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Faculty Publications

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Full-Text Articles in Life Sciences

Tadkb:Family Classification And A Knowledge Base Of Topologically Associating Domains, Tong Liu, Jacob Porter, Chenguang Zhao, Hao Zhu, Nan Wang, Zheng Sun, Yin-Yuan Mo, Zheng Wang Mar 2019

Tadkb:Family Classification And A Knowledge Base Of Topologically Associating Domains, Tong Liu, Jacob Porter, Chenguang Zhao, Hao Zhu, Nan Wang, Zheng Sun, Yin-Yuan Mo, Zheng Wang

Faculty Publications

Background: Topologically associating domains (TADs) are considered the structural and functional units of the genome. However, there is a lack of an integrated resource for TADs in the literature where researchers can obtain family classifications and detailed information about TADs.

Results: We built an online knowledge base TADKB integrating knowledge for TADs in eleven cell types of human and mouse. For each TAD, TADKB provides the predicted three-dimensional (3D) structures of chromosomes and TADs, and detailed annotations about the protein-coding genes and long non-coding RNAs (lncRNAs) existent in each TAD. Besides the 3D chromosomal structures inferred by population Hi-C, the ...


Predicting Protein Residue-Residue Contacts Using Random Forests And Deep Networks, Joseph Luttrell Iv, Tong Liu, Chaoyang Zhang, Zheng Wang Mar 2019

Predicting Protein Residue-Residue Contacts Using Random Forests And Deep Networks, Joseph Luttrell Iv, Tong Liu, Chaoyang Zhang, Zheng Wang

Faculty Publications

Background: The ability to predict which pairs of amino acid residues in a protein are in contact with each other offers many advantages for various areas of research that focus on proteins. For example, contact prediction can be used to reduce the computational complexity of predicting the structure of proteins and even to help identify functionally important regions of proteins. These predictions are becoming especially important given the relatively low number of experimentally determined protein structures compared to the amount of available protein sequence data.

Results: Here we have developed and benchmarked a set of machine learning methods for performing ...


Similarities And Differences Between Variants Called With Human Reference Genome Hg19 Or Hg38, Bohu Pan, Rebecca Kusko, Wenming Xiao, Yuantin Zheng, Zhichao Liu, Chunlin Xiao, Sugunadevi Sakkiah, Wenjing Guo, Ping Gong, Chaoyang Zhang, Weigong Ge, Leming Shi, Weida Tong, Huixiao Hong Mar 2019

Similarities And Differences Between Variants Called With Human Reference Genome Hg19 Or Hg38, Bohu Pan, Rebecca Kusko, Wenming Xiao, Yuantin Zheng, Zhichao Liu, Chunlin Xiao, Sugunadevi Sakkiah, Wenjing Guo, Ping Gong, Chaoyang Zhang, Weigong Ge, Leming Shi, Weida Tong, Huixiao Hong

Faculty Publications

Background: Reference genome selection is a prerequisite for successful analysis of next generation sequencing (NGS) data. Current practice employs one of the two most recent human reference genome versions: HG19 or HG38. To date, the impact of genome version on SNV identification has not been rigorously assessed.

Results: We conducted analysis comparing the SNVs identified based on HG19 vs HG38, leveraging whole genome sequencing (WGS) data from the genome-in-a-bottle (GIAB) project. First, SNVs were called using 26 different bioinformatics pipelines with either HG19 or HG38. Next, two tools were used to convert the called SNVs between HG19 and HG38. Lastly ...


Establishment Of Listeria Monocytogenes In The Gastrointestinal Tract, Morgan L. Davis, Steven C. Ricke, Janet R. Donaldson Mar 2019

Establishment Of Listeria Monocytogenes In The Gastrointestinal Tract, Morgan L. Davis, Steven C. Ricke, Janet R. Donaldson

Faculty Publications

Listeria monocytogenes is a Gram positive foodborne pathogen that can colonize the gastrointestinal tract of a number of hosts, including humans. These environments contain numerous stressors such as bile, low oxygen and acidic pH, which may impact the level of colonization and persistence of this organism within the GI tract. The ability of L. monocytogenes to establish infections and colonize the gastrointestinal tract is directly related to its ability to overcome these stressors, which is mediated by the efficient expression of several stress response mechanisms during its passage. This review will focus upon how and when this occurs and how ...


