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Full-Text Articles in Biodiversity

Urban Nature Indexes Tool Offers Comprehensive And Flexible Approach To Monitoring Urban Ecological Performance, Jennifer Rae Pierce, Laura Costadone, Lelani Mannetti, Joeri Morpurgo, Charlyn Elaine Green, Michael D. Halder, Pablo Arturo Lopez Guijosa, Abner L. Bogan, Russell Galt, Jonathan Hughes Jan 2024

Urban Nature Indexes Tool Offers Comprehensive And Flexible Approach To Monitoring Urban Ecological Performance, Jennifer Rae Pierce, Laura Costadone, Lelani Mannetti, Joeri Morpurgo, Charlyn Elaine Green, Michael D. Halder, Pablo Arturo Lopez Guijosa, Abner L. Bogan, Russell Galt, Jonathan Hughes

ODU Articles

We present the Urban Nature Indexes (UNI), a comprehensive tool that measures urban ecological performance under one standard framework linked to global commitments. The UNI was developed by interdisciplinary experts and evaluated by practitioners from diverse cities to capture each city’s ecological footprint from local to global scale. The UNI comprises six themes (consumption drivers, human pressures, habitat status, species status, nature’s contributions to people, and governance responses) that encompass measurable impacts on climate change, biodiversity loss, ecosystem services, pollution, consumption, water management, and equity within one comprehensive system. Cities then adapt the UNI to their context and capacity by …


Complex Dynamics Of Coral Gene Expression Responses To Low Ph Across Species, Veronica Z. Radice, Ana Martinez, Adina Paytan, Donald C. Potts, Daniel J. Barshis Jan 2024

Complex Dynamics Of Coral Gene Expression Responses To Low Ph Across Species, Veronica Z. Radice, Ana Martinez, Adina Paytan, Donald C. Potts, Daniel J. Barshis

Biological Sciences Faculty Publications

Coral capacity to tolerate low pH affects coral community composition and, ultimately, reef ecosystem function. Low pH submarine discharges (‘Ojo’; Yucatán, México) represent a natural laboratory to study plasticity and acclimatization to low pH in relation to ocean acidification. A previous >2‐year coral transplant experiment to ambient and low pH common garden sites revealed differential survivorship across species and sites, providing a framework to compare mechanistic responses to differential pH exposures. Here, we examined gene expression responses of transplants of three species of reef‐building corals (Porites astreoides, Porites porites and Siderastrea siderea) and their algal endosymbiont communities …


A Multi-Taxon Analysis Of European Red Lists Reveal Major Threats To Biodiversity, Axel Hochkirch, Melanie Bilz, Catarina C. Ferreira, Anja Danielczak, David Allen, Ana Nieto, Carlo Rondinini, Kate Harding, Craig Hilton-Taylor, Caroline M. Pollock, Mary Seddon, Jean-Christophe Vié, Keith N. A. Alexander, Emily Beech, Manuel Biscoito, Yoan Braud, Ian J. Burfield, Filippo Maria Buzzetti, Marta Cálix, Kent E. Carpenter, Ning Labbish Chao, Dragan Chobanov, Maarten J. M. Christenhusz, Bruce B. Collette, Mia T. Comeros-Raynal, Neil Cox, Matthew Craig, Annabelle Cuttelod, William R. T. Darwall, Benoit Dodelin, Nicholas K. Dulvy, Eve Englefield, Michael F. Fay, Nicholas Fettes, Jörg Freyhof, Silvia García, Mariana García Criado, Michael Harvey, Nick Hodgetts, Christina Ieronymidou, Vincent J. Kalkman, Shelagh P. Kell, James Kemp, Sonia Khela, Richard V. Lansdown, Julia M. Lawson, Danna J. Leaman, Joana Magos Brehm, Nigel Maxted, Rebecca M. Miller, Eike Neubert, Baudewijn Odé, David Pollard, Riley Pollom, Rob Pople, Juan José Presa Asensio, Gina M. Ralph, Hassan Rankou, Malin Rivers, Stuart P. M. Roberts, Barry Russell, Alexander Sennikov, Fabien Soldati, Anna Staneva, Emilie Stump, Andy Symes, Dmitry Telnov, Helen Temple, Andrew Terry, Anastasiya Timoshyna, Chris Van Swaay, Henry Väre, Rachel H. L. Walls, Luc Willemse, Brett Wilson, Jemma Window, Emma G. E. Wright, Thomas Zuna-Kratky Jan 2023

