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A Taxonomic Synopsis Of Virola (Myristicaceae) In Mesoamerica, Including Six New Species, Daniel Santamaría-Aguilar, Reinaldo Aguilar, Laura P. Lagomarsino

Faculty Publications

© Daniel Santamaría-Aguilar et al. A taxonomic synopsis of Virola (Myristicaceae) is presented for Mesoamerica. Fourteen species are recognised, amongst them six are described and published as new, based on morphology: V. allenii D.Santam. & Aguilar, sp. nov. from Costa Rica, V. otobifolia D.Santam., sp. nov. from Panama and V. amistadensis D.Santam., sp. nov., V. chrysocarpa D.Santam. & Aguilar, sp. nov., V. fosteri D.Santam., sp. nov. and V. montana D.Santam., sp. nov. from both Costa Rica and Panama. Additionally, a lectotype is designated for V. koschnyi, accompanied by an epitype in view of the fragmentary material. Finally, we recognise V. …

Population Expansion Of An Antarctic King Crab?, Michael E. Hellberg, Richard B. Aronson, Kathryn E. Smith, Mark I. Duhon, Shane T. Ahyong, Gustavo A. Lovrich, Sven Thatje, James B. Mcclintock

Faculty Publications

© 2019, the authors. Benthic assemblages of the Antarctic continental shelf are dominated by sessile and slow-moving, epifaunal invertebrates. This community structure persists because shell-crushing (durophagous) predators are absent or ecologically insignificant in shelf habitats. Durophagous teleosts, elasmobranchs, and crustaceans have been excluded by cold waters over the Antarctic shelf for millions of years. Now, as shallow waters warm rapidly, predatory king crabs (Lithodidae) living in the upper bathyal zone could emerge onto the shelf and into nearshore habitats. To assess the potential for a bathymetric expansion, we genetically inferred the historical demography of a population of the most abundant …

Role Of Type I Interferon (Ifn) In The Respiratory Syncytial Virus (Rsv) Immune Response And Disease Severity, Diego R. Hijano, Luan D. Vu, Lawrence M. Kauvar, Ralph A. Tripp, Fernando P. Polack, Stephania A. Cormier

Faculty Publications

© 2019 Hijano, Vu, Kauvar, Tripp, Polack and Cormier. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. Respiratory syncytial virus (RSV) is the most common cause of lower respiratory tract disease in children patients, such as premature infants, patients with cardiac …

Local Adaptation Drives The Diversification Of Effectors In The Fungal Wheat Pathogen Parastagonospora Nodorum In The United States, Jonathan K. Richards, Eva H. Stukenbrock, Jessica Carpenter, Zhaohui Liu, Christina Cowger, Justin D. Faris, Timothy L. Friesen

Faculty Publications

Filamentous fungi rapidly evolve in response to environmental selection pressures in part due to their genomic plasticity. Parastagonospora nodorum, a fungal pathogen of wheat and causal agent of septoria nodorum blotch, responds to selection pressure exerted by its host, influencing the gain, loss, or functional diversification of virulence determinants, known as effector genes. Whole genome resequencing of 197 P. nodorum isolates collected from spring, durum, and winter wheat production regions of the United States enabled the examination of effector diversity and genomic regions under selection specific to geographically discrete populations. 1,026,859 SNPs/InDels were used to identify novel loci, as well …

Larval Pollen Stress Increases Adult Susceptibility To Clothianidin In Honey Bees, Christina L. Mogren, Robert G. Danka, Kristen B. Healy

Faculty Publications

Neonicotinoid insecticides have come under scrutiny for their potential role in honey bee declines. Additionally, reduced access to forage in agricultural areas creates the potential for risk interactions with these pesticides in regions critical for honey production. In this study, we sought to determine whether sufficient access to pollen during larval development could mitigate stress associated with oral clothianidin exposure in honey bee adults. An apiary was established where pollen traps deprived half of the colonies of pollen, which was then supplemented to the others. Adults were fed 0, 10, 40, 200, or 400 µg/L clothianidin in the laboratory, and …

Effector Gene Reshuffling Involves Dispensable Mini-Chromosomes In The Wheat Blast Fungus, Zhao Peng, Ely Oliveira-Garcia, Guifang Lin, Ying Hu, Melinda Dalby, Pierre Migeon, Haibao Tang, Mark Farman, David Cook, Frank F. White, Barbara Valent, Sanzhen Liu

