridization, Genetic, Plant Breeding, Polyploidy, Saccharum, Reference Standards, DNA, Plant, General Science & Technology
Abstract

Sugarcane, the world's most harvested crop by tonnage, has shaped global history, trade and geopolitics, and is currently responsible for 80% of sugar production worldwide1. While traditional sugarcane breeding methods have effectively generated cultivars adapted to new environments and pathogens, sugar yield improvements have recently plateaued2. The cessation of yield gains may be due to limited genetic diversity within breeding populations, long breeding cycles and the complexity of its genome, the latter preventing breeders from taking advantage of the recent explosion of whole-genome sequencing that has benefited many other crops. Thus, modern sugarcane hybrids are the last remaining major crop without a reference-quality genome. Here we take a major step towards advancing sugarcane biotechnology by generating a polyploid reference genome for R570, a typical modern cultivar derived from interspecific hybridization between the domesticated species (Saccharum officinarum) and the wild species (Saccharum spontaneum). In contrast to the existing single haplotype ('monoploid') representation of R570, our 8.7 billion base assembly contains a complete representation of unique DNA sequences across the approximately 12 chromosome copies in this polyploid genome. Using this highly contiguous genome assembly, we filled a previously unsized gap within an R570 physical genetic map to describe the likely causal genes underlying the single-copy Bru1 brown rust resistance locus. This polyploid genome assembly with fine-grain descriptions of genome architecture and molecular targets for biotechnology will help accelerate molecular and transgenic breeding and adaptation of sugarcane to future environmental conditions.

Published
2024

5. The Chevron Decision and US Livestock Policy

Author

Goodwin, Barry K. and Smith, Vincent H.

Subjects
Administrative law -- Interpretation and construction, Livestock industry -- Laws, regulations and rules, Agricultural policy -- Interpretation and construction, Government regulation, Social sciences, Chevron U.S.A., Inc. v. Natural Resources Defense Council 467 U.S. 837 (1984), Administrative Procedure Act
Abstract

Chevron deference has long been a fundamental legal doctrine. It was initially established by a landmark 1984 ruling in Chevron U.S.A. v. Natural Resources Defense Council. (1) The doctrine held [...]

Published
2024

6. Death from bongkrekic acid toxicity: first report in North America

Author

Liz Eneida Rivera Blanco, David Kuai, Nicholas Titelbaum, Babar Fiza, David Reehl, Zakaa Hassan, Nader Dbouk, Alex J. Krotulski, Barry K. Logan, Sara E. Walton, Irene Liu, Michael Yu, and Joseph Carpenter

Subjects
mitochondrial toxins, bongkrekic acid, acute liver failure, fermented foods, Toxicology. Poisons, RA1190-1270
Abstract

Background Bongkrekic acid (BA) is a mitochondrial toxin, produced by the bacteria Burkholderia gladioli pv. cocovenenans during fermentation. Outbreaks of BA poisoning have been reported in China, Indonesia, and Mozambique, but have not been previously observed in North America.Case discussion A 67-year-old male with a past medical history of hypertension presented with two days of generalized weakness, nausea, and vomiting. He had consumed ogi, a home-fermented cornmeal pudding two days earlier. The patient developed acute liver failure, encephalopathy, acute kidney injury, coagulopathy, methemoglobinemia, and metabolic acidosis. Despite intensive care, he died on hospital day 8. Workup for common causes of acute liver failure was negative. Blood testing was positive for BA, estimated at 1,000 ng/mL. This case illustrates poisoning by BA, a rare and often lethal toxin resulting from improperly fermented food.

Published
2024
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7. Is the US Losing Farms at an Alarming Rate?

Author

Goodwin, Barry K. and Smith, Vincent H.

Subjects
Farms -- Statistics, Agricultural productivity -- Statistics, Census -- Evaluation, Social sciences
Abstract

Over the past four decades, the United States Department of Agriculture (USDA) has conducted a Census of Agriculture once every five years. The agency released data from the most recent [...]

Published
2024

8. Capacitor Optimization in Power Distribution Networks Using Numerical Computation Techniques

Author

Keuseman, Jordan R., Smutzer, Chad M., Haider, Clifton R, and Gilbert, Barry K.

Subjects
Computer Science - Networking and Internet Architecture, Mathematics - Optimization and Control
Abstract

This paper presents a power distribution network (PDN) decoupling capacitor optimization application with three primary goals: reduction of solution times for large networks, development of flexible network scoring routines, and a concentration strictly on achieving the best network performance. Example optimizations are performed using broadband models of a printed circuit board (PCB), a chip-package, on-die networks, and candidate capacitors. A novel worst-case time-domain optimization technique is presented as an alternative to the traditional frequency-domain approach. The trade-offs and criteria for scoring the computed network are presented. The output is a recommended set of capacitors which can then be applied to the product design., Comment: 24 pages, 13 figures, DesignCon 2021

Published
2023

9. Efficient Circuit-Level Implementation of Knuth-Based Balanced and Nearly-Balanced Codes

Author

Riggs, Pamela A., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Computer Science - Information Theory, Electrical Engineering and Systems Science - Signal Processing
Abstract

Coding schemes are often used in high-speed processor-processor or processor-memory busses in digital systems. In particular, we have introduced (in a 2012 DesignCon paper) a zero sum (ZS) signaling method which uses balanced or nearly-balanced coding to reduce simultaneous switching noise (SSN) in a single-ended bus to a level comparable to that of differential signaling. While several balanced coding schemes are known, few papers exist that describe the necessary digital hardware implementations of (known) balanced coding schemes, and no algorithms had previously been developed for nearly-balanced coding. In this work, we extend a known balanced coding scheme to accommodate nearly-balanced coding and demonstrate a range of coding and decoding circuits through synthesis in 65 nm CMOS. These hardware implementations have minimal impact on the energy efficiency and area when compared to current serializer/deserializers (SerDes) at clock rates which would support SerDes integration., Comment: 23 pages, 12 figures, DesignCon 2014

Published
2023

10. Plated-Through-Hole Via Design Specifications for 112G Serial Links

Author

Degerstrom, Michael J., Smutzer, Chad M., Ericson, Richard B., Haider, Clifton R, and Gilbert, Barry K.

Subjects
Computer Science - Networking and Internet Architecture, Electrical Engineering and Systems Science - Signal Processing
Abstract

An earlier study of a high layer-count test board using plated-through-hole (PTH) vias and a limited quantity of laser vias was shown to be capable of supporting 112 Gb/s PAM-4 links (or equivalent signaling having 28 GHz (Nyquist) bandwidth). This original board design was then rebuilt using a different fabricator, and the test results revealed a significant decrease in the bandwidth of the vias. These results led to the development of a set of design specifications that PCB vendors can easily validate, which will ensure that the use of high layer-count boards with PTH technology are viable for emerging 112 Gb/s PAM-4 links., Comment: 20 pages, 16 figures, DesignCon 2017

Published
2023

11. Inverting the SerDes Link Design Flow Process

Author

Degerstrom, Michael J., Smutzer, Chad M., Zabinski, Patrick J., and Gilbert, Barry K.

