Digital Commons Network^™

Spatial Synchrony Is Related To Environmental Change In Finnish Moth Communities: Synchrony And Environmental Change, Tad A. Dallas, Laura H. Antão, Juha Pöyry, Reima Leinonen, Otso Ovaskainen

Faculty Publications

© 2020 The Author(s). Spatially distinct pairs of sites may have similarly fluctuating population dynamics across large geographical distances, a phenomenon called spatial synchrony. However, species rarely exist in isolation, but rather as members of interactive communities, linked with other communities through dispersal (i.e. a metacommunity). Using data on Finnish moth communities sampled across 65 sites for 20 years, we examine the complex synchronous/anti-synchronous relationships among sites using the geography of synchrony framework. We relate site-level synchrony to mean and temporal variation in climatic data, finding that colder and drier sites-and those with the most drastic temperature increases-are important for …

Fatigue-Crack Detection And Monitoring Through The Scattered-Wave Two-Dimensional Cross-Correlation Imaging Method Using Piezoelectric Transducers, Wenfeng Xiao, Lingyu Yu, Roshan Joseph, Victor Giurgiutiu

Faculty Publications

Piezoelectric transducers are convenient enablers for generating and receiving Lamb waves for damage detection. Fatigue cracks are one of the most common causes for the failure of metallic structures. Increasing emphasis on the integrity of critical structures creates an urgent need to monitor structures and to detect cracks at an early stage to prevent catastrophic failures. This paper presents a two-dimensional (2D) cross-correlation imaging technique that can not only detect a fatigue crack but can also precisely image the fatigue cracks in metallic structures. The imaging method was based on the cross-correlation algorithm that uses incident waves and the crack-scattered …

Macroscale Drivers Of Atlantic And Gulf Menhaden Growth, Stephen R. Midway, Amy M. Schueller, Robert T. Leaf, Geneviève M. Nesslage, Raymond M. Mroch Iii

Faculty Publications

No abstract provided.

Compound Heterozygous Variants In Pediatric Cancers: A Systematic Review, Dustin B. Miller, Stephen R. Piccolo

Faculty Publications

A compound heterozygous (CH) variant is a type of germline variant that occurs when each parent donates one alternate allele and these alleles are located at different loci within the same gene. Pathogenic germline variants have been identified for some pediatric cancer types but in most studies, CH variants are overlooked. Thus, the prevalence of pathogenic CH variants in most pediatric cancer types is unknown. We identified 26 studies (published between 1999 and 2019) that identified a CH variant in at least one pediatric cancer patient. These studies encompass 21 cancer types and have collectively identified 25 different …

Safe Management Of Bodies Of Deceased Persons With Suspected Or Confirmed Covid-19: A Rapid Systematic Review, Sally Yaacoub, Holger J. Schünemann, Joanne Khabsa, Amena El-Harakeh, Assem M. Khamis, Fatimah Chamseddine, Rayane El-Khoury, Zahra Saad, Layal Hneiny, Carlos Cuello Garcia, Giovanna E U Muti-Schünemann, Antonio Bognanni, Chen Chen, Guang Chen, Yuan Zhang, Hong Zhao, Pierre Abi Hanna, Mark Loeb, Thomas Piggott, Marge Reinap, Nesrine Rizk, Rosa Stalteri, Stephanie Duda, Karla Solo, Derek Chu

Faculty Publications

Introduction Proper strategies to minimise the risk of infection in individuals handling the bodies of deceased persons infected with 2019 novel coronavirus (2019-nCoV) are urgently needed. The objective of this study was to systematically review the literature to scope and assess the effects of specific strategies for the management of the bodies.