A Multi-Taxon Analysis Of European Red Lists Reveal Major Threats To Biodiversity, Axel Hochkirch, Melanie Bilz, Catarina C. Ferreira, Anja Danielczak, David Allen, Ana Nieto, Carlo Rondinini, Kate Harding, Craig Hilton-Taylor, Caroline M. Pollock, Mary Seddon, Jean-Christophe Vié, Keith N. A. Alexander, Emily Beech, Manuel Biscoito, Yoan Braud, Ian J. Burfield, Filippo Maria Buzzetti, Marta Cálix, Kent E. Carpenter, Ning Labbish Chao, Dragan Chobanov, Maarten J. M. Christenhusz, Bruce B. Collette, Mia T. Comeros-Raynal, Neil Cox, Matthew Craig, Annabelle Cuttelod, William R. T. Darwall, Benoit Dodelin, Nicholas K. Dulvy, Eve Englefield, Michael F. Fay, Nicholas Fettes, Jörg Freyhof, Silvia García, Mariana García Criado, Michael Harvey, Nick Hodgetts, Christina Ieronymidou, Vincent J. Kalkman, Shelagh P. Kell, James Kemp, Sonia Khela, Richard V. Lansdown, Julia M. Lawson, Danna J. Leaman, Joana Magos Brehm, Nigel Maxted, Rebecca M. Miller, Eike Neubert, Baudewijn Odé, David Pollard, Riley Pollom, Rob Pople, Juan José Presa Asensio, Gina M. Ralph, Hassan Rankou, Malin Rivers, Stuart P. M. Roberts, Barry Russell, Alexander Sennikov, Fabien Soldati, Anna Staneva, Emilie Stump, Andy Symes, Dmitry Telnov, Helen Temple, Andrew Terry, Anastasiya Timoshyna, Chris Van Swaay, Henry Väre, Rachel H. L. Walls, Luc Willemse, Brett Wilson, Jemma Window, Emma G. E. Wright, Thomas Zuna-Kratky

Biological Sciences Faculty Publications

Biodiversity loss is a major global challenge and minimizing extinction rates is the goal of several multilateral environmental agreements. Policy decisions require comprehensive, spatially explicit information on species’ distributions and threats. We present an analysis of the conservation status of 14,669 European terrestrial, freshwater and marine species (ca. 10% of the continental fauna and flora), including all vertebrates and selected groups of invertebrates and plants. Our results reveal that 19% of European species are threatened with extinction, with higher extinction risks for plants (27%) and invertebrates (24%) compared to vertebrates (18%). These numbers exceed recent IPBES (Intergovernmental Platform on Biodiversity …


Corals At The Edge Of Environmental Limits: A New Conceptual Framework To Re-Define Marginal And Extreme Coral Communities, Verena Schoepf, Justin H. Baumann, Daniel J. Barshis, Nicola K. Browne, Emma F. Camp, Steeve Comeau, Christopher E. Cornwall, Héctor M. Guzmán, Bernhard Riegl, Riccardo Rodolfo-Metalpa, Brigitte Sommer Jan 2023

Corals At The Edge Of Environmental Limits: A New Conceptual Framework To Re-Define Marginal And Extreme Coral Communities, Verena Schoepf, Justin H. Baumann, Daniel J. Barshis, Nicola K. Browne, Emma F. Camp, Steeve Comeau, Christopher E. Cornwall, Héctor M. Guzmán, Bernhard Riegl, Riccardo Rodolfo-Metalpa, Brigitte Sommer

Biological Sciences Faculty Publications

The worldwide decline of coral reefs has renewed interest in coral communities at the edge of environmental limits because they have the potential to serve as resilience hotspots and climate change refugia, and can provide insights into how coral reefs might function in future ocean conditions. These coral communities are often referred to as marginal or extreme but few definitions exist and usage of these terms has therefore been inconsistent. This creates significant challenges for categorising these often poorly studied communities and synthesising data across locations. Furthermore, this impedes our understanding of how coral communities can persist at the edge …


Rapidly Changing Range Limits In A Warming World: Critical Data Limitations And Knowledge Gaps For Advancing Understanding Of Mangrove Range Dynamics In The Southeastern Usa, Rémi Bardou, Michael J. Osland, Steven Scyphers, Christine Shepard, Karen E. Aerni, Jahson B. Alemu I, Robert Crimian, Richard H. Day, Nicholas M. Enwright, Laura C. Feher, Sarah L. Gibbs, Kiera O'Donnell, Savannah H. Swinea, Kalaina Thorne, Sarit Truskey, Anna R. Armitage, Ronald Baker, Josh L. Breithaupt, Kyle C. Cavanaugh, Erik S. Yando, A. Randall Hughes, Et Al. Jan 2023

Rapidly Changing Range Limits In A Warming World: Critical Data Limitations And Knowledge Gaps For Advancing Understanding Of Mangrove Range Dynamics In The Southeastern Usa, Rémi Bardou, Michael J. Osland, Steven Scyphers, Christine Shepard, Karen E. Aerni, Jahson B. Alemu I, Robert Crimian, Richard H. Day, Nicholas M. Enwright, Laura C. Feher, Sarah L. Gibbs, Kiera O'Donnell, Savannah H. Swinea, Kalaina Thorne, Sarit Truskey, Anna R. Armitage, Ronald Baker, Josh L. Breithaupt, Kyle C. Cavanaugh, Erik S. Yando, A. Randall Hughes, Et Al.

Biological Sciences Faculty Publications

Climate change is altering species’ range limits and transforming ecosystems. For example, warming temperatures are leading to the range expansion of tropical, cold-sensitive species at the expense of their cold-tolerant counterparts. In some temperate and subtropical coastal wetlands, warming winters are enabling mangrove forest encroachment into salt marsh, which is a major regime shift that has significant ecological and societal ramifications. Here, we synthesized existing data and expert knowledge to assess the distribution of mangroves near rapidly changing range limits in the southeastern USA. We used expert elicitation to identify data limitations and highlight knowledge gaps for advancing understanding of …


Biodiversity Of Philippine Marine Fishes: A Dna Barcode Reference Library Based On Voucher Specimens, Katherine E. Bemis, Matthew G. Girard, Mudjekeewis D. Santos, Kent E. Carpenter, Jonathan R. Deeds, Diane E. Pitassy, Nicko Amor L. Flores, Elizabeth S. Hunter, Amy C. Driskell, Kenneth S. Macdonald Iii, Lee A. Weigt, Jeffrey T. Williams Jan 2023

