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Articles 1 - 30 of 295
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Transfer Of Knowledge From Model Organisms To Evolutionarily Distant Non-Model Organisms: The Coral Pocillopora Damicornis Membrane Signaling Receptome, Lokender Kumar, Nathanael Brenner, Samuel Sledzieski, Monsurat Olaosebikan, Liza M. Roger, Matthew Lynn-Goin, Roshan Klein-Seetharaman, Bonnie Berger, Hollie M. Putnam, Jinkyu Yang, Nastassja A. Lewinski, Rohit Singh, Noah M. Daniels, Lenore Cowen, Judith Klein-Seetharaman
Transfer Of Knowledge From Model Organisms To Evolutionarily Distant Non-Model Organisms: The Coral Pocillopora Damicornis Membrane Signaling Receptome, Lokender Kumar, Nathanael Brenner, Samuel Sledzieski, Monsurat Olaosebikan, Liza M. Roger, Matthew Lynn-Goin, Roshan Klein-Seetharaman, Bonnie Berger, Hollie M. Putnam, Jinkyu Yang, Nastassja A. Lewinski, Rohit Singh, Noah M. Daniels, Lenore Cowen, Judith Klein-Seetharaman
Biological Sciences Faculty Publications
With the ease of gene sequencing and the technology available to study and manipulate non-model organisms, the extension of the methodological toolbox required to translate our understanding of model organisms to non-model organisms has become an urgent problem. For example, mining of large coral and their symbiont sequence data is a challenge, but also provides an opportunity for understanding functionality and evolution of these and other non-model organisms. Much more information than for any other eukaryotic species is available for humans, especially related to signal transduction and diseases. However, the coral cnidarian host and human have diverged over 700 million …
The Fundamental Links Between Climate Change And Marine Plastic Pollution, Helen V. Ford, Nia H. Jones, Andrew J. Davies, Brendan J. Godley, Jenna R. Jambeck, Imogen E. Napper, Coleen C. Suckling, Gareth J. Williams, Lucy C. Woodall, Heather J. Koldewey
The Fundamental Links Between Climate Change And Marine Plastic Pollution, Helen V. Ford, Nia H. Jones, Andrew J. Davies, Brendan J. Godley, Jenna R. Jambeck, Imogen E. Napper, Coleen C. Suckling, Gareth J. Williams, Lucy C. Woodall, Heather J. Koldewey
Biological Sciences Faculty Publications
Plastic pollution and climate change have commonly been treated as two separate issues and sometimes are even seen as competing. Here we present an alternative view that these two issues are fundamentally linked. Primarily, we explore how plastic contributes to greenhouse gas (GHG) emissions from the beginning to the end of its life cycle. Secondly, we show that more extreme weather and floods associated with climate change, will exacerbate the spread of plastic in the natural environment. Finally, both issues occur throughout the marine environment, and we show that ecosystems and species can be particularly vulnerable to both, such as …
Seabed Morphology And Bed Shear Stress Predict Temperate Reef Habitats In A High Energy Marine Region, Tim Jackson-Bué, Gareth J. Williams, Timothy A. Whitton, Michael J. Roberts, Alice Goward Brown, Hana Amir, Jonathan King, Ben Powell, Steven J. Rowlands, Gerallt Llewelyn Jones, Andrew J. Davies
Seabed Morphology And Bed Shear Stress Predict Temperate Reef Habitats In A High Energy Marine Region, Tim Jackson-Bué, Gareth J. Williams, Timothy A. Whitton, Michael J. Roberts, Alice Goward Brown, Hana Amir, Jonathan King, Ben Powell, Steven J. Rowlands, Gerallt Llewelyn Jones, Andrew J. Davies
Biological Sciences Faculty Publications
High energy marine regions host ecologically important habitats like temperate reefs, but are less anthropogenically developed and understudied compared to lower energy waters. In the marine environment direct habitat observation is limited to small spatial scales, and high energy waters present additional logistical challenges and constraints. Semi-automated predictive habitat mapping is a cost-effective tool to map benthic habitats across large extents, but performance is context specific. High resolution environmental data used for predictive mapping are often limited to bathymetry, acoustic backscatter and their derivatives. However, hydrodynamic energy at the seabed is a critical habitat structuring factor and likely an important, …
Reference-Free Discovery Of Nuclear Snps Permits Accurate, Sensitive Identification Of Carya (Hickory) Species And Hybrids, Robert A. Literman, Brittany M. Ott, Jun Wen, L. J. Grauke, Rachel S. Schwartz, Sara M. Handy
Reference-Free Discovery Of Nuclear Snps Permits Accurate, Sensitive Identification Of Carya (Hickory) Species And Hybrids, Robert A. Literman, Brittany M. Ott, Jun Wen, L. J. Grauke, Rachel S. Schwartz, Sara M. Handy
Biological Sciences Faculty Publications
