1
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Claunch NM, Goodman CM, Kluever BM, Barve N, Guralnick RP, Romagosa CM. Commonly collected thermal performance data can inform species distributions in a data-limited invader. Sci Rep 2023; 13:15880. [PMID: 37741922 PMCID: PMC10517990 DOI: 10.1038/s41598-023-43128-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2023] [Accepted: 09/20/2023] [Indexed: 09/25/2023] Open
Abstract
Predicting potential distributions of species in new areas is challenging. Physiological data can improve interpretation of predicted distributions and can be used in directed distribution models. Nonnative species provide useful case studies. Panther chameleons (Furcifer pardalis) are native to Madagascar and have established populations in Florida, USA, but standard correlative distribution modeling predicts no suitable habitat for F. pardalis there. We evaluated commonly collected thermal traits- thermal performance, tolerance, and preference-of F. pardalis and the acclimatization potential of these traits during exposure to naturally-occurring environmental conditions in North Central Florida. Though we observed temperature-dependent thermal performance, chameleons maintained similar thermal limits, performance, and preferences across seasons, despite long-term exposure to cool temperatures. Using the physiological data collected, we developed distribution models that varied in restriction: time-dependent exposure near and below critical thermal minima, predicted activity windows, and predicted performance thresholds. Our application of commonly collected physiological data improved interpretations on potential distributions of F. pardalis, compared with correlative distribution modeling approaches that predicted no suitable area in Florida. These straightforward approaches can be applied to other species with existing physiological data or after brief experiments on a limited number of individuals, as demonstrated here.
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Affiliation(s)
- Natalie M Claunch
- USDA, APHIS, Wildlife Services, National Wildlife Research Center, Florida Field Station, Gainesville, FL, USA.
- Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL, USA.
- Department of Biology, University of Florida, Gainesville, FL, USA.
- Department of Natural History, Florida Museum of Natural History, Gainesville, FL, USA.
| | - Colin M Goodman
- Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL, USA
- Department of Integrative Biology, University of South Florida, Tampa, FL, USA
| | - Bryan M Kluever
- USDA, APHIS, Wildlife Services, National Wildlife Research Center, Florida Field Station, Gainesville, FL, USA
| | - Narayani Barve
- Department of Natural History, Florida Museum of Natural History, Gainesville, FL, USA
| | - Robert P Guralnick
- Department of Natural History, Florida Museum of Natural History, Gainesville, FL, USA
| | - Christina M Romagosa
- Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL, USA
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2
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Sallam MF, Whitehead S, Barve N, Bauer A, Guralnick R, Allen J, Tavares Y, Gibson S, Linthicum KJ, Giordano BV, Campbell LP. Co-occurrence probabilities between mosquito vectors of West Nile and Eastern equine encephalitis viruses using Markov Random Fields (MRFcov). Parasit Vectors 2023; 16:10. [PMID: 36627717 PMCID: PMC9830877 DOI: 10.1186/s13071-022-05530-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2022] [Accepted: 09/22/2022] [Indexed: 01/11/2023] Open
Abstract
Mosquito vectors of eastern equine encephalitis virus (EEEV) and West Nile virus (WNV) in the USA reside within broad multi-species assemblages that vary in spatial and temporal composition, relative abundances and vector competence. These variations impact the risk of pathogen transmission and the operational management of these species by local public health vector control districts. However, most models of mosquito vector dynamics focus on single species and do not account for co-occurrence probabilities between mosquito species pairs across environmental gradients. In this investigation, we use for the first time conditional Markov Random Fields (CRF) to evaluate spatial co-occurrence patterns between host-seeking mosquito vectors of EEEV and WNV around sampling sites in Manatee County, Florida. Specifically, we aimed to: (i) quantify correlations between mosquito vector species and other mosquito species; (ii) quantify correlations between mosquito vectors and landscape and climate variables; and (iii) investigate whether the strength of correlations between species pairs are conditional on landscape or climate variables. We hypothesized that either mosquito species pairs co-occur in patterns driven by the landscape and/or climate variables, or these vector species pairs are unconditionally dependent on each other regardless of the environmental variables. Our results indicated that landscape and bioclimatic covariates did not substantially improve the overall model performance and that the log abundances of the majority of WNV and EEEV vector species were positively dependent on other vector and non-vector mosquito species, unconditionally. Only five individual mosquito vectors were weakly dependent on environmental variables with one exception, Culiseta melanura, the primary vector for EEEV, which showed a strong correlation with woody wetland, precipitation seasonality and average temperature of driest quarter. Our analyses showed that majority of the studied mosquito species' abundance and distribution are insignificantly better predicted by the biotic correlations than by environmental variables. Additionally, these mosquito vector species may be habitat generalists, as indicated by the unconditional correlation matrices between species pairs, which could have confounded our analysis, but also indicated that the approach could be operationalized to leverage species co-occurrences as indicators of vector abundances in unsampled areas, or under scenarios where environmental variables are not informative.
