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"Cook, Joseph A."
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Tourism : the business of travel
\"Tourism, the world's largest industry, continues to grow worldwide. With this growth comes a wealth of opportunities and challenges. In their fourth edition, Cook, Yale, and Marqua invite you to join them in exploring the many changes that are shaping the future of this exciting industry.\" \"The authors designed this book so that it engages students in the learning experience. Its appealing writing style and hundreds of current industry examples make it the perfect text for students taking their first tourism class as well as anyone who wants to know more about this exciting industry. Based on popular demand, a variety of readings, exercises, and cases augment the expanded content, providing students with even more opportunities to apply their knowledge.\"--Jacket.
The next generation of natural history collections
2018
The last 50 years have witnessed rapid changes in the ways that natural history specimens are collected, preserved, analyzed, and documented. Those changes have produced unprecedented access to specimens, images, and data as well as impressive research results in organismal biology. The stage is now set for a new generation of collecting, preserving, analyzing, and integrating biological samples-a generation devoted to interdisciplinary research into complex biological interactions and processes. Next-generation collections may be essential for breakthrough research on the spread of infectious diseases, feeding Earth's growing population, adapting to climate change, and other grand research challenges. A decade-long investment in research collection infrastructure will be needed.
Journal Article
Digitization and the Future of Natural History Collections
by
HEBERLING, J. MASON
,
GRASSA, CHRISTOPHER J.
,
DAVIS, CHARLES C.
in
Annotations
,
Anthropocene
,
Anthropogenic factors
2020
Natural history collections (NHCs) are the foundation of historical baselines for assessing anthropogenic impacts on biodiversity. Along these lines, the online mobilization of specimens via digitization—the conversion of specimen data into accessible digital content—has greatly expanded the use of NHC collections across a diversity of disciplines. We broaden the current vision of digitization (Digitization 1.0)—whereby specimens are digitized within NHCs—to include new approaches that rely on digitized products rather than the physical specimen (Digitization 2.0). Digitization 2.0 builds on the data, workflows, and infrastructure produced by Digitization 1.0 to create digital-only workflows that facilitate digitization, curation, and data links, thus returning value to physical specimens by creating new layers of annotation, empowering a global community, and developing automated approaches to advance biodiversity discovery and conservation. These efforts will transform large-scale biodiversity assessments to address fundamental questions including those pertaining to critical issues of global change.
Journal Article
The coupling of green and brown food webs regulates trophic position in a montane mammal guild
by
Cook, Joseph A.
,
Manlick, Philip J.
,
Newsome, Seth D.
in
Amino acids
,
Animals
,
biodegradation
2023
Food web ecology has revolutionized our understanding of ecological processes, but the drivers of food web properties like trophic position (TP) and food chain length are notoriously enigmatic. In terrestrial ecosystems, aboveand belowground systems were historically compartmentalized into “green” and “brown” food webs, but the coupling of these systems by animal consumers is increasingly recognized, with potential consequences for trophic structure. We used stable isotope analysis (δ13C, δ15N) of individual amino acids to trace the flow of essential biomolecules and jointly measure multichannel feeding, food web coupling, and TP in a guild of small mammals. We then tested the hypothesis that brown energy fluxes to aboveground consumers increase terrestrial food chain length via cryptic trophic transfers during microbial decomposition. We found that the average small mammal consumer acquired nearly 70% of their essential amino acids (69.0% ± 7.6%) from brown food webs, leading to significant increases in TP across species and functional groups. Fungi were the primary conduit of brown energy to aboveground consumers, providing nearly half the amino acid budget for small mammals on average (44.3% ± 12.0%). These findings illustrate the tightly coupled nature of green and brown food webs and show that microbially mediated energy flow ultimately regulates food web structure in aboveground consumers. Consequently, we propose that the integration of green and brown energy channels is a cryptic driver of food chain length in terrestrial ecosystems.