Methods We searched five general, three Chinese and four coronavirus disease (COVID-19)–specific electronic databases. We searched registries of clinical trials, websites of governmental and other relevant organisations, reference lists of the included papers and relevant systematic reviews, and Epistemonikos for relevant systematic reviews. We included guidance documents providing …

Nwchem: Past, Present, And Future, E. Aprà, E. J. Bylaska, W. A. De Jong, N. Govind, K. Kowalski, T. P. Straatsma, M. Valiev, H. J.J. Van Dam, Y. Alexeev, J. Anchell, V. Anisimov, F. W. Aquino, R. Atta-Fynn, J. Autschbach, N. P. Bauman, J. C. Becca, D. E. Bernholdt, K. Bhaskaran-Nair, S. Bogatko, P. Borowski, J. Boschen, J. Brabec, A. Bruner, E. Cauët, Y. Chen, G. N. Chuev, C. J. Cramer, J. Daily, M. J.O. Deegan, T. H. Dunning, M. Dupuis, K. G. Dyall, G. I. Fann

Faculty Publications

© 2020 U.S. Government. Specialized computational chemistry packages have permanently reshaped the landscape of chemical and materials science by providing tools to support and guide experimental efforts and for the prediction of atomistic and electronic properties. In this regard, electronic structure packages have played a special role by using first-principle-driven methodologies to model complex chemical and materials processes. Over the past few decades, the rapid development of computing technologies and the tremendous increase in computational power have offered a unique chance to study complex transformations using sophisticated and predictive many-body techniques that describe correlated behavior of electrons in molecular and …

Development Of A Surgical Procedure For Removal Of A Placentome From A Pregnant Ewe During Gestation, Colleen A. Lambo, Ashley K. Edwards, Fuller W. Bazer, Kathrin Dunlap, M. Carey Satterfield

Faculty Publications

Background: In recent decades, there has been a growing interest in the impact of insults during pregnancy on postnatal health and disease. It is known that changes in placental development can impact fetal growth and subsequent susceptibility to adult onset diseases; however, a method to collect sufficient placental tissues for both histological and gene expression analyses during gestation without compromising the pregnancy has not been described. The ewe is an established biomedical model for the study of fetal development. Due to its cotyledonary placental type, the sheep has potential for surgical removal of materno-fetal exchange tissues, i.e., placentomes. A novel …

Do Workplace Characteristics Moderate The Effects Of Attitudes On Father Warmth And Engagement?, Erin Kramer Holmes, Richard J. Petts, Clare R. Thomas, Nathan L. Robbins, Tom Henry

Faculty Publications

Though many fathers want to be warmer, more nurturing, and more actively involved than prior generations (i.e., the new fatherhood ideal), they also embrace a father's traditional role as financial earner. Thus, we hypothesized that fathers' attitudes about their roles would likely interact with workplace characteristics to produce variations in father warmth and engagement. Using a national sample of 1,020 employed U.S. fathers with children ages 2–8 years old, results suggest that adherence to the new fatherhood idea was associated with less father warmth. Also consistent with prior research showing that family friendly work cultures may enable fathers to be …

Data For Wetlandscapes And Their Changes Around The World, Navid Ghajarnia, Georgia Destouni, Josefin Thorslund, Zahra Kalantari, Imenne Ahlén, Jesús A. Anaya-Acevedo, Juan F. Blanco-Libreros, Sonia Borja, Sergey Chalov, Aleksandra Chalova, Kwok P. Chun, Nicola Clerici, Amanda Desormeaux, Bethany B. Garfield, Pierre Girard, Olga Gorelits, Amy Hansen, Fernando Jaramillo, Jerker Jarsjö, Adnane Labbaci, John Livsey, Giorgos Maneas, Kathryn Mc Curley Pisarello, Sebastián Palomino-Ángel, Jan Pietroń, René M. Price, Victor H. Rivera-Monroy, Jorge Salgado, A. Britta, Samaneh Seifollahi-Aghmiuni, Ylva Sjöberg, Pavel Terskii, Guillaume Vigouroux