Faculty Publications

Newly emerged wheat blast disease is a serious threat to global wheat production. Wheat blast is caused by a distinct, exceptionally diverse lineage of the fungus causing rice blast disease. Through sequencing a recent field isolate, we report a reference genome that includes seven core chromosomes and mini-chromosome sequences that harbor effector genes normally found on ends of core chromosomes in other strains. No mini-chromosomes were observed in an early field strain, and at least two from another isolate each contain different effector genes and core chromosome end sequences. The mini-chromosome is enriched in transposons occurring most frequently at core …

Management Of Economically Important Insect Pests Of Millet, Ruparao T. Gahukar, Gadi V.P. Reddy, Tom Royer

Faculty Publications

Grain of various species of millet is a staple food of rural communities in sub-Saharan Africa, the Indian subcontinent, and China. In addition, millet is used as poultry and cattle feed in the United States, and the foliage is fodder for cattle in India. The crop is damaged by at least 150 insect pests during its growth and development. Although the current status of all of these pests is not known, shoot flies, stem borers, leaf-sucking, and the panicle-attacking insects are considered economically important. Control measures include the application of synthetic pesticides (as both seed treatment and foliar applications) and …

Dosage Compensation Of The X Chromosomes In Bovine Germline, Early Embryos, And Somatic Tissues, Zongliang Jiang

Faculty Publications

Dosage compensation of the mammalian X chromosome (X) was proposed by Susumu Ohno as a mechanism wherein the inactivation of one X in females would lead to doubling the expression of the other. This would resolve the dosage imbalance between eutherian females (XX) versus male (XY) and between a single active X versus autosome pairs (A). Expression ratio of X- and A-linked genes has been relatively well studied in humans and mice, despite controversial results over the existence of upregulation of X-linked genes. Here we report the first comprehensive test of Ohno's hypothesis in bovine preattachment embryos, germline, and somatic …

Bibliometrics For Faculty Evaluation: A Statistical Comparison Of H-Indexes Generated Using Google Scholar And Web Of Science Data, David J. Dunaway

Faculty Publications

The growing need for quantification of research performance for promotion and tenure

and grant funding decisions has lead many to rely on citation metrics. There are many metrics to choose from but one of the most common is the h-index. While the h-index has been criticized by many, the metric itself is not the only concern. The source of the citation information used to calculate the h-index is also important. In this case study the h-index was calculated using citation data from Clarivate’s Web of Science (WoS) and Google Scholar (GS) for a selection of faculty working at a large …

Quantifying Amphibian Range Fragmentation In The Southeastern United States, Catherine E. Newman, Christopher C. Austin

Faculty Publications

© the authors. An often overlooked component of research on factors that drive amphibian geographic distributions is description of species range shape. Broad-scale range disjunction has implications for phylogeography, ecology, and conservation, but descriptions of fragmentation are usually based on subjective visual assessment of range maps. Here, we describe a method for objectively quantifying range fragmentation and use this method to describe the patterns of amphibian species range shapes in the southeastern United States, home to the highest amphibian species richness in North America. Species ranges varied widely in degree of fragmentation, from completely contiguous to highly fragmented, and degree …

Bottom-Up Trait-Mediated Indirect Effects Decrease Pathogen Transmission In A Tritrophic System, Bret D. Elderd

Faculty Publications

© 2018 by the Ecological Society of America A plant's induction of secondary defenses helps to decrease herbivore damage by changing resource quality. While these chemical or physical defenses may directly decrease herbivory, they can also have indirect consequences. In a tritrophic system consisting of a plant, an insect herbivore, and an insect pathogen, plant based trait-mediated indirect effects (TMIEs) can alter host–pathogen interactions and, thereby, indirectly affect disease transmission. In a series of field experiments, individual soybean plants (Glycine max) were sprayed with either a jasmonic acid (JA) solution to trigger induction of plant defenses or a similar control …

Rapidly Expanding Nuclear Arsenals In Pakistan And India Portend Regional And Global Catastrophe, O.B. Toon, C.G. Bardeen, A. Robock, L. Xia, H. Kristensen, M. Mckinzie, R.J. Peterson, C.S. Harrison, N.S. Lovenduski, R.P. Turco

Faculty Publications

No abstract provided.