Journal Article
A perfect storm for mammalogy: declining sample availability in a period of rapid environmental degradation
2018
Natural history collections have stimulated insights into systematics and evolution, but the extensive biodiversity sampling held in museums is increasingly employed to address other critical societal concerns, especially those related to changing environmental conditions on our planet. Due to large-scale digitization efforts in the last decade, specimen information can now be collated across natural history museums. Here, we leverage the availability of digital records of specimens in the United States that span the past ∼135 years to explore the vitality of this resource. Using mammals as an example, we document a significant decline in recent specimen acquisition at a time of extreme environmental degradation and loss of mammalian populations. To stimulate rigorous assessments of the impacts of changing conditions and future-proof this basic infrastructure for mammalogy, we recommend a renewed effort to build temporally deep, geographically extensive, and site-intensive collections of holistic specimens. Targeted fieldwork should be designed to leverage historic sampling to enable retrospective environmental analyses and derive more complete perspectives of change.
Journal Article
Climate warming restructures food webs and carbon flow in high-latitude ecosystems
by
Perryman, Nolan L
,
Newsome, Seth D
,
Koltz, Amanda M
in
Amino acids
,
Assimilation
,
Biological activity
2024
Rapid warming of high-latitude ecosystems is increasing microbial activity and accelerating the decomposition of permafrost soils. This proliferation of microbial energy could restructure high-latitude food webs and alter carbon cycling between above-ground and below-ground habitats. We used stable isotope analysis (δ13C) of amino acids to trace carbon flow through food webs exposed to warming and quantified changes in the assimilation of microbial carbon by Arctic tundra and boreal forest consumers. From 1990 to 2021, small mammals in boreal forests exhibited a significant reduction in the use of plant-based ‘green’ food webs and an increased use of microbially mediated ‘brown’ food webs, punctuated by a >30% rise in fungal carbon assimilation. Similarly, fungal carbon assimilation rose 27% in wolf spiders under experimental warming in Arctic tundra. These findings reveal a climate-mediated ‘browning’ of high-latitude food webs and point to an understudied pathway by which animals can impact carbon cycling under climate warming.The authors quantify changes in carbon flow to Arctic tundra and boreal forest consumers under warming. Small-mammal specimens separated by 30 years and wolf spiders from short-term warming experiments show similar patterns of change, switching from plant-based to fungal-based food webs.
Journal Article
Preserve a Voucher Specimen! The Critical Need for Integrating Natural History Collections in Infectious Disease Studies
by
Ferguson, Adam W.
,
Paul, Deborah L.
,
Simmons, Nancy B.
in
Animals
,
Archives & records
,
Biodiversity
2021
Despite being nearly 10 months into the COVID-19 (coronavirus disease 2019) pandemic, the definitive animal host for SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2), the causal agent of COVID-19, remains unknown. Unfortunately, similar problems exist for other betacoronaviruses, and no vouchered specimens exist to corroborate host species identification for most of these pathogens. Despite being nearly 10 months into the COVID-19 (coronavirus disease 2019) pandemic, the definitive animal host for SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2), the causal agent of COVID-19, remains unknown. Unfortunately, similar problems exist for other betacoronaviruses, and no vouchered specimens exist to corroborate host species identification for most of these pathogens. This most basic information is critical to the full understanding and mitigation of emerging zoonotic diseases. To overcome this hurdle, we recommend that host-pathogen researchers adopt vouchering practices and collaborate with natural history collections to permanently archive microbiological samples and host specimens. Vouchered specimens and associated samples provide both repeatability and extension to host-pathogen studies, and using them mobilizes a large workforce (i.e., biodiversity scientists) to assist in pandemic preparedness. We review several well-known examples that successfully integrate host-pathogen research with natural history collections (e.g., yellow fever, hantaviruses, helminths). However, vouchering remains an underutilized practice in such studies. Using an online survey, we assessed vouchering practices used by microbiologists (e.g., bacteriologists, parasitologists, virologists) in host-pathogen research. A much greater number of respondents permanently archive microbiological samples than archive host specimens, and less than half of respondents voucher host specimens from which microbiological samples were lethally collected. To foster collaborations between microbiologists and natural history collections, we provide recommendations for integrating vouchering techniques and archiving of microbiological samples into host-pathogen studies. This integrative approach exemplifies the premise underlying One Health initiatives, providing critical infrastructure for addressing related issues ranging from public health to global climate change and the biodiversity crisis.