Premise: DNA-based species identification is critical when morphological identification is restricted, but DNA-based identification pipelines typically rely on the ability to compare homologous sequence data across species. Because many clades lack robust genomic resources, we present here a bioinformatics pipeline capable of generating genome-wide single-nucleotide polymorphism (SNP) data while circumventing the need for any reference genome or annotation data. Methods: Using the SISRS bioinformatics pipeline, we generated de novo ortholog data for the genus Carya, isolating sites where genetic variation was restricted to a single Carya species (i.e., species-informative SNPs). We leveraged these SNPs to identify both full-species and hybrid …
Phylogenomics, Divergence Time Estimation And Trait Evolution Provide A New Look Into The Gracilariales (Rhodophyta), Goia De M. Lyra, Cintia Iha, Christopher J. Grassa, Liming Cai, Hongrui Zhang, Christopher Lane, Nicolas Blouin, Mariana C. Oliveira, José Marcos De Castro Nunes, Charles C. Davis
Phylogenomics, Divergence Time Estimation And Trait Evolution Provide A New Look Into The Gracilariales (Rhodophyta), Goia De M. Lyra, Cintia Iha, Christopher J. Grassa, Liming Cai, Hongrui Zhang, Christopher Lane, Nicolas Blouin, Mariana C. Oliveira, José Marcos De Castro Nunes, Charles C. Davis
Biological Sciences Faculty Publications
The Gracilariales is a highly diverse, widely distributed order of red algae (Rhodophyta) that forms a well-supported clade. Aside from their ecological importance, species of Gracilariales provide important sources of agarans and possess bioactive compounds with medicinal and pharmaceutical use. Recent phylogenetic analyses from a small number of genes have greatly advanced our knowledge of evolutionary relationships in this clade, yet several key nodes were not especially well resolved. We assembled a phylogenomic data set containing 79 nuclear genes, 195 plastid genes, and 24 mitochondrial genes from species representing all three major Gracilariales lineages, including: Melanthalia, Gracilariopsis, and Gracilaria sensu …
An Integrative Investigation Of Sensory Organ Development And Orientation Behavior Throughout The Larval Phase Of A Coral Reef Fish, John E. Majoris, Matthew A. Foretich, Yinan Hu, Katie R. Nickles, Camilla L. Di Persia, Romain Chaput, E. Schlatter, Jacqueline F. Webb, Claire B. Paris, Peter M. Buston
An Integrative Investigation Of Sensory Organ Development And Orientation Behavior Throughout The Larval Phase Of A Coral Reef Fish, John E. Majoris, Matthew A. Foretich, Yinan Hu, Katie R. Nickles, Camilla L. Di Persia, Romain Chaput, E. Schlatter, Jacqueline F. Webb, Claire B. Paris, Peter M. Buston
Biological Sciences Faculty Publications
The dispersal of marine larvae determines the level of connectivity among populations, influences population dynamics, and affects evolutionary processes. Patterns of dispersal are influenced by both ocean currents and larval behavior, yet the role of behavior remains poorly understood. Here we report the first integrated study of the ontogeny of multiple sensory systems and orientation behavior throughout the larval phase of a coral reef fish—the neon goby, Elacatinus lori. We document the developmental morphology of all major sensory organs (lateral line, visual, auditory, olfactory, gustatory) together with the development of larval swimming and orientation behaviors observed in a circular arena …
Gregarine Single-Cell Transcriptomics Reveals Differential Mitochondrial Remodeling And Adaptation In Apicomplexans, Eric D. Salomaki, Kristina X. Terpis, Sonja Rueckert, Michael Kotyk, Zuzana Kotyková Varadínová, Ivan Čepička, Christopher E. Lane, Martin Kolisko
Gregarine Single-Cell Transcriptomics Reveals Differential Mitochondrial Remodeling And Adaptation In Apicomplexans, Eric D. Salomaki, Kristina X. Terpis, Sonja Rueckert, Michael Kotyk, Zuzana Kotyková Varadínová, Ivan Čepička, Christopher E. Lane, Martin Kolisko
Biological Sciences Faculty Publications
Background: Apicomplexa is a diverse phylum comprising unicellular endobiotic animal parasites and contains some of the most well-studied microbial eukaryotes including the devastating human pathogens Plasmodium falciparum and Cryptosporidium hominis. In contrast, data on the invertebrate-infecting gregarines remains sparse and their evolutionary relationship to other apicomplexans remains obscure. Most apicomplexans retain a highly modified plastid, while their mitochondria remain metabolically conserved. Cryptosporidium spp. inhabit an anaerobic host-gut environment and represent the known exception, having completely lost their plastid while retaining an extremely reduced mitochondrion that has lost its genome. Recent advances in single-cell sequencing have enabled the first broad genome-scale …