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Affiliation(s)
- Mohamed F. Sallam
- grid.265436.00000 0001 0421 5525Preventive Medicine and Biostatistics Department, Uniformed Service University of the Health Sciences, Bethesda, MD 20814 USA ,grid.266818.30000 0004 1936 914XDepartment of Biology, University of Nevada, Reno, NV USA
| | - Shelley Whitehead
- Whitehead Entomology Consulting, Gainesville, FL USA ,Manatee County Mosquito Control District, Palmetto, FL USA
| | - Narayani Barve
- grid.15276.370000 0004 1936 8091Department of Natural Resources, University of Florida, Gainesville, FL USA
| | - Amely Bauer
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Robert Guralnick
- grid.15276.370000 0004 1936 8091Department of Natural Resources, University of Florida, Gainesville, FL USA
| | - Julie Allen
- grid.265436.00000 0001 0421 5525Preventive Medicine and Biostatistics Department, Uniformed Service University of the Health Sciences, Bethesda, MD 20814 USA
| | - Yasmin Tavares
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Seth Gibson
- grid.417548.b0000 0004 0478 6311U.S. Department of Agriculture, Gainesville, FL USA
| | - Kenneth J. Linthicum
- grid.417548.b0000 0004 0478 6311U.S. Department of Agriculture, Gainesville, FL USA
| | - Bryan V. Giordano
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
| | - Lindsay P. Campbell
- grid.15276.370000 0004 1936 8091Florida Medical Entomology Laboratory (FMEL), Department of Entomology and Nematology, University of Florida Institute of Food and Agricultural Sciences (UF/IFAS), Gainesville, FL USA
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3
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Sloyer KE, Barve N, Kim D, Stenn T, Campbell LP, Burkett-Cadena ND. Predicting potential transmission risk of Everglades virus in Florida using mosquito blood meal identifications. Front Epidemiol 2022; 2:1046679. [PMID: 38455283 PMCID: PMC10910907 DOI: 10.3389/fepid.2022.1046679] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Accepted: 11/16/2022] [Indexed: 03/09/2024]
Abstract
The overlap between arbovirus host, arthropod vectors, and pathogen distributions in environmentally suitable habitats represents a nidus where risk for pathogen transmission may occur. Everglades virus (EVEV), subtype II Venezuelan equine encephalitis virus (VEEV), is endemic to southern Florida where it is transmitted by the endemic vector Culex cedecei between muroid rodent hosts. We developed an ecological niche model (ENM) to predict areas in Florida suitable for EVEV transmission based upon georeferenced vector-host interactions from PCR-based blood meal analysis from blood-engorged female Cx. cedecei females. Thirteen environmental variables were used for model calibration, including bioclimatic variables derived from Daymet 1 km daily temperature and precipitation values, and land use and land cover data representing percent land cover derived within a 2.5 km buffer from 2019 National Land Cover Database (NLCD) program. Maximum temperature of the warmest month, minimum temperature of the coldest month, and precipitation of the driest month contributed 31.6%, 28.5% and 19.9% to ENM performance. The land cover types contributing the greatest to the model performance were percent landcover of emergent herbaceous and woody wetlands which contributed 5.2% and 4.3% to model performance, respectively. Results of the model output showed high suitability for Cx. cedecei feeding on rodents throughout the southwestern portion of the state and pockets of high suitability along the northern east coast of Florida, while areas with low suitability included the Miami-Dade metropolitan area and most of northern Florida and the Panhandle. Comparing predicted distributions of Cx. cedecei feeding upon rodent hosts in the present study to historical human cases of EVEV disease, as well as antibodies in wildlife show substantial overlap with areas predicted moderate to highly suitable for these vector/host associations. As such, the findings of this study likely predict the most accurate distribution of the nidus of EVEV to date, indicating that this method allows for better inference of potential transmission areas than models which only consider the vector or vertebrate host species individually. A similar approach using host blood meals of other arboviruses can be used to predict potential areas of virus transmission for other vector-borne diseases.
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Affiliation(s)
- Kristin E. Sloyer
- Department of Entomology & Nematology, Florida Medical Entomology Laboratory, Institute of Food and Agricultural Sciences, University of Florida, Vero Beach, FL, United States
| | - Narayani Barve
- Department of Ecology & Evolutionary Biology, University of Tennessee, Knoxville, TN, United States
| | - Dongmin Kim
- Department of Entomology & Nematology, Florida Medical Entomology Laboratory, Institute of Food and Agricultural Sciences, University of Florida, Vero Beach, FL, United States
| | - Tanise Stenn
- Department of Entomology & Nematology, Florida Medical Entomology Laboratory, Institute of Food and Agricultural Sciences, University of Florida, Vero Beach, FL, United States
| | - Lindsay P. Campbell
- Department of Entomology & Nematology, Florida Medical Entomology Laboratory, Institute of Food and Agricultural Sciences, University of Florida, Vero Beach, FL, United States
| | - Nathan D. Burkett-Cadena
- Department of Entomology & Nematology, Florida Medical Entomology Laboratory, Institute of Food and Agricultural Sciences, University of Florida, Vero Beach, FL, United States
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4
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McLean BS, Barve N, Guralnick RP. Sex‐specific breeding phenologies in the North American deer mouse (
Peromyscus maniculatus
). Ecosphere 2022. [DOI: 10.1002/ecs2.4327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Affiliation(s)
- Bryan S. McLean
- Department of Biology University of North Carolina Greensboro Greensboro North Carolina USA
| | - Narayani Barve
- Florida Museum of Natural History University of Florida Gainesville Florida USA
| | - Robert P. Guralnick
- Florida Museum of Natural History University of Florida Gainesville Florida USA
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5
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Busby WH, Barve N, Cobos M, Peterson AT. EFFECTS OF LANDSCAPE HISTORY ON CURRENT GEOGRAPHIC DISTRIBUTIONS OF FOUR SPECIES OF REPTILES AND AMPHIBIANS IN KANSAS. SOUTHWEST NAT 2022. [DOI: 10.1894/0038-4909-66.2.157] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Affiliation(s)
- William H. Busby
- Kansas Biological Survey, University of Kansas, Lawrence, KS 66047 (WHB)
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611 (NB)
| | - Marlon Cobos
- Biodiversity Institute, University of Kansas, Lawrence, KS 66045 (NB, MC, ATP)
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6
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Nuñez‐Penichet C, Cobos ME, Soberón J, Gueta T, Barve N, Barve V, Navarro‐Sigüenza AG, Peterson AT. Selection of sampling sites for biodiversity inventory: effects of environmental and geographic considerations. Methods Ecol Evol 2022. [DOI: 10.1111/2041-210x.13869] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
- Claudia Nuñez‐Penichet
- Biodiversity Institute and Department of Ecology & Evolutionary Biology University of Kansas KS USA
| | - Marlon E. Cobos
- Biodiversity Institute and Department of Ecology & Evolutionary Biology University of Kansas KS USA
| | - Jorge Soberón
- Biodiversity Institute and Department of Ecology & Evolutionary Biology University of Kansas KS USA
| | - Tomer Gueta
- Faculty of Civil and Environmental Engineering Technion Israel Institute of Technology Haifa
| | - Narayani Barve
- Florida Museum of Natural History University of Florida Gainesville FL USA
| | - Vijay Barve
- Florida Museum of Natural History University of Florida Gainesville FL USA