Biodiversity Of Philippine Marine Fishes: A Dna Barcode Reference Library Based On Voucher Specimens, Katherine E. Bemis, Matthew G. Girard, Mudjekeewis D. Santos, Kent E. Carpenter, Jonathan R. Deeds, Diane E. Pitassy, Nicko Amor L. Flores, Elizabeth S. Hunter, Amy C. Driskell, Kenneth S. Macdonald Iii, Lee A. Weigt, Jeffrey T. Williams

Biological Sciences Faculty Publications

Accurate identification of fishes is essential for understanding their biology and to ensure food safety for consumers. DNA barcoding is an important tool because it can verify identifications of both whole and processed fishes that have had key morphological characters removed (e.g., filets, fish meal); however, DNA reference libraries are incomplete, and public repositories for sequence data contain incorrectly identified sequences. During a nine-year sampling program in the Philippines, a global biodiversity hotspot for marine fishes, we developed a verified reference library of cytochrome c oxidase subunit I (COI) sequences for 2,525 specimens representing 984 species. Specimens were primarily purchased …


Global Phylogenomic Assessment Of Leptoseris And Agaricia Reveals Substantial Undescibed Diversity At Mesophotic Depths, J. C. Gijsbers, N. Englebert, K. E. Prata, M. Pichon, Z. Dinesen, R. Brunner, G. Eyal, F. L. González-Zapata, S. E. Kahng, K. R. W. Latijnhouwers, P. Muir, V. Z. Radice, J. A. Sánchez, M. J. A. Vermeij, O. Hoegh-Guldberg, S. J. Jacobs, P. Bongaerts Jan 2023

Global Phylogenomic Assessment Of Leptoseris And Agaricia Reveals Substantial Undescibed Diversity At Mesophotic Depths, J. C. Gijsbers, N. Englebert, K. E. Prata, M. Pichon, Z. Dinesen, R. Brunner, G. Eyal, F. L. González-Zapata, S. E. Kahng, K. R. W. Latijnhouwers, P. Muir, V. Z. Radice, J. A. Sánchez, M. J. A. Vermeij, O. Hoegh-Guldberg, S. J. Jacobs, P. Bongaerts

Biological Sciences Faculty Publications

Background: Mesophotic coral communities are increasingly gaining attention for the unique biological diversity they host, exemplified by the numerous mesophotic fish species that continue to be discovered. In contrast, many of the photosynthetic scleractinian corals observed at mesophotic depths are assumed to be depth-generalists, with very few species characterised as mesophotic-specialists. This presumed lack of a specialised community remains largely untested, as phylogenetic studies on corals have rarely included mesophotic samples and have long suffered from resolution issues associated with traditional sequence markers.

Results: Here, we used reduced-representation genome sequencing to conduct a phylogenomic assessment of the two dominant mesophotic …


Monitoring Extinction Risk And Threats Of The World's Fishes Based On The Sampled Red List Index, Rafael Miranda, Imanol Miqueleiz, William Darwall, Catherine Sayer, Nicholas K. Dulvy, Kent E. Carpenter, Beth Polidoro, Nadia Dewhurst-Richman, Caroline Pollock, Craig Hilton-Taylor, Robin Freeman, Ben Collen, Monika Böhm Mar 2022

Monitoring Extinction Risk And Threats Of The World's Fishes Based On The Sampled Red List Index, Rafael Miranda, Imanol Miqueleiz, William Darwall, Catherine Sayer, Nicholas K. Dulvy, Kent E. Carpenter, Beth Polidoro, Nadia Dewhurst-Richman, Caroline Pollock, Craig Hilton-Taylor, Robin Freeman, Ben Collen, Monika Böhm

Biological Sciences Faculty Publications

Global biodiversitytargets require us to identify species at risk of extinction and quantify status and trends of biodiversity. The Red List Index (RLI) tracks trends in the conservation status of entire species groups over time by monitoring changes in categories assigned to species. Here, we calculate this index for the world’s fishes in 2010, using a sampled approach to the RLI based on a randomly selected sample of 1,500 species, and also present RLI splits for freshwater and marine systems separately. We further compare specific traits of a worldwide fish list to our sample to assess its representativeness. Overall, 15.1% …


Unified Methods In Collecting, Preserving, And Archiving Coral Bleaching And Restoration Specimens To Increase Sample Utility And Interdisciplinary Collaboration, Rebecca Vega Thurber, Emily R. Schmeltzer, Andréa G. Grottoli, Robert Van Woesik, Robert J. Toonen, Mark Warner, Kerri L. Dobson, Rowan H. Mclachlan, Katie Barott, Daniel J. Barshis, Justin Baumann, Leila Chapron, David J. Combosch, Adrienne M.S. Correa, Thomas M. Decarlo, Mary Hagedorn, Laetitia Hédouin, Kenneth Hoadley, Thomas Felis, Christine Ferrier-Pagès, Carly Kenkel, Ilsa B. Kuffner, Jennifer Matthews, Mónica Medina, Christopher Meyer, Corinna Oster, James Price, Hollie M. Putnam, Yvonne Sawall Jan 2022