Systematic Conservation Planning At An Ocean Basin Scale: Identifying A Viable Network Of Deep-Sea Protected Areas In The North Atlantic And The Mediterranean, Magali Combes, Sandrine Vaz, Anthony Grehan, Telmo Morato, Sophie Arnaud-Haond, Carlos Dominguez-Carrió, Alan Fox, José Manuel González-Irusta, David Johnson, Oisín Callery, Andrew Davies, Laurence Fauconnet, Ellen Kenchington, Covadonga Orejas, J. Murray Roberts, Gerald Taranto, Lénaick Menot
Systematic Conservation Planning At An Ocean Basin Scale: Identifying A Viable Network Of Deep-Sea Protected Areas In The North Atlantic And The Mediterranean, Magali Combes, Sandrine Vaz, Anthony Grehan, Telmo Morato, Sophie Arnaud-Haond, Carlos Dominguez-Carrió, Alan Fox, José Manuel González-Irusta, David Johnson, Oisín Callery, Andrew Davies, Laurence Fauconnet, Ellen Kenchington, Covadonga Orejas, J. Murray Roberts, Gerald Taranto, Lénaick Menot
Biological Sciences Faculty Publications
Designing conservation networks requires a well-structured framework for achieving essential objectives such as connectivity, replication or viability, and for considering local management and socioeconomic stakes. Although systematic conservation planning (SCP) approaches are increasingly used to inform such networks, their application remains challenging in large and poorly researched areas. This is especially the case in the deep sea, where SCP has rarely been applied, although growing awareness of the vulnerability of deep-sea ecosystems urges the implementation of conservation measures from local to international levels. This study aims to structure and evaluate a framework for SCP applicable to the deep sea, focusing …
Coral Bleaching Response Is Unaltered Following Acclimatization To Reefs With Distinct Environmental Conditions, Katie L. Barott, Ariana S. Huffmyer, Jennifer M. Davidson, Elizabeth A. Lenzb, Shayle B. Matsuda, Joshua R. Hancock, Teegan Innis, Crawford Drury, Hollie M. Putnam, Ruth D. Gates
Coral Bleaching Response Is Unaltered Following Acclimatization To Reefs With Distinct Environmental Conditions, Katie L. Barott, Ariana S. Huffmyer, Jennifer M. Davidson, Elizabeth A. Lenzb, Shayle B. Matsuda, Joshua R. Hancock, Teegan Innis, Crawford Drury, Hollie M. Putnam, Ruth D. Gates
Biological Sciences Faculty Publications
Urgent action is needed to prevent the demise of coral reefs as the climate crisis leads to an increasingly warmer and more acidic ocean. Propagating climate change-resistant corals to restore degraded reefs is one promising strategy; however, empirical evidence is needed to determine whether stress resistance is affected by transplantation beyond a coral's native reef. Here, we assessed the performance of bleaching-resistant individuals of two coral species following reciprocal transplantation between reefs with distinct pH, salinity, dissolved oxygen, sedimentation, and flow dynamics to determine whether heat stress response is altered following coral exposure to novel physicochemical conditions in situ. Critically, …
Musical Chairs On Temperate Reefs: Species Turnover And Replacement Within Functional Groups Explain Regional Diversity Variation In Assemblages Associated With Honeycomb Worms, Alexandre Muller, Camille Poitrimol, Flávia L.D. Nunes, Aurélien Boyé, Amelia Curd, Nicolas Desroy, Louise B. Firth, Laura Bush, Andrew J. Davies, Fernando P. Lima, Martin P. Marzloff, Claudia Meneghesso, Rui Seabra, Stanislas F. Dubois
Musical Chairs On Temperate Reefs: Species Turnover And Replacement Within Functional Groups Explain Regional Diversity Variation In Assemblages Associated With Honeycomb Worms, Alexandre Muller, Camille Poitrimol, Flávia L.D. Nunes, Aurélien Boyé, Amelia Curd, Nicolas Desroy, Louise B. Firth, Laura Bush, Andrew J. Davies, Fernando P. Lima, Martin P. Marzloff, Claudia Meneghesso, Rui Seabra, Stanislas F. Dubois
Biological Sciences Faculty Publications
Reef-building species are recognized as having an important ecological role and as generally enhancing the diversity of benthic organisms in marine habitats. However, although these ecosystem engineers have a facilitating role for some species, they may exclude or compete with others. The honeycomb worm Sabellaria alveolata (Linnaeus, 1767) is an important foundation species, commonly found from northwest Ireland to northern Mauritania, whose reef structures increase the physical complexity of the marine benthos, supporting high levels of biodiversity. Local patterns and regional differences in taxonomic and functional diversity were examined in honeycomb worm reefs from 10 sites along the northeastern Atlantic …
Specific Niche Requirements Underpin Multidecadal Range Edge Stability, But May Introduce Barriers For Climate Change Adaptation, Louise B. Firth, Daniel Harris, Julie A. Blaze, Martin P. Marzloff, Aurélien Boyé, Peter I. Miller, Amelia Curd, Mickaël Vasquez, Julia D. Nunn, Nessa E. O’Connor, Anne Marie Power, Nova Mieszkowska, Ruth M. O’Riordan, Michael T. Burrows, Lucy M. Bricheno, Antony M. Knights, Flavia L.D. Nunes, François Bordeyne, Laura E. Bush, James E. Byers, Carmen David, Andrew J. Davies, Stanislas F. Dubois, Hugh Edwards, Andy Foggo, Lisa Grant, J. A. Mattias Green, Paul E. Gribben, Fernando P. Lima