Faculty Publications

Geography and associated hydrological, hydroclimate and land-use conditions and their changes determine the states and dynamics of wetlands and their ecosystem services. The influences of these controls are not limited to just the local scale of each individual wetland but extend over larger landscape areas that integrate multiple wetlands and their total hydrological catchment-the wetlandscape. However, the data and knowledge of conditions and changes over entire wetlandscapes are still scarce, limiting the capacity to accurately understand and manage critical wetland ecosystems and their services under global change. We present a new Wetlandscape Change Information Database (WetCID), consisting of geographic, hydrological, …

The Athletic Gut Microbiota, Alex E. Mohr, Ralf Jäger, Katie C. Carpenter, Chad M. Kerksick, Martin Purpura, Jeremy R. Townsend, Nicholas P. West, Katherine Black, Michael Gleeson, David B. Pyne, Shawn D. Wells, Shawn M. Arent Ph.D., Cscs*D, Fissn, Facsm, Fnak, Richard B. Kreider, Bill I. Campbell, Laurent Bannock, Jonathan Scheiman, Craig J. Wissent, Marco Pane, Douglas S. Kalman, Jamie N. Pugh, Carmen P. Ortega-Santos, Jessica A. Ter Haar, Paul J. Arciero, Jose Antonio

Faculty Publications

The microorganisms in the gastrointestinal tract play a significant role in nutrient uptake, vitamin synthesis, energy harvest, inflammatory modulation, and host immune response, collectively contributing to human health. Important factors such as age, birth method, antibiotic use, and diet have been established as formative factors that shape the gut microbiota. Yet, less described is the role that exercise plays, particularly how associated factors and stressors, such as sport/exercise-specific diet, environment, and their interactions, may influence the gut microbiota. In particular, high-level athletes offer remarkable physiology and metabolism (including muscular strength/power, aerobic capacity, energy expenditure, and heat production) compared to sedentary …

Molecular Properties Are A Primary Control On The Microbial Utilization Of Dissolved Organic Matter In The Ocean, Yuan Shen, Ronald Benner

Faculty Publications

The global ocean sequesters a large amount of reduced carbon in dissolved organic molecules that can persist for centuries to millennia. The persistence of dissolved organic carbon (DOC) in the deep ocean has been attributed to inherently refractory molecules and to low concentrations of molecules, but the relative roles of molecular properties and molecular concentrations remain uncertain. We investigate both of these possibilities using bioas-say experiments with unfiltered seawater collected from five depths (50–1500 m) at the Bermuda Atlantic Time-Series Study site. The microbial utilization of compositionally distinct forms of seawater DOC at in situ and elevated concentrations was determined. …

Synthesis Of Functionalized Tetrahydropyransviacascade Cycloaddition Involving Silyloxyallyl Cation Intermediates, Fatimat O. Badmus, Joshua A. Malone, Frank R. Fronczek, Rendy Kartika

Faculty Publications

© The Royal Society of Chemistry 2020. An expedient synthesis of highly substituted tetrahydrobenzofuranviaan unsymmetrical silyloxyallyl cation is reported. Conveniently generated under catalytic Brønsted acid conditions, nucleophilic capture of this reactive intermediate by silylenolate, followed by Paal-Knorr cascade cyclization in the presence of tosic acid monohydrate effectively constructed the tetrahydrobenzofuran core in a single synthetic step.

Cardiac Fibrosis And Cardiac Fibroblast Lineage-Tracing: Recent Advances, Xing Fu, Qianglin Liu, Chaoyang Li, Yuxia Li, Leshan Wang

Faculty Publications

© Copyright © 2020 Fu, Liu, Li, Li and Wang. Cardiac fibrosis is a common pathological change associated with cardiac injuries and diseases. Even though the accumulation of collagens and other extracellular matrix (ECM) proteins may have some protective effects in certain situations, prolonged fibrosis usually negatively affects cardiac function and often leads to deleterious consequences. While the development of cardiac fibrosis involves several cell types, the major source of ECM proteins is cardiac fibroblast. The high plasticity of cardiac fibroblasts enables them to quickly change their behaviors in response to injury and transition between several differentiation states. However, the …

