Life Sciences Commons^™

Jellyfish, Forage Fish, And The World's Major Fisheries, Kelly L. Robinson, James J. Ruzicka, Mary Beth Decker, Richard D. Brodeur, Frank J. Hernandez, Javier Quiñones, E. Marcelo Acha, Shin-Ichi Uye, Hermes Mianzan, William M. Graham

Faculty Publications

A majority of the world’s largest net-based fisheries target planktivorous forage fish that serve as a critical trophic link between the plankton and upper-level consumers such as large predatory fishes, seabirds, and marine mammals. Because the plankton production that drives forage fish also drives jellyfish production, these taxa often overlap in space, time, and diet in coastal ecosystems. This overlap likely leads to predatory and competitive interactions, as jellyfish are effective predators of fish early life stages and zooplankton. The trophic interplay between these groups is made more complex by the harvest of forage fish, which presumably releases jellyfish from …

Waas, Glonass, And Gps Accuracy, Yanli Zhang, Daniel Unger, I-Kuai Hung, David Kulhavy

Faculty Publications

No abstract provided.

Using Phylogenetically-Informed Annotation (Pia) To Search For Light-Interacting Genes In Transcriptomes From Non-Model Organisms, Daniel Isaac Speiser, M Sabrina Pankey, Alexandera K. Zaharoff, Barbara A. Battelle, Heather D. Bracken-Grissom, Jesse W. Breinholt, Seth M. Bybee, Thomas W. Cronin, Anders Garm, Annie R. Lindgren, Nipam H. Patel, Megan L. Porter, Meredith E. Protas, Ajna S. Rivera, Jeanne M. Serb, Kirk S. Zigler, Keith A. Crandall, Todd H. Oakley

Faculty Publications

Background

Tools for high throughput sequencing and de novo assembly make the analysis of transcriptomes (i.e. the suite of genes expressed in a tissue) feasible for almost any organism. Yet a challenge for biologists is that it can be difficult to assign identities to gene sequences, especially from non-model organisms. Phylogenetic analyses are one useful method for assigning identities to these sequences, but such methods tend to be time-consuming because of the need to re-calculate trees for every gene of interest and each time a new data set is analyzed. In response, we employed existing tools for phylogenetic analysis …

Data For Henson Et Al. 2014, Shandelle M. Henson, James L. Hayward, Gordon Atkins, Amanda Sandler, Wadenerson Saint Martin

Faculty Publications

These data are archived for the paper "Changing sea surface temperature alters timescale of reproductive synchrony in seabirds" by Henson et al., currently submitted to Nature.

Viability Costs Of Reproduction And Behavioral Compensation In Western Mosquitofish (Gambusia Affinis), Clinton T. Laidlaw, Jacob M. Condon, Mark C. Belk

Faculty Publications

The cost of reproduction hypothesis suggests that current reproduction has inherent tradeoffs with future reproduction. These tradeoffs can be both in the form of energy allocated to current offspring as opposed to somatic maintenance and future reproduction (allocation costs), or as an increase in mortality as a result of morphological or physiological changes related to reproduction (viability costs). Individuals may be able to decrease viability costs by altering behavior. Female western mosquitofish, Gambusia affinis experience a reduction in swimming ability as a consequence of pregnancy. We test for a viability cost of reproduction, and for behavioral compensation in pregnant female …

Evaluating Gps Effectiveness For Natural Resource Professionals: Integrating Undergraduate Students In The Decision-Making Process, Daniel Unger, I-Kuai Hung, Yanli Zhang, David Kulhavy

Faculty Publications

Undergraduate students pursuing a Bachelor of Science in Forestry (BSF) degree at Stephen F. Austin State University (SFA) attend an intensive 6-week residential hands-on instruction in applied field methods. For students pursuing the BSF degree knowing the exact location of a forestland is crucial to the understanding and proper management of any related natural resource. The intensive 6-week instruction includes teaching how to use the Global Positioning System (GPS) to accurately record the spatial location of an earth’s surface feature. After receiving hands-on instructions during the summer of 2014, students were taken to the field to collect real-world locations. Students …