Host-Parasite Associations Of The Cratogeomys Fumosus Species Group And Their Chewing Lice, Geomydoecus, Alex Popinga, James W. Demastes, Theresa A. Spradling, David J. Hafner, Mark S. Hafner Mar 2019

Host-Parasite Associations Of The Cratogeomys Fumosus Species Group And Their Chewing Lice, Geomydoecus, Alex Popinga, James W. Demastes, Theresa A. Spradling, David J. Hafner, Mark S. Hafner

Faculty Publications

Chewing lice (Phthiraptera: Trichodectidae) and the pocket gophers (Rodentia: Geomyidae) that they inhabit have shared an intimate historical association that has made them a textbook study for cophylogeny. Herein, we examine the chewing lice found on pocket gophers of the Cratogeomys fumosus species group using DNA sequence data from the mitochondrial cytochrome c oxidase subunit I gene to determine relationships among lice for comparison to published host phylogeny. Although matrix approaches indicate a correlation between host and parasite genetic distances, cophylogenetic reconstruction methods fail to detect a pattern of widespread cophylogeny. In conclusion, this study provides an exception to the ...


A Theoretical Model Of Underground Dipole Antennas For Communications In Internet Of Underground Things, Abdul Salam, Mehmet C. Vuran, Xin Dong, Christos Argyropoulos, Suat Irmak Feb 2019

A Theoretical Model Of Underground Dipole Antennas For Communications In Internet Of Underground Things, Abdul Salam, Mehmet C. Vuran, Xin Dong, Christos Argyropoulos, Suat Irmak

Faculty Publications

The realization of Internet of Underground Things (IOUT) relies on the establishment of reliable communication links, where the antenna becomes a major design component due to the significant impacts of soil. In this paper, a theoretical model is developed to capture the impacts of change of soil moisture on the return loss, resonant frequency, and bandwidth of a buried dipole antenna. Experiments are conducted in silty clay loam, sandy, and silt loam soil, to characterize the effects of soil, in an indoor testbed and field testbeds. It is shown that at subsurface burial depths (0.1-0.4m), change in soil ...


Host Lipids In Positive-Strand Rna Virus Genome Replication, Zhenlu Zhang, Guijuan He, Natalie A. Filipowicz, Glenn Randall, George A. Belov, Benjamin G. Kopek, Xiaofeng Wang Feb 2019

Host Lipids In Positive-Strand Rna Virus Genome Replication, Zhenlu Zhang, Guijuan He, Natalie A. Filipowicz, Glenn Randall, George A. Belov, Benjamin G. Kopek, Xiaofeng Wang

Faculty Publications

Membrane association is a hallmark of the genome replication of positive-strand RNA viruses [(+)RNA viruses]. All well-studied (+)RNA viruses remodel host membranes and lipid metabolism through orchestrated virus-host interactions to create a suitable microenvironment to survive and thrive in host cells. Recent research has shown that host lipids, as major components of cellular membranes, play key roles in the replication of multiple (+)RNA viruses. This review focuses on how (+)RNA viruses manipulate host lipid synthesis and metabolism to facilitate their genomic RNA replication, and how interference with the cellular lipid metabolism affects viral replication.