Subjects
Computer Science - Networking and Internet Architecture, Electrical Engineering and Systems Science - Signal Processing
Abstract

The traditional SerDes link simulation process begins with the extraction of printed circuit board (PCB) physical stripline and via models, followed by channel modeling and link simulation. We invert this simulation flow by first creating link performance curves across an array of hypothetical channels defined with specially-developed, high level, equation-based models; limited physical extraction is later undertaken to relate PCB channel implementation to these performance curves. These curves allow us to determine the system-level SerDes channel requirements and to become better informed in choosing PCB technologies for lower cost and easier manufacturability. The inverted modeling process is very efficient, allowing for the rapid identification and avoidance of problematic channel topologies and the study of other potentially useful channel designs., Comment: 24 pages, 18 figures, DesignCon 2017

Published
2023

12. 56 Gbps PCB Design Strategies for Clean, Low-Skew Channels

Author

Degerstrom, Michael J., Smutzer, Chad M., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Computer Science - Networking and Internet Architecture, Electrical Engineering and Systems Science - Signal Processing
Abstract

Although next generation (>28 Gbps) SerDes standards have been contemplated for several years, it has not been clear whether PCB structures supporting 56 Gbps NRZ will be feasible and practical. In this paper, we assess a number of specific PCB design strategies (related to pin-field breakouts, via stubs, and fiber weave skew) both through simulation and through measurement of a wide range of structures on a PCB test vehicle. We demonstrate that conventional approaches in many cases will not be sufficient, but that modest (manufacturable) design changes can enable low-skew 56 Gbps NRZ channels having acceptable insertion and return loss., Comment: 25 pages, 19 figures, DesignCon 2016

Published
2023

13. A Zero Sum Signaling Method for High Speed, Dense Parallel Bus Communications

Author

Smutzer, Chad M., Techentin, Robert W., Degerstrom, Michael J., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

Complex digital systems such as high performance computers (HPCs) make extensive use of high-speed electrical interconnects, in routing signals among processing elements, or between processing elements and memory. Despite increases in serializer/deserializer (SerDes) and memory interface speeds, there is demand for higher bandwidth busses in constrained physical spaces which still mitigate simultaneous switching noise (SSN). The concept of zero sum signaling utilizes coding across a data bus to allow the use of single-ended buffers while still mitigating SSN, thereby reducing the number of physical channels (e.g. circuit board traces) by nearly a factor of two when compared with traditional differential signaling. Through simulation and analysis of practical (non-ideal) data bus and power delivery network architectures, we demonstrate the feasibility of zero sum signaling and compare performance with that of traditional (single-ended and differential) methods., Comment: 24 pages, 11 figures, DesignCon 2012

Published
2023

14. Power Supply Compensation for Capacitive Loads

Author

Fasig, Jonathan L., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Systems and Control
Abstract

As ASIC supply voltages approach one volt, the source-impedance goals for power distribution networks are driven ever lower as well. One approach to achieving these goals is to add decoupling capacitors of various values until the desired impedance profile is obtained. An unintended consequence of this approach can be reduced power supply stability and even oscillation. In this paper, we present a case study of a system design which encountered these problems and we describe how these problems were resolved. Time-domain and frequency-domain analysis techniques are discussed and measured data is presented., Comment: 14 pages, 9 figures, DesignCon 2007

Published
2023

15. Introduction to Non-Invasive Current Estimation (NICE)

Author

Fasig, Jonathan L., White, Christopher K., Gilbert, Barry K., and Haider, Clifton R.

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

It is notoriously difficult to measure instantaneous supply current to a device such as an ASIC, FPGA, or CPU without also affecting the instantaneous supply voltage and compromising the operation of the device [21]. For decades designers have relied on rough estimates of dynamic load currents that stimulate a designed Power Delivery Network (PDN). The consequences of inaccurate load-current characterization can range from excessive PDN cost and lengthened development schedules to poor performance or functional failure. This paper will introduce and describe a method to precisely determine timedomain current waveforms from a pair of measured timedomain voltage waveforms. This NonInvasive Current Estimation (NICE) method is based on established twoport network theory along with component and board modeling techniques that have been validated through measurements on demonstrative circuits. This paper will show that the NICE method works for any transient event that can be captured on a digital oscilloscope. Limitations of the method and underlying measurements are noted where appropriate. The method is applied to a simple PDN with an arbitrary load, and the NICE-derived current waveform is verified against an independent measurement by sense resistor. With careful component and board modeling, it is possible to calculate current waveforms with a root mean square error of less than five percent compared to the reference measurement. Current transients that were previously difficult or impossible to characterize by any means can now be calculated and displayed within seconds of an oscilloscope-trigger event by using NICE. ASIC and FPGA manufacturers can now compute the startup current for their device and publish the actual waveform, or provide a piecewiselinear SPICE model (PWL source) to facilitate design and testing of the regulator and PDN required to support their device., Comment: 26 pages, 28 figures, DesignCon 2018

Published
2023

16. PWB Manufacturing Variability Effects on High Speed SerDes Links: Statistical Insights from Thousands of 4-Port SParameter Measurements

Author

McCoy, Bart O., Techentin, Robert W., Buhrow, Benjamin R., Buchs, Kevin, Lin, How, Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

Variability analysis is important in successfully deploying multi-gigabit backplane printed wiring boards (PWBs) with growing numbers of high-speed SerDes links. We discuss the need for large sample sizes to obtain accurate variability estimates of SI metrics (eye height, phase skew, etc). Using a dataset of 11,961 S-parameters, we demonstrate statistical techniques to extract accurate estimates of PWB SI performance variations. We cite numerical examples illustrating how these variations may contribute to underestimated or overestimated design criteria, causing unnecessary design expense. Tabular summaries of performance variation and key findings of broad interest to the general SI community are highlighted., Comment: 25 pages, 1 figures, DesignCon 2010

Published
2023

17. High Speed Parallel Signal Crosstalk Cancellation Concept

Author

Smutzer, Chad M., Degerstrom, Michael J., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

High performance computing (HPC) systems make extensive use of high speed electrical interconnects, in routing signals among processing elements, or between processing elements and memory. Increasing bandwidth demands result in high density, parallel I/O exposed to crosstalk due to tightly coupled transmission lines. The crosstalk cancellation signaling concept discussed in this paper utilizes the known, predictable theory of coupled transmission lines to cancel crosstalk from neighboring traces with carefully chosen resistive cross-terminations between them. Through simulation and analysis of practical bus architectures, we explore the merits of crosstalk cancellation which could be used in dense interconnect HPC (or other) applications., Comment: 25 pages, 12 figures, DesignCon 2011

Published
2023

18. Comparison of Optical and Electrical Links for Highly-Interconnected Systems

Author

Kruchowski, James, Sokolov, Vladimir, Harff, Nathan E., Nelson, Mark A., Liou, KY, Cameron, Graham, Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

As data rates for multi-gigabit serial interfaces within multi-node compute systems approach and exceed 10 Gigabits per second (Gbps), board-to-board and chip-to-chip optical signaling solutions become more attractive, particularly for longer (e.g. 50-100 cm) links. The transition to optical signaling will potentially allow new high performance compute (HPC) system architectures that benefit from characteristics unique to optical links. To examine these characteristics, we built and tested several optical demonstration vehicles; one based on dense wavelength division multiplexing (DWDM), and others based on multiple point-to-point links carried across multimode fibers. All test vehicles were constructed to evaluate applicability to a multi-node compute system. Test results, combined with data from recent research efforts are summarized and compared to equivalent electrical links and the advantages and design characteristics unique to optical signaling are identified., Comment: 25 pages, 18 figures, DesignCon 2011

Published
2023

19. Applications of Optimization Routines in Signal Integrity Analysis

Author

Zabinski, Pat J., Buhrow, Ben R., Gilbert, Barry K., and Daniel, Erik S.