Unified Methods In Collecting, Preserving, And Archiving Coral Bleaching And Restoration Specimens To Increase Sample Utility And Interdisciplinary Collaboration, Rebecca Vega Thurber, Emily R. Schmeltzer, Andréa G. Grottoli, Robert Van Woesik, Robert J. Toonen, Mark Warner, Kerri L. Dobson, Rowan H. Mclachlan, Katie Barott, Daniel J. Barshis, Justin Baumann, Leila Chapron, David J. Combosch, Adrienne M.S. Correa, Thomas M. Decarlo, Mary Hagedorn, Laetitia Hédouin, Kenneth Hoadley, Thomas Felis, Christine Ferrier-Pagès, Carly Kenkel, Ilsa B. Kuffner, Jennifer Matthews, Mónica Medina, Christopher Meyer, Corinna Oster, James Price, Hollie M. Putnam, Yvonne Sawall

Biological Sciences Faculty Publications

Coral reefs are declining worldwide primarily because of bleaching and subsequent mortality resulting from thermal stress. Currently, extensive efforts to engage in more holistic research and restoration endeavors have considerably expanded the techniques applied to examine coral samples. Despite such advances, coral bleaching and restoration studies are often conducted within a specific disciplinary focus, where specimens are collected, preserved, and archived in ways that are not always conducive to further downstream analyses by specialists in other disciplines. This approach may prevent the full utilization of unexpended specimens, leading to siloed research, duplicative efforts, unnecessary loss of additional corals to research …


Overfishing Drives Over One-Third Of All Sharks And Rays Toward A Global Extinction Crisis, Nicholas K. Dulvy, Nathan Pacoureau, Cassandra L. Rigby, Riley A. Pollom, Rima W. Jabado, David A. Ebert, Brittany Finucci, Caroline M. Pollock, Jessica Cheok, Danielle H. Derrick, Katelyn B. Herman, C. Samantha Sherman, Wade J. Vanderwright, Julia M. Lawson, Rachel H.L. Walls, John K. Carlson, Patricia Charvet, Kinattumkara K. Bineesh, Daniel Fernando, Gina M. Ralph, Jay H. Matsushiba, Craig Hilton-Taylor, Sonja V. Fordham, Colin A. Simpfendorfer Nov 2021

Overfishing Drives Over One-Third Of All Sharks And Rays Toward A Global Extinction Crisis, Nicholas K. Dulvy, Nathan Pacoureau, Cassandra L. Rigby, Riley A. Pollom, Rima W. Jabado, David A. Ebert, Brittany Finucci, Caroline M. Pollock, Jessica Cheok, Danielle H. Derrick, Katelyn B. Herman, C. Samantha Sherman, Wade J. Vanderwright, Julia M. Lawson, Rachel H.L. Walls, John K. Carlson, Patricia Charvet, Kinattumkara K. Bineesh, Daniel Fernando, Gina M. Ralph, Jay H. Matsushiba, Craig Hilton-Taylor, Sonja V. Fordham, Colin A. Simpfendorfer

Biological Sciences Faculty Publications

The scale and drivers of marine biodiversity loss are being revealed by the International Union for Conservation of Nature (IUCN) Red List assessment process. We present the first global reassessment of 1,199 species in Class Chondrichthyes-sharks, rays, and chimeras. The first global assessment (in 2014) concluded that one-quarter (24%) of species were threatened. Now, 391 (32.6%) species are threatened with extinction. When this percentage of threat is applied to Data Deficient species, more than one-third (37.5%) of chondrichthyans are estimated to be threatened, with much of this change resulting from new information. Three species are Critically Endangered (Possibly Extinct), representing …


Global Extinction Risk For Seahorses, Pipefishes And Their Near Relatives (Syngnathiformes), Riley A. Pollom, Gina M. Ralph, Caroline M. Pollock, Amanda C.J. Vincent Jan 2021

Global Extinction Risk For Seahorses, Pipefishes And Their Near Relatives (Syngnathiformes), Riley A. Pollom, Gina M. Ralph, Caroline M. Pollock, Amanda C.J. Vincent

Biological Sciences Faculty Publications

Few marine taxa have been comprehensively assessed for their conservation status, despite heavy pressures from fishing, habitat degradation and climate change. Here we report on the first global assessment of extinction risk for 300 species of syngnathiform fishes known as of 2017, using the IUCN Red List criteria. This order of bony teleosts is dominated by seahorses, pipefishes and seadragons (family Syngnathidae). It also includes trumpetfishes (Aulostomidae), shrimpfishes (Centriscidae), cornetfishes (Fistulariidae) and ghost pipefishes (Solenostomidae). At least 6% are threatened, but data suggest a mid-point estimate of 7.9% and an upper bound of 38%. Most of the threatened species are …


Haplotype Network Branch Diversity, A New Metric Combining Genetic And Topological Diversity To Compare The Complexity Of Haplotype Networks, Eric Garcia, Daniel Wright, Remy Gatkins, May B. Roberts, Hudson T. Pinheiro, Eva Salas, Jei-Ying Chen, Jacob R. Winnikoff, Giacomo Bernardi Jan 2021

Haplotype Network Branch Diversity, A New Metric Combining Genetic And Topological Diversity To Compare The Complexity Of Haplotype Networks, Eric Garcia, Daniel Wright, Remy Gatkins, May B. Roberts, Hudson T. Pinheiro, Eva Salas, Jei-Ying Chen, Jacob R. Winnikoff, Giacomo Bernardi