Examining Configural, Metric, And Scalar Invariance Of The Pain Catastrophizing Scale In Native American And Non-Hispanic White Adults In The Oklahoma Study Of Native American Pain Risk (Ok-Snap), Jamie L. Rhudy, Randolph D. Arnau, Felicitas A. Huber, Edward W. Lannon, Bethany L. Kuhn, Shreela Palit, Michael F. Payne, Cassandra A. Sturycz, Natalie Hellman, Yvette M. Gureca, Tyler A. Toledo, Joanna O. Shadlow

Faculty Publications

Introduction: Native Americans (NAs) have a higher prevalence of chronic pain than other US racial/ethnic groups, but the mechanisms contributing to this pain disparity are under-researched. Pain catastrophizing is one of the most important psychosocial predictors of negative pain outcomes, and the Pain Catastrophizing Scale (PCS) has been established as a reliable and valid measure of the pain catastrophizing construct. However, before the PCS can be used to study pain risk in NAs, it is prudent to first determine whether the established 3-factor structure of the PCS also holds true for NAs.

Methods: The current study examined the measurement (configural, …

Lignin-Graft-Poly(Lactic- Co-Glycolic) Acid Biopolymers For Polymeric Nanoparticle Synthesis, Carlos E. Astete, Judith U. De Mel, Sudipta Gupta, Ye Rim Noh, Markus Bleuel, Gerald J. Schneider, Cristina M. Sabliov

Faculty Publications

Copyright © 2020 American Chemical Society. A lignin-graft-poly(lactic-co-glycolic) acid (PLGA) biopolymer was synthesized with two types of lignin (LGN), alkaline lignin (ALGN) and sodium lignosulfonate (SLGN), at different (A/S)LGN/PLGA ratios (1:2, 1:4, and 1:6 w/w). 1H NMR and Fourier-transform infrared spectroscopy (FT-IR) confirmed the conjugation of PLGA to LGN. The (A/S)LGN-graft-PLGA biopolymers were used to form nanodelivery systems suitable for entrapment and delivery of drugs for disease treatment. The LGN-graft-PLGA NPs were generally small (100-200 nm), increased in size with the amount of PLGA added, monodisperse, and negatively charged (-48 to -60 mV). Small-angle scattering data showed that particles feature …

Life History Divergence In Livebearing Fishes In Response To Predation: Is There A Microevolution To Macroevolution Barrier?, Mark C. Belk, Spencer J. Ingley, Jerald B. Johnson

Faculty Publications

A central problem in evolutionary biology is to determine whether adaptive phenotypic variation within species (microevolution) ultimately gives rise to new species (macroevolution). Predation environment can select for trait divergence among populations within species. The implied hypothesis is that the selection resulting from predation environment that creates population divergence within species would continue across the speciation boundary such that patterns of divergence after speciation would be a magnified accumulation of the trait variation observed before speciation. In this paper, we test for congruence in the mechanisms of microevolution and macroevolution by comparing the patterns of life history divergence among three …

Disturbance Legacies Increase And Synchronize Nutrient Concentrations And Bacterial Productivity In Coastal Ecosystems, John S. Kominoski, Evelyn E. Gaiser, Edward Castañeda-Moya, Stephen E. Davis, Shimelis B. Dessu, Paul Julian, Dong Yoon Lee, Luca Marazzi, Victor H. Rivera-Monroy, Andres Sola, Ulrich Stingl, Sandro Stumpf, Donatto Surratt, Rafael Travieso, Tiffany G. Troxler