Subjects
Electrical Engineering and Systems Science - Signal Processing, Mathematics - Optimization and Control
Abstract

Signal integrity analysis often involves the development of design guidelines through manual manipulation of circuit parameters and judicious interpretation of results. Such an approach can result in significant effort and sub-optimal conclusions. Optimization routines have been well proven to aid analysis across a variety of common tasks. In addition, there are several non-traditional applications where optimization can be useful. This paper begins by describing the basics of optimization followed by two specific case studies where non-traditional optimization provides significant improvements in both analysis efficiency and channel performance., Comment: 24 pages, 14 figures, DesignCon 2007

Published
2023

20. Time Domain Verification of Differential Transmission Line Modeling Methods

Author

Coker, Jonathan D., Daniel, Erik S., and Gilbert, Barry K.

Subjects
Physics - Applied Physics
Abstract

The advantages and limitations of time-domain pseudo-random binary sequence (PRBS) excitation methods for system identification of individual modes within a multi-conductor transmission system are discussed. We develop the modifications necessary to standard frequency-domain transmission-line models to match time-domain experimental data from several types of transmission systems. We show a variety of experimental results showing very good to excellent agreement with our model's predictions, up to approximately 10 GHz., Comment: 25 pages, 10 figures, DesignCon 2006

Published
2023

21. Measuring Physical and Electrical Parameters in Free-Living Subjects: Motivating an Instrument to Characterize Analytes of Clinical Importance in Blood Samples

Author

Gilbert, Barry K., Haider, Clifton R., Schwab, Daniel J., and Delp, Gary S.

Subjects
Physics - Applied Physics
Abstract

Significance: A path is described to increase the sensitivity and accuracy of body-worn devices used to monitor patient health. This path supports improved health management. A wavelength-choice algorithm developed at Mayo demonstrates that critical biochemical analytes can be assessed using accurate optical absorption curves over a wide range of wavelengths. Aim: Combine the requirements for monitoring cardio/electrical, movement, activity, gait, tremor, and critical biochemical analytes including hemoglobin makeup in the context of body-worn sensors. Use the data needed to characterize clinically important analytes in blood samples to drive instrument requirements. Approach: Using data and knowledge gained over previously separate research threads, some providing currently usable results from more than eighty years back, determine analyte characteristics needed to design sensitive and accurate multiuse measurement and recording units. Results: Strategies for wavelength selection are detailed. Fine-grained, broad-spectrum measurement of multiple analytes transmission, absorption, and anisotropic scattering are needed. Post-Beer-Lambert, using the propagation of error from small variations, and utility functions that include costs and systemic error sources, improved measurements can be performed. Conclusions: The Mayo Double-Integrating Sphere Spectrophotometer (referred hereafter as MDISS), as described in the companion report arXiv:2212.08763, produces the data necessary for optimal component choice. These data can provide for robust enhancement of the sensitivity, cost, and accuracy of body-worn medical sensors. Keywords: Bio-Analyte, Spectrophotometry, Body-worn monitor, Propagation of error, Double-Integrating Sphere, Mt. Everest medical measurements, O2SAT Please see also arXiv:2212.08763, Comment: 18 pages 7 figures, Mayo Clinic SPPDG Technical Report: Posted in conjunction with DJ Schwab, CR Haider, GS Delp, SK Grebe, and BK Gilbert, "An Experimental Double-Integrating Sphere Spectrophotometer for in Vitro Optical Analysis of Blood and Tissue Samples, Including Examples of Analyte Measurement Results," arXiv:2212.08763

Published
2023

22. An Experimental Double-Integrating Sphere Spectrophotometer for In Vitro Optical Analysis of Blood and Tissue Samples, Including Examples of Analyte Measurement Results

Author

Schwab, Daniel J., Haider, Clifton R., Delp, Gary S., Grebe, Stefan K., and Gilbert, Barry K.

Subjects
Physics - Applied Physics
Abstract

Data-driven science requires data to drive it. Being able to make accurate and precise measurement of biomaterials in the body means that medical assessments can be more accurate. There are differences between how blood absorbs and how it reflects light. The Mayo Clinic's Double-Integrating Sphere Spectrophotometer (MDISS) is an automated measurement device that detects both scattered and direct energy as it passes through a sample in a holder. It can make over 1,200 evenly spaced color measurements from the very deep purple (300-nm) through the visible light spectrum into the near infrared (2800-nm). The MDISS samples measured have been also measured by commercial laboratory equipment. The MDISS measurements are as accurate and more precise than those devices now in use. With so many measurements to be made during the time that the sample remains undegraded, mechanical and data collection automation was required. The MDISS sample holders include different thicknesses, versions that can operate at high pressure (such as divers may experience), and versions that can pump and rotate the measured material to maintain consistency of measurement. Although the data obtained are preliminary, they have potential to guide the design of new devices for more accurate assessments. There is an extensive "lessons learned" section. Please also see the companion report arXiv:2301.00938, Comment: 31 pages, 20 figures authors 1, 2, 3, 5: Mayo Clinic, Special Purpose Processor Development Group, Rochester MN 55905 author 4: Mayo Clinic, Division of Laboratory Medicine and Pathology, Rochester MN 55905 This paper is released with its companion Mayo-SPPDG-R22-15-V01 arXiv:2301.00938

Published
2022

25. Semaglutide and cardiovascular outcomes in patients with obesity and prevalent heart failure: a prespecified analysis of the SELECT trial