Journal Article
Advancing the central role of non-model biorepositories in predictive modeling of emerging pathogens
by
Colella, Jocelyn P.
,
Salinas, Irene
,
Cook, Joseph A.
in
Analysis
,
Archives & records
,
Artificial intelligence
2023
The COVID-19 pandemic demonstrated the insufficiency of a reactive approach to emerging zoonotic pathogens. With spillover increasing in frequency as environments change and the human footprint continues to grow, pandemic prevention will require predictive models that can identify (i) potential zoonoses with a high likelihood of emergence and (ii) environmental or other features that may trigger a shift in host, vector, or pathogen baselines associated with emergence and/or spillover. Artificial intelligence (AI), and particularly its machine learning and deep learning branches, holds enormous potential for detecting shifts in large-scale biodiversity and disease datasets (genomic, ecological, geospatial, etc.). Such algorithms can be trained to identify subtle patterns in large volumes of data to yield insights into complex phenomena for which we have limited knowledge of the true cause(s) or predictor(s), as is the case for emerging infectious diseases.
Journal Article
Biospecimen Repositories and Integrated Databases as Critical Infrastructure for Pathogen Discovery and Pathobiology Research
by
Armien, Blas
,
Johnson, Karl M.
,
Dunnum, Jonathan L.
in
Archives & records
,
Biological Specimen Banks - organization & administration
,
Biology
2017
In addition to providing wide taxonomic sampling, museums and associated databases critically tie discoveries of new pathogens to permanent host records and samples and to a series of other informatics resources (e.g., GenBank and GIS applications) that facilitate future exploration, tracking, and mitigation of novel zoonotic pathogens. Because a fundamental requirement for the designation of a new pathogen is precise identification of the reservoir taxon [1], we advocate formal incorporation of museum biorepositories and integrated databases as critical infrastructure for pathogen discovery and pathobiology research. Advantages and Disadvantages of Museum Biorepositories and Integrated Databases Advantages: * Maintains spatially broad, temporally deep and site-intensive archives of ultra-frozen vertebrate tissues * Permanently links host specimens and tissues, microbial and host genetic sequences, associated publications, and other related data or materials * Ensures that pathogen reservoir identity is not lost due to taxonomic revision * Establishes best practices for loan agreements and specimen tracking * Facilitates inclusion of museum catalog numbers in GenBank accessions prior to accepting manuscripts for publication Disadvantages: * Necessitates long-term institutional commitment to support personnel and physical infrastructure * Requires periodic inventory of the number and condition of biospecimens
Journal Article
A human pathogenic hantavirus circulates and is shed in taxonomically diverse rodent reservoirs
by
Suriyamongkol, Thanchira
,
Mali, Ivana
,
Dunnum, Jonathan L.
in
Animals
,
Archives & records
,
Disease Reservoirs - virology
2025
Orthohantaviruses are negative-sense RNA viruses that can cause hantavirus cardiopulmonary syndrome (HCPS) in humans. In the United States, Sin Nombre orthohantavirus (SNV) is the primary cause of HCPS, with a fatality rate of 36% and most cases occuring in the southwestern states. The western deer mouse, Peromyscus sonoriensis, is the primary reservoir for SNV; however, it remains unclear if alternative reservoirs exist.
We conducted an extensive survey of SNV genetic prevalence in wild-caught small mammal communities throughout New Mexico and observed that 27% of all animals were positive for SNV. Through longitudinal trapping at a site of patient exposure, we found that SNV circulates at a high rate in multiple species over time. Furthermore, we isolated live SNV from tissues and feces from multiple small mammal species, demonstrating infectious virus in alternative and novel reservoirs.
Altogether, this work shows that SNV is widely prevalent and persistent throughout New Mexico in multiple small mammal reservoirs that can harbor and shed infectious virus. This encourages future work for additional surviellance efforts and revaluates host-species dynamics for New World hantaviruses.
Journal Article