Genetic Dominance & Cellular Processes, Robert D. Seager

Faculty Publications

In learning genetics, many students misunderstand and misinterpret what “dominance” means. Understanding is easier if students realize that dominance is not a mechanism, but rather a consequence of underlying cellular processes. For example, metabolic pathways are often little affected by changes in enzyme concentration. This means that enzyme-producing alleles usually show complete dominance. For genes producing nonenzymatic proteins such as collagen or hemoglobin, the amount of product matters, and dominance relationships are more complicated. Furthermore, with hemoglobin, dominance can change depending on what aspect of the phenotype is being studied and on the environmental conditions. X-linked genes are a special …

Proceedings Of The 2014 Midsouth Computational Biology And Bioinformatics Society (Mcbios) Conference, Jonathan D. Wren, Mikhail G. Dozmorov, Dennis Burian, Andy Perkins, Chaoyang Zhang, Peter Hoyt, Rakesh Kaundal

Faculty Publications

No abstract provided.

Beyond Sustainability: A New Conceptual Model, Molly Kerby, Gayle Mallinger

Faculty Publications

Over the last few decades, the notion of sustainability has become an interdisciplinary buzz word. Sustainability has been an integrative concept that includes three constructs or pillars: a) social; b) economic; and c) ecological. Until recently, theoretical approaches based on the three pillars approach have operated in silos rather than exploring the interconnectedness of the constructs. Few models have moved beyond the idea that logical relations exist among the constructs (social, economic, and ecological) to consider factors external to communities, nor have they examined the internal socio-economic factors that influence positive outcomes. While this conceptualization has raised awareness about the …

Instrumented Figure Skating Blade For Measuring On-Ice Skating Forces, S A. Acuña, D M. Smith, J M. Robinson, J C. Hawks, P Starbuck, D L. King, Sarah T. Ridge, Steven Knight Charles

Faculty Publications

Competitive figure skaters experience substantial, repeated impact loading during jumps and landings. Although these loads, which are thought to be as high as six times body weight, can lead to overuse injuries, it is not currently possible to measure these forces on-ice. Consequently, efforts to improve safety for skaters are significantly limited. Here we present the development of an instrumented figure skating blade for measuring forces on-ice. The measurement system consists of strain gauges attached to the blade, Wheatstone bridge circuit boards, and a data acquisition device. The system is capable of measuring forces in the vertical and horizontal directions …

Residency Time As An Indicator Of Reproductive Restraint In Male Burying Beetles, Ashlee N. Smith, Mark C. Belk, J. Curtis Creighton

Faculty Publications

The cost of reproduction theory posits that there are trade-offs between current and future reproduction because resources that are allocated to current offspring cannot be used for future reproductive opportunities. Two adaptive reproductive strategies have been hypothesized to offset the costs of reproduction and maximize lifetime fitness. The terminal investment hypothesis predicts that as individuals age they will allocate more resources to current reproduction as a response to decreasing residual reproductive value. The reproductive restraint hypotheses predicts that as individuals age they will allocate fewer resources to current reproduction to increase the chance of surviving for an additional reproductive opportunity. …

Review Of The Face Of The Earth, Ann E. Lundberg

Faculty Publications

Review of SueEllen Campbell, et al. The Face of the Earth: Natural Landscapes, Science, and Culture. Published review is at Western American Literature.

Bullish On Forestry Careers, Steven H. Bullard, Thomas J. Straka

Faculty Publications

During the next decade, baby boomer-aged foresters, those born from 1946 to 1964, will be retiring in large numbers. This retirement trend is true for all sectors of forestry employment, from state and federal agencies to private firms and industries.

Forestry employers in both public and private sectors are clamoring for more graduates, as well as for more diverse graduates, from forestry degree programs. With looming retirements and industry growth, employers can project the number of positions opening, and they are aware that U.S. forestry schools are not producing sufficient graduates to fill the positions.

