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Ellis KS, Anteau MJ, MacDonald GJ, Swift RJ, Ring MM, Toy DL, Sherfy MH, Post van der Burg M. Data integration reveals dynamic and systematic patterns of breeding habitat use by a threatened shorebird. Sci Rep 2023; 13:6087. [PMID: 37055434 PMCID: PMC10102276 DOI: 10.1038/s41598-023-32886-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Accepted: 04/04/2023] [Indexed: 04/15/2023] Open
Abstract
Incorporating species distributions into conservation planning has traditionally involved long-term representations of habitat use where temporal variation is averaged to reveal habitats that are most suitable across time. Advances in remote sensing and analytical tools have allowed for the integration of dynamic processes into species distribution modeling. Our objective was to develop a spatiotemporal model of breeding habitat use for a federally threatened shorebird (piping plover, Charadrius melodus). Piping plovers are an ideal candidate species for dynamic habitat models because they depend on habitat created and maintained by variable hydrological processes and disturbance. We integrated a 20-year (2000-2019) nesting dataset with volunteer-collected sightings (eBird) using point process modeling. Our analysis incorporated spatiotemporal autocorrelation, differential observation processes within data streams, and dynamic environmental covariates. We evaluated the transferability of this model in space and time and the contribution of the eBird dataset. eBird data provided more complete spatial coverage in our study system than nest monitoring data. Patterns of observed breeding density depended on both dynamic (e.g., surface water levels) and long-term (e.g., proximity to permanent wetland basins) environmental processes. Our study provides a framework for quantifying dynamic spatiotemporal patterns of breeding density. This assessment can be iteratively updated with additional data to improve conservation and management efforts, because reducing temporal variability to average patterns of use may cause a loss in precision for such actions.
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Affiliation(s)
- Kristen S Ellis
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA.
| | - Michael J Anteau
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Garrett J MacDonald
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Rose J Swift
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Megan M Ring
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Dustin L Toy
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Mark H Sherfy
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Max Post van der Burg
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
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Swift RJ, Anteau MJ, Ellis KS, Ring MM, Sherfy MH, Toy DL, Koons DN. Implications of habitat‐driven survival and dispersal on recruitment in a spatially structured piping plover population. Ecosphere 2022. [DOI: 10.1002/ecs2.4190] [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: 11/05/2022] Open
Affiliation(s)
- Rose J. Swift
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - Michael J. Anteau
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - Kristen S. Ellis
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - Megan M. Ring
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - Mark H. Sherfy
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - Dustin L. Toy
- U.S. Geological Survey—Northern Prairie Wildlife Research Center Jamestown North Dakota USA
| | - David N. Koons
- Department of Fish, Wildlife, and Conservation Biology and Graduate Degree Program in Ecology Colorado State University Fort Collins Colorado USA
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Wilde LR, Simmons JE, Swift RJ, Senner NR. Dynamic sensitivity to resource availability influences population responses to mismatches in a shorebird. Ecology 2022; 103:e3743. [PMID: 35524939 PMCID: PMC9539520 DOI: 10.1002/ecy.3743] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Revised: 02/18/2022] [Accepted: 03/18/2022] [Indexed: 11/05/2022]
Abstract
Climate change has caused shifts in seasonally recurring biological events leading to the temporal decoupling of consumer-resource pairs - i.e., phenological mismatching. Although mismatches often affect individual fitness, they do not invariably scale up to affect populations, making it difficult to assess the risk they pose. Individual variation may contribute to this inconsistency, with changes in resource availability and consumer needs leading mismatches to have different outcomes over time. Nevertheless, most models estimate a consumer's match from a single timepoint, potentially obscuring when mismatches matter to populations. We analyzed how the effects of mismatches varied over time by studying precocial Hudsonian godwit (Limosa haemastica) chicks and their invertebrate prey from 2009 to 2019. We developed individual and population level models to determine how age-specific variation affect the relationship between godwits and resource availability. We found that periods with abundant resources led to higher growth and survival of godwit chicks, but also that chick survival was increasingly related to the availability of larger prey as chicks aged. At the population level, estimates of mismatches using age-structured consumer demand explained more variation in annual godwit fledging rates than more commonly used alternatives. Our study suggests that modeling the effects of mismatches as the disrupted interaction between dynamic consumer needs and resource availability clarifies when mismatches matter to both individuals and populations.