The Type Of Dietary Fat In An Isocaloric Breakfast Meal Does Not Modify Postprandial Metabolism In Overweight/Obese Pregnant Women, Mary Lesser, Kasuen Mauldin, Lisa Sawrey-Kubicek, Virginia Gildengorin, Janet King Feb 2019

The Type Of Dietary Fat In An Isocaloric Breakfast Meal Does Not Modify Postprandial Metabolism In Overweight/Obese Pregnant Women, Mary Lesser, Kasuen Mauldin, Lisa Sawrey-Kubicek, Virginia Gildengorin, Janet King

Faculty Publications

Almonds provide a satiating, healthy source of fat and fiber. The postprandial metabolic and satiety response to 2 ounces of nuts or dairy was assessed in 18 overweight/obese women during late pregnancy. Serum glucose, triglycerides, insulin, c-peptide, leptin, ghrelin, and lipoprotein particles were measured prior to and during a 5-h postprandial period following the consumption of an isocaloric breakfast meal with equivalent amounts of fat from either nuts or dairy on two separate mornings. Satiety was assessed by visual analogue scale (VAS) questionnaires and ad libitum food intake at the end of the study. At 33 weeks gestation, the ...


Effects Of Eight Weeks Of High Intensity Functional Training On Glucose Control And Body Composition Among Overweight And Obese Adults, Yuri Feito, Pratik Patel, Andrea Sal Redondo, Katie M. Heinrich Feb 2019

Effects Of Eight Weeks Of High Intensity Functional Training On Glucose Control And Body Composition Among Overweight And Obese Adults, Yuri Feito, Pratik Patel, Andrea Sal Redondo, Katie M. Heinrich

Faculty Publications

High-intensity exercise has been found to positively influence glucose control, however, the effects of high-intensity functional training (HIFT) for overweight and obese sedentary adults without diabetes is unknown. The purpose of this study was to examine changes in body composition and glucose control from eight weeks of aerobic and resistance training (A-RT) compared to HIFT. Session time spent doing daily workouts was recorded for each group. Baseline and posttest measures included height, weight, waist circumference, dual X-ray absorptiometry (body fat percentage, fat mass, lean mass), and fasting blood glucose. Participants completing the intervention (78%, n = 9 per group) were 67 ...


Monitoring Training Load, Well-Being, Heart Rate Variability, And Competitive Performance Of A Functional-Fitness Female Athlete: A Case Study, Ramires Alsamir Tibana, Nuno Manuel Frade De Sousa, Jonato Prestes, Yuri Feito Feb 2019

Monitoring Training Load, Well-Being, Heart Rate Variability, And Competitive Performance Of A Functional-Fitness Female Athlete: A Case Study, Ramires Alsamir Tibana, Nuno Manuel Frade De Sousa, Jonato Prestes, Yuri Feito

Faculty Publications

The aim of this case study was to quantify the magnitude of internal load, acute/chronic workload ratio (ACWR), well-being perception, and heart rate variability (HRV) following 38 weeks of functional-fitness training in a female elite athlete. The internal load was obtained with session rating perceived exertion (session-RPE) while the ACWR was calculated by dividing the acute workload by the chronic workload (four-week average). Furthermore, HRV measurements were analyzed via a commercially available smartphone (HRV4training) each morning upon waking whilst in a supine position. The magnitude of internal load was: the weekly mean total during the 38 weeks was 2092 ...


Population Connectivity Of Pelagic Megafauna In The Cuba-Mexico-United States Triangle, Jay R. Rooker, Michael A. Dance, R.J. David Wells, Matthew J. Ajemian, Barbara A. Block, Michael R. Castleton, J. Marcus Drymon, Brett J. Falterman, James S. Franks, Neil Hammerschlag, Jill M. Hendon, Eric R. Hoffmayer, Richard T. Kraus, Jennifer A. Mckinney, David H. Secor, Gregory W. Stunz, John F. Walter Feb 2019

Population Connectivity Of Pelagic Megafauna In The Cuba-Mexico-United States Triangle, Jay R. Rooker, Michael A. Dance, R.J. David Wells, Matthew J. Ajemian, Barbara A. Block, Michael R. Castleton, J. Marcus Drymon, Brett J. Falterman, James S. Franks, Neil Hammerschlag, Jill M. Hendon, Eric R. Hoffmayer, Richard T. Kraus, Jennifer A. Mckinney, David H. Secor, Gregory W. Stunz, John F. Walter