Specific Niche Requirements Underpin Multidecadal Range Edge Stability, But May Introduce Barriers For Climate Change Adaptation, Louise B. Firth, Daniel Harris, Julie A. Blaze, Martin P. Marzloff, Aurélien Boyé, Peter I. Miller, Amelia Curd, Mickaël Vasquez, Julia D. Nunn, Nessa E. O’Connor, Anne Marie Power, Nova Mieszkowska, Ruth M. O’Riordan, Michael T. Burrows, Lucy M. Bricheno, Antony M. Knights, Flavia L.D. Nunes, François Bordeyne, Laura E. Bush, James E. Byers, Carmen David, Andrew J. Davies, Stanislas F. Dubois, Hugh Edwards, Andy Foggo, Lisa Grant, J. A. Mattias Green, Paul E. Gribben, Fernando P. Lima
Biological Sciences Faculty Publications
Aim: To investigate some of the environmental variables underpinning the past and present distribution of an ecosystem engineer near its poleward range edge. Location: >500 locations spanning >7,400 km around Ireland. Methods: We collated past and present distribution records on a known climate change indicator, the reef-forming worm Sabellaria alveolata (Linnaeus, 1767) in a biogeographic boundary region over 182 years (1836–2018). This included repeat sampling of 60 locations in the cooler 1950s and again in the warmer 2000s and 2010s. Using species distribution modelling, we identified some of the environmental drivers that likely underpin S. alveolata distribution towards the leading …
Genome-Scale Profiling Reveals Noncoding Loci Carry Higher Proportions Of Concordant Data, Robert Literman, Rachel Schwartz
Genome-Scale Profiling Reveals Noncoding Loci Carry Higher Proportions Of Concordant Data, Robert Literman, Rachel Schwartz
Biological Sciences Faculty Publications
Many evolutionary relationships remain controversial despite whole-genome sequencing data. These controversies arise in part due to challenges associated with accurately modeling the complex phylogenetic signal coming from genomic regions experiencing distinct evolutionary forces. Here we examine how different regions of the genome support or contradict well-established hypotheses among three mammal groups using millions of orthologous parsimony-informative biallelic sites [PIBS] distributed across primate, rodent, and Pecora genomes. We compared PIBS concordance percentages among locus types (e.g. coding sequences, introns, intergenic regions), and contrasted PIBS utility over evolutionary timescales. Sites derived from noncoding sequences provided more data and proportionally more concordant sites …
Evolution Of Protein-Mediated Biomineralization In Scleractinian Corals, Tal Zaquin, Assaf Malik, Jeana L. Drake, Hollie M. Putnam, Tali Mass
Evolution Of Protein-Mediated Biomineralization In Scleractinian Corals, Tal Zaquin, Assaf Malik, Jeana L. Drake, Hollie M. Putnam, Tali Mass
Biological Sciences Faculty Publications
While recent strides have been made in understanding the biological process by which stony corals calcify, much remains to be revealed, including the ubiquity across taxa of specific biomolecules involved. Several proteins associated with this process have been identified through proteomic profiling of the skeletal organic matrix (SOM) extracted from three scleractinian species. However, the evolutionary history of this putative “biomineralization toolkit,” including the appearance of these proteins’ throughout metazoan evolution, remains to be resolved. Here we used a phylogenetic approach to examine the evolution of the known scleractinians’ SOM proteins across the Metazoa. Our analysis reveals an evolutionary process …
Spatial Scaling Properties Of Coral Reef Benthic Communities, Helen V. Ford, Jamison M. Gove, Andrew J. Davies, Nicholas A.J. Graham, John R. Healey, Eric J. Conklin, Gareth J. Williams
Spatial Scaling Properties Of Coral Reef Benthic Communities, Helen V. Ford, Jamison M. Gove, Andrew J. Davies, Nicholas A.J. Graham, John R. Healey, Eric J. Conklin, Gareth J. Williams
Biological Sciences Faculty Publications
The spatial structure of ecological communities on tropical coral reefs across seascapes and geographies have historically been poorly understood. Here we addressed this for the first time using spatially expansive and thematically resolved benthic community data collected around five uninhabited central Pacific oceanic islands, spanning 6° latitude and 17° longitude. Using towed-diver digital image surveys over ~140 linear km of shallow (8–20 m depth) tropical reef, we highlight the autocorrelated nature of coral reef seascapes. Benthic functional groups and hard coral morphologies displayed significant spatial clustering (positive autocorrelation) up to kilometre-scales around all islands, in some instances dominating entire sections …