Author

Abe, Mitsunori, Abhaichand, Rajpal K, Abhayaratna, Walter P, Abhyankar, Atul, Abidin, Imran B Zainal, Abou Assi, Hiba, Accini Mendoza, Jose L, Adas, Mine, Agaiby, John M, Agarwal, Devendra K, Agha, Maher, Ahmed, Azazuddin, Ahtiainen, Petteri, Aigner, Elmar, Ajay, Naik, Ali, Norsiah, Al-Karadsheh, Amer, Allison, Roy, Allison, Dale C, Alpenidze, Diana, Altuntas, Yuksel, Al-Zoebi, Ayham, Ambuj, Roy, Amerena, John, Anderson, Robert J, Ando, Toshiaki, Andrews, Robert, Antonova, Elizaveta, Appel, Karl-Friedrich, Arantes, Flávia B, Araz, Mustafa, Arbel, Yaron, Arenas León, José L, Argyrakopoulou, Georgia, Ariani, Mehrdad, Arias Mendoza, Maria A, Arif, Ahmed A, Arneja, Jaspal, Aroda, Vanita R, Aronne, Louis J, Arstall, Margaret, Asamoah, Njaimeh, Asanin, Milika, Audish, Hanid, Avram, Rodica, Badat, Aysha, Badiu, Corin V, Bakdash, Wa'el, Bakiner, Okan S, Bandezi, Vuyokazi N, Bang, Liew H, Bansal, Sandeep, Baranyai, Marietta, Barbarash, Olga, Barber, Mark, Barnum, Otis, Barone Rochette, Gilles, Bashkin, Amir, Baum, Seth, Bays, Harold E, Bazzoni Ruiz, Alberto E, Beckowski, Maciej, Beerachee, Yaswin, Bellary, Srikanth, Belousova, Lidia, Berk, Martin, Bernstein, Marc, Berra, Cesare, Beshay, Isaac, Bhagwat, Ajit, Bhan, Arti, Biggs, William C, Billings, Liana, Bitar, Fahed, Block, Bradley, Bo, Simona, Bogdanski, Pawel, Bolshakova, Olga O, Boshchenko, Alla A, Bosworth, Hayden, Botero Lopez, Rodrigo, Bôttcher, Morten, Bourgeois, Ronald, Brautigam, Donald, Breton, Cristian F, Broadley, Andrew, Brockmyre, Andrew P, Brodie, Steven K, Bucci, Marco, Budincevic, Hrvoje, Budoff, Matthew J, Buffman, Barry, Buljubasic, Nediljka, Buranapin, Supawan, Burgess, Lesley, Burguera, Bartolomé, Buriakovska, Olena, Buscemi, Silvio, Busch, Robert, Buse, John B, Buynak, Robert, Byrne, Maria, Caceaune, Elena, Cadena Bonfanti, Alberto J, Calinescu, Cornell V, Call, Robert S, Canecki Varzic, Silvija, Cannon, Kevin, Capehorn, Matt, Cariou, Bertrand, Carr, Jeffrey, Carrillo-Jimenez, Rodolfo, Casas, Marcelo, Castro, Almudena, Celik, Ahmet, Cercato, Cintia, Cermak, Ondrej, Cha, James Y, Chacon, Carolina, Chaicha-Brom, Tira, Chandra, Sandeep, Chettibi, Mohamed, Chevts, Julia, Christopher, Johann, Chrustowski, Witold, Cif, Adriana, Clark, Rebecca, Clark, Wayne, Clifford, Piers, Coetzee, Kathleen, Cogni, Giulia, Colao, Anna Maria, Colquhoun, David M, Concha, Mauricio, Condit, Jonathan, Constance, Christian, Constantin, Ciprian, Constantinescu, Silviana, Corbett, Clive, Cornett, George M, Correia, Marcelo, Cortinovis, Fiorenzo, Cosma, Dana, Creely, Steven, Cross, David, Curtis, Brian, Czochra, Wojciech, Daboul, Nizar Y, Dagdelen, Selcuk, D'agostino, Ronald, Dang, Cuong, Datta, Sudip, Davuluri, Ashwini K, Dawood, Saleem Y, De Jong, Douwe M, De La Cuesta, Carmen, De Los Rios Ibarra, Manuel O, De Pablo, Carmen, De Pauw, Michel, Dela Llana, Alexander, Delibasic, Maja, Delic-Brkljacic, Diana, Demicheli, Thibaud, Denger, Ralf J, Desai, Devang, Desai, Piyush, Desouza, Cyrus V, Dicker, Dror, Djenic, Nemanja, Dobson, Simon, Doi, Masayuki, Doran, Jesse A, Dorman, Reinhart, Dotta, Francesco, Dukes, Carl E, Duronto, Ernesto, Durst, Ronen, Dvoryashina, Irina V, Ebrahim, Iftikhar O, Eggebrecht, Holger, Egstrup, Kenneth, Ekinci, Elif I, Eliasson, Björn, Eliasson, Ken, Enache, Georgiana, Enculescu, Dan, English, Patrick, Ermakova, Polina, Ershova, Olga, Ezaki, Hirotaka, Ezhov, Marat, Farias, Eduardo, Farias, Javier M, Farsky, Pedro S, Ferreira, Daniel, Filteau, Pierre, Finneran, Matthew P, Folkens, Eric M, Fonseca, Alberto G, Fonseca, Luisa, Fordan, Steven, Fourie, Nyda, França, Sara, Franco, Denise R, Franek, Edward, Friedman, Keith, Frittitta, Lucia, Froer, Michael, Fuckar, Krunoslav, Fujii, Kenshi, Fujita, Ryoko, Fukushima, Yasushi, Fulat, Mohamed, Fulwani, Mahesh, Gajos, Grzegorz, Galyavich, Albert, Gambill, Michael L, Gandotra, Dheeraj, Winston, Gandy, Jr., Garcia Hernandez, Pedro A, García Reza, Raymundo, Garg, Naveen, Garg, Sandeep, Garvey, William T, Garza, Juan C, Gatta-Cherifi, Blandine, Gelev, Valeri, Geller, Steven A, Geohas, Jeffrey G, Georgiev, Borislav, Ghazi, Adline, Gilbert, Matthew P, Gilinskaya, Olga, Gislason, Gunnar, Gogas Yavuz, Dilek, González Albarrán, Olga, Gordeev, Ivan G, Gorton, Sidney C, Goudev, Assen, Gretland Valderhaug, Tone, Groenemeijer, Bjorn, Gul, Ibrahim, Gullestad, Lars, Gurieva, Irina, Guseva, Galina N, Hagenow, Andreas, Haluzik, Martin, Halvorsen, Sigrun, Hammoudi, Naima, Hanaoka, Keiichi, Hancu, Nicolae, Hanusch, Ursula, Harris, Kathleen, Harris, Barry, Hartleib, Michael, Hartman, Aaron N, Hata, Yoshiki, Heimer, Brian, Herman, Lee, Herzog, William, Hewitt, Eric, Heymer, Peter, Hiremath, Shirish, Hjelmesaeth, Joeran, Høgalmen, Rasmus Geir, Høivik, Hans Olav, Holmer, Helene, Horoshko, Olha, Houser, Patricia M, Hove, Jens D, Hsieh, I-Chang, Hulot, Jean-Sébastien, Hussein, Zanariah, Ilashchuk, Tetiana, Ilveskoski, Erkki, Ipatko, Irina, Iranmanesh, Ali, Isawa, Tsuyoshi, Issa, Moises, Iteld, Bruce, Iwasawa, Takamasa, Jabbar, Danish, Jackson, Richard