Faculty Publications

The timing and extent of international crossings by billfishes, tunas, and sharks in the Cuba-Mexico-United States (U.S.) triangle was investigated using electronic tagging data from eight species that resulted in >22,000 tracking days. Transnational movements of these highly mobile marine predators were pronounced with varying levels of bi- or tri-national population connectivity displayed by each species. Billfishes and tunas moved throughout the Gulf of Mexico and all species investigated (blue marlin, white marlin, Atlantic bluefin tuna, yellowfin tuna) frequently crossed international boundaries and entered the territorial waters of Cuba and/or Mexico. Certain sharks (tiger shark, scalloped hammerhead ...


Citrus Aurantium And Caffeine Complex Versus Placebo On Biomarkers Of Metabolism: A Double Blind Crossover Design, Brian Kliszczewicz, Emily Bechke, Cassie Williamson, Zackery Green Feb 2019

Citrus Aurantium And Caffeine Complex Versus Placebo On Biomarkers Of Metabolism: A Double Blind Crossover Design, Brian Kliszczewicz, Emily Bechke, Cassie Williamson, Zackery Green

Faculty Publications

BACKGROUOND: The purpose of this study was to examine resting the metabolic response to the ingestion of a complex containing Citrus Aurantium + Caffeine (CA + C) and if its consumption influences metabolic recovery following a high-intensity anaerobic exercise bout in habitual caffeine users. METHODS: Ten physically active males (25.1 ± 3.9 years; weight 78.71 ± 9.53 kg; height 177.2 ± 4.6 cm; body fat 15.5 ± 3.13%) participated in this study. This study was performed in a double-blind, randomized crossover fashion consisting of two exhaustive exercise protocols. On each visit the participants consumed either a CA + C ...


Retrieval Of Phytoplankton Pigments From Underway Spectrophotometry In The Fram Strait, Yangyang Liu, Emmanuel Boss, Alison Chase, Hongyan Xi, Xiaodong Zhang, Rüdiger Röttgers, Yanqun Pan, Astrid Bracher Feb 2019

Retrieval Of Phytoplankton Pigments From Underway Spectrophotometry In The Fram Strait, Yangyang Liu, Emmanuel Boss, Alison Chase, Hongyan Xi, Xiaodong Zhang, Rüdiger Röttgers, Yanqun Pan, Astrid Bracher

Faculty Publications

Phytoplankton in the ocean are extremely diverse. The abundance of various intracellular pigments are often used to study phytoplankton physiology and ecology, and identify and quantify different phytoplankton groups. In this study, phytoplankton absorption spectra (αph(λ)) derived from underway flow-through AC-S measurements in the Fram Strait are combined with phytoplankton pigment measurements analyzed by high-performance liquid chromatography (HPLC) to evaluate the retrieval of various pigment concentrations at high spatial resolution. The performances of two approaches, Gaussian decomposition and the matrix inversion technique are investigated and compared. Our study is the first to apply the matrix inversion technique to ...


Predator-Prey Dynamics Of Bald Eagles And Glaucous-Winged Gulls At Protection Island, Washington, Usa, Shandelle M. Henson, Robert A. Desharnais, Eric T. Funasaki, Joseph G. Galusha, James W. Watson, James L. Hayward Feb 2019

Predator-Prey Dynamics Of Bald Eagles And Glaucous-Winged Gulls At Protection Island, Washington, Usa, Shandelle M. Henson, Robert A. Desharnais, Eric T. Funasaki, Joseph G. Galusha, James W. Watson, James L. Hayward

Faculty Publications

1. Bald eagle (Haliaeetus leucocephalus) populations in North America rebounded in the latter part of the twentieth century, the result of tightened protection and outlawing of pesticides such as DDT. An unintended consequence of recovery may be a negative impact on seabirds. During the 1980s, few bald eagles disturbed a large glaucous‐winged gull (Larus glaucescens) colony on Protection Island, Washington, USA, in the Salish Sea. Breeding gull numbers in this colony rose nearly 50% during the 1980s and early 1990s. Beginning in the 1990s, a dramatic increase in bald eagle activity ensued within the colony, after which began a ...