- Department of Entomology Purdue University West Lafayette IN USA
| | | | - A. Townsend Peterson
- Biodiversity Institute and Department of Ecology & Evolutionary Biology University of Kansas KS USA
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7
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Amarasinghe P, Barve N, Kathriarachchi H, Loiselle B, Cellinese N. Niche dynamics of Memecylon in Sri Lanka: Distribution patterns, climate change effects, and conservation priorities. Ecol Evol 2021; 11:18196-18215. [PMID: 35003667 PMCID: PMC8717329 DOI: 10.1002/ece3.8415] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Revised: 10/23/2021] [Accepted: 11/12/2021] [Indexed: 12/02/2022] Open
Abstract
Recent climate projections have shown that the distribution of organisms in island biotas is highly affected by climate change. Here, we present the result of the analysis of niche dynamics of a plant group, Memecylon, in Sri Lanka, an island, using species occurrences and climate data. We aim to determine which climate variables explain current distribution, model how climate change impacts the availability of suitable habitat for Memecylon, and determine conservation priority areas for Sri Lankan Memecylon. We used georeferenced occurrence data of Sri Lankan Memecylon to develop ecological niche models and assess both current and future potential distributions under six climate change scenarios in 2041-2060 and 2061-2080. We also overlaid land cover and protected area maps and performed a gap analysis to understand the impacts of land-cover changes on Memecylon distributions and propose new areas for conservation. Differences among suitable habitats of Memecylon were found to be related to patterns of endemism. Under varying future climate scenarios, endemic groups were predicted to experience habitat shifts, gains, or losses. The narrow endemic Memecylon restricted to the montane zone were predicted to be the most impacted by climate change. Projections also indicated that changes in species' habitats can be expected as early as 2041-2060. Gap analysis showed that while narrow endemic categories are considerably protected as demonstrated by their overlap with protected areas, more conservation efforts in Sri Lankan forests containing wide endemic and nonendemic Memecylon are needed. This research helped clarify general patterns of responses of Sri Lankan Memecylon to global climate change. Data from this study are useful for designing measures aimed at filling the gaps in forest conservation on this island.
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Affiliation(s)
- Prabha Amarasinghe
- Department of BiologyUniversity of FloridaGainesvilleFloridaUSA
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFloridaUSA
- Biodiversity InstituteUniversity of FloridaGainesvilleFloridaUSA
- Cooperative Agricultural Research CenterPrairie View A&M UniversityPrairie ViewTexasUSA
| | - Narayani Barve
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFloridaUSA
| | | | - Bette Loiselle
- Biodiversity InstituteUniversity of FloridaGainesvilleFloridaUSA
- Department of Wildlife Ecology and ConservationUniversity of FloridaGainesvilleFloridaUSA
- Tropical Conservation and Development ProgramCenter for Latin American StudiesGainesvilleFloridaUSA
| | - Nico Cellinese
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFloridaUSA
- Biodiversity InstituteUniversity of FloridaGainesvilleFloridaUSA
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8
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Belitz MW, Barve V, Doby JR, Hantak MM, Larsen EA, Li D, Oswald JA, Sewnath N, Walters M, Barve N, Earl K, Gardner N, Guralnick RP, Stucky BJ. Climate drivers of adult insect activity are conditioned by life history traits. Ecol Lett 2021; 24:2687-2699. [PMID: 34636143 DOI: 10.1111/ele.13889] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2021] [Revised: 08/27/2021] [Accepted: 08/27/2021] [Indexed: 02/04/2023]
Abstract
Insect phenological lability is key for determining which species will adapt under environmental change. However, little is known about when adult insect activity terminates and overall activity duration. We used community-science and museum specimen data to investigate the effects of climate and urbanisation on timing of adult insect activity for 101 species varying in life history traits. We found detritivores and species with aquatic larval stages extend activity periods most rapidly in response to increasing regional temperature. Conversely, species with subterranean larval stages have relatively constant durations regardless of regional temperature. Species extended their period of adult activity similarly in warmer conditions regardless of voltinism classification. Longer adult durations may represent a general response to warming, but voltinism data in subtropical environments are likely underreported. This effort provides a framework to address the drivers of adult insect phenology at continental scales and a basis for predicting species response to environmental change.
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Affiliation(s)
- Michael W Belitz
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Vijay Barve
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,Department of Entomology, Purdue University, West Lafayette, Indiana, USA
| | - Joshua R Doby
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Maggie M Hantak
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Elise A Larsen
- Department of Biology, Georgetown University, Washington, District of Columbia, USA
| | - Daijiang Li
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisina, USA.,Center for Computation & Technology, Louisiana State University, Baton Rouge, Louisina, USA
| | - Jessica A Oswald
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,Biology Department, University of Nevada Reno, Reno, Nevada, USA
| | - Neeka Sewnath
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Mitchell Walters
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Kamala Earl
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Nicholas Gardner
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Robert P Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Brian J Stucky
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
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9
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Earl C, Belitz MW, Laffan SW, Barve V, Barve N, Soltis DE, Allen JM, Soltis PS, Mishler BD, Kawahara AY, Guralnick R. Spatial phylogenetics of butterflies in relation to environmental drivers and angiosperm diversity across North America. iScience 2021; 24:102239. [PMID: 33997666 PMCID: PMC8101049 DOI: 10.1016/j.isci.2021.102239] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Revised: 11/13/2020] [Accepted: 02/23/2021] [Indexed: 11/25/2022] Open
Abstract
Broad-scale, quantitative assessments of insect biodiversity and the factors shaping it remain particularly poorly explored. Here we undertook a spatial phylogenetic analysis of North American butterflies to test whether climate stability and temperature gradients have shaped their diversity and endemism. We also performed the first quantitative comparisons of spatial phylogenetic patterns between butterflies and flowering plants. We expected concordance between the two groups based on shared historical environmental drivers and presumed strong butterfly-host plant specializations. We instead found that biodiversity patterns in butterflies are strikingly different from flowering plants, especially warm deserts. In particular, butterflies show different patterns of phylogenetic clustering compared with flowering plants, suggesting differences in habitat conservation between the two groups. These results suggest that shared biogeographic histories and trophic associations do not necessarily assure similar diversity outcomes. The work has applied value in conservation planning, documenting warm deserts as a North American butterfly biodiversity hotspot.