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Affiliation(s)
- Luke R Wilde
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA
| | - Josiah E Simmons
- Division of Biological Sciences, University of Montana, Missoula, MT, USA
| | - Rose J Swift
- U.S. Geological Survey, Northern Prairie Wildlife Research Center, Jamestown, ND, USA
| | - Nathan R Senner
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA
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Wilde LR, Swift RJ, Senner NR. Behavioural adjustments in the social associations of a precocial shorebird mediate the costs and benefits of grouping decisions. J Anim Ecol 2022; 91:870-882. [PMID: 35211977 PMCID: PMC9303437 DOI: 10.1111/1365-2656.13679] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [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: 11/02/2021] [Accepted: 02/07/2022] [Indexed: 12/03/2022]
Abstract
Animals weigh multiple costs and benefits when making grouping decisions. The cost‐avoidance grouping framework proposes that group density, information quality and risk affect an individual’s preference for con or heterospecific groups. However, this assumes the cost–benefit balance of a particular grouping is constant spatiotemporally, which may not always be true. Investigating how spatiotemporal context influences grouping choices is therefore key to understanding how animals contend with changing conditions. Changes in body size during development lead to variable conditions for individuals over short time‐scales that can influence their ecological interactions. Hudsonian godwits Limosa haemastica, for instance, form a protective nesting association with a major predator of young godwit chicks, colonial short‐billed gulls Larus brachyrhynchus. Godwit broods may avoid areas of higher gull densities when chicks are susceptible to gull predation but likely experience higher risk from alternative predators as a result. Associating with conspecifics could allow godwits to buffer these costs but requires enough other broods with whom to group. To determine how age‐dependent predation risk and conspecific density influence godwit grouping behaviours, we first quantified the time‐dependent effects of con‐ and heterospecific interactions on the mortality risk for godwit chicks throughout development. We then determined how godwit density and chick age affected their associations with con‐ and heterospecific. We found that younger godwit chicks' survival improved with closer association with conspecifics, earlier hatch dates and lower gull densities, whereas older chicks survived better with earlier hatch dates, though this effect was less clear. Concomitantly, godwit broods avoided gulls early in development and when godwit densities were high but maintained loose associations with conspecifics throughout development. We identified how individuals can optimally shift with whom they group according to risks that vary spatially and temporally. Investigating the effects of a species' ecological interactions across spatiotemporal contexts in this way can shed light on how animals adjust their associations according to the costs and benefits of each association.
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Affiliation(s)
- Luke R Wilde
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA
| | - Rose J Swift
- U. S. Geological Survey, Northern Prairie Wildlife Research Center, Jamestown, ND, USA
| | - Nathan R Senner
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA
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Swift RJ, Anteau MJ, Ellis KS, Ring MM, Sherfy MH, Toy DL. Dispersal distance is driven by habitat availability and reproductive success in Northern Great Plains piping plovers. Mov Ecol 2021; 9:59. [PMID: 34895328 PMCID: PMC8665630 DOI: 10.1186/s40462-021-00293-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 08/04/2021] [Accepted: 10/25/2021] [Indexed: 06/14/2023]
Abstract
BACKGROUND Dispersal is a critical life history strategy that has important conservation implications, particularly for at-risk species with active recovery efforts and migratory species. Both natal and breeding dispersal are driven by numerous selection pressures, including conspecific competition, individual characteristics, reproductive success, and spatiotemporal variation in habitat. Most studies focus on dispersal probabilities, but the distance traveled can affect survival, fitness, and even metapopulation dynamics. METHODS We examined sources of variation in dispersal distances with 275 natal dispersal and 1335 interannual breeding events for piping plovers (Charadrius melodus) breeding in the Northern Great Plains between 2014 and 2019. RESULTS Natal dispersal was on average longer (mean: 81.0 km, median: 53 km) than adult breeding movements (mean: 23.7 km, median: 1 km). Individuals moved the shortest distances when hatched, previously nested, or settling on river habitats. When more habitat was available on their natal area than in the year prior, hatch-year birds moved shorter distances to their first breeding location. Similarly, adults also moved shorter distances when more habitat was available at the settling site and when in closer proximity to other known nesting areas. Additionally, adult movement distance was shorter when successfully hatching a nest the year prior, retaining a mate, or initiating a current nest earlier. CONCLUSION Habitat availability appears to be associated with dispersal distance for both hatch-year and adult piping plovers. Conservation efforts that integrate dispersal distances may benefit from maintaining nesting habitat within close proximity to other areas for adults and a network of clustered sites spread out across a larger landscape for natal dispersal.