A, Jackson-Voyzey, Ewart, Jacob, Stephan, Jaffrani, Naseem A, Jardula, Michael F, Jastreboff, Ania, Jensen, Svend E, Jerkins, Terri, Jimenez-Ramos, Silvia A, Jitendra Pal Singh, Sawhney, Johnson, Wallace, Joyce, John M, Jozefowska, Malgorzata, Jugnundan, Prakash, Jungmair, Wolfgang, Jurowiecki, Jaroslaw, Kadokami, Toshiaki, Kahali, Dhiman, Kahrmann, Gerd, Kaiser, Sergio E, Kalmucki, Piotr, Kanadasi, Mehmet, Kandath, David, Kania, Grzegorz, Kannan, J, Kapp, Cornelia, Karczmarczyk, Agnieszka, Kartalis, Athanasios, Kaser, Susanne, Kasim, Sazzli Shahlan, Kastelic, Richard, Kato, Toshiaki, Katova, Tzvetana, Kaul, Upendra, Kautzky-Willer, Alexandra, Kawanishi, Masahiro, Kayikcioglu, Meral, Kazakova, Elena E, Keeling, Philip, Kempe, Hans-Peter, Kereiakes, Dean J, Kerneis, Mathieu, Keski-Opas, Tiina, Khadra, Suhail, Khaisheva, Larisa, Kharakhulakh, Marina, Khlevchuk, Tatiana, Khoo, Jeffrey, Kiatchoosakun, Songsak, Kinoshita, Noriyuki, Kinoshita, Masaharu, Kitamura, Ryoji, Kiyosue, Arihiro, Klavina, Irina, Klein, Eric J, Klimsa, Zdenek, Klonoff, David, Klug, Eric, Kobalava, Zhanna, Kodera, Satoshi, Koga, Tokushi, Kokkinos, Alexander, Koleckar, Pavel, Könyves, László, Koren, Michael J, Kormann, Adrian P, Kostner, Karam, Kreutzmann, Kristin, Krishinan, Saravanan, Krishnasamy, Sathya S, Krivosheeva, Inga, Kruljac, Ivan, Kubicki, Ted, Kuchar, Ladislav, Kujawiak, Monika, Kunishige, Hideyuki, Kurtinecz, Melinda, Kurtz Lisboa, Hugo R, Kushnir, Mykola, Kyyak, Yulian, Lace, Arija, Lakka, Timo, Lalic, Nebojsa, Lalic, Katarina, Lambadiari, Vaia, Lanaras, Leonidas, Lang, Chim, Langlois, Marie-France, Lash, Joseph, Latkovskis, Gustavs, Lau, David, Lazcano Soto, José Roberto, Le Roux, Carel, Ledesma, Gilbert N, Lee, Li Yuan, Lee, Thung-Lip, Lee, Kelvin, Lehrke, Michael, Leite, Silmara O, Leksycka, Agata, Lenzmeier, Thomas, Leonetti, Frida, Leonidova, Viktoriia, Lepor, Norman, Leung, Melissa, Levchenko, Olena, Levins, Peter, Levy, Louis J, Lewis, Matthew, Liberopoulos, Evangelos, Liberty, Idit, Lindholm, Carl-Johan, Lingvay, Ildiko, Linhart, Ales, Liu, Ming-En, Liu, Jenny, Lofton, Holly, Logemann, Timothy, Lombaard, Johannes J, Lombard, Landman, Lorraine, Richard, Lovell, Charles F, Ludvik, Bernhard, Lukaszewicz, Monika, Lupkovics, Géza, Lupovitch, Steven, Lupu, Sirona, Lynch, Mary, Lysak, Zoreslava, Lysenko, Tatyana A, Maeda, Hajime, Maeda, Itaru, Mæng, Michael, Mahajan, Ajay U, Maher, Vincent, Maia, Lilia N, Makotoko, Ellen M, Malavazos, Alexis, Malecha, Jan, Malicherova, Emilia, Manita, Mamoru, Mannucci, Edoardo, Mareev, Viacheslav, Marin, Liliana, Markova, Tatiana, Marso, Steven P, Martens, F.M.A.C., Martinez, Cuper, Martinez Cano, Carlos A, Martins, Cristina, Masmiquel Comas, Luis, Matsumoto, Takashi, Mcdonald, Kenneth, Mcgowan, Barbara, Mcgrew, Frank, Mclean, Barry K, Mcpherson, David D, Merino Torres, Juan Francisco, Meyers, Peter, Meyhöfer, Sebastian, Mezquita Raya, Pedro, Milanova, Maria, Milicic, Davor, Miller, Gary, Mills, Richard E, Mîndrescu, Nicoleta M, Mingrone, Geltrude, Minkova, Dotska A, Mirani, Marco, Miras, Alexander, Mistodie, Cristina V, Mitomo, Satoru, Mittal, Sanjay, Miyake, Taiji, Miyamoto, Naomasa, Molony, David, Monteiro, Pedro, Mooe, Thomas, Moosa, Naeem, Morales Portillo, Cristobal, Morales Villegas, Enrique C, Morawski, Emily J, Morbey, Claire, Morin, Robert P, Morisaki, Kuniaki, Morosanu, Magdalena, Mosenzon, Ofri, Mostovoy, Yuriy, Munir, Iqbal, Muratori, Fabrizio, Murray, Ryan, Murthy, Avinash, Myint, Min, Myshanych, Galyna, Nafornita, Valerica, Nagano, Takuya, Nair, Sunil, Nakhle, Samer N, Natsuaki, Masahiro, Nayak, Bindu M, Nibouche, Djamel Eddine, Nicholls, Stephen, Nicolau, José C, Nicolescu, Georgiana, Nierop, Peter, Niskanen, Leo, Ntaios, George, Nygård, Ottar Kjell, Oaks, Joshua B, Obrezan, Andrey, O'donnell, Philip, Oguri, Mitsutoshi, Oguzhan, Abdurrahman, Oh, Fumiki, Ohsugi, Mitsuru, Okada, Yoshio, Okayama, Hideki, Onaca, Adriana, Onaka, Haruhiko, Oneil, Patrick, Ong, Tiong Kiam, Ong, Stephen, Ono, Yasuhiro, Opsahl, Paul J, Ostrowska, Lucyna, Oviedo, Alejandra, Ozdogan, Oner, Ozpelit, Ebru, Pagkalos, Emmanouil, Pagotto, Uberto, Páll, Dénes, Pandey, Amritanshu- Shekhar, Parkhomenko, Oleksandr, Parvathareddy, Krishna Malakondareddy, Patel, Minesh B, Patsilinakos, Sotirios, Paul, Neil, Pedersen, Sue, Pereira, Isabel, Pereira, Edward Scott, Perez Terns, Paula, Perez-Vargas, Elba A, Pergaeva, Yulia, Perkelvald, Alexander, Peskov, Andrey B, Peter, Jonathan, Peters, Karina, Petit, Catherine, Petrov, Ivo, Philis-Tsimikas, Athena, Pietilä, Mikko, Pinto, Fausto, Piros, Annamária, Piyayotai, Dilok, Platonov, Dmitriy, Poirier, Paul, Pop, Lavinia, Popa, Bogdan, Pop-Busui, Rodica, Poremba, John, Porto, Alejandro, Postadzhiyan, Arman, Pothineni, Ramesh B, Potu, Ranganatha P, Powell, Talessa, Prafulla, Kerkar