Dietary Intake Reporting Accuracy Of The Bridge2u Mobile Application Food Log Compared To Control Meal And Dietary Recall Methods, Jennifer Lemacks, Kristen Adams, Ashley Lovetere Jan 2019

Dietary Intake Reporting Accuracy Of The Bridge2u Mobile Application Food Log Compared To Control Meal And Dietary Recall Methods, Jennifer Lemacks, Kristen Adams, Ashley Lovetere

Faculty Publications

Mobile technology introduces opportunity for new methods of dietary assessment. The purpose of this study was to compare the reporting accuracy of a mobile food log application and 24 h recall method to a controlled meal among a convenience sample of adults (18 years of age or older). Participants were recruited from a community/university convenience sample. Participants consumed a pre-portioned control meal, completed mobile food log entry (mfood log), and participated in a dietary recall administered by a registered dietitian (24R). Height, weight, and application use survey data were collected. Sign test, Pearson’s correlation, and descriptive analyses were ...


Air Quality And Health Burden Of 2017 Northern California Wildfires, Susan O’Neill, Minghui Diao Jan 2019

Air Quality And Health Burden Of 2017 Northern California Wildfires, Susan O’Neill, Minghui Diao

Faculty Publications

No abstract provided.


Re-Examination Of The Effects Of Food Abundance On Jaw Plasticity In Purple Sea Urchins, Maya S. Devries, Summer Webb, Jennifer R. A. Taylor Jan 2019

Re-Examination Of The Effects Of Food Abundance On Jaw Plasticity In Purple Sea Urchins, Maya S. Devries, Summer Webb, Jennifer R. A. Taylor

Faculty Publications

Morphological plasticity is a critical mechanism that animals use to cope with variations in resource availability. During periods of food scarcity, sea urchins demonstrate an increase in jaw length relative to test diameter. This trait is thought to be reversible and adaptive by yielding an increase in feeding efficiency. We directly test the hypotheses that (1) there are reversible shifts in jaw length to test diameter ratios with food abundance in individual urchins, and (2) these shifts alter feeding efficiency. Purple sea urchins, Strongylocentrotus purpuratus, were collected and placed in either high or low food treatments for 3 months, after ...


Betting & Hierarchy In Paleontology, Leonard Finkelman Jan 2019

Betting & Hierarchy In Paleontology, Leonard Finkelman

Faculty Publications

In his Rock, Bone, and Ruin: An Optimist’s Guide to the Historical Sciences, Adrian Currie argues that historical scientists should be optimistic about success in reconstructing the past on the basis of future research. This optimism follows in part from examples of success in paleontology. I argue that paleontologists’ success in these cases is underwritten by the hierarchical nature of biological information: extinct organisms have extant analogues at various levels of taxonomic, ecological, and physiological hierarchies, and paleontologists are adept at exploiting analogies within one informational hierarchy to infer information in another. On this account, fossils serve the role ...


Sex-Related Differences In Immune Response And Symptomatic Manifestations To Infection With Leishmania Species, Ryan D. Lockard, Mary E. Wilson, Nilda E. Rodriguez Jan 2019

Sex-Related Differences In Immune Response And Symptomatic Manifestations To Infection With Leishmania Species, Ryan D. Lockard, Mary E. Wilson, Nilda E. Rodriguez

Faculty Publications

Worldwide, an estimated 12 million people are infected with Leishmania spp. and an additional 350 million are at risk of infection. Leishmania are intracellular parasites that cause disease by suppressing macrophage microbicidal responses. Infection can remain asymptomatic or lead to a spectrum of diseases including cutaneous, mucocutaneous, and visceral leishmaniasis. Ultimately, the combination of both pathogen and host factors determines the outcome of infection. Leishmaniasis, as well as numerous other infectious diseases, exhibits sex-related differences that cannot be explained solely in terms of environmental exposure or healthcare access. Furthermore, transcriptomic evidence is revealing that biological sex is a variable impacting ...