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Affiliation(s)
- Chandra Earl
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Genetics Institute, University of Florida, Gainesville, FL 32611, USA
| | - Michael W. Belitz
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Department of Biology, University of Florida, Gainesville, FL 32611, USA
- Biodiversity Institute, University of Florida, Gainesville, FL 32611, USA
| | - Shawn W. Laffan
- School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Vijay Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Douglas E. Soltis
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Genetics Institute, University of Florida, Gainesville, FL 32611, USA
- Department of Biology, University of Florida, Gainesville, FL 32611, USA
- Biodiversity Institute, University of Florida, Gainesville, FL 32611, USA
| | - Julie M. Allen
- Department of Biology, University of Nevada, Reno, Reno, NV 89557, USA
| | - Pamela S. Soltis
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Genetics Institute, University of Florida, Gainesville, FL 32611, USA
- Biodiversity Institute, University of Florida, Gainesville, FL 32611, USA
| | - Brent D. Mishler
- University of Jepson Herbaria, University of California, Berkeley, CA 94720, USA
- Department of Integrative Biology, University of California, Berkeley, CA 94720, USA
| | - Akito Y. Kawahara
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Genetics Institute, University of Florida, Gainesville, FL 32611, USA
- Department of Biology, University of Florida, Gainesville, FL 32611, USA
| | - Robert Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
- Genetics Institute, University of Florida, Gainesville, FL 32611, USA
- Department of Biology, University of Florida, Gainesville, FL 32611, USA
- Biodiversity Institute, University of Florida, Gainesville, FL 32611, USA
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10
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Li D, Barve N, Brenskelle L, Earl K, Barve V, Belitz MW, Doby J, Hantak MM, Oswald JA, Stucky BJ, Walters M, Guralnick RP. Climate, urbanization, and species traits interactively drive flowering duration. Glob Chang Biol 2021; 27:892-903. [PMID: 33249694 DOI: 10.1111/gcb.15461] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Accepted: 11/04/2020] [Indexed: 05/23/2023]
Abstract
A wave of green leaves and multi-colored flowers advances from low to high latitudes each spring. However, little is known about how flowering offset (i.e., ending of flowering) and duration of populations of the same species vary along environmental gradients. Understanding these patterns is critical for predicting the effects of future climate and land-use change on plants, pollinators, and herbivores. Here, we investigated potential climatic and landscape drivers of flowering onset, offset, and duration of 52 plant species with varying key traits. We generated phenology estimates using >270,000 community-science photographs and a novel presence-only phenometric estimation method. We found longer flowering durations in warmer areas, which is more obvious for summer-blooming species compared to spring-bloomers driven by their strongly differing offset dynamics. We also found that higher human population density and higher annual precipitation are associated with delayed flowering offset and extended flowering duration. Finally, offset of woody perennials was more sensitive than herbaceous species to both climate and urbanization drivers. Empirical forecast models suggested that flowering durations will be longer in 2030 and 2050 under representative concentration pathway (RCP) 8.5, especially for summer-blooming species. Our study provides critical insight into drivers of key flowering phenophases and confirms that Hopkins' Bioclimatic Law also applies to flowering durations for summer-blooming species and herbaceous spring-blooming species.
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Affiliation(s)
- Daijiang Li
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA
- Center for Computation & Technology, Louisiana State University, Baton Rouge, LA, USA
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Laura Brenskelle
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Kamala Earl
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Vijay Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Michael W Belitz
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Joshua Doby
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Maggie M Hantak
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Jessica A Oswald
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
- Biology Department, University of Nevada Reno, Reno, NV, USA
| | - Brian J Stucky
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Mitch Walters
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Robert P Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
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11
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Osorio‐Olvera L, Lira‐Noriega A, Soberón J, Peterson AT, Falconi M, Contreras‐Díaz RG, Martínez‐Meyer E, Barve V, Barve N. ntbox
: An
r
package with graphical user interface for modelling and evaluating multidimensional ecological niches. Methods Ecol Evol 2020. [DOI: 10.1111/2041-210x.13452] [Citation(s) in RCA: 94] [Impact Index Per Article: 23.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Luis Osorio‐Olvera
- Departamento de Matemáticas Facultad de Ciencias Universidad Nacional Autónoma de México Ciudad de México México
- Biodiversity Institute University of Kansas Lawrence KS USA
| | - Andrés Lira‐Noriega
- CONACyT Research Fellow, Red de Estudios Moleculares Avanzados‐Instituto de Ecología Veracruz México
| | - Jorge Soberón
- Biodiversity Institute University of Kansas Lawrence KS USA
| | | | - Manuel Falconi
- Departamento de Matemáticas Facultad de Ciencias Universidad Nacional Autónoma de México Ciudad de México México
| | - Rusby G. Contreras‐Díaz
- Departamento de Matemáticas Facultad de Ciencias Universidad Nacional Autónoma de México Ciudad de México México
- Posgrado en Ciencias Biológicas, Unidad de Posgrado, Edificio A, Circuito de Posgrados Ciudad Universitaria Ciudad de México México
| | - Enrique Martínez‐Meyer
- Instituto de Biología Universidad Nacional Autónoma de México México City México
- Centro del Cambio Global y la Sustentabilidad en el Sureste A.C. Villahermosa Mexico
| | - Vijay Barve
- Florida Museum of Natural History University of Florida Gainesville FL USA
| | - Narayani Barve
- Florida Museum of Natural History University of Florida Gainesville FL USA
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Owens HL, Ribeiro V, Saupe EE, Cobos ME, Hosner PA, Cooper JC, Samy AM, Barve V, Barve N, Muñoz‐R. CJ, Peterson AT. Acknowledging uncertainty in evolutionary reconstructions of ecological niches. Ecol Evol 2020; 10:6967-6977. [PMID: 32760505 PMCID: PMC7391559 DOI: 10.1002/ece3.6359] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Revised: 04/07/2020] [Accepted: 04/22/2020] [Indexed: 01/05/2023] Open
Abstract
Reconstructing ecological niche evolution can provide insight into the biogeography and diversification of evolving lineages. However, comparative phylogenetic methods may infer the history of ecological niche evolution inaccurately because (a) species' niches are often poorly characterized; and (b) phylogenetic comparative methods rely on niche summary statistics rather than full estimates of species' environmental tolerances. Here, we propose a new framework for coding ecological niches and reconstructing their evolution that explicitly acknowledges and incorporates the uncertainty introduced by incomplete niche characterization. Then, we modify existing ancestral state inference methods to leverage full estimates of environmental tolerances. We provide a worked empirical example of our method, investigating ecological niche evolution in the New World orioles (Aves: Passeriformes: Icterus spp.). Temperature and precipitation tolerances were generally broad and conserved among orioles, with niche reduction and specialization limited to a few terminal branches. Tools for performing these reconstructions are available in a new R package called nichevol.