Biological Sciences Faculty Publications

A common way of illustrating phylogeographic results is through the use of haplotype networks. While these networks help to visualize relationships between individuals, populations, and species, evolutionary studies often only quantitatively analyze genetic diversity among haplotypes and ignore other network properties. Here, we present a new metric, haplotype network branch diversity (HBd), as an easy way to quantifiably compare haplotype network complexity. Our metric builds off the logic of combining genetic and topological diversity to estimate complexity previously used by the published metric haplotype network diversity (HNd). However, unlike HNd which uses a combination of network …


The Conservation Status Of Marine Biodiversity Of The Western Indian Ocean, R. Bullock, Gina Ralph, E. Stump, F. Al Abdali, J. Al Asfoor, B. Al Buwaiqi, A. Al Kindi, A. Ambuali, Tiffany Birge, P. Borsa, F. Di Dario, B. Everett, S. Fennessy, C. Fonseca, Claire Gorman, A. Govender, H. Ho, W. Holleman, N. Jiddawi, M. Khan, H. Larson, Christi Linardich, P. Matiku, K. Matsuura, C. Maunde, H. Motomura, T. Munroe, R. Nair, C. Obota, B. Polidoro, B. Russell, S. Shaheen, Y. Sithole, W. Smith-Vaniz, F. Uiblein, S. Weerts, A. Williams, S. Yahya, Kent Carpenter Jan 2021

The Conservation Status Of Marine Biodiversity Of The Western Indian Ocean, R. Bullock, Gina Ralph, E. Stump, F. Al Abdali, J. Al Asfoor, B. Al Buwaiqi, A. Al Kindi, A. Ambuali, Tiffany Birge, P. Borsa, F. Di Dario, B. Everett, S. Fennessy, C. Fonseca, Claire Gorman, A. Govender, H. Ho, W. Holleman, N. Jiddawi, M. Khan, H. Larson, Christi Linardich, P. Matiku, K. Matsuura, C. Maunde, H. Motomura, T. Munroe, R. Nair, C. Obota, B. Polidoro, B. Russell, S. Shaheen, Y. Sithole, W. Smith-Vaniz, F. Uiblein, S. Weerts, A. Williams, S. Yahya, Kent Carpenter

Biological Sciences Faculty Publications

The Western Indian Ocean (WIO) is comprised of productive and highly diverse marine ecosystems that are rich sources of food security, livelihoods, and natural wonder. The ecological services that species provide are vital to the productivity of these ecosystems and healthy biodiversity is essential for the continued support of economies and local users. The stability of these valuable resources, however, is being eroded by growing threats to marine life from overexploitation, habitat degradation and climate change, all of which are causing serious reductions in marine ecosystem services and the ability of these ecosystems to support human communities. Quantifying the impacts …


Using Genetics To Inform Restoration And Predict Resilience In Declining Populations Of A Keystone Marine Sponge, Sarah M. Griffiths, Evelyn D. Taylor-Cox, Donald C. Behringer, Mark J. Butler Iv, Richard F. Preziosi Feb 2020

Using Genetics To Inform Restoration And Predict Resilience In Declining Populations Of A Keystone Marine Sponge, Sarah M. Griffiths, Evelyn D. Taylor-Cox, Donald C. Behringer, Mark J. Butler Iv, Richard F. Preziosi

Biological Sciences Faculty Publications

Genetic tools can have a key role in informing conservation management of declining populations. Genetic diversity is an important determinant of population fitness and resilience, and can require careful management to ensure sufficient variation is present. In addition, population genetics data reveal patterns of connectivity and gene flow between locations, enabling mangers to predict recovery and resilience, identify areas of local adaptation, and generate restoration plans. Here, we demonstrate a conservation genetics approach to inform restoration and management of the loggerhead sponge (Spheciospongia vesparium) in the Florida Keys, USA. This species is a dominant, habitat-forming component of marine ecosystems in …


The Natural History Of The Marsh Rice Rat, Oryzomys Palustris, In Eastern Virginia, Robert K. Rose Jan 2020

The Natural History Of The Marsh Rice Rat, Oryzomys Palustris, In Eastern Virginia, Robert K. Rose

Biological Sciences Faculty Publications

The marsh rice rat, Oryzomys palustris, is a common rodent in tidal marshes of eastern Virginia, including those on the barrier islands. It also is present in grassy old fields in upland habitats in the coastal plain and parts of the piedmont of Virginia. This report summarizes what has been learned in recent decades about the population biology of this species in Virginia, including aspects of behavior, density, diet, distribution, genetics, habitats, mammal associates, and reproduction.


Natural History Of The Eastern Harvest Mouse In Southeastern Virginia, Robert K. Rose Jan 2019

Natural History Of The Eastern Harvest Mouse In Southeastern Virginia, Robert K. Rose

Biological Sciences Faculty Publications

The Eastern Harvest Mouse, Reithrodontomys humulis, has been studied extensively in southeastern Virginia since 1979, using a combination of live and pitfall trapping methods. This smallest rodent of eastern North America also is one of most versatile, occupying a range of habitats in southeastern Virginia from old fields in different stages of succession, brushy edges, and forests of different types. As with other species of Reithrodontomys, R. humulis often is associated with the Hispid Cotton Rat, Sigmodon hispidus, with both reaching modest densities in old fields. Two capture-mark-release studies of small mammal communities in southern Chesapeake lasting …