A Validation Study Of A Noninvasive Lactate Threshold Device, Rebecca M. Mcmorries, Dustin P. Joubert, Eric J. Jones, Mark D. Faries Jan 2019

A Validation Study Of A Noninvasive Lactate Threshold Device, Rebecca M. Mcmorries, Dustin P. Joubert, Eric J. Jones, Mark D. Faries

Faculty Publications

International Journal of Exercise Science 12(2): 221-232, 2019. The lactate threshold is considered a key marker of endurance exercise performance and identification of this threshold is important in writing an exercise training program. Unfortunately, assessment of the lactate threshold has traditionally required venous or capillary blood samples and a specialized meter to assess blood lactate concentrations. Recently, a consumer grade, non-invasive device was developed to determine muscle oxygenation and estimate the lactate threshold. Purpose: The aim of this study was to assess the validity of a noninvasive lactate threshold device (NID) to determine lactate threshold heart rate (LTHR). Methods ...


Positional Precision Analysis Of Orthomosaics Derived From Drone Captured Aerial Imagery, I-Kuai Hung, Daniel Unger, David Kulhavy, Yanli Zhang Jan 2019

Positional Precision Analysis Of Orthomosaics Derived From Drone Captured Aerial Imagery, I-Kuai Hung, Daniel Unger, David Kulhavy, Yanli Zhang

Faculty Publications

The advancement of drones has revolutionized the production of aerial imagery. Using a drone with its associated flight control and image processing applications, a high resolution orthorectified mosaic from multiple individual aerial images can be produced within just a few hours. However, the positional precision and accuracy of any orthomosaic produced should not be overlooked. In this project, we flew a DJI Phantom drone once a month over a seven-month period over Oak Grove Cemetery in Nacogdoches, Texas, USA resulting in seven orthomosaics of the same location. We identified 30 ground control points (GCPs) based on permanent features in the ...


Effectiveness Of Plant Species For Removing Atmospheric Ammonia, Marife B. Anunciado, Sheryll B. Jerez, Hans Williams, Joey Bray, Dean W. Coble, Rena Saito Jan 2019

Effectiveness Of Plant Species For Removing Atmospheric Ammonia, Marife B. Anunciado, Sheryll B. Jerez, Hans Williams, Joey Bray, Dean W. Coble, Rena Saito

Faculty Publications

Six plant species of Yaupon, Eastern red cedar, American holly, Arizona cypress, Arborvitae and Roughleaf dogwood were utilized to determine their effectiveness in the removal of atmospheric ammonia. All species were exposed to three ammonia levels (1, 5 and 10 ppm) in an environmental chamber. Foliar ammonia content was quantified using an enzymatic technique. The effects of exposure to ammonia on the physiological responses (e.g. photosynthetic activity, stomatal conductance, and transpiration rate) of plants in ambient condition were also determined using an open design photosynthetic gas exchange system. Foliar ammonia content was significantly different among the six plant species ...


Novel Habitat Causes A Shift To Diurnal Activity In A Nocturnal Species, J. Sean Doody, Colin R. Mchenry, David Rhind, Simon Clulow Jan 2019

Novel Habitat Causes A Shift To Diurnal Activity In A Nocturnal Species, J. Sean Doody, Colin R. Mchenry, David Rhind, Simon Clulow

Faculty Publications

Plastic responses may allow individuals to survive and reproduce in novel environments, and can facilitate the establishment of viable populations. But can novel environments reveal plasticity by causing a shift in a behavior as fundamental and conspicuous as daily activity? We studied daily activity times near the invasion front of the cane toad (Rhinella marina), an invasive species that has colonized much of northern Australia. Cane toads in Australia are nocturnal, probably because diurnal activity would subject them to intolerably hot and dry conditions in the tropical savannah during the dry season. Our study can demonstrate, however, that upon reaching ...