Environmental Optima For An Ecosystem Engineer: A Multidisciplinary Trait-Based Approach, Amelia Curd, Aurélien Boyé, Céline Cordier, Fabrice Pernet, Louise B. Firth, Laura E. Bush, Andrew J. Davies, Fernando P. Lima, Claudia Meneghesso, Claudie Quéré, Rui Seabra, Mickaël Vasquez, Stanislas F. Dubois
Environmental Optima For An Ecosystem Engineer: A Multidisciplinary Trait-Based Approach, Amelia Curd, Aurélien Boyé, Céline Cordier, Fabrice Pernet, Louise B. Firth, Laura E. Bush, Andrew J. Davies, Fernando P. Lima, Claudia Meneghesso, Claudie Quéré, Rui Seabra, Mickaël Vasquez, Stanislas F. Dubois
Biological Sciences Faculty Publications
A complex interplay of biotic and abiotic factors underpins the distribution of species and operates across different levels of biological organization and life history stages. Understanding ecosystem engineer reproductive traits is critical for comprehending and managing the biodiversity-rich habitats they create. Little is known about how the reproduction of the reef-forming worm, Sabellaria alveolata, varies across environmental gradients. By integrating broad-scale environmental data with in-situ physiological data in the form of biochemical traits, we identified and ranked the drivers of intraspecific reproductive trait variability (ITV). ITV was highest in locations with variable environmental conditions, subjected to fluctuating temperature and …
Life In The Fast Lane: Modeling The Fate Of Glass Sponge Larvae In The Gulf Stream, Shuangqiang Wang, Ellen Kenchington, Zeliang Wang, Andrew J. Davies
Life In The Fast Lane: Modeling The Fate Of Glass Sponge Larvae In The Gulf Stream, Shuangqiang Wang, Ellen Kenchington, Zeliang Wang, Andrew J. Davies
Biological Sciences Faculty Publications
Effective conservation management of deep-sea sponges, including design of appropriate marine protected areas, requires an understanding of the connectivity between populations throughout a species’ distribution. We provide the first consideration of larval connectivity among deep-sea sponge populations along the southeastern coast of North America, illustrate the influence of the Gulf Stream on dispersal, and complement published distribution models by evaluating colonization potential. Connectivity among known populations of the hexactinellid sponge Vazella pourtalesii was simulated using a 3-D biophysical dispersal model throughout its distribution from Florida, United States to Nova Scotia, Canada. We found no exchange with an estimated pelagic larval …
Climate Change Winner In The Deep Sea? Predicting The Impacts Of Climate Change On The Distribution Of The Glass Sponge Vazella Pourtalesii, Lindsay Beazley, Ellen Kenchington, Francisco Javier Murillo, David Brickman, Zeliang Wang, Andrew J. Davies, Emyr Martyn Roberts, Hans Tore Rapp
Climate Change Winner In The Deep Sea? Predicting The Impacts Of Climate Change On The Distribution Of The Glass Sponge Vazella Pourtalesii, Lindsay Beazley, Ellen Kenchington, Francisco Javier Murillo, David Brickman, Zeliang Wang, Andrew J. Davies, Emyr Martyn Roberts, Hans Tore Rapp
Biological Sciences Faculty Publications
Shallow-water sponges are often cited as being ‘climate change winners’ due to their resiliency against climate change effects compared to other benthic taxa. However, little is known of the impacts of climate change on deep-water sponges. The deep-water glass sponge Vazella pourtalesiiis distributed off eastern North America, forming dense sponge grounds with enhanced biodiversity on the Scotian Shelf off Nova Scotia, Canada. While the strong natural environmental variability that characterizes these sponge grounds suggests this species is resilient to a changing environment, its physiological limitations remain unknown, and the impact of more persistent anthropogenic climate change on its distribution …
Applying Model Approaches In Non-Model Systems: A Review And Case Study On Coral Cell Culture, Liza M. Roger, Hannah G. Reich, Evan Lawrence, Shuaifeng Li, Whitney Vizgaudis, Nathan Brenner, Lokender Kumar, Judith Klein-Seetharaman, Jinkyu Yang, Hollie M. Putnam, Nastassja A. Lewinski
Applying Model Approaches In Non-Model Systems: A Review And Case Study On Coral Cell Culture, Liza M. Roger, Hannah G. Reich, Evan Lawrence, Shuaifeng Li, Whitney Vizgaudis, Nathan Brenner, Lokender Kumar, Judith Klein-Seetharaman, Jinkyu Yang, Hollie M. Putnam, Nastassja A. Lewinski
Biological Sciences Faculty Publications