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Affiliation(s)
- Hannah L. Owens
- Center for Macroecology, Evolution, and ClimateGLOBE InstituteUniversity of CopenhagenCopenhagenDenmark
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | | | - Erin E. Saupe
- Department of Earth SciencesUniversity of OxfordOxfordUK
| | | | - Peter A. Hosner
- Center for Macroecology, Evolution, and ClimateGLOBE InstituteUniversity of CopenhagenCopenhagenDenmark
| | - Jacob C. Cooper
- Committee on Evolutionary BiologyThe University of ChicagoChicagoILUSA
| | - Abdallah M. Samy
- Entomology DepartmentFaculty of ScienceAin Shams UniversityCairoEgypt
| | - Vijay Barve
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | - Narayani Barve
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | - Carlos J. Muñoz‐R.
- Laboratorio de Análisis EspacialesInstituto de BiologíaUniversidad Nacional Autónoma de MéxicoCiudad de MéxicoMexico
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Correa-Lima APA, Varassin IG, Barve N, Zwiener VP. Spatio-temporal effects of climate change on the geographical distribution and flowering phenology of hummingbird-pollinated plants. Ann Bot 2019; 124:389-398. [PMID: 31310652 PMCID: PMC6798834 DOI: 10.1093/aob/mcz079] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2018] [Accepted: 06/05/2019] [Indexed: 06/10/2023]
Abstract
BACKGROUNDS AND AIMS Tropical plant species are already suffering the effects of climate change and projections warn of even greater changes in the following decades. Of particular concern are alterations in flowering phenology, given that it is considered a fitness trait, part of plant species ecological niche, with potential cascade effects in plant-pollinator interactions. The aim of the study was to assess the potential impacts of climate change on the geographical distribution and flowering phenology of hummingbird-pollinated plants. METHODS We implemented ecological niche modelling (ENM) to investigate the potential impacts of different climate change scenarios on the geographical distribution and flowering phenology of 62 hummingbird-pollinated plant species in the Brazilian Atlantic Forest. KEY RESULTS Distribution models indicate future changes in the climatic suitability of their current habitats, suggesting a tendency towards discontinuity, reduction and spatial displacement. Flowering models indicate that climate can influence species phenology in different ways: some species may experience increased flowering suitability whereas others may suffer decreased suitability. CONCLUSIONS Our results suggest that hummingbird-pollinated species are prone to changes in their geographical distribution and flowering under different climate scenarios. Such variation may impact the community structure of ecological networks and reproductive success of tropical plants in the near future.
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Affiliation(s)
| | - Isabela Galarda Varassin
- Departamento de Botânica, Universidade Federal do Paraná, Campus Centro Politécnico, Curitiba, Paraná, Brazil
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Victor Pereira Zwiener
- Departamento de Biodiversidade, Universidade Federal do Paraná, Palotina, Paraná, Brazil
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14
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Ball-Damerow JE, Brenskelle L, Barve N, Soltis PS, Sierwald P, Bieler R, LaFrance R, Ariño AH, Guralnick RP. Research applications of primary biodiversity databases in the digital age. PLoS One 2019; 14:e0215794. [PMID: 31509534 PMCID: PMC6738577 DOI: 10.1371/journal.pone.0215794] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Accepted: 07/13/2019] [Indexed: 01/21/2023] Open
Abstract
Our world is in the midst of unprecedented change-climate shifts and sustained, widespread habitat degradation have led to dramatic declines in biodiversity rivaling historical extinction events. At the same time, new approaches to publishing and integrating previously disconnected data resources promise to help provide the evidence needed for more efficient and effective conservation and management. Stakeholders have invested considerable resources to contribute to online databases of species occurrences. However, estimates suggest that only 10% of biocollections are available in digital form. The biocollections community must therefore continue to promote digitization efforts, which in part requires demonstrating compelling applications of the data. Our overarching goal is therefore to determine trends in use of mobilized species occurrence data since 2010, as online systems have grown and now provide over one billion records. To do this, we characterized 501 papers that use openly accessible biodiversity databases. Our standardized tagging protocol was based on key topics of interest, including: database(s) used, taxa addressed, general uses of data, other data types linked to species occurrence data, and data quality issues addressed. We found that the most common uses of online biodiversity databases have been to estimate species distribution and richness, to outline data compilation and publication, and to assist in developing species checklists or describing new species. Only 69% of papers in our dataset addressed one or more aspects of data quality, which is low considering common errors and biases known to exist in opportunistic datasets. Globally, we find that biodiversity databases are still in the initial stages of data compilation. Novel and integrative applications are restricted to certain taxonomic groups and regions with higher numbers of quality records. Continued data digitization, publication, enhancement, and quality control efforts are necessary to make biodiversity science more efficient and relevant in our fast-changing environment.