Structural And Functional Determinants Of Rodent And Human Surfactant Protein A: A Synthesis Of Binding And Computational Data, Armen Nalian, Todd M. Umstead, Ching-Hui Yang, Patricia Silveyra, Neal J. Thomas, Joanna Floros, Francis X. Mccormack, Zissis C. Chroneos Jan 2019

Structural And Functional Determinants Of Rodent And Human Surfactant Protein A: A Synthesis Of Binding And Computational Data, Armen Nalian, Todd M. Umstead, Ching-Hui Yang, Patricia Silveyra, Neal J. Thomas, Joanna Floros, Francis X. Mccormack, Zissis C. Chroneos

Faculty Publications

Surfactant protein A (SP-A) provides surfactant stability, first line host defense, and lung homeostasis by binding surfactant phospholipids, pathogens, alveolar macrophages (AMs), and epithelial cells. Non-primates express one SP-A protein whereas humans express two: SP-A1 and SP-A2 with core intra- and inter-species differences in the collagen-like domain. Here, we used macrophages and solid phase binding assays to discern structural correlates of rat (r) and human (h) SP-A function. Binding assays using recombinant rSP-A expressed in insect cells showed that lack of proline hydroxylation, truncations of amino-terminal oligomerization domains, and site-directed serine (S) or alanine (A) mutagenesis of cysteine 6 (C6S ...


Variation In Carbon Concentrations And Allocations Among Larix Olgensis Populations Growing In Three Field Environments, Jiang Ying, Yuhi Weng, Brian P. Oswald, Hanguo Zhang Jan 2019

Variation In Carbon Concentrations And Allocations Among Larix Olgensis Populations Growing In Three Field Environments, Jiang Ying, Yuhi Weng, Brian P. Oswald, Hanguo Zhang

Faculty Publications

Key message Variation in carbon concentration among Larix olgensis A. Henry provenances and tree tissues was significant, suggesting importance of such variation to carbon stock calculation. Provenance variation in carbon allocation was only significant in allocations to some tissues, including stem wood, and was strongly site-specific. Some allocation patterns correlated significantly with provenance growth and were related to geographic/climatic variables at the provenance origins.

Context Understanding variation in carbon concentrations and allocations to tree tissues among genetic entries is important for assessing carbon sequestration and understanding differential growth rates among the entries. However, this topic is poorly understood, in ...


Weed Control And Overstory Reduction Improve Survival And Growth Of Under‐Planted Oak And Hickory Seedlings, Luke B. Oliver, Jeremy Stovall, Chris E. Comer, Hans Williams, Matt E. Symmank Jan 2019

Weed Control And Overstory Reduction Improve Survival And Growth Of Under‐Planted Oak And Hickory Seedlings, Luke B. Oliver, Jeremy Stovall, Chris E. Comer, Hans Williams, Matt E. Symmank

Faculty Publications

Weed control and overstory reduction are important silvicultural treatments for improving survival and growth of under‐planted oak and hickory seedlings. Mast‐producing trees in the bottomland forests of the blackland prairie and Post Oak Savannah ecoregions of Texas have declined in abundance. Oaks and hickories have been replaced by more shade‐tolerant species, including green ash (Fraxinus pennsylvanica Marshall) and sugarberry (Celtis laevigata Willd.), which do not produce significant hard mast for priority wildlife species. A split‐plot experiment design was installed on three sites at Richland Creek Wildlife Management Area in Freestone County, Texas, studying the effects of ...