Biotime: A Database Of Biodiversity Time Series For The Anthropocene, Maria Dornelas, Laura H. Antão, Faye Moyes, Amanda E. Bates, Anne E. Magurran, Dušan Adams, Asem A. Akhmetzhanova, Ward Appeltans, José Manuel Adam, Frank P. Day Jul 2018

Biotime: A Database Of Biodiversity Time Series For The Anthropocene, Maria Dornelas, Laura H. Antão, Faye Moyes, Amanda E. Bates, Anne E. Magurran, Dušan Adams, Asem A. Akhmetzhanova, Ward Appeltans, José Manuel Adam, Frank P. Day

Biological Sciences Faculty Publications

Motivation: The BioTIME database contains raw data on species identities and abundances in ecological assemblages through time. These data enable users to calculate temporal trends in biodiversity within and amongst assemblages using a broad range of metrics. BioTIME is being developed as a community-led open-source database of biodiversity time series. Our goal is to accelerate and facilitate quantitative analysis of temporal patterns of biodiversity in the Anthropocene.

Main types of variables included: The database contains 8,777,413 species abundance records, from assemblages consistently sampled for a minimum of 2 years, which need not necessarily be consecutive. In addition, the database contains …


Assessing Trade-Offs In Large Marine Protected Areas, Tammy E. Davies, Graham Epstein, Stacy E. Aguilera, Cassandra M. Brooks, Michael Cox, Louisa S. Evans, Sara M. Maxwell, Mateja Nenadovic, Natalie C. Ban Apr 2018

Assessing Trade-Offs In Large Marine Protected Areas, Tammy E. Davies, Graham Epstein, Stacy E. Aguilera, Cassandra M. Brooks, Michael Cox, Louisa S. Evans, Sara M. Maxwell, Mateja Nenadovic, Natalie C. Ban

Biological Sciences Faculty Publications

Large marine protected areas (LMPAs) are increasingly being established and have a high profile in marine conservation. LMPAs are expected to achieve multiple objectives, and because of their size are postulated to avoid trade-offs that are common in smaller MPAs. However, evaluations across multiple outcomes are lacking. We used a systematic approach to code several social and ecological outcomes of 12 LMPAs. We found evidence of three types of trade-offs: trade-offs between different ecological resources (supply trade-offs); trade-offs between ecological resource conditions and the well-being of resource users (supply-demand trade-offs); and trade-offs between the well-being outcomes of different resource users …


Global Conservation Status Of Marine Pufferfishes (Tetraodontiformes: Tetraodontidae), Emilie Stump, Gina M. Ralph, Mia T. Comeros-Raynal, Keiichi Matsuura, Kent E. Carpenter Apr 2018

Global Conservation Status Of Marine Pufferfishes (Tetraodontiformes: Tetraodontidae), Emilie Stump, Gina M. Ralph, Mia T. Comeros-Raynal, Keiichi Matsuura, Kent E. Carpenter

Biological Sciences Faculty Publications

Puffers are biologically and ecologically fascinating fishes best known for their unique morphology and arsenal of defenses including inflation and bioaccumulation of deadly neurotoxins. These fishes are also commercially, culturally, and ecologically important in many regions. One-hundred-and-fifty-one species of marine puffers were assessed against the International Union for Conservation of Nature (IUCN) Red List Criteria at a 2011 workshop held in Xiamen, China. Here we present the first comprehensive review of puffer geographic and depth distribution, use and trade, and habitats and ecology and a summary of the global conservation status of marine puffers, determined by applying the International Union …


Natural History Of The Southern Bog Lemming In Southeastern Virginia, Robert K. Rose Jan 2018

Natural History Of The Southern Bog Lemming In Southeastern Virginia, Robert K. Rose

Biological Sciences Faculty Publications

The isolated subspecies of Southern Bog Lemming of southeastern Virginia, Synaptomys cooperi helaletes, has been studied extensively since its "rediscovery" in the Great Dismal Swamp in 1980. Multiple studies using pitfall traps, starting in the Great Dismal Swamp National Wildlife Refuge and then extending elsewhere in southeastern Virginia and adjacent northeastern North Carolina, have revealed lemmings to be much more widespread and often more common than previously believed, with their presence now confirmed as far west as Surry and Sussex counties, about 30 km east of Petersburg, Virginia. When present, lemmings often are among the most numerous members of …


Large Marine Protected Areas Represent Biodiversity Now And Under Climate Change, T. E. Davies, S. M. Maxwell, K. Kaschner, C. Garilao, N. C. Ban Aug 2017

Large Marine Protected Areas Represent Biodiversity Now And Under Climate Change, T. E. Davies, S. M. Maxwell, K. Kaschner, C. Garilao, N. C. Ban

Biological Sciences Faculty Publications

Large marine protected areas (>30,000 km2) have a high profile in marine conservation, yet their contribution to conservation is contested. Assessing the overlap of large marine protected areas with 14,172 species, we found large marine protected areas cover 4.4% of the ocean and at least some portion of the range of 83.3% of the species assessed. Of all species within large marine protected areas, 26.9% had at least 10% of their range represented, and this was projected to increase to 40.1% in 2100. Cumulative impacts were significantly higher within large marine protected areas than outside, refuting the …


Fish Spawning Aggregations: Where Well-Placed Management Actions Can Yield Big Benefits For Fisheries And Conservation, Brad Erisman, William Heyman, Shinichi Kobara, Tal Ezer, Simon Pittman, Octavio Aburto-Oropeza, Richard S. Nemeth Jan 2017