Model systems approaches search for commonality in patterns underlying biological diversity and complexity led by common evolutionary paths. The success of the approach does not rest on the species chosen but on the scalability of the model and methods used to develop the model and engage research. Fine-tuning approaches to improve coral cell cultures will provide a robust platform for studying symbiosis breakdown, the calcification mechanism and its disruption, protein interactions, micronutrient transport/exchange, and the toxicity of nanoparticles, among other key biological aspects, with the added advantage of minimizing the ethical conundrum of repeated testing on ecologically threatened organisms. The …
High Levels Of Genetic Divergence Detected In Sacramento Perch Suggests Two Divergent Translocation Sources, Amanda E. Coen, Max Fish, Randy Lovell, Jeff Rodzen, Rachel Schwartz, Andrea Schreier
High Levels Of Genetic Divergence Detected In Sacramento Perch Suggests Two Divergent Translocation Sources, Amanda E. Coen, Max Fish, Randy Lovell, Jeff Rodzen, Rachel Schwartz, Andrea Schreier
Biological Sciences Faculty Publications
Translocation has been used to conserve imperiled fishes and create new fisheries. One species for which translocation has played a significant role is the Sacramento Perch Archoplites interruptus. Extirpated from its native range, the Sacramento Perch has been introduced throughout California and Nevada through multiple translocation events, though historical records are incomplete. Recent assessments of eight previously uncharacterized Sacramento Perch populations have prompted reevaluation of range-wide population structure to inform a genetic management plan for long-term resiliency of this species. We examined Sacramento Perch genetic diversity and population structure across the current range of the species using 12 microsatellite …
Long-Term Observations Reveal Environmental Conditions And Food Supply Mechanisms At An Arctic Deep-Sea Sponge Ground, Ulrike Hanz, Emyr Martyn Roberts, Gerard Duineveld, Andrew J. Davies, Hans Van Haren, Hans Torre Rapp, Gert-Jan Reichart, Furu Mienis
Long-Term Observations Reveal Environmental Conditions And Food Supply Mechanisms At An Arctic Deep-Sea Sponge Ground, Ulrike Hanz, Emyr Martyn Roberts, Gerard Duineveld, Andrew J. Davies, Hans Van Haren, Hans Torre Rapp, Gert-Jan Reichart, Furu Mienis
Biological Sciences Faculty Publications
Deep-sea sponge grounds are hotspots of benthic biomass and diversity. To date, very limited data exist on the range of environmental conditions in areas containing deep-sea sponge grounds and which factors are driving their distribution and sustenance. We investigated oceanographic conditions at a deep-sea sponge ground located on an Arctic Mid-Ocean Ridge seamount. Hydrodynamic measurements were performed along Conductivity-Temperature-Depth transects, and a lander was deployed within the sponge ground that recorded near-bottom physical properties as well as vertical fluxes of organic matter over an annual cycle. The data demonstrate that the sponge ground is found at water temperatures of −0.5°C …
Advances In The Arms Race Between Silkworm And Baculovirus, Liang Jiang, Marian R. Goldsmith, Qingyou Xia
Advances In The Arms Race Between Silkworm And Baculovirus, Liang Jiang, Marian R. Goldsmith, Qingyou Xia
Biological Sciences Faculty Publications
Insects are the largest group of animals. Nearly all organisms, including insects, have viral pathogens. An important domesticated economic insect is the silkworm moth Bombyx mori. B. mori nucleopolyhedrovirus (BmNPV) is a typical baculovirus and a primary silkworm pathogen. It causes major economic losses in sericulture. Baculoviruses are used in biological pest control and as a bioreactor. Silkworm and baculovirus comprise a well-established model of insect–virus interactions. Several recent studies have focused on this model and provided novel insights into viral infections and host defense. Here, we focus on baculovirus invasion, silkworm immune response, baculovirus evasion of host immunity, …
Circadian Regulation Of Night Feeding And Daytime Detoxification In A Formidable Asian Pest Spodoptera Litura, Jiwei Zhang, Shenglong Li, Wanshun Li, Zhiwei Chen, Huizhen Guo, Jianqiu Liu, Yajing Xu, Yingdan Xiao, Liying Zhang, Kallare P. Arunkumar, Guy Smagghe, Qingyou Xia, Marian R. Goldsmith, Makio Takeda, Kazuei Mita
Circadian Regulation Of Night Feeding And Daytime Detoxification In A Formidable Asian Pest Spodoptera Litura, Jiwei Zhang, Shenglong Li, Wanshun Li, Zhiwei Chen, Huizhen Guo, Jianqiu Liu, Yajing Xu, Yingdan Xiao, Liying Zhang, Kallare P. Arunkumar, Guy Smagghe, Qingyou Xia, Marian R. Goldsmith, Makio Takeda, Kazuei Mita
Biological Sciences Faculty Publications