Faculty Publications

Long-term ecological research can resolve effects of disturbance on ecosystem dynamics by capturing the scale of disturbance and interactions with environmental changes. To quantify how disturbances interact with long-term directional changes (sea-level rise, freshwater restoration), we studied 17 yr of monthly dissolved organic carbon (DOC), total nitrogen (TN), and phosphorus (TP) concentrations and bacterioplankton productivity across freshwater-to-marine estuary gradients exposed to multiple disturbance events (e.g., droughts, fire, hurricanes, and low-temperature anomalies) and long-term increases in water levels. By studying two neighboring drainages that differ in hydrologic connectivity, we additionally tested how disturbance legacies are shaped by hydrologic connectivity. We predicted …

Long-Term Trajectory Of Nitrogen Loading And Delivery From Mississippi River Basin To The Gulf Of Mexico, Hanqin Tian, Rongting Xu, Shufen Pan, Yuanzhi Yao, Zihao Bian, Wei Jun Cai, Charles S. Hopkinson, Dubravko Justic, Steven Lohrenz, Chaoqun Lu, Wei Ren, Jia Yang

Faculty Publications

The large areal extent of hypoxia in the northern Gulf of Mexico has been partially attributed to substantial nitrogen (N) loading from the Mississippi River basin, which is driven by multiple natural and human factors. The available water quality monitoring data and most of the current models are insufficient to fully quantify N load magnitude and the underlying controls. Here we use a process-based Dynamic Land Ecosystem Model to examine how multiple factors (synthetic N fertilizer, atmospheric N deposition, land use changes, climate variability, and increasing atmospheric CO2) have affected the loading and delivery of total nitrogen (TN) consisting of …

Plant Genome Size Influences Stress Tolerance Of Invasive And Native Plants Via Plasticity, Laura A. Meyerson, Petr Pyšek, Magdalena Lučanová, Sara Wigginton, Cao Tri Tran, James T. Cronin

Faculty Publications

© 2020 The Authors. Plant genome size influences the functional relationships between cellular and whole-plant physiology, but we know little about its importance to plant tolerance of environmental stressors and how it contributes to range limits and invasion success. We used native and invasive lineages of a wetland plant to provide the first experimental test of the Large Genome Constraint Hypothesis (LGCH)—that plants with large genomes are less tolerant of environmental stress and less plastic under stress gradients than plants with small genomes. We predicted that populations with larger genomes would have a lower tolerance and less plasticity to a …

Structure, Function, And Regulation Of The Essential Virulence Factor Capsular Polysaccharide Of Vibrio Vulnificus, Gregg S. Pettis, Aheli S. Mukerji

Faculty Publications

© 2020 by the authors. Licensee MDPI, Basel, Switzerland. Vibrio vulnificus populates coastal waters around the world, where it exists freely or becomes concentrated in filter feeding mollusks. It also causes rapid and life-threatening sepsis and wound infections in humans. Of its many virulence factors, it is the V. vulnificus capsule, composed of capsular polysaccharide (CPS), that plays a critical role in evasion of the host innate immune system by conferring antiphagocytic ability and resistance to complement-mediated killing. CPS may also provoke a portion of the host inflammatory cytokine response to this bacterium. CPS production is biochemically and genetically diverse …

Emerging Investigator Series: Carbon Electrodes Are Effective For The Detection And Reduction Of Hexavalent Chromium In Water, Callie M. Stern, Darius W. Hayes, Lebogang O. Kgoadi, Noémie Elgrishi

Faculty Publications

© 2020 The Royal Society of Chemistry. Electrochemical methods are an attractive option for the detection and reduction of toxic Cr(vi) to benign Cr(iii) in drinking water. Here a method is reported for the reproducible detection and reduction of hexavalent chromium in water on glassy carbon electrodes, over a wide range of pH. This study allows for unmodified inexpensive carbon electrodes to join gold and gold modified electrodes as substrates for Cr(vi) removal from water.