Large-Scale Identification Of Chemically Induced Mutations In Drosophila Melanogaster., Nele A Haelterman, Lichun Jiang, Yumei Li, Vafa Bayat, Hector Sandoval, Berrak Ugur, Kai Li Tan, Ke Zhang, Danqing Bei, Bo Xiong, Wu-Lin Charng, Theodore Busby, Adeel Jawaid, Gabriela David, Manish Jaiswal, Koen J T Venken, Shinya Yamamoto, Rui Chen, Hugo J Bellen

Faculty Publications

Forward genetic screens using chemical mutagens have been successful in defining the function of thousands of genes in eukaryotic model organisms. The main drawback of this strategy is the time-consuming identification of the molecular lesions causative of the phenotypes of interest. With whole-genome sequencing (WGS), it is now possible to sequence hundreds of strains, but determining which mutations are causative among thousands of polymorphisms remains challenging. We have sequenced 394 mutant strains, generated in a chemical mutagenesis screen, for essential genes on the Drosophila X chromosome and describe strategies to reduce the number of candidate mutations from an average of …

A Comparison Of The Caulobacter Na1000 And K31 Genomes Reveals Extensive Genome Rearrangements And Differences In Metabolic Potential, Kurt Ash, Theta Brown, Tynetta Watford, Latia E. Scott, Craig Stephens, Bert Ely

Faculty Publications

The genus Caulobacter is found in a variety of habitats and is known for its ability to thrive in low-nutrient conditions. K31 is a novel Caulobacter isolate that has the ability to tolerate copper and chlorophenols, and can grow at 4°C with a doubling time of 40 h. K31 contains a 5.5 Mb chromosome that codes for more than 5500 proteins and two large plasmids (234 and 178 kb) that code for 438 additional proteins. A comparison of the K31 and the Caulobacter crescentus NA1000 genomes revealed extensive rearrangements of gene order, suggesting that the genomes had been randomly scrambled. …

A Test Of The Mean Distance Method For Forest Regeneration Assessment, Daniel Unger, Jeremy P. Stovall, Brian P. Oswald, David Kulhavy, I-Kuai Hung

Faculty Publications

A new distance-based estimator for forest regeneration assessment, the mean distance method, was developed by combining ideas and techniques from the wandering quarter method, T-square sampling and the random pairs method. The performance of the mean distance method was compared to conventional 4.05 square meter plot sampling through simulation analysis on 405 square meter blocks of a field surveyed clumped distribution and a computer generated random distribution at different levels of density of 100, 50 and 25%. The mean distance method accurately estimated density on the random populations but the mean distance method estimates were more variable than those of …

Toxicity Of Engineered Nanomaterials And Their Transformation Products Following Wastewater Treatment On A549 Human Lung Epithelial Cells, Yanjun Ma, Subbiah Elankumaran, Linsey C. Marr, Eric P. Vejerano, Amy Pruden

Faculty Publications

Here we characterize the toxicity of environmentally-relevant forms of engineered nanomaterials (ENMs), which can transform during wastewater treatment and persist in aqueous effluents and biosolids. In an aerosol exposure scenario, cytotoxicity and genotoxicity of effluents and biosolids from lab-scale sequencing batch reactors (SBRs) to A549 human lung epithelial cells were examined. The SBRs were dosed with nanoAg, nano zero-valent iron (NZVI), nanoTiO2 and nanoCeO2 at sequentially increasing concentrations from 0.1 to 20 mg/L. Toxicities were compared to outputs from SBRs dosed with ionic/bulk analogs, undosed SBRs, and pristine ENMs. Pristine nanoAg and NZVI showed significant cytotoxicity to A549 cells in …

Interannual Variability Of Wintertime Temperature On The Inner Continental Shelf Of The Middle Atlantic Bight, Thomas Connolly, Steven Lentz