Voracious feeding, trans-continental migration and insecticide resistance make Spodoptera litura among the most difficult Asian agricultural pests to control. Larvae exhibit strong circadian behavior, feeding actively at night and hiding in soil during daytime. The daily pattern of larval metabolism was reversed, with higher transcription levels of genes for digestion (amylase, protease, lipase) and detoxification (CYP450s, GSTs, COEs) in daytime than at night. To investigate the control of these processes, we annotated nine essential clock genes and analyzed their transcription patterns, followed by functional analysis of their coupling using siRNA knockdown of interlocked negative feedback system core and repressor genes …
Lepidopteran Wing Scales Contain Abundant Cross-Linked Film-Forming Histidine-Rich Cuticular Proteins, Jianqiu Liu, Zhiwei Chen, Yingdan Xiao, Tsunaki Asano, Shenglong Li, Li Peng, Enxiang Chen, Jiwei Zhang, Wanshun Li, Yan Zhang, Xiaoling Tong, Keiko Kadono-Okuda, Ping Zhao, Ningjia He, Kallare P. Arunkumar, Karumathil P. Gopinathan, Judith H. Willis, Marian R. Goldsmith, Kazuei Mita
Lepidopteran Wing Scales Contain Abundant Cross-Linked Film-Forming Histidine-Rich Cuticular Proteins, Jianqiu Liu, Zhiwei Chen, Yingdan Xiao, Tsunaki Asano, Shenglong Li, Li Peng, Enxiang Chen, Jiwei Zhang, Wanshun Li, Yan Zhang, Xiaoling Tong, Keiko Kadono-Okuda, Ping Zhao, Ningjia He, Kallare P. Arunkumar, Karumathil P. Gopinathan, Judith H. Willis, Marian R. Goldsmith, Kazuei Mita
Biological Sciences Faculty Publications
Scales are symbolic characteristic of Lepidoptera; however, nothing is known about the contribution of cuticular proteins (CPs) to the complex patterning of lepidopteran scales. This is because scales are resistant to solubilization, thus hindering molecular studies. Here we succeeded in dissolving developing wing scales from Bombyx mori, allowing analysis of their protein composition. We identified a distinctive class of histidine rich (His-rich) CPs (6%–45%) from developing lepidopteran scales by LC-MS/MS. Functional studies using RNAi revealed CPs with different histidine content play distinct and critical roles in constructing the microstructure of the scale surface. Moreover, we successfully synthesized films in …
Digital Image Processing To Detect Subtle Motion In Stony Coral, Shuaifeng Li, Liza M. Roger, Lokender Kumar, Nastassja A. Lewinski, Judith Klein-Seetharaman, Alex Gagnon, Hollie M. Putnam, Jinkyu Yang
Digital Image Processing To Detect Subtle Motion In Stony Coral, Shuaifeng Li, Liza M. Roger, Lokender Kumar, Nastassja A. Lewinski, Judith Klein-Seetharaman, Alex Gagnon, Hollie M. Putnam, Jinkyu Yang
Biological Sciences Faculty Publications
Coral reef ecosystems support significant biological activities and harbor huge diversity, but they are facing a severe crisis driven by anthropogenic activities and climate change. An important behavioral trait of the coral holobiont is coral motion, which may play an essential role in feeding, competition, reproduction, and thus survival and fitness. Therefore, characterizing coral behavior through motion analysis will aid our understanding of basic biological and physical coral functions. However, tissue motion in the stony scleractinian corals that contribute most to coral reef construction are subtle and may be imperceptible to both the human eye and commonly used imaging techniques. …
Promoting Inclusive Metrics Of Success And Impact To Dismantle A Discriminatory Reward System In Science, Sarah W. Davies, Hollie M. Putnam, Tracy Ainsworth, Julia K. Baum, Colleen B. Bove, Sarah C. Crosby, Isabelle M. Côté, Anne Duplouy, Robinson W. Fulweiler, Alyssa J. Griffin, Torrance C. Hanley, Tessa Hill, Adriana Humanes, Sangeeta Mangubhai, Anna Metaxes, Laura M. Parker, Hanny E. Rivera, Nyss J. Sibiger, Nicola S. Smith, Ana K. Spaulding, Nikki Traylor-Knowles, Brooke L. Weigel, Rachel M. Wright, Amanda E. Bates
Promoting Inclusive Metrics Of Success And Impact To Dismantle A Discriminatory Reward System In Science, Sarah W. Davies, Hollie M. Putnam, Tracy Ainsworth, Julia K. Baum, Colleen B. Bove, Sarah C. Crosby, Isabelle M. Côté, Anne Duplouy, Robinson W. Fulweiler, Alyssa J. Griffin, Torrance C. Hanley, Tessa Hill, Adriana Humanes, Sangeeta Mangubhai, Anna Metaxes, Laura M. Parker, Hanny E. Rivera, Nyss J. Sibiger, Nicola S. Smith, Ana K. Spaulding, Nikki Traylor-Knowles, Brooke L. Weigel, Rachel M. Wright, Amanda E. Bates
Biological Sciences Faculty Publications
Success and impact metrics in science are based on a system that perpetuates sexist and racist “rewards” by prioritizing citations and impact factors. These metrics are flawed and biased against already marginalized groups and fail to accurately capture the breadth of individuals’ meaningful scientific impacts. We advocate shifting this outdated value system to advance science through principles of justice, equity, diversity, and inclusion. We outline pathways for a paradigm shift in scientific values based on multidimensional mentorship and promoting mentee well-being. These actions will require collective efforts supported by academic leaders and administrators to drive essential systemic change.