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Affiliation(s)
| | - Laura Brenskelle
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
| | - Pamela S. Soltis
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
| | - Petra Sierwald
- Field Museum of Natural History, Chicago, IL, United States of America
| | - Rüdiger Bieler
- Field Museum of Natural History, Chicago, IL, United States of America
| | - Raphael LaFrance
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
| | - Arturo H. Ariño
- Department of Environmental Biology, Universidad de Navarra, Pamplona, Spain
| | - Robert P. Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
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15
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McLean BS, Barve N, Flenniken J, Guralnick RP. Evolution of litter size in North America’s most common small mammal: an informatics-based approach. J Mammal 2019. [DOI: 10.1093/jmammal/gyz057] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Affiliation(s)
- Bryan S McLean
- University of Florida, Florida Museum of Natural History, Gainesville, FL, USA
- Department of Biology, University of North Carolina at Greensboro, Greensboro, NC, USA
| | - Narayani Barve
- University of Florida, Florida Museum of Natural History, Gainesville, FL, USA
| | - Jeffry Flenniken
- University of Florida, Florida Museum of Natural History, Gainesville, FL, USA
| | - Robert P Guralnick
- University of Florida, Florida Museum of Natural History, Gainesville, FL, USA
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Stucky BJ, Balhoff JP, Barve N, Barve V, Brenskelle L, Brush MH, Dahlem GA, Gilbert JDJ, Kawahara AY, Keller O, Lucky A, Mayhew PJ, Plotkin D, Seltmann KC, Talamas E, Vaidya G, Walls R, Yoder M, Zhang G, Guralnick R. Developing a vocabulary and ontology for modeling insect natural history data: example data, use cases, and competency questions. Biodivers Data J 2019; 7:e33303. [PMID: 30918448 PMCID: PMC6426826 DOI: 10.3897/bdj.7.e33303] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Accepted: 02/28/2019] [Indexed: 11/12/2022] Open
Abstract
Insects are possibly the most taxonomically and ecologically diverse class of multicellular organisms on Earth. Consequently, they provide nearly unlimited opportunities to develop and test ecological and evolutionary hypotheses. Currently, however, large-scale studies of insect ecology, behavior, and trait evolution are impeded by the difficulty in obtaining and analyzing data derived from natural history observations of insects. These data are typically highly heterogeneous and widely scattered among many sources, which makes developing robust information systems to aggregate and disseminate them a significant challenge. As a step towards this goal, we report initial results of a new effort to develop a standardized vocabulary and ontology for insect natural history data. In particular, we describe a new database of representative insect natural history data derived from multiple sources (but focused on data from specimens in biological collections), an analysis of the abstract conceptual areas required for a comprehensive ontology of insect natural history data, and a database of use cases and competency questions to guide the development of data systems for insect natural history data. We also discuss data modeling and technology-related challenges that must be overcome to implement robust integration of insect natural history data.
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Affiliation(s)
- Brian J. Stucky
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - James P. Balhoff
- Renaissance Computing Institute, University of North Carolina, Chapel Hill, NC, United States of AmericaRenaissance Computing Institute, University of North CarolinaChapel Hill, NCUnited States of America
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - Vijay Barve
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - Laura Brenskelle
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - Matthew H. Brush
- Oregon Health and Science University, Portland, OR, United States of AmericaOregon Health and Science UniversityPortland, ORUnited States of America
| | - Gregory A Dahlem
- Department of Biological Sciences, Northern Kentucky University, Highland Heights, KY, United States of AmericaDepartment of Biological Sciences, Northern Kentucky UniversityHighland Heights, KYUnited States of America
| | - James D. J. Gilbert
- Department of Biological and Marine Sciences, University of Hull, Hull, United KingdomDepartment of Biological and Marine Sciences, University of HullHullUnited Kingdom
| | - Akito Y. Kawahara
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
- Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of AmericaEntomology and Nematology Department, University of FloridaGainesville, FLUnited States of America
| | - Oliver Keller
- Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of AmericaEntomology and Nematology Department, University of FloridaGainesville, FLUnited States of America
| | - Andrea Lucky
- Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of AmericaEntomology and Nematology Department, University of FloridaGainesville, FLUnited States of America
| | - Peter J. Mayhew
- Department of Biology, University of York, York, United KingdomDepartment of Biology, University of YorkYorkUnited Kingdom
| | - David Plotkin
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | | | - Elijah Talamas
- Florida Department of Agriculture and Consumer Services, Gainesville, FL, United States of AmericaFlorida Department of Agriculture and Consumer ServicesGainesville, FLUnited States of America
| | - Gaurav Vaidya
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - Ramona Walls
- Bio5 and CyVerse, University of Arizona, Tucson, AZ, United States of AmericaBio5 and CyVerse, University of ArizonaTucson, AZUnited States of America
| | - Matt Yoder
- Species File Group, Illinois Natural History Survey, University of Illinois, Champaign, IL, United States of AmericaSpecies File Group, Illinois Natural History Survey, University of IllinoisChampaign, ILUnited States of America
| | - Guanyang Zhang
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
| | - Rob Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of AmericaFlorida Museum of Natural History, University of FloridaGainesville, FLUnited States of America
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17
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Cobos ME, Peterson AT, Barve N, Osorio-Olvera L. kuenm: an R package for detailed development of ecological niche models using Maxent. PeerJ 2019; 7:e6281. [PMID: 30755826 PMCID: PMC6368831 DOI: 10.7717/peerj.6281] [Citation(s) in RCA: 229] [Impact Index Per Article: 45.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2018] [Accepted: 12/13/2018] [Indexed: 02/02/2023] Open
Abstract
Background Ecological niche modeling is a set of analytical tools with applications in diverse disciplines, yet creating these models rigorously is now a challenging task. The calibration phase of these models is critical, but despite recent attempts at providing tools for performing this step, adequate detail is still missing. Here, we present the kuenm R package, a new set of tools for performing detailed development of ecological niche models using the platform Maxent in a reproducible way. Results This package takes advantage of the versatility of R and Maxent to enable detailed model calibration and selection, final model creation and evaluation, and extrapolation risk analysis. Best parameters for modeling are selected considering (1) statistical significance, (2) predictive power, and (3) model complexity. For final models, we enable multiple parameter sets and model transfers, making processing simpler. Users can also evaluate extrapolation risk in model transfers via mobility-oriented parity (MOP) metric. Discussion Use of this package allows robust processes of model calibration, facilitating creation of final models based on model significance, performance, and simplicity. Model transfers to multiple scenarios, also facilitated in this package, significantly reduce time invested in performing these tasks. Finally, efficient assessments of strict-extrapolation risks in model transfers via the MOP and MESS metrics help to prevent overinterpretation in model outcomes.