G, Prager, Rudolf, Prakova-Teneva, Zhulieta R, Pratley, Richard E, Price, Hermione, Pulka, Grazyna, Pullman, John, Punt, Zelda E, Purighalla, Raman S, Purnell, Peter, Qureshi, Mansoor, Rabasa-Lhoret, Remi, Raikhel, Marina A, Rancane, Gita, Randeva, Harpal, Rasouli, Neda, Reurean Pintilei, Delia V, Reyes, Ciro R, Rezgale, Inga, Rice, Eva, Riley, Thaddeus H, Risser, Joseph A, Ristic, Arsen, Rivas Fernández, Margarita, Robbins, David, Robitaille, Yves, Rodbard, Helena W, Rodriguez Plazas, Jaime A, Römer, T.J., Rosen, Glenn, Rosman, Dr Azhari, Rossi, Paulo, Rudenko, Leonid, Ruffin, Omari, Ruhani, Anwar Irawan, Runev, Nikolay, Ruyatkin, Dmitriy, Ruzic, Alen, Ryabov, Vyacheslav V, Rydén, Lars, Saggar, Suraj, Sakamoto, Tomohiro, Salter, Tim, Samal, Aditya K, Samoilova, Yulia, Sanabria, Hugo D, Sancak, Seda, Sangrigoli, Renee, Sansanayudh, Nakarin, Santini, Ferruccio, Saraiva, José F, Sardinov, Ruslan, Sargeant, William, Sari, Ramazan, Sathananthan, Airani, Sathyapalan, Thozhukat, Sato, Atsushi, Sauter, Joachim, Sbraccia, Paolo, Schaap, J., Schaum, Thomas, Schiele, François, Scott, John, Segal Lieberman, Gabriella, Segner, Alexander, Senior, Roxy, Sergeeva-Kondrachenko, Marina Y, Serota, Harvey, Serusclat, Pierre, Sethi, Rishi, Shah, Manoj K, Shah, Neerav, Shalaev, Sergey, Sharma, Raj, Sharma, Sumeet, Shaydyuk, Oksana, Shea, Heidi C, Shechter, Michael, Shehadeh, Naim, Shirazi, Mitra, Shlesinger, Yshay, Shneker, Ayham, Shutemova, Elena, Siasos, Gerasimos, Siddiqui, Imran A, Sidey, Jennifer, Sigal, Felix, Sime, Iveta, Singh, Narendra, Siraj, Elias, Sivalingam, Kanagaratnam, Skoczylas, Grzegorz, Smith, Stephen K, Smolenskaya, Olga, Snyder, Brian, Sofer, Yael, Sofley, C.W., Solano, Royce, Sonmez, Yusuf A, Sorokin, Maxim, Soto González, Alfonso, Sotolongo, Carlos, Soufer, Joseph, Soyluk Selcukbiricik, Ozlem, Spaic, Tamara, Spriggs, Douglas, Sreenan, Seamus, Stahl, Hans-Detlev, Stamatelopoulos, Kimon, Stanislavchuk, Mykola, Stankovic, Goran, Stasek, Josef, Steg, Gabriel, Steindorf, Joerg, Stephan, Dominique, Stewart, John, Still, Christopher, St-Maurice, Francois, Stogowska-Nikiciuk, Barbara, Stoker, Jeff, Stokic, Edita, Strzelecka, Anna, Sturm, Kerstin, Sueyoshi, Atsushi, Sugiura, Toshiyuki, Sultan, Senan, Suplotova, Lyudmila A, Suwanagool, Arisara, Suwanwalaikorn, Sompongse, Sveklina, Tatiana, Swanson, Neil, Swart, Henk, Swenson, Bradley P, Szyprowska, Ewa, Tait, Graeme, Takács, Róbert, Takeuchi, Yuzo, Tamirisa, Aparna, Tanaka, Hideki, Tatovic, Danijela, Tellier, Guy, Teragawa, Hiroki, Teterovska, Dace, Thomas, Nihal, Thuan, Jean-Francois, Tinahones, Francisco, Tisheva-Gospodinova, Snezhanka, Toarba, Cristina, Todoriuk, Liudmyla, Tokmakova, Mariya, Tonstad, Serena, Toplak, Hermann, Tran, Henry, Tripathy, Devjit, Trusau, Aliaksandr, Tsabedze, Nqoba, Tsougos, Elias, Tsoukas, George M, Tuccinardi, Dario, Tuna, Mazhar M, Turatti, Luiz A, Tziomalos, Konstantinos, Udommongkol, Chesda, Ueda, Osamu, Ukkola, Olavi, Unubol, Mustafa, Urbach, Dorothea, Urina Triana, Miguel A, Usdan, Lisa, Vaidya, Bijay, Vale, Noah, Vallieres, Gerald, Van Beek, Andre P, Van De Borne, Philippe, Van Der Walt, Eugene, Van Der Zwaan, C., Van Nieuwenhuizen, Elane, Van Zyl, Louis, Vanduynhoven, Philippe, Varghese, Kiron, Vasileva, Svetla P, Vassilev, Dobrin, Vathesatogkit, Prin, Velychko, Valentyna, Vercammen, Chris, Verges, Bruno, Verma, Subodh, Verwerft, Jan, Vesela, Alica, Veselovskaya, Nadezhda G, Vettor, Roberto, Veze, Irina, Vijan, Vinod, Vijayaraghavan, Ram, Villarino, Adriana, Vincent, Royce, Vinogradova, Oksana, Vishlitzky, Victor, Vlad, Adrian, Vladu, Ionela Mihaela, Vo, Anthony, Von Engelhardt, Charlotte, Von Münchhausen, Candy, Vorobyeva, Olga, Vossenberg, T., Vrolix, Mathias, Vukicevic, Marjana, Vyshnyvetskyy, Ivan, Wadvalla, Shahid, Wagner, Jan, Wakeling, John, Wallace, James, Wan Mohamed, Wan Mohd Izani, Wander, Gurpreet S, Ward, Kathleen, Warren, Mark L, Watanabe, Atsuyuki, Weber, Bruce, Weintraub, Howard, Weisnagel, John, Welker, James, Wendisch, Ulrich, Wenocur, Howard S, Wierum, Craig, Wilding, John, William, Maged, Wilson, Pete, Wilson, Jonathan P, Wong, Yuk-Ki, Wongcharoen, Wanwarang, Wozniak, Iwona, Wu, Chau-Chung, Wyatt, Nell, Wynne, Alan, Yamaguchi, Hiroshi, Yamasaki, Masahiro, Yazici, Dilek, Yeh, Hung-I, Yotov, Yoto, Yuan, Qingyang, Zacher, Jeffrey, Zagrebelnaya, Olga, Zaidman, Cesar J, Zalevskaya, Alsu, Zarich, Stuart, Zatelli, Maria Chiara, Zeller, Helga, Zhdanova, Elena A, Zornitzki, Taiba, Zrazhevskiy, Konstantin, Zykov, Mikhail, Lincoff, A Michael, Ryan, Donna H, Colhoun, Helen M, Deanfield, John E, Emerson, Scott S, Kahn, Steven E, Kushner, Robert F, Plutzky, Jorge, Brown-Frandsen, Kirstine, Hovingh, G Kees, Hardt-Lindberg, Soren, Tornøe, Christoffer W, Deanfield, John, Scirica, Benjamin M, Ryan, Donna, Kosiborod, Mikhail N, Hardt-Lindberg, Søren, Frenkel, Ofir, Weeke, Peter E, Rasmussen, Søren, Lang, Chim C, and Urina-Triana, Miguel