Faculty Publications

The shallow depth of the inner continental shelf allows for rapid adjustment of the ocean to air-sea exchange of heat and momentum compared with offshore locations. Observations during 2001–2013 are used to evaluate the contributions of air-sea heat flux and oceanic advection to interannual variability of inner-shelf temperature in the Middle Atlantic Bight. Wintertime processes are important for interpreting regional interannual variability at nearshore locations since winter anomalies account for 69–77% of the variance of the annual anomalies and are correlated over broad along-shelf scales, from New England to North Carolina. At the Martha's Vineyard Coastal Observatory on the 12 …

Effects Of Exercise On Bmi Z-Score In Overweight And Obese Children And Adolescents: A Systematic Review With Meta-Analysis, George A. Kelley, Kristi S. Kelley, Russell R. Pate

Faculty Publications

Background: Overweight and obesity are major public health problems in children and adolescents. The purpose of this study was to conduct a systematic review with meta-analysis to determine the effects of exercise (aerobic, strength or both) on body mass index (BMI) z-score in overweight and obese children and adolescents.

Methods: Studies were included if they were randomized controlled exercise intervention trials ≥ 4 weeks in overweight and obese children and adolescents 2 to 18 years of age, published in any language between 1990–2012 and in which data were available for BMI z-score. Studies were retrieved by searching eleven electronic databases, …

Intergeniculate Leaflet Lesions Result In Differential Activation Of Brain Regions Following The Presentation Of Photic Stimuli In Nile Grass Rats, Andrew J. Gall, Lily Yan, Laura Smale, Antonio A. Nunez

Faculty Publications

The intergeniculate leaflet (IGL) plays an important role in the entrainment of circadian rhythms and the mediation of acute behavioral responses to light (i.e., masking). Recently, we reported that IGL lesions in diurnal grass rats result in a reversal in masking responses to light as compared to controls. Here, we used Fos as a marker of neural activation to examine the mechanisms by which the IGL may influence this masking effect of light in grass rats. Specifically, we examined the patterns of Fos activation in retinorecipient areas and in brain regions that receive IGL inputs following 1-h light pulses given …

Antiviral Responses In Mouse Embryonic Stem Cells: Differential Development Of Cellular Mechanisms In Type I Interferon Production And Response, Ruoxing Wang, Jundi Wang, Dhiraj Acharya, Amber M. Paul, Fengwei Bai, Faqing Huang, Yan-Lin Guo

Faculty Publications

We have recently reported that mouse embryonic stem cells (mESCs) are deficient in expressing type I interferons (IFNs) in response to viral infection and synthetic viral RNA analogs (Wang, R., Wang, J., Paul, A. M., Acharya, D., Bai, F., Huang, F., and Guo, Y. L. (2013) J. Biol. Chem. 288, 15926–15936). Here, we report that mESCs are able to respond to type I IFNs, express IFN-stimulated genes, and mediate the antiviral effect of type I IFNs against La Crosse virus and chikungunya virus. The major signaling components in the IFN pathway are expressed in mESCs. Therefore, the basic molecular mechanisms …

Influence Of Resource Levels, Organic Compounds And Laboratory Colonization On Interspecific Competition Between The Asian Tiger Mosquito Aedes Albopictus (Stegomyia Albopicta) And The Southern House Mosquito Culex Quinquefasciatus, D.W. Allgood, Donald A. Yee

Faculty Publications

The mosquitoes Aedes albopictus (Stegomyia albopicta) (Skuse) and Culex quinquefasciatus (Say) (Diptera: Culicidae) are common inhabitants of tyres and other artificial containers, which constitute important peridomestic mosquito breeding habitats. We tested the hypotheses that interspecific resource competition between the larvae of these species is asymmetrical, that the concentration of chemicals associated with decomposing detritus affects the competitive outcomes of these species, and that wild and colonized strains of Cx. quinquefasciatus are affected differently by competition with Ae. albopictus. We conducted two laboratory competition experiments wherein we measured survivorship and estimated population growth (λ′) in both species under …