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Affiliation(s)
- Marlon E Cobos
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, United States of America
| | - A Townsend Peterson
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, United States of America
| | - Narayani Barve
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, United States of America.,Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America
| | - Luis Osorio-Olvera
- Biodiversity Institute and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS, United States of America.,Facultad de Ciencias, Universidad Nacional Autónoma de México, Ciudad de México, México, Mexico.,Centro del Cambio Global y la Sustentabilidad A.C., Villahermosa, Tabasco, Mexico
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Saupe EE, Barve N, Owens HL, Cooper JC, Hosner PA, Peterson AT. Reconstructing Ecological Niche Evolution When Niches Are Incompletely Characterized. Syst Biol 2018; 67:428-438. [PMID: 29088474 DOI: 10.1093/sysbio/syx084] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Accepted: 10/24/2017] [Indexed: 12/28/2022] Open
Abstract
Evolutionary dynamics of abiotic ecological niches across phylogenetic history can shed light on large-scale biogeographic patterns, macroevolutionary rate shifts, and the relative ability of lineages to respond to global change. An unresolved question is how best to represent and reconstruct evolution of these complex traits at coarse spatial scales through time. Studies have approached this question by integrating phylogenetic comparative methods with niche estimates inferred from correlative and other models. However, methods for estimating niches often produce incomplete characterizations, as they are inferred from present-day distributions that may be limited in full expression of the fundamental ecological niche by biotic interactions, dispersal limitations, and the existing set of environmental conditions. Here, we test whether incomplete niche characterizations inherent in most estimates of species' niches bias phylogenetic reconstructions of niche evolution, using simulations of virtual species with known niches. Results establish that incompletely characterized niches inflate estimates of evolutionary change and lead to error in ancestral state reconstructions. Our analyses also provide a potential mechanism to explain the frequent observation that maximum thermal tolerances are more conserved than minimum thermal tolerances: populations and species experience more spatial variation in minimum temperature than in maximum temperature across their distributions and, consequently, may experience stronger diversifying selection for cold tolerance.
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Affiliation(s)
- Erin E Saupe
- Department of Earth Sciences, University of Oxford, South Parks Road, Oxford OX1 3AN, UK
| | - Narayani Barve
- Florida Museum of Natural History, University of Florida, Dickinson Hall, 1659 Museum Road Gainesville, FL 32611, USA
| | - Hannah L Owens
- Florida Museum of Natural History, University of Florida, Dickinson Hall, 1659 Museum Road Gainesville, FL 32611, USA
| | - Jacob C Cooper
- Committee on Evolutionary Biology, University of Chicago, 1025 East 57th Street, IL 60637, USA
| | - Peter A Hosner
- Department of Biology, University of Florida, 220 Bartram Hall, Gainesville, FL 32611, USA
| | - A Townsend Peterson
- Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS 66045, USA
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Patwardhan A, Pimputkar M, Mhaskar M, Agarwal P, Barve N, Gunaga R, Mirgal A, Salunkhe C, Vasudeva R. Distribution and Population Status of Threatened Medicinal Tree Saraca asoca (Roxb.) De Wilde from Sahyadri-Konkan Ecological Corridor. CURR SCI INDIA 2016. [DOI: 10.18520/cs/v111/i9/1500-1506] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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20
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Barve N, Martin CE, Peterson AT. Climatic niche and flowering and fruiting phenology of an epiphytic plant. AoB Plants 2015; 7:plv108. [PMID: 26359490 PMCID: PMC4597125 DOI: 10.1093/aobpla/plv108] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/11/2015] [Accepted: 08/06/2015] [Indexed: 06/05/2023]
Abstract
Species have geographic distributions constrained by combinations of abiotic factors, biotic factors and dispersal-related factors. Abiotic requirements vary across the life stages for a species; for plant species, a particularly important life stage is when the plant flowers and develops seeds. A previous year-long experiment showed that ambient temperature of 5-35 °C, relative humidity of >50 % and ≤15 consecutive rainless days are crucial abiotic conditions for Spanish moss (Tillandsia usneoides L.). Here, we explore whether these optimal physiological intervals relate to the timing of the flowering and fruiting periods of Spanish moss across its range. As Spanish moss has a broad geographic range, we examined herbarium specimens to detect and characterize flowering/fruiting periods for the species across the Americas; we used high-temporal-resolution climatic data to assess the availability of optimal conditions for Spanish moss populations during each population's flowering period. We explored how long populations experience suboptimal conditions and found that most populations experience suboptimal conditions in at least one environmental dimension. Flowering and fruiting periods of Spanish moss populations are either being optimized for one or a few parameters or may be adjusted such that all parameters are suboptimal. Spanish moss populations appear to be constrained most closely by minimum temperature during this period.