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Affiliation(s)
- Rose J Swift
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA.
| | - Michael J Anteau
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Kristen S Ellis
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Megan M Ring
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Mark H Sherfy
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
| | - Dustin L Toy
- U.S. Geological Survey - Northern Prairie Wildlife Research Center, 8711 37th St SE, Jamestown, ND, 58401, USA
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Swift RJ, Anteau MJ, Roche EA, Sherfy MH, Toy DL, Ring MM. Asymmetric benefits of a heterospecific breeding association vary with habitat, conspecific abundance and breeding stage. OIKOS 2020. [DOI: 10.1111/oik.07256] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Rose J. Swift
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
| | - Michael J. Anteau
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
| | - Erin A. Roche
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
- Idaho Dept of Fish and Game Boise ID USA
| | - Mark H. Sherfy
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
| | - Dustin L. Toy
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
| | - Megan M. Ring
- U.S. Geological Survey, Northern Prairie Wildlife Research Center 8711 37th Street SE Jamestown ND 58401 USA
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Swift RJ, Rodewald AD, Johnson JA, Andres BA, Senner NR. Seasonal survival and reversible state effects in a long-distance migratory shorebird. J Anim Ecol 2020; 89:2043-2055. [PMID: 32358801 DOI: 10.1111/1365-2656.13246] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2020] [Accepted: 04/21/2020] [Indexed: 01/22/2023]
Abstract
Events during one stage of the annual cycle can reversibly affect an individual's condition and performance not only within that stage, but also in subsequent stages (i.e. reversible state effects). Despite strong conceptual links, however, few studies have been able to empirically link individual-level reversible state effects with larger-scale demographic processes. We studied both survival and potential reversible state effects in a long-distance migratory shorebird, the Hudsonian Godwit Limosa haemastica. Specifically, we estimated period-specific survival probabilities across the annual cycle and examined the extent to which an individual's body condition, foraging success and habitat quality during the nonbreeding season affected its subsequent survival and reproductive performance. Godwit survival rates were high throughout the annual cycle, but lowest during the breeding season, only slightly higher during southbound migration and highest during the stationary nonbreeding season. Our results indicate that overwintering godwits foraging in high-quality habitats had comparably better nutritional status and pre-migratory body condition, which in turn improved their return rates and the likelihood that their nests and chicks survived during the subsequent breeding season. Reversible state effects thus appeared to link events between nonbreeding and breeding seasons via an individual's condition, in turn affecting their survival and subsequent reproductive performance. Our study thus provides one of the few empirical demonstrations of theoretical predictions that reversible state effects have the potential to influence population dynamics.
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Affiliation(s)
- Rose J Swift
- Cornell Lab of Ornithology and Department of Natural Resources, Ithaca, NY, USA
| | - Amanda D Rodewald
- Cornell Lab of Ornithology and Department of Natural Resources, Ithaca, NY, USA
| | - James A Johnson
- U.S. Fish and Wildlife Service, Migratory Bird Management, Anchorage, AK, USA
| | - Brad A Andres
- U.S. Fish and Wildlife Service, Migratory Bird Program, Lakewood, CO, USA
| | - Nathan R Senner
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA
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Bulla M, Reneerkens J, Weiser EL, Sokolov A, Taylor AR, Sittler B, McCaffery BJ, Ruthrauff DR, Catlin DH, Payer DC, Ward DH, Solovyeva DV, Santos ESA, Rakhimberdiev E, Nol E, Kwon E, Brown GS, Hevia GD, Gates HR, Johnson JA, van Gils JA, Hansen J, Lamarre JF, Rausch J, Conklin JR, Liebezeit J, Bêty J, Lang J, Alves JA, Fernández-Elipe J, Exo KM, Bollache L, Bertellotti M, Giroux MA, van de Pol M, Johnson M, Boldenow ML, Valcu M, Soloviev M, Sokolova N, Senner NR, Lecomte N, Meyer N, Schmidt NM, Gilg O, Smith PA, Machín P, McGuire RL, Cerboncini RAS, Ottvall R, van Bemmelen RSA, Swift RJ, Saalfeld ST, Jamieson SE, Brown S, Piersma T, Albrecht T, D'Amico V, Lanctot RB, Kempenaers B. Comment on "Global pattern of nest predation is disrupted by climate change in shorebirds". Science 2019; 364:364/6445/eaaw8529. [PMID: 31196986 DOI: 10.1126/science.aaw8529] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2019] [Accepted: 05/29/2019] [Indexed: 11/02/2022]
Abstract
Kubelka et al (Reports, 9 November 2018, p. 680) claim that climate change has disrupted patterns of nest predation in shorebirds. They report that predation rates have increased since the 1950s, especially in the Arctic. We describe methodological problems with their analyses and argue that there is no solid statistical support for their claims.