Published
2024
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26. Capital Redefined

Author

HOSSEINI, S A Hamed and Gills, Barry K.

Subjects
Capital, Capitalism, Capitalist, Climate, Commonist Value Theory, Commons, Development, Ecology, Economic, Fetish Value, Globalisation, Globalization, Labor, Labour, Liberating, Life, Marx, Modular, Political Economy, Power, True Value, Value, bic Book Industry Communication::J Society & social sciences::JP Politics & government
Abstract

Capital Redefined presents a unique perspective on the nature of “capital,” departing from the prevailing reductionist accounts. Hosseini and Gills offer an expanded perspective on Marxian value theory by addressing its main limitations and building their own integrative value theory. They argue that the current understanding of “value” must be re-examined and liberated from its subservient ties to capital while acknowledging the ways in which capital appropriates value. This is achieved by differentiating between “fetish value” created by capital and “true value” generated through various commons-based forms of coexistence. The authors propose a defetishization of value by rejecting the commonly accepted idea of its objectivity. They introduce their “commonist value theory,” which redefines capital as both the product and process of perverting the fundamental commoning causes of true value into sources of fetish value. Capital is theorized through a “modular” framework, where multiple intersecting processes constitute a comprehensive power structure, a “value regime,” representing an unprecedented degree of the domination of capital over life. Their theory reconciles two apparently incompatible views on the notion of value. One view encompasses all inputs involved in capitalist value production and conflates intrinsic and commodity values. The other warns against this conflation as it treats capital as an entity tightly associated only with commodity production and wage labor. The authors believe that establishing alternative forms of value creation based on normative principles of living in commons is crucial as an analytical base for criticizing existing power structures and economic systems. The book offers a theoretical foundation for transforming our life worlds toward “post-capitalist” futures. It appeals to scholars and students in various fields, such as political economy, capitalism, and post-capitalist studies, economic and political sociology, globalization, development studies, social ecology, and ecological philosophy.

Published
2024
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27. The Path Forward for US Agricultural Trade: Free Trade, Fair Trade, or Both?

Author

Goodwin, Barry K. and Smith, Vincent H.

Subjects
United States. Department of Agriculture -- Tax policy, Agricultural industry -- International economic relations -- International trade, Medium term notes, Free trade, Tariffs, Pork industry -- International economic relations -- International trade, United States economic conditions, Balance of trade -- China, Protectionism, Social sciences
Abstract

Key Points * Until recently, the US agricultural sector, unlike the economy at large, has historically run a trade surplus--exporting more than is imported. * The Trump administration's trade wars, [...]

Published
2023

31. Epilogue

Author

Hosseini, S. A. Hamed, primary and Gills, Barry K., additional

Published
2023
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39. IgE and IgG4 epitopes of the peanut allergens shift following oral immunotherapy

Author

Ian M. Rambo, Christina M. Kronfel, Adam R. Rivers, Lauren T. Swientoniewski, Jane K. McBride, Hsiaopo Cheng, Reyna J. Simon, Robert Ryan, Stephen A. Tilles, Jacqueline B. Nesbit, Michael D. Kulis, Barry K. Hurlburt, and Soheila J. Maleki

Subjects
peanut allergy, epitope, immunoglobulin, oral immunotherapy, microarray, ISAC, Immunologic diseases. Allergy, RC581-607
Abstract

BackgroundOral immunotherapy (OIT) with peanut (Arachis hypogaea) allergen powder-dnfp (PTAH; Aimmune Therapeutics) is an FDA-approved treatment to desensitize peanut allergic participants.ObjectiveHere we assessed shifts in IgE and IgG4 binding to peanut allergens and their epitopes recognized by United States (US) peanut allergic participants (n = 20) enrolled in phase 3 PTAH OIT clinical trials.MethodsPre- and post- trial participant sera were collected approximately 12 months apart and tested for IgE binding to intact peanut proteins via ImmunoCAP ISAC immunoassays. IgE and IgG4 linear epitopes were identified based on binding to synthetic overlapping 15-mer linear peptides of 10 peanut allergens (Ara h 1-11) synthesized on microarray slides.ResultsStatistically significant decreases in IgE binding were identified for intact Ara h 2, 3, and 6, and known and newly identified IgE epitopes were shown to exhibit shifts towards IgG4 binding post-OIT, with most linear peptides having increased IgG4 binding after treatment with PTAH. While PTAH does not seem to alter the actual peptide binding patterns significantly after one year of treatment, the IgE and IgG4 binding ratios and intensity are altered.ConclusionAt a population level, the linear IgE and IgG4 epitopes of 10 peanut allergens overlap and that increase in IgG4 with OIT results in displacement of IgE binding to both conformational and linear epitopes. Furthermore, it appears as though the increase in IgG4 is more important to achieve desensitization at the 12-month timepoint than the decrease in IgE. This type of knowledge can be useful in the identification of IgE and IgG4-binding allergen and peptide biomarkers that may indicate desensitization or sustained unresponsiveness of allergic individuals to peanut.

Published
2023
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40. Genomic adaptations of the green alga Dunaliella salina to life under high salinity

Author

Polle, JEW, Calhoun, S, McKie-Krisberg, Z, Prochnik, S, Neofotis, P, Yim, WC, Hathwaik, LT, Jenkins, J, Molina, H, Bunkenborg, J, Grigoriev, IV, Barry, K, Schmutz, J, Jin, ES, Cushman, JC, and Magnusson, JK

Subjects
Plant Biology, Chemical Engineering, Industrial Biotechnology
Abstract

Life in high salinity environments poses challenges to cells in a variety of ways: maintenance of ion homeostasis and nutrient acquisition, often while concomitantly enduring saturating irradiances. Dunaliella salina has an exceptional ability to thrive even in saturated brine solutions. This ability has made it a model organism for studying responses to abiotic stress factors. Here we describe the occurrence of unique gene families, expansion of gene families, or gene losses that might be linked to osmoadaptive strategies. We discovered multiple unique genes coding for several of the homologous superfamily of the Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family and of the glycolipid 2-alpha-mannosyltransferase family, suggesting that such components on the cell surface are essential to life in high salt. Gene expansion was found in families that participate in sensing of abiotic stress and signal transduction in plants. One example is the patched family of the Sonic Hedgehog receptor proteins, supporting a previous hypothesis that plasma membrane sterols are important for sensing changes in salinities in D. salina. We also investigated genome-based capabilities regarding glycerol metabolism and present an extensive map for core carbon metabolism. We postulate that a second broader glycerol cycle exists that also connects to photorespiration, thus extending the previously described glycerol cycle. Further genome-based analysis of isoprenoid and carotenoid metabolism revealed duplications of genes for 1-deoxy-D-xylulose-5-phosphate synthase (DXS) and phytoene synthase (PSY), with the second gene copy of each enzyme being clustered together. Moreover, we identified two genes predicted to code for a prokaryotic-type phytoene desaturase (CRTI), indicating that D. salina may have eukaryotic and prokaryotic elements comprising its carotenoid biosynthesis pathways. In brief, our genomic data provide the basis for further gene discoveries regarding sensing abiotic stress, the metabolism of this halophilic alga, and its potential in biotechnological applications.

Published
2020

41. 101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens.