Molecular Characterization Of Two Opecoelid Trematodes From Fishes In The Gulf Of Mexico, With A Desceiption Of A New Species Of Helicometra, Michael J. Andres, Candis L. Ray, Eric E. Pulis, Stephen S. Curran, Robin M. Overstreet

Faculty Publications

The plagioporine opecoelids Helicometra fasciata (Rudolphi, 1819) Odhner, 1902, and Macvicaria crassigula (Linton, 1910) Bartoli, Bray, and Gibson, 1989 have been reported from fishes in expansive geographic regions, disjointed from their type localities. New material of M. crassigula was collected from near its type locality as well as specimens resembling Helicometra fasciata sensu lato from three triglids in the Gulf of Mexico. Comparisons of the ribosomal DNA (rDNA) sequences, comprising the partial 18S rDNA, internal transcribed spacer region (= ITS1, 5.8S, and ITS2), and partial 28S rDNA gene, from M. crassigula and Helicometra fasciata sensu lato in the Gulf of …

Global Burden Of Disease Study 2010: Interpretation And Implications For The Neglected Tropical Diseases, Peter J. Hotez, Miriam Alvarado, Maria Gloria Basanez, Ian Bolliger, Et Al.

Faculty Publications

No abstract provided.

Effects Of Nutritional Level Of Concentrate‐Based Diets On Meat Quality And Expression Levels Of Genes Related To Meat Quality In Hainan Black Goats, Dingfa Wang, Luli Zhou, Hanlin Zhou, Guanyu Hou, Liguang Shi, Mao Li, Xianzhou Huang, Song Guan

Faculty Publications

The present study investigated the effects of the nutritional levels of diets on meat quality and related gene expression in Hainan black goat. Twenty-four goats were divided into six dietary treatments and were fed a concentrate-based diet with two levels of crude protein (CP) (15% or 17%) and three levels of digestive energy (DE) (11.72, 12.55 or 13.39 MJ/kg DM) for 90 days. Goats fed the concentrate-based diet with 17% CP had significantly (P < 0.05) higher average daily gains (ADG) and better feed conversion rates (FCR). The pH 24h value tended to decrease (P < 0.05) with increasing DE levels. The tenderness of Longissimus dorsi muscle (LD) and Semimembranosus muscle (SM) reduced with increasing CP levels (P < 0.05). With increasing DE levels, tenderness was increased (P < 0.05). The heart fatty acid-binding protein (H-FABP) mRNA expression levels in LD and SM increased with increasing DE levels (P < 0.05), but decreased with increasing CP levels (P < 0.05). The calpastatin (CAST) and μ-calpain mRNA expressions levels in LD and SM were affected significantly (P < 0.05) by CP and DE levels in the diet. Therefore, the nutritional levels of diets affect meat quality and expression levels of genes associated with meat quality in Hainan black goats.

Gelatinous Zooplankton Biomass In The Global Oceans: Geographic Variation And Environmental Drivers, Cathy H. Lucas, Daniel O.B. Jones, Catherine J. Hollyhead, Robert H. Condon, Carlos M. Duarte, William M. Graham, Kelly L. Robinson, Kylie A. Pitt, Mark Schildhauer, Jim Regetz

Faculty Publications

Aim

Scientific debate regarding the future trends, and subsequent ecological, biogeochemical and societal impacts, of gelatinous zooplankton (GZ) in a changing ocean is hampered by lack of a global baseline and an understanding of the causes of biogeographic patterns. We address this by using a new global database of GZ records to test hypotheses relating to environmental drivers of biogeographic variation in the multidecadal baseline of epipelagic GZ biomass in the world's oceans.

Location

Global oceans.