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Affiliation(s)
- Martin Bulla
- Department of Behavioural Ecology and Evolutionary Genetics, Max Planck Institute for Ornithology, 82319 Seewiesen, Germany. .,NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems and Utrecht University, 1790 AB Den Burg, Texel, Netherlands.,Faculty of Environmental Sciences, Czech University of Life Sciences, 16521 Prague, Czech Republic
| | - Jeroen Reneerkens
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems and Utrecht University, 1790 AB Den Burg, Texel, Netherlands.,Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9700 CC Groningen, Netherlands
| | - Emily L Weiser
- Upper Midwest Environmental Sciences Center, U.S. Geological Survey, La Crosse, WI 54603, USA
| | - Aleksandr Sokolov
- Arctic Research Station, Institute of Plant and Animal Ecology, 629400 Labytnangi, Russia
| | - Audrey R Taylor
- Department of Geography and Environmental Studies, University of Alaska, Anchorage, AK 99508, USA
| | - Benoît Sittler
- Nature Conservation and Landscape Ecology, University of Freiburg, 79106 Freiburg, Germany.,Arctic Ecology Research Group (GREA), F-21440 Francheville, France
| | - Brian J McCaffery
- Yukon Delta National Wildlife Refuge, U.S. Fish and Wildlife Service, Grand View, WI 54839, USA
| | - Dan R Ruthrauff
- Alaska Science Center, U.S. Geological Survey, Anchorage, AK 99508, USA
| | - Daniel H Catlin
- Department of Fish and Wildlife Conservation, Virginia Tech, Blacksburg, VA 24061, USA
| | - David C Payer
- Natural Resource Sciences, National Park Service, Anchorage, AK 99501, USA
| | - David H Ward
- Alaska Science Center, U.S. Geological Survey, Anchorage, AK 99508, USA
| | - Diana V Solovyeva
- Institute of Biological Problems of the North, FEB RAS, Magadan 685000, Russia
| | - Eduardo S A Santos
- BECO do Departamento de Zoologia, Rua do Matão, Universidade de São Paulo, 05508-090 São Paulo, Brazil
| | - Eldar Rakhimberdiev
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9700 CC Groningen, Netherlands.,Department of Vertebrate Zoology, Lomonosov Moscow State University, 119234 Moscow, Russia
| | - Erica Nol
- Biology Department, Trent University, Peterborough, ON K9J 7B8, Canada
| | - Eunbi Kwon
- Department of Fish and Wildlife Conservation, Virginia Tech, Blacksburg, VA 24061, USA
| | - Glen S Brown
- Wildlife Research and Monitoring, Ministry of Natural Resources and Forestry, Peterborough, ON K9L 1Z8, Canada
| | - Glenda D Hevia
- Grupo de Ecofisiología Aplicada al Manejo y Conservación de Fauna Silvestre, Centro para el Estudio de Sistemas Marinos (CESIMAR)-CCT CONICET-CENPAT, 9120 Puerto Madryn, Argentina
| | - H River Gates
- Pacific Flyway Program, National Audubon Society, Anchorage, AK 99501, USA
| | - James A Johnson
- Migratory Bird Management, U.S. Fish and Wildlife Service, Anchorage, AK 99503, USA
| | - Jan A van Gils
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems and Utrecht University, 1790 AB Den Burg, Texel, Netherlands
| | - Jannik Hansen
- Department of Bioscience, Aarhus University, 4000 Roskilde, Denmark
| | - Jean-François Lamarre
- Science & Technology Program, Polar Knowledge Canada, Cambridge Bay, NU X0B 0C0, Canada
| | - Jennie Rausch
- Canadian Wildlife Service, Environment and Climate Change Canada, P.O. Box 2310, Yellowknife, NT X1A 2P7, Canada
| | - Jesse R Conklin
- Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9700 CC Groningen, Netherlands
| | - Joe Liebezeit
- Audubon Society of Portland, Portland, OR 97210, USA
| | - Joël Bêty
- Department of Biology and Center for Northern Studies, University of Quebec, Rimouski, QC G5L 3A1, Canada
| | - Johannes Lang