Sediment Transport And Channel Dynamics Of The Lowermost Mississippi River In Recent Decades, Yijun Xu, Bo Wang, Sanjeev Joshi

Faculty Publications

Sediment transport and channel dynamics of large alluvial rivers in their lower reaches can strongly influence physical, chemical and biological conditions in their deltaic regions. In this paper, we report the latest assessment on sediment transport and riverbed dynamics of the last 500-km reach of the Mississippi River before entering the Gulf of Mexico. This river reach is also termed as the Lowermost Mississippi River (LmMR), which begins downstream of its division node to the Atchafalaya River. Our assessment shows that in the past 2-3 decades, suspended sediment and bed material loads in the LmMR were significantly higher at the …

Dissolved Carbon Transport And Processing In North America's Largest Swamp River Entering The Northern Gulf Of Mexico, Emily M. Delduco, Y. Jun Xu

Faculty Publications

Transport and transformation of riverine dissolved carbon is an important component of global carbon cycling. The Atchafalaya River (AR) flows 189 kilometers through the largest bottomland swamp in North America and discharges ~25% of the flow of the Mississippi River into the Gulf of Mexico annually, providing a unique opportunity to study the floodplain/wetland impacts on dissolved carbon. The aim of this study is to determine how dissolved organic carbon (DOC) and dissolved inorganic carbon (DIC) in the AR change spatially and seasonally, and to elucidate which processes control the carbon cycling in this intricate swamp-river system. From May 2015 …

Nest And Brood Site Selection Of Eastern Wild Turkeys, Jeremy D. Wood, Bradley S. Cohen, L. Mike Conner, Bret A. Collier, Michael J. Chamberlain

Faculty Publications

Management of longleaf pine (Pinus palustris) forests relies on frequent prescribed fire to maintain desirable plant communities. Prescribed fire is often applied while female wild turkeys (Meleagris gallopavo) are reproductively active and may immediately affect habitat availability and demographic outcomes. We identified covariates affecting selection of areas used by nesting and brooding females and determined if these covariates influenced nest and brood survival in a longleaf pine ecosystem. We captured 63 female wild turkeys and measured vegetation and landscape characteristics surrounding nests, brood roosts, and daytime use sites. We used conditional logistic regression to determine which vegetation and landscape-scale characteristics …

The Role Of Talker Familiarity In Auditory Distraction, Brittan A. Barker, Emily M. Elliott

Faculty Publications

The current research employed a classic irrelevant sound effect paradigm and investigated the talker-specific content of the irrelevant speech. Specifically, we aimed to determine if the participants' familiarity with the irrelevant speech's talker affected the magnitude of the irrelevant sound effect. Experiment 1 was an exploration of talker familiarity established in a natural listening environment (i.e., a university classroom) in which we manipulated the participants' relationships with the talker. In Experiment 2, we manipulated the participants' familiarity with the talker via 4 days of controlled exposure to the target talker's audio recordings. For both Experiments 1 and 2, a robust …

Diet Of Lesser Scaup Wintering On Lake Pontchartrain, Louisiana, Clay M. Stroud, Claire E. Caputo, Michael A. Poirrier, Kevin M. Ringelman

Faculty Publications

The lesser scaup Aythya affinis has been a species of conservation concern since continental breeding populations began declining in the 1980s. The causes of this decline are likely multifaceted, but cross-seasonal effects are believed to play a prominent role: females unable to acquire sufficient nutrient reserves during winter and spring migration have poor survival and breeding success. Understanding scaup diet composition and prey selection can help managers not only diagnose mechanisms underlying wintering scaup distributions, but may also help direct management actions to increase forage availability and quality. We evaluated the diet of 60 scaup collected from a major wintering …

Calibrating A Taper Model For Oriental Spruce In Turkey, Ramazan Özçelik, Quang V. Cao, Hakkı Yavuz

Faculty Publications

In this study, Max and Burkhart (1976)’s segmented taper model was used to describe stem profile and predict stem volume of oriental spruce in Turkey. Thirty procedures were evaluated, which include five fitting methods and six adjustment strategies. The fitting methods resulted in parameters that were optimized for (1) taper, (2) cumulative volume, (3) taper and cumulative volume, (4) taper and total volume, and (5) taper, cumulative volume, and total volume. The adjustment strategies are (1) unadjusted, and adjusted to match (2) DBH, (3) predicted total volume, (4) DBH and predicted total volume, (5) a combined estimator, and (6) DBH …

A Method To Derive A Tree Survival Model From Any Existing Stand Survival Model, Quang V. Cao

Faculty Publications

This study addresses a situation in which a forest manager has been using a whole-stand model that seems to predict well for their stands and now wants to derive an individual-tree model from it to form an integrated system that can perform well at both stand and tree levels. A simple method was developed to derive tree survival models from three existing stand-level survival models. The derived tree survival models were based on the difference between the diameter of a given tree and the diameter at which tree and stand survival probabilities are equal. For stand survival prediction, each stand …