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Affiliation(s)
- Narayani Barve
- Biodiversity Institute, University of Kansas, 1345 Jayhawk Blvd, Lawrence, KS 66045, USA Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045, USA
| | - Craig E Martin
- Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045, USA
| | - A Townsend Peterson
- Biodiversity Institute, University of Kansas, 1345 Jayhawk Blvd, Lawrence, KS 66045, USA Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045, USA
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21
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Manthey JD, Campbell LP, Saupe EE, Soberón J, Hensz CM, Myers CE, Owens HL, Ingenloff K, Peterson AT, Barve N, Lira-Noriega A, Barve V. A test of niche centrality as a determinant of population trends and conservation status in threatened and endangered North American birds. ENDANGER SPECIES RES 2015. [DOI: 10.3354/esr00646] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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Nagaraju SK, Gudasalamani R, Barve N, Ghazoul J, Narayanagowda GK, Ramanan US. Do ecological niche model predictions reflect the adaptive landscape of species?: a test using Myristica malabarica Lam., an endemic tree in the Western Ghats, India. PLoS One 2013; 8:e82066. [PMID: 24312402 PMCID: PMC3843714 DOI: 10.1371/journal.pone.0082066] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2013] [Accepted: 10/21/2013] [Indexed: 12/04/2022] Open
Abstract
Ecological niche models (ENM) have become a popular tool to define and predict the "ecological niche" of a species. An implicit assumption of the ENMs is that the predicted ecological niche of a species actually reflects the adaptive landscape of the species. Thus in sites predicted to be highly suitable, species would have maximum fitness compared to in sites predicted to be poorly suitable. As yet there are very few attempts to address this assumption. Here we evaluate this assumption. We used Bioclim (DIVA GIS version 7.3) and Maxent (version 3.3.2) to predict the habitat suitability of Myristica malabarica Lam., an economically important tree occurring in the Western Ghats, India. We located populations of the trees naturally occurring in different habitat suitability regimes (from highly suitable to poorly suitable) and evaluated them for their regeneration ability and genetic diversity. We also evaluated them for two plant functional traits, fluctuating asymmetry--an index of genetic homeostasis, and specific leaf weight--an index of primary productivity, often assumed to be good surrogates of fitness. We show a significant positive correlation between the predicted habitat quality and plant functional traits, regeneration index and genetic diversity of populations. Populations at sites predicted to be highly suitable had a higher regeneration and gene diversity compared to populations in sites predicted to be poor or unsuitable. Further, individuals in the highly suitable sites exhibited significantly less fluctuating asymmetry and significantly higher specific leaf weight compared to individuals in the poorly suitable habitats. These results for the first time provide an explicit test of the ENM with respect to the plant functional traits, regeneration ability and genetic diversity of populations along a habitat suitability gradient. We discuss the implication of these results for designing viable species conservation and restoration programs.
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Affiliation(s)
- Shivaprakash K. Nagaraju
- Department of Crop Physiology, University of Agricultural Sciences, Bangalore, Karnataka, India
- School of Ecology and Conservation, University of Agricultural Sciences, Bangalore, Karnataka, India
- Department of Biology and Centre for Structural and Functional Genomics, Concordia University, Montréal, Québec, Canada
- Québec Centre for Biodiversity Science, Montréal, Québec, Canada
| | - Ravikanth Gudasalamani
- School of Ecology and Conservation, University of Agricultural Sciences, Bangalore, Karnataka, India
- Conservation Genetics Laboratory, Ashoka Trust for Research in Ecology and the Environment, Bangalore, Karnataka, India
| | - Narayani Barve
- Biodiversity Institute, University of Kansas, Lawrence, Kansas, United States of America
| | - Jaboury Ghazoul
- Ecosystem Management, Institute for Terrestrial Ecosystems, Zurich, Switzerland
| | - Ganeshaiah Kotiganahalli Narayanagowda
- School of Ecology and Conservation, University of Agricultural Sciences, Bangalore, Karnataka, India
- Conservation Genetics Laboratory, Ashoka Trust for Research in Ecology and the Environment, Bangalore, Karnataka, India
- Department of Forestry and Environmental Sciences, University of Agricultural Sciences, Bangalore, Karnataka, India
| | - Uma Shaanker Ramanan
- Department of Crop Physiology, University of Agricultural Sciences, Bangalore, Karnataka, India
- School of Ecology and Conservation, University of Agricultural Sciences, Bangalore, Karnataka, India
- Conservation Genetics Laboratory, Ashoka Trust for Research in Ecology and the Environment, Bangalore, Karnataka, India
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Santos AR, Barbosa E, Fiaux K, Zurita-Turk M, Chaitankar V, Kamapantula B, Abdelzaher A, Ghosh P, Tiwari S, Barve N, Jain N, Barh D, Silva A, Miyoshi A, Azevedo V. PANNOTATOR: an automated tool for annotation of pan-genomes. Genet Mol Res 2013; 12:2982-9. [PMID: 24065654 DOI: 10.4238/2013.august.16.2] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Due to next-generation sequence technologies, sequencing of bacterial genomes is no longer one of the main bottlenecks in bacterial research and the number of new genomes deposited in public databases continues to increase at an accelerating rate. Among these new genomes, several belong to the same species and were generated for pan-genomic studies. A pan-genomic study allows investigation of strain phenotypic differences based on genotypic differences. Along with a need for good assembly quality, it is also fundamental to guarantee good functional genome annotation of the different strains. In order to ensure quality and standards for functional genome annotation among different strains, we developed and made available PANNOTATOR (http://bnet.egr.vcu.edu/iioab/agenote.php), a web-based automated pipeline for the annotation of closely related and well-suited genomes for pan-genome studies, aiming at reducing the manual work to generate reports and corrections of various genome strains. PANNOTATOR achieved 98 and 76% of correctness for gene name and function, respectively, as result of an annotation transfer, with a similarity cut-off of 70%, compared with a gold standard annotation for the same species. These results surpassed the RAST and BASys softwares by 41 and 21% and 66 and 17% for gene name and function annotation, respectively, when there were reliable genome annotations of closely related species. PANNOTATOR provides fast and reliable pan-genome annotation; thereby allowing us to maintain the research focus on the main genotype differences between strains.
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Affiliation(s)
- A R Santos
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil
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Bawa K, Rose J, Ganeshaiah K, Barve N, Kiran M, Umashaanker R. Assessing Biodiversity from Space: an Example from the Western Ghats, India. ACTA ACUST UNITED AC 2002. [DOI: 10.5751/es-00434-060207] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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