Metabolomic Shifts Associated With Heat Stress In Coral Holobionts, Amanda Williams, Eric N. Chiles, Dennis A. Conetta, Jananan S. Pathmanathan, Phillip A. Cleves, Hollie M. Putnam, Xiaoyang Su, Debashish Bhattacharya
Metabolomic Shifts Associated With Heat Stress In Coral Holobionts, Amanda Williams, Eric N. Chiles, Dennis A. Conetta, Jananan S. Pathmanathan, Phillip A. Cleves, Hollie M. Putnam, Xiaoyang Su, Debashish Bhattacharya
Biological Sciences Faculty Publications
Understanding the response of the coral holobiont to environmental change is crucial to inform conservation efforts. The most pressing problem is “coral bleaching,” usually precipitated by prolonged thermal stress. We used untargeted, polar metabolite profiling to investigate the physiological response of the coral species Montipora capitata and Pocillopora acuta to heat stress. Our goal was to identify diagnostic markers present early in the bleaching response. From the untargeted UHPLC-MS data, a variety of co-regulated dipeptides were found that have the highest differential accumulation in both species. The structures of four dipeptides were determined and showed differential accumulation in symbiotic and …
Three-Dimensional Mapping Reveals Scale-Dependent Dynamics In Biogenic Reef Habitat Structure, Tim Jackson-Bué, Gareth J. Williams, Guy Walker-Springett, Steven J. Rowlands, Andrew J. Davies
Three-Dimensional Mapping Reveals Scale-Dependent Dynamics In Biogenic Reef Habitat Structure, Tim Jackson-Bué, Gareth J. Williams, Guy Walker-Springett, Steven J. Rowlands, Andrew J. Davies
Biological Sciences Faculty Publications
Habitat structure influences a broad range of ecological interactions and ecosystem functions across biomes. To understand and effectively manage dynamic ecosystems, we need detailed information about habitat properties and how they vary across spatial and temporal scales. Measuring and monitoring variation in three-dimensional (3D) habitat structure has traditionally been challenging, despite recognition of its importance to ecological processes. Modern 3D mapping technologies present opportunities to characterize spatial and temporal variation in habitat structure at a range of ecologically relevant scales. Biogenic reefs are structurally complex and dynamic habitats, in which structure has a pivotal influence on ecosystem biodiversity, function and …
Editorial: Marine Environmental Epigenetics, Jose M. Eirin-Lopez, Hollie M. Putnam
Editorial: Marine Environmental Epigenetics, Jose M. Eirin-Lopez, Hollie M. Putnam
Biological Sciences Faculty Publications
No abstract provided.
Fine-Scale Morphological, Genomic, Reproductive, And Symbiont Differences Delimit The Caribbean Octocorals Plexaura Homomalla And P. Kükenthali, Jessie A. Pelosi, Moisés A. Bernal, Trevor J. Krabbenhoft, Samantha Galbo, Carlos Prada, Mary Alice Coffroth, Howard Lasker
Fine-Scale Morphological, Genomic, Reproductive, And Symbiont Differences Delimit The Caribbean Octocorals Plexaura Homomalla And P. Kükenthali, Jessie A. Pelosi, Moisés A. Bernal, Trevor J. Krabbenhoft, Samantha Galbo, Carlos Prada, Mary Alice Coffroth, Howard Lasker
Biological Sciences Faculty Publications
Octocorals are conspicuous members of coral reefs and deep-sea ecosystems. Yet, species boundaries and taxonomic relationships within this group remain poorly understood, hindering our understanding of this essential component of the marine fauna. We used a multifaceted approach to revisit the systematics of the Caribbean octocorals Plexaura homomalla and Plexaura kükenthali, two taxa that have a long history of taxonomic revisions. We integrated morphological and reproductive analyses with high-throughput sequencing technology to clarify the relationship between these common gorgonians. Although size and shape of the sclerites are significantly different, there is overlap in the distributions making identification based on …
Changes In Selection Pressure Can Facilitate Hybridization During Biological Invasion In A Cuban Lizard, Dan G. Bock, Simon Baeckens, Jessica N. Pita-Aquino, Zachary A. Chejanovski, Sozos N. Michaeolides, Pavitra Muralidhar, Sungdae Park, Douglas B. Menke, Anthony J. Geneva, Jonathan B. Losos, Jason J. Kolbe
Changes In Selection Pressure Can Facilitate Hybridization During Biological Invasion In A Cuban Lizard, Dan G. Bock, Simon Baeckens, Jessica N. Pita-Aquino, Zachary A. Chejanovski, Sozos N. Michaeolides, Pavitra Muralidhar, Sungdae Park, Douglas B. Menke, Anthony J. Geneva, Jonathan B. Losos, Jason J. Kolbe
Biological Sciences Faculty Publications
Hybridization is among the evolutionary mechanisms most frequently hypothesized to drive the success of invasive species, in part because hybrids are common in invasive populations. One explanation for this pattern is that biological invasions coincide with a change in selection pressures that limit hybridization in the native range. To investigate this possibility, we studied the introduction of the brown anole (Anolis sagrei) in the southeastern United States. We find that native populations are highly genetically structured. In contrast, all invasive populations show evidence of hybridization among native-range lineages. Temporal sampling in the invasive range spanning 15 y showed …