Correlates Of Snake Entanglement In Erosion Control Blankets, Sarah E. Ebert, Kasey L. Jobe, Christopher M. Schalk, Daniel Saenz, Cory K. Adams, Christopher E. Comer Jan 2019

Correlates Of Snake Entanglement In Erosion Control Blankets, Sarah E. Ebert, Kasey L. Jobe, Christopher M. Schalk, Daniel Saenz, Cory K. Adams, Christopher E. Comer

Faculty Publications

In road construction projects across the United States, erosion control methods (e.g., erosion control blankets [ECBs]), are mandated to stimulate seedbed regeneration and prevent soil loss. Previous reports have suggested that snakes are vulnerable to entanglement in ECBs. We conducted a literature review, field surveys, and an entanglement experiment to examine what factors increase a snake’s risk of ECB entanglement. Our literature review produced reports of 175 reptiles entangled in mesh products, 89.1% of which were snakes, with 43.6% of snake entanglements occurring in erosion control products. During our field surveys, we found 10 entangled snakes ...


The Role Of The Midfoot In Drop Landings, Mark T. Olsen, Dustin A. Bruening, A. Wayne Johnson, Sarah T. Ridge Jan 2019

The Role Of The Midfoot In Drop Landings, Mark T. Olsen, Dustin A. Bruening, A. Wayne Johnson, Sarah T. Ridge

Faculty Publications

Purpose: The midfoot is instrumental to foot function; however, quantifying its roles in human movement has been difficult. A forceful dynamic activity like landing may help elucidate the midfoot’s contribution to foot energetics and function. The main purpose of this study was to measure midtarsal joint kinematics and kinetics during a barefoot single-leg landing task. A secondary aim of this study was to explore the relationship between static foot posture and dynamic midfoot function.

Methods: In a cross-sectional study design, 48 females (age = 20.4 ± 1.8 yr, body mass index = 21.6 ± 1.7 kg/m) performed drop ...


Move It Or Lose It: Interspecific Variation In Risk Response Of Pond-Breeding Anurans, Philip Matich, Christopher M. Schalk Jan 2019

Move It Or Lose It: Interspecific Variation In Risk Response Of Pond-Breeding Anurans, Philip Matich, Christopher M. Schalk

Faculty Publications

Changes in behavior are often the proximate response of animals to human disturbance, with variability in tolerance levels leading some species to exhibit striking shifts in life history, fitness, and/or survival. Thus, elucidating the effects of disturbance on animal behavior, and how this varies among taxonomically similar species with inherently different behaviors and life histories is of value for management and conservation. We evaluated the risk response of three anuran species—southern leopard frog (Lithobates sphenocephalus), Blanchard’s cricket frog (Acris blanchardi), and green tree frog (Hyla cinerea)—to determine how differences in microhabitat use (arboreal vs ground-dwelling) and ...


Diversity And Shifts Of The Bacterial Community Associated With Baikal Sponge Mass Mortalities, Sergei Belikov, Natalia Belkova, Tatiana Butina, Lubov Chernogor, Alexandra Martynova-Van Kley, Armen Nalian, Colin Rorex, Igor Khanaev, Olga Maikova, Sergey Feranchuk Jan 2019

Diversity And Shifts Of The Bacterial Community Associated With Baikal Sponge Mass Mortalities, Sergei Belikov, Natalia Belkova, Tatiana Butina, Lubov Chernogor, Alexandra Martynova-Van Kley, Armen Nalian, Colin Rorex, Igor Khanaev, Olga Maikova, Sergey Feranchuk

Faculty Publications

The disease of freshwater sponges was first discovered in 2011, when pink samples were found in the Central Basin of Lake Baikal. Subsequently, the visible signs of the disease have changed, and now sponges appear with various symptoms of damage to the body, such as discoloration, tissue necrosis, the formation of brown patches and dirty-purple biofilms on some branches. These signs of the disease are accompanied by the mass death of sponges. We identified differences in microbiomes by sequencing 16S rRNA genes and found changes in the consortium of microorganisms of freshwater Baikal sponges. We found that the observed imbalance ...