Methods

Over 476,000 global GZ data and metadata items were assembled from a variety of published and unpublished sources. From this, a total of …

Identification And Characterization Of An Operon, Msaabcr, That Controls Virulence And Biofilm Development In Staphlococcus Aureus, Gyan S. Sahukhal, Mohamed O. Elasri

Faculty Publications

Background

Community-acquired, methicillin-resistant Staphylococcus aureus strains often cause localized infections in immunocompromised hosts, but some strains show enhanced virulence leading to severe infections even among healthy individuals with no predisposing risk factors. The genetic basis for this enhanced virulence has yet to be determined. S. aureus possesses a wide variety of virulence factors, the expression of which is carefully coordinated by a variety of regulators. Several virulence regulators have been well characterized, but others have yet to be thoroughly investigated. Previously, we identified the msa gene as a regulator of several virulence genes, biofilm development, and antibiotic resistance. We also …

Large Scale Screening Of Digeneans For Neorickettsia Endosymbionts Using Real-Time Pcr Reveals New Neorickettsia Genotypes, Host Associations And Geographic Records, Stephen Greiman, Vasyl V. Tkach, Eric Pulis, Thomas J. Fayton, Stephen S. Curran

Faculty Publications

Digeneans are endoparasitic flatworms with complex life cycles including one or two intermediate hosts (first of which is always a mollusk) and a vertebrate definitive host. Digeneans may harbor intracellular endosymbiotic bacteria belonging to the genus Neorickettsia (order Rickettsiales, family Anaplasmataceae). Some Neorickettsia are able to invade cells of the digenean's vertebrate host and are known to cause diseases of wildlife and humans. In this study we report the results of screening 771 digenean samples for Neorickettsia collected from various vertebrates in terrestrial, freshwater, brackish, and marine habitats in the United States, China and Australia. Neorickettsia were detected using a …

Interspecific Variation In Juvenile Snapper Otolith Chemical Signatures In The Northern Gulf Of Mexico, William F. Patterson Iii, Beverly K. Barnett, Michelle Zapp Sluis, James Howan Cowan Jr., Alan M. Shiller

Faculty Publications

The objective of this study was to evaluate whether age-0 lane snapper Lutjanus synagris otolith chemical signatures could serve as accurate proxies for those of its congener, red snapper L. campechanus, among northern Gulf of Mexico (GOM) nursery regions. Red (n = 90) and lane (n = 53) snappers were sampled from 3 regions of the northern GOM in fall 2005, and their otolith chemistry was analyzed with sector field-inductively coupled plasma-mass spectrometry (Ba:Ca, Mg:Ca, Mn:Ca, Sr:Ca, Li:Ca) or stable isotope ratio-mass spectrometry (δ¹³C and δ¹⁸O). Chemical signatures were significantly different among regions (MANOVA, p < 0.001) and between species (MANOVA, p = 0.029), with the species effect being driven by significant differences in 4 of the 7 constituents analyzed (ANOVA, p < 0.036). The significant region effect persisted (MANOVA, p < 0.001), but the species effect was non-significant (MANOVA, p = 0.964) when constituent values were normalized to species-specific means. Mean regional classification accuracies from linear discriminant functions computed with otolith constituent data were 84% for lane snapper and 80% for red snapper whether data were normalized or not. Maximum likelihood models parameterized with normalized lane snapper otolith chemistry data estimated red snapper regional composition reasonably well among mixed-region samples (mean error = 9.7% among models). Therefore, it appears age-0 lane snapper otolith chemical signatures can serve as accurate proxies for those of red snapper in the northern GOM. These results have broader implications for deriving natural tags based on otolith chemistry for fishes that may have low abundance in parts of their range.

Accuracy Assessment Of Land Cover Maps Of Forests Within An Urban And Rural Environment, Daniel Unger, I-Kuai Hung, David L. Kulhavy

Faculty Publications

Land cover maps of forests within an urban and rural environment derived from high spatial resolution multispectral data (QuickBird) and medium spatial resolution multispectral data (Landsat ETM+ and SPOJ 4) were compared to ascertain whether increased spatial resolution increases map accuracy of forests and whether map accuracy varies across land cover classification schemes. It is commonly assumed that increased spatial resolution would probably increase land cover map accuracy regardless of land cover classification methodology. This study assessed whether that assumption is correct within a rural and an urban environment. Map accuracy for modified National Land Cover Data (NLCD) 2001 Level …