Fish Spawning Aggregations: Where Well-Placed Management Actions Can Yield Big Benefits For Fisheries And Conservation, Brad Erisman, William Heyman, Shinichi Kobara, Tal Ezer, Simon Pittman, Octavio Aburto-Oropeza, Richard S. Nemeth

CCPO Publications

Marine ecosystem management has traditionally been divided between fisheries management and biodiversity conservation approaches, and the merging of these disparate agendas has proven difficult. Here, we offer a pathway that can unite fishers, scientists, resource managers and conservationists towards a single vision for some areas of the ocean where small investments in management can offer disproportionately large benefits to fisheries and biodiversity conservation. Specifically, we provide a series of evidenced-based arguments that support an urgent need to recognize fish spawning aggregations (FSAs) as a focal point for fisheries management and conservation on a global scale, with a particular emphasis placed …


Isolation And Characterization Of Eight Polymorphic Microsatellites For The Spotted Spiny Lobster, Panulirus Guttatus, Nathan Truelove, Donald C. Behringer, Mark J. Butler Iv, Richard F. Preziosi Jan 2016

Isolation And Characterization Of Eight Polymorphic Microsatellites For The Spotted Spiny Lobster, Panulirus Guttatus, Nathan Truelove, Donald C. Behringer, Mark J. Butler Iv, Richard F. Preziosi

Biological Sciences Faculty Publications

Microsatellite sequences were isolated from enriched genomic libraries of the spotted spiny lobster, Panulirus guttatus using 454 pyrosequencing. Twenty-nine previously developed polymerase chain reaction primer pairs of Panulirus argus microsatellite loci were also tested for cross-species amplification in Panulirus guttatus. In total, eight consistently amplifying, and polymorphic loci were characterized for 57 individuals collected in the Florida Keys and Bermuda. The number of alleles per locus ranged from 8 to 20 and observed heterozygosities ranged from 0.409 to 0.958. Significant deviations from Hardy–Weinberg equilibrium were found in one locus from Florida and three loci from Bermuda. Quality control testing indicated …


The Small Mammals Of Southeastern Virginia As Revealed By Pitfall Trapping, Robert K. Rose Jan 2016

The Small Mammals Of Southeastern Virginia As Revealed By Pitfall Trapping, Robert K. Rose

Biological Sciences Faculty Publications

Pitfall trapping is a poor method to catch small mammals but the only way to catch and study the Southeastern Shrew (Sorex longirostris), the primary mammal of interest in the field studies reported here. While learning much about its distribution and abundance, still more was learned about the other small mammals present in forests and fields of eastern Virginia. A total of 15 species was captured at 19 locations during the 1990-2013 period, including five shrews, two moles, and eight rodents, representing all but one of the common small mammals in eastern Virginia.


Are We Missing Important Areas In Pelagic Marine Conservation? Redefining Conservation Hotspots In The Ocean, Dana K. Briscoe, Sara M. Maxwell, Raphael Kudela, Larry B. Crowder Jan 2016

Are We Missing Important Areas In Pelagic Marine Conservation? Redefining Conservation Hotspots In The Ocean, Dana K. Briscoe, Sara M. Maxwell, Raphael Kudela, Larry B. Crowder

Biological Sciences Faculty Publications

The protection of biodiversity is one of the most important goals in terrestrial and marine conservation. Marine conservation approaches have traditionally followed the example of terrestrial initiatives. However, patterns, processes, habitats, and threats differ greatly between the 2 systems - and even within the marine environment. As a result, there is still a lack of congruence as to how to best identify and prioritize conservation approaches moving from the static terrestrial and nearshore realm into a more fluid, 3-dimensional pelagic realm. To address this problem, we investigate how the conservation science literature has been used to inform and guide management …


Assessing The Cost Of Global Biodiversity And Conservation Knowledge, Diego Juffe-Bignoli, Thomas M. Brooks, Stuart H. M. Butchart, Richard B. Jenkins, Kaia Boe, Michael Hoffman, Ariadne Angulo, Steve Bachman, Monica Böhm, Neil Brummitt, Kent E. Carpenter Jan 2016

Assessing The Cost Of Global Biodiversity And Conservation Knowledge, Diego Juffe-Bignoli, Thomas M. Brooks, Stuart H. M. Butchart, Richard B. Jenkins, Kaia Boe, Michael Hoffman, Ariadne Angulo, Steve Bachman, Monica Böhm, Neil Brummitt, Kent E. Carpenter

Biological Sciences Faculty Publications

Knowledge products comprise assessments of authoritative information supported by standards, governance, quality control, data, tools, and capacity building mechanisms. Considerable resources are dedicated to developing and maintaining knowledge products for biodiversity conservation, and they are widely used to inform policy and advise decision makers and practitioners. However, the financial cost of delivering this information is largely undocumented. We evaluated the costs and funding sources for developing and maintaining four global biodiversity and conservation knowledge products: The IUCN Red List of Threatened Species, the IUCN Red List of Ecosystems, Protected Planet, and the World Database of Key Biodiversity Areas. These are …


Shortfalls And Solutions For Meeting National And Global Conservation Area Targets, Stuart H. M. Butchart, Martin Clarke, Robert J. Smith, Rachel E. Sykes, Jorn P. W. Scharlemann, Mike Harfoot, Graeme M. Buchanan, Ariadne Angulo, Andrew Balmford, Bastian Bertzky, Thomas M. Brooks, Kent E. Carpenter, 28 Others Jan 2015