- Arctic Ecology Research Group (GREA), F-21440 Francheville, France.,Clinic for Birds, Reptiles, Amphibians and Fish/Working Group for Wildlife Biology, Giessen University, 35392 Giessen, Germany
| | - José A Alves
- DBIO & CESAM-Centre for Environmental and Marine Studies, Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal.,South Iceland Research Centre, University of Iceland, Fjolheimar IS-800 Selfoss & IS-861 Gunnarsholt, Iceland
| | | | - Klaus-Michael Exo
- Institute of Avian Research "Vogelwarte Helgoland," 26386 Wilhelmshaven, Germany
| | - Loïc Bollache
- Laboratoire Chrono-environnement, Université de Franche-Comté, UMR 6249 CNRS-UFC, F-25000 Besançon, France
| | - Marcelo Bertellotti
- Grupo de Ecofisiología Aplicada al Manejo y Conservación de Fauna Silvestre, Centro para el Estudio de Sistemas Marinos (CESIMAR)-CCT CONICET-CENPAT, 9120 Puerto Madryn, Argentina
| | | | - Martijn van de Pol
- Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), 6708PB Wageningen, Netherlands
| | - Matthew Johnson
- Plumas National Forest, USDA Forest Service, Quincy, CA 95971, USA
| | - Megan L Boldenow
- Biology and Wildlife Department, University of Alaska, Fairbanks, AK 99775, USA
| | - Mihai Valcu
- Department of Behavioural Ecology and Evolutionary Genetics, Max Planck Institute for Ornithology, 82319 Seewiesen, Germany
| | - Mikhail Soloviev
- Department of Vertebrate Zoology, Lomonosov Moscow State University, 119234 Moscow, Russia
| | - Natalya Sokolova
- Arctic Research Station, Institute of Plant and Animal Ecology, 629400 Labytnangi, Russia
| | - Nathan R Senner
- Department of Biological Sciences, University of South Carolina, Columbia, SC 29208, USA
| | - Nicolas Lecomte
- Department of Biology, Université de Moncton, Moncton, NB E1A 3E9, Canada
| | - Nicolas Meyer
- Arctic Ecology Research Group (GREA), F-21440 Francheville, France.,Laboratoire Chrono-environnement, Université de Franche-Comté, UMR 6249 CNRS-UFC, F-25000 Besançon, France
| | - Niels Martin Schmidt
- Department of Bioscience, Aarhus University, 4000 Roskilde, Denmark.,Arctic Research Centre, Aarhus University, 8000 Aarhus C, Denmark
| | - Olivier Gilg
- Arctic Ecology Research Group (GREA), F-21440 Francheville, France.,Laboratoire Chrono-environnement, Université de Franche-Comté, UMR 6249 CNRS-UFC, F-25000 Besançon, France
| | - Paul A Smith
- National Wildlife Research Centre, Environment and Climate Change Canada, Ottawa, ON K1S 5B6, Canada
| | | | - Rebecca L McGuire
- Arctic Beringia Program, Wildlife Conservation Society, Fairbanks, AK 99709, USA
| | | | | | | | - Rose J Swift
- Cornell Lab of Ornithology and Department of Natural Resources, Cornell University, Ithaca, NY 14850, USA
| | - Sarah T Saalfeld
- Migratory Bird Management, U.S. Fish and Wildlife Service, Anchorage, AK 99503, USA
| | - Sarah E Jamieson
- Centre for Wildlife Ecology, Simon Fraser University, Burnaby, BC V5A 1S6, Canada
| | - Stephen Brown
- Shorebird Recovery Program, Manomet Inc., P.O. Box 545, Saxtons River, VT 05154, USA
| | - Theunis Piersma
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems and Utrecht University, 1790 AB Den Burg, Texel, Netherlands.,Conservation Ecology Group, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, 9700 CC Groningen, Netherlands
| | - Tomas Albrecht
- Institute of Vertebrate Biology, Czech Academy of Sciences, 60300 Brno, Czech Republic.,Faculty of Science, Charles University, 128 44 Prague, Czech Republic
| | - Verónica D'Amico
- Grupo de Ecofisiología Aplicada al Manejo y Conservación de Fauna Silvestre, Centro para el Estudio de Sistemas Marinos (CESIMAR)-CCT CONICET-CENPAT, 9120 Puerto Madryn, Argentina
| | - Richard B Lanctot
- Migratory Bird Management, U.S. Fish and Wildlife Service, Anchorage, AK 99503, USA
| | - Bart Kempenaers
- Department of Behavioural Ecology and Evolutionary