Author

Haridas, S, Albert, R, Binder, M, Bloem, J, LaButti, K, Salamov, A, Andreopoulos, B, Baker, SE, Barry, K, Bills, G, Bluhm, BH, Cannon, C, Castanera, R, Culley, DE, Daum, C, Ezra, D, González, JB, Henrissat, B, Kuo, A, Liang, C, Lipzen, A, Lutzoni, F, Magnuson, J, Mondo, SJ, Nolan, M, Ohm, RA, Pangilinan, J, Park, H-J, Ramírez, L, Alfaro, M, Sun, H, Tritt, A, Yoshinaga, Y, Zwiers, L-H, Turgeon, BG, Goodwin, SB, Spatafora, JW, Crous, PW, and Grigoriev, IV

Subjects
Aulographales Crous, Spatafora, Haridas & Grigoriev, Coniosporiaceae Crous, Spatafora, Haridas & Grigoriev, Coniosporiales Crous, Spatafora, Haridas & Grigoriev, Eremomycetales Crous, Spatafora, Haridas & Grigoriev, Fungal evolution, Genome-based prediction, Lineolataceae Crous, Spatafora, Haridas & Grigoriev, Lineolatales Crous, Spatafora, Haridas & Grigoriev, Machine-learning, New taxa, Rhizodiscinaceae Crous, Spatafora, Haridas & Grigoriev, Aulographales Crous, Spatafora, Haridas & Grigoriev, Coniosporiaceae Crous, Coniosporiales Crous, Eremomycetales Crous, Lineolataceae Crous, Lineolatales Crous, Rhizodiscinaceae Crous, Microbiology, Mycology & Parasitology
Abstract

Dothideomycetes is the largest class of kingdom Fungi and comprises an incredible diversity of lifestyles, many of which have evolved multiple times. Plant pathogens represent a major ecological niche of the class Dothideomycetes and they are known to infect most major food crops and feedstocks for biomass and biofuel production. Studying the ecology and evolution of Dothideomycetes has significant implications for our fundamental understanding of fungal evolution, their adaptation to stress and host specificity, and practical implications with regard to the effects of climate change and on the food, feed, and livestock elements of the agro-economy. In this study, we present the first large-scale, whole-genome comparison of 101 Dothideomycetes introducing 55 newly sequenced species. The availability of whole-genome data produced a high-confidence phylogeny leading to reclassification of 25 organisms, provided a clearer picture of the relationships among the various families, and indicated that pathogenicity evolved multiple times within this class. We also identified gene family expansions and contractions across the Dothideomycetes phylogeny linked to ecological niches providing insights into genome evolution and adaptation across this group. Using machine-learning methods we classified fungi into lifestyle classes with >95 % accuracy and identified a small number of gene families that positively correlated with these distinctions. This can become a valuable tool for genome-based prediction of species lifestyle, especially for rarely seen and poorly studied species.

Published
2020

44. What Harm Is Done by the Federal Crop Insurance Program Today?

Author

Smith, Vincent H. and Goodwin, Barry K.

Subjects
Agricultural research, Private sector -- Analysis, Government aid to agriculture -- Analysis, Agricultural subsidies -- Analysis, Crop insurance -- Analysis, Farmers -- Finance, Company financing, Social sciences
Abstract

April 2023 Key Points * Supporters of the current federal crop insurance program often claim that the program is actuarially sound, that program growth has been driven by the private [...]

Published
2023

46. Aerosol–Ice Formation Closure : A Southern Great Plains Field Campaign

Author

Knopf, D. A., Barry, K. R., Brubaker, T. A., Jahl, L. G., Jankowski, K. A., Li, J., Lu, Y., Monroe, L. W., Moore, K. A., Rivera-Adorno, F. A., Sauceda, K. A., Shi, Y., Tomlin, J. M., Vepuri, H. S. K., Wang, P., Lata, N. N., Levin, E. J. T., Creamean, J. M., Hill, T. C. J., China, S., Alpert, P. A., Moffet, R. C., Hiranuma, N., Sullivan, R. C., Fridlind, A. M., West, M., Riemer, N., Laskin, A., DeMott, P. J., and Liu, X.

Published
2021

47. Poultry Tournaments: Risk Management or Just a Game of Chicken?

Author

Goodwin, Barry K.

Subjects
Poultry industry -- Laws, regulations and rules -- Production management, Production control -- Laws, regulations and rules, Government regulation, Social sciences
Abstract

Key Points * The four-firm industry concentration ratio for chicken processors is lower than for pork or beef, but concerns about a unique tournament contracting system have prompted calls for [...]

Published
2023

48. International Consensus Recommendations for Eosinophilic Gastrointestinal Disease Nomenclature

Author

Dellon, Evan S., Gonsalves, Nirmala, Abonia, J. Pablo, Alexander, Jeffrey A., Arva, Nicoleta C., Atkins, Dan, Attwood, Stephen E., Auth, Marcus K.H., Bailey, Dominique D., Biederman, Luc, Blanchard, Carine, Bonis, Peter A., Bose, Paroma, Bredenoord, Albert J., Chang, Joy W., Chehade, Mirna, Collins, Margaret H., Di Lorenzo, Carlo, Dias, Jorge Amil, Dohil, Ranjan, Dupont, Christophe, Falk, Gary W., Ferreira, Cristina T., Fox, Adam T., Genta, Robert M., Greuter, Thomas, Gupta, Sandeep K., Hirano, Ikuo, Hiremath, Girish S., Horsley-Silva, Jennifer L., Ishihara, Shunji, Ishimura, Norihisa, Jensen, Elizabeth T., Gutiérrez-Junquera, Carolina, Katzka, David A., Khoury, Paneez, Kinoshita, Yoshikazu, Kliewer, Kara L., Koletzko, Sibylle, Leung, John, Liacouras, Chris A., Lucendo, Alfredo J., Martin, Lisa J., McGowan, Emily C., Menard-Katcher, Calies, Metz, David C., Miller, Talya L., Moawad, Fouad J., Muir, Amanda B., Mukkada, Vincent A., Murch, Simon, Nhu, Quan M., Nomura, Ichiro, Nurko, Samuel, Ohtsuka, Yoshikazu, Oliva, Salvatore, Orel, Rok, Papadopoulou, Alexandra, Patel, Dhyanesh A., Pesek, Robert D., Peterson, Kathryn A., Philpott, Hamish, Putnam, Philip E., Richter, Joel E., Rosen, Rachel, Ruffner, Melanie A., Safroneeva, Ekaterina, Schreiner, Philipp, Schoepfer, Alain, Schroeder, Shauna R., Shah, Neil, Souza, Rhonda F., Spechler, Stuart J., Spergel, Jonathan M., Straumann, Alex, Talley, Nicholas J., Thapar, Nikhil, Vandenplas, Yvan, Venkatesh, Rajitha D., Vieira, Mario C., von Arnim, Ulrike, Walker, Marjorie M., Wechsler, Joshua B., Wershil, Barry K., Wright, Benjamin L., Yamada, Yoshiyuki, Yang, Guang-Yu, Zevit, Noam, Rothenberg, Marc E., Furuta, Glenn T., and Aceves, Seema S.

Published
2022
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49. Subsidies for Beginning Farmers: Should We Bet the Farm?

Author

Goodwin, Barry K.

Subjects
Agricultural subsidies -- Laws, regulations and rules, Government regulation, Social sciences
Abstract

Key Points * The average age of principal farm operators has increased from 50.3 in 1978 to 59.4 today, raising concerns about challenges preventing young people from owning and operating [...]

Published
2022

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