Shortfalls And Solutions For Meeting National And Global Conservation Area Targets, Stuart H. M. Butchart, Martin Clarke, Robert J. Smith, Rachel E. Sykes, Jorn P. W. Scharlemann, Mike Harfoot, Graeme M. Buchanan, Ariadne Angulo, Andrew Balmford, Bastian Bertzky, Thomas M. Brooks, Kent E. Carpenter, 28 Others

Biological Sciences Faculty Publications

Governments have committed to conserving greater than or equal to 17% of terrestrial and greater than or equal to 10% of marine environments globally, especially "areas of particular importance for biodiversity" through "ecologically representative" Protected Area (PA) systems or other "area-based conservation measures", while individual countries have committed to conserve 3-50% of their land area. We estimate that PAs currently cover 14.6% of terrestrial and 2.8% of marine extent, but 59-68% of ecoregions, 77-78% of important sites for biodiversity, and 57% of 25,380 species have inadequate coverage. The existing 19.7 million km super(2) terrestrial PA network needs only 3.3 million …


Extinction Risk And Conservation Of The World's Sharks And Rays, Nicholas K. Dulvy, Sarah L. Fowler, John A. Musick, Rachel D. Cavanagh, Peter M. Kyne, Lucy R. Harrison, John K. Carlson, Lindsay N. K. Davidson, Sonja V. Fordham, Malcolm P. Francis, Caroline M. Pollock, Colin A. Simpfendorfer, George H. Burgess, Kent E. Carpenter, Leonard J. V. Compagno, David A. Ebert, Claudine Gibson, Michelle R. Heupel, Suzanne R. Livingstone, Jonnell C. Sanciangco, John D. Stevens, Sarah Valenti, William T. White Jan 2014

Extinction Risk And Conservation Of The World's Sharks And Rays, Nicholas K. Dulvy, Sarah L. Fowler, John A. Musick, Rachel D. Cavanagh, Peter M. Kyne, Lucy R. Harrison, John K. Carlson, Lindsay N. K. Davidson, Sonja V. Fordham, Malcolm P. Francis, Caroline M. Pollock, Colin A. Simpfendorfer, George H. Burgess, Kent E. Carpenter, Leonard J. V. Compagno, David A. Ebert, Claudine Gibson, Michelle R. Heupel, Suzanne R. Livingstone, Jonnell C. Sanciangco, John D. Stevens, Sarah Valenti, William T. White

Biological Sciences Faculty Publications

The rapid expansion of human activities threatens ocean-wide biodiversity. Numerous marine animal populations have declined, yet it remains unclear whether these trends are symptomatic of a chronic accumulation of global marine extinction risk. We present the first systematic analysis of threat for a globally distributed lineage of 1,041 chondrichthyan fishes-sharks, rays, and chimaeras. We estimate that one-quarter are threatened according to IUCN Red List criteria due to overfishing (targeted and incidental). Large-bodied, shallow-water species are at greatest risk and five out of the seven most threatened families are rays. Overall chondrichthyan extinction risk is substantially higher than for most other …


Global Priorities For Marine Biodiversity Conservation, Elizabeth R. Selig, Will R. Turner, Sebastian Troëng, Bryan P. Wallace, Kristin Kaschner, Ben G. Lascelles, Kent E. Carpenter, Russell A. Mittermeier Jan 2014

Global Priorities For Marine Biodiversity Conservation, Elizabeth R. Selig, Will R. Turner, Sebastian Troëng, Bryan P. Wallace, Kristin Kaschner, Ben G. Lascelles, Kent E. Carpenter, Russell A. Mittermeier

Biological Sciences Faculty Publications

In recent decades, many marine populations have experienced major declines in abundance, but we still know little about where management interventions may help protect the highest levels of marine biodiversity. We used modeled spatial distribution data for nearly 12,500 species to quantify global patterns of species richness and two measures of endemism. By combining these data with spatial information on cumulative human impacts, we identified priority areas where marine biodiversity is most and least impacted by human activities, both within Exclusive Economic Zones (EEZs) and Areas Beyond National Jurisdiction (ABNJ). Our analyses highlighted places that are both accepted priorities for …


Hidden Diversity In Sardines: Genetic And Morphological Evidence For Cryptic Species In The Goldstripe Sardinella, Sardinella Gibbosa (Bleeker, 1849), Rey C. Thomas, Demian A. Willette, Kent E. Carpenter, Mudjekeewis D. Santos Jan 2014

Hidden Diversity In Sardines: Genetic And Morphological Evidence For Cryptic Species In The Goldstripe Sardinella, Sardinella Gibbosa (Bleeker, 1849), Rey C. Thomas, Demian A. Willette, Kent E. Carpenter, Mudjekeewis D. Santos

Biological Sciences Faculty Publications

Cryptic species continue to be uncovered in many fish taxa, posing challenges for fisheries conservation and management. In Sardinella gibbosa, previous investigations revealed subtle intra-species variations, resulting in numerous synonyms and a controversial taxonomy for this sardine. Here, we tested for cryptic diversity within S. gibbosa using genetic data from two mitochondrial and one nuclear gene regions of 248 individuals of S. gibbosa, collected from eight locations across the Philippine archipelago. Deep genetic divergence and subsequent clustering was consistent across both mitochondrial and nuclear markers. Clade distribution is geographically limited: Clade 1 is widely distributed in the central Philippines, while …