Bionoinet: Ligand-Binding Site Classification With Off-The-Shelf Deep Neural Network, Wentao Shi, Jeffrey M. Lemoine, Abd El Monsif A. Shawky, Manali Singha, Limeng Pu, Shuangyan Yang, J. Ramanujam, Michal Brylinski

Faculty Publications

© The 2020 Author(s). Published by Oxford University Press. All rights reserved. Motivation: Fast and accurate classification of ligand-binding sites in proteins with respect to the class of binding molecules is invaluable not only to the automatic functional annotation of large datasets of protein structures but also to projects in protein evolution, protein engineering and drug development. Deep learning techniques, which have already been successfully applied to address challenging problems across various fields, are inherently suitable to classify ligand-binding pockets. Our goal is to demonstrate that off-the-shelf deep learning models can be employed with minimum development effort to recognize nucleotide-and …

The Origins And Future Of Global Health Law: Regulation, Security, And Pluralism, Sam F. Halabi

Faculty Publications

The COVID-19 pandemic has presented a global health crisis unlike any seen in the seventy-five years since the United Nations and the World Health Organization were formed - one that is killing people, spreading human suffering, and upending people's lives. But this is much more than a health crisis. It is a human crisis. The coronavirus disease (COVID-19) is attacking societies at their core. It is therefore a crucial point around which to focus the capability of national and global institutions to address this essential threat to human health and life.

The purposes of this Article are to revisit and …

Targeting Egfr Overexpression At The Surface Of Colorectal Cancer Cells By Exploiting Amidated Bodipy-Peptide Conjugates, Tyrslai M. Williams, Zehua Zhou, Sitanshu S. Singh, Martha Sibrian-Vazquez, Seetharama D. Jois, Maria Da Graça Henriques Vicente

Faculty Publications

© 2020 American Society for Photobiology Three BODIPY-peptide conjugates designed to target the epidermal growth factor receptor (EGFR) at the extracellular domain were synthesized, and their specificity for binding to EGFR was investigated. Peptide sequences containing seven amino acids, GLARLLT (2) and KLARLLT (4), and 13 amino acids, GYHWYGYTPQNVI (3), were conjugated to carboxyl BODIPY dye (1) by amide bond formation in up to 73% yields. The BODIPY-peptide conjugates and their “parent” peptides were determined to bind to EGFR experimentally using SPR analysis and were further investigated using computational methods (AutoDock). Results of SPR, competitive binding and docking studies propose …

Population Epigenetic Divergence Exceeds Genetic Divergence In The Eastern Oyster Crassostrea Virginica In The Northern Gulf Of Mexico, Kevin M. Johnson, Morgan W. Kelly

Faculty Publications

© 2019 The Authors. Evolutionary Applications published by John Wiley & Sons Ltd Populations may respond to environmental heterogeneity via evolutionary divergence or phenotypic plasticity. While evolutionary divergence occurs through DNA sequence differences among populations, plastic divergence among populations may be generated by changes in the epigenome. Here, we present the results of a genome-wide comparison of DNA methylation patterns and genetic structure among four populations of Eastern oyster (Crassostrea virginica) in the northern Gulf of Mexico. We used a combination of restriction site-associated DNA sequencing (RADseq) and reduced representation bisulfite sequencing (RRBS) to explore population structure, gene-wide averages of …

Promoter-Proximal Chromatin Domain Insulator Protein Beaf Mediates Local And Long-Range Communication With A Transcription Factor And Directly Activates A Housekeeping Promoter In Drosophila, Yuankai Dong, S. V. Satya Prakash Avva, Mukesh Maharjan, Janice Jacobi, Craig M. Hart

Faculty Publications

Copyright © 2020 by the Genetics Society of America BEAF (Boundary Element-Associated Factor) was originally identified as a Drosophila melanogaster chromatin domain insulator-binding protein, suggesting a role in gene regulation through chromatin organization and dynamics. Genome-wide mapping found that BEAF usually binds near transcription start sites, often of housekeeping genes, suggesting a role in promoter function. This would be a nontraditional role for an insulator-binding protein. To gain insight into molecular mechanisms of BEAF function, we identified interacting proteins using yeast two-hybrid assays. Here, we focus on the transcription factor Serendipity d (Sry-d). Interactions were confirmed in pull-down experiments using …