Sweetpotato Cultivar Trials On Hawai‘I Island, Susan C. Miyasaka, Marisa Wall, Don Labonte, Alton Arakaki

Faculty Publications

Twelve sweetpotato (Ipomoea batatas var. batatas) accessions/cultivars/ landraces (entries) were evaluated for yield, resistance to pests, and quality in five field trials planted at Pepe‘ekeo, Hawai‘i Island, and replicated over time with blocks planted on May and Oct. 2014, Feb. and July 2015, and Jan. 2016. Plots were harvested at 4.5 to 6 months after planting. In the first two field trials, local entries planted were ‘Okinawan’, ‘Mokuau’, and ‘Kona B’, as well as PI 531094, ‘Beauregard’, PI 573309, PI 573330, ‘Darby’, ‘Pelican Processor’, and ‘Picadito’. Yields of ‘Mokuau’ and ‘Kona B’ were low and were replaced in the latter …

Ictv Virus Taxonomy Profile: Endornaviridae, Rodrigo A. Valverde, Mahmoud E. Khalifa, Ryo Okada, Toshiyuki Fukuhara, Sead Sabanadzovic

Faculty Publications

The family Endornaviridae includes viruses with linear, single-stranded, positive-sense RNA genomes that range from 9.7 to 17.6 kb and have been reported infecting plants, fungi and oomycetes. The family consists of two genera, Alphaendornavirus and Betaendornavirus, into which viruses are classified based on their genome size, host and presence of unique domains. Alphaendornavirus includes species whose members infect plants, fungi and oomycetes, while the genus Betaendornavirus includes species whose members infect ascomycete fungi. This is a summary of the ICTV Report on the family Endornaviridae, which is available at www.ictv.global/report/endornaviridae.

Progesterone Alters The Bovine Uterine Fluid Lipidome During The Period Of Elongation, Constantine A. Simintiras, José M. Sánchez, Michael Mcdonald, Pat Lonergan

Faculty Publications

Successful bovine pregnancy establishment hinges on conceptus elongation, a key reproductive phenomenon coinciding with the period during which most pregnancies fail. Elongation is yet to be recapitulated in vitro, whereas in vivo it is directly driven by uterine secretions and indirectly influenced by prior circulating progesterone levels. To better understand the microenvironment evolved to facilitate this fundamental developmental event, uterine fluid was recovered on Days 12–14 of the oestrous cycle – the window of conceptus elongation initiation – from cycling heifers supplemented, or not, with progesterone. Subsequent lipidomic profiling of uterine luminal fluid by advanced high-throughput metabolomics revealed the consistent …

Aspects Of Embryo-Maternal Communication In Establishment Of Pregnancy In Cattle, José M. Sánchez, Constantine A. Simintiras, Patrick Lonergan

Faculty Publications

Establishment of pregnancy in mammals requires reciprocal molecular communication between the conceptus and endometrium that modifies the endometrial transcriptome and uterine luminal milieu to support pregnancy. Due to the small size of the early embryo and elongating conceptus relative to the volume of the uterine lumen, collection of endometrium adjacent to the developing conceptus is difficult following conventional uterine flushing methods in cattle. Use of endometrial explants in culture can overcome this challenge and reveal information about the dialogue between the developing embryo and the uterus. The aim of this short review is to summarize some of our recent findings …

Attachment Strength And On-Farm Die-Off Rate Of Escherichia Coli On Watermelon Surfaces, Vijay Singh Chhetri, Kathryn Fontenot, Ronald Strahan, Veerachandra K. Yemmireddy, Cameron Cason, Karuna Kharel, Achyut Adhikari

Faculty Publications

Pre-harvest contamination of produce has been a major food safety focus. Insight into the behavior of enteric pathogens on produce in pre-harvest conditions will aid in developing pre-harvest and post-harvest risk management strategies. In this study, the attachment strength (S R ) and die-off rate of E. coli on the surface of watermelon fruits and the efficacy of aqueous chlorine treatment against strongly attached E. coli population were investigated. Watermelon seedlings were transplanted into eighteen plots. Prior to harvesting, a cocktail of generic E. coli (ATCC 23716, 25922 and 11775) was inoculated on the surface of the watermelon fruits (n …

An Actin-Depolymerizing Factor From The Halophyte Smooth Cordgrass, Spartina Alterniflora (Saadf2), Is Superior To Its Rice Homolog (Osadf2) In Conferring Drought And Salt Tolerance When Constitutively Overexpressed In Rice, Sonali Sengupta, Venkata Mangu, Luis Sanchez, Renesh Bedre, Rohit Joshi, Kanniah Rajasekaran, Niranjan Baisakh

Faculty Publications

Actin-depolymerizing factors (ADFs) maintain the cellular actin network dynamics by regulating severing and disassembly of actin filaments in response to environmental cues. An ADF isolated from a monocot halophyte, Spartina alterniflora (SaADF2), imparted significantly higher level of drought and salinity tolerance when expressed in rice than its rice homologue OsADF2. SaADF2 differs from OsADF2 by a few amino acid residues, including a substitution in the regulatory phosphorylation site serine-6, which accounted for its weak interaction with OsCDPK6 (calcium-dependent protein kinase), thus resulting in an increased efficacy of SaADF2 and enhanced cellular actin dynamics. SaADF2 overexpression preserved the actin filament organization …

Food-Burying Behavior In Red Imported Fire Ants (Hymenoptera: Formicidae), Wenquan Qin, Xuan Chen, Linda M. Hooper-Bùi, Jiacheng Cai, Lei Wang, Zhaohui Sun, Xiujun Wen, Cai Wang

Faculty Publications

The food-burying behavior has been reported in many mammals and birds, but was rarely observed in invertebrates. The red imported fire ants, Solenopsis invicta Buren, is an invasive pest in many areas of the world that usually performing food-burying during the foraging processes. However, the impacted factors and measureable patterns of this behavior is largely unknown. In the present study, food-burying vs food-transport behaviors of Solenopsis invicta were observed under laboratory and field conditions. When starved (no food was provided for 37 days) in the laboratory, food (sausage) was consumed by large numbers of ants, and few burying behaviors were …

Comparative Functional And Phylogenomic Analyses Of Host Association In The Remoras (Echeneidae), A Family Of Hitchhiking Fishes, C. P. Kenaley, A. Stote, W. B. Ludt, P. Chakrabarty

Faculty Publications

The family Echeneidae consists of eight species of marine fishes that hitchhike by adhering to a wide variety of vertebrate hosts via a sucking disc. While several studies have focused on the interrelationships of the echeneids and the adhesion performance of a single species, no clear phylogenetic hypothesis has emerged and the morphological basis of adhesion remains largely unknown. We first set out to resolve the interrelationships of the Echeneidae by taking a phylogenomic approach using ultraconserved elements. Then, within this framework, we characterized disc morphology through μ-CT analysis, evaluated host specificity through an analysis of host phylogenetic distance, and …

Inferring The Mammal Tree: Species-Level Sets Of Phylogenies For Questions In Ecology, Evolution, And Conservation, Nathan S. Upham, Jacob A. Esselstyn, Walter Jetz

Faculty Publications

Big, time-scaled phylogenies are fundamental to connecting evolutionary processes to modern biodiversity patterns. Yet inferring reliable phylogenetic trees for thousands of species involves numerous trade-offs that have limited their utility to comparative biologists. To establish a robust evolutionary timescale for all approximately 6,000 living species of mammals, we developed credible sets of trees that capture root-to-tip uncertainty in topology and divergence times. Our “backbone-and-patch” approach to tree building applies a newly assembled 31-gene supermatrix to two levels of Bayesian inference: (1) backbone relationships and ages among major lineages, using fossil node or tip dating, and (2) species-level “patch” phylogenies with …

Carbon In The Deep Biosphere: Forms, Fates, And Biogeochemical Cycling, Susan Q. Lang, Magdalena R. Osburn, Andrew D. Steen

Faculty Publications

Building on the synthesis of carbon reservoirs in Earth's subsurface, this chapter focuses on the forms, cycling, and fate of the carbon supporting microbial life in the terrestrial and marine subsurface. As the subsurface is estimated to host a vast reservoir of life on Earth, identifying the carbon compounds that life uses for energy and growth is key to understanding ecosystem functioning in the past and at present, and also for extrapolating these findings to the search for life in the universe. This chapter highlights advances in quantifying small carbon compounds, measuring rates of carbon turnover, and the fate of …

Talking About Black Lives Matter And #Metoo, Linda S. Greene, Lolita Buckner Inniss, Bridget J. Crawford, Mehrsa Baradaran, Noa Ben-Asher, I. Bennett Capers, Osamudia James, Keisha Lindsay

Faculty Publications

No abstract provided.