Cave-Adapted Evolution In The North American Amblyopsid Fishes Inferred Using Phylogenomics And Geometric Morphometrics, Pamela B. Hart, Matthew L. Niemiller, Edward D. Burress, Jonathan W. Armbruster, William B. Ludt, Prosanta Chakrabarty

Faculty Publications

© 2020 The Authors. Evolution © 2020 The Society for the Study of Evolution. Cave adaptation has evolved repeatedly across the Tree of Life, famously leading to pigmentation and eye degeneration and loss, yet its macroevolutionary implications remain poorly understood. We use the North American amblyopsid fishes, a family spanning a wide degree of cave adaptation, to examine the impact of cave specialization on the modes and tempo of evolution. We reconstruct evolutionary relationships using ultraconserved element loci, estimate the ancestral histories of eye-state, and examine the impact of cave adaptation on body shape evolution. Our phylogenomic analyses provide a …

The Triple Oxygen Isotope Composition Of Precambrian Chert, Frasier L. Liljestrand, Andrew H. Knoll, Nicholas J. Tosca, Phoebe A. Cohen, Francis A. Macdonald, Yongbo Peng, David T. Johnston

Faculty Publications

© 2020 Elsevier B.V. The temperature and chemistry of early seawater have both been inferred from the isotopic composition of Precambrian chert (SiO2), a precipitated mineral formed on or within marine sediments. The δ18O of chert shows a robust quasi-linear increase through time - a signal that has been interpreted in a number of conflicting ways. For example, changing δ18O has been hypothesized to reflect the product of cooling surface ocean temperatures, a signature of evolving seawater δ18O composition, or the product of later stage diagenesis (where measured δ18O reflects the composition of diagenetic fluids). We suggest this uncertainty can …

Direct Measurement Of Sweetpotato Surface Area And Volume Using A Low-Cost 3d Scanner For Identification Of Shape Features Related To Processing Product Recovery, Arthur Villordon, Jeffrey C. Gregorie, Don Labonte

Faculty Publications

The growing demand for sweetpotato French fry and other processed products has increased the need for producing storage roots of desired shape profile (i.e., blocky and less tapered). Length-width ratio (LW) is the current de facto standard for characterizing sweetpotato shape. AlthoughLWis sensitive and descriptive of some types of shape variability, this index may be inadequate to measure taper and other subtle shape variations. Prior work has shown that surface area (SA) and volume (VOL) are important shape descriptors but current direct measurement methods are tedious, inconsistent, and often destructive. A low-cost three-dimensional (3D) scanner was used to acquire digital …

An Improved 7k Snp Array, The C7air, Provides A Wealth Of Validated Snp Markers For Rice Breeding And Genetics Studies, Karina Y. Morales, Namrata Singh, Francisco Agosto Perez, John Carlos Ignacio, Ranjita Thapa, Juan D. Arbelaez, Rodante E. Tabien, Adam Famoso, Diane R. Wang, Endang M. Septiningsih, Yuxin Shi, Tobias Kretzschmar, Susan R. Mccouch, Michael J. Thomson

Faculty Publications

Single nucleotide polymorphisms (SNPs) are highly abundant, amendable to high-throughput genotyping, and useful for a number of breeding and genetics applications in crops. SNP frequencies vary depending on the species and populations under study, and therefore target SNPs need to be carefully selected to be informative for each application. While multiple SNP genotyping systems are available for rice (Oryza sativa L. and its relatives), they vary in their informativeness, cost, marker density, speed, flexibility, and data quality. In this study, we report the development and performance of the Cornell-IR LD Rice Array (C7AIR), a second-generation SNP array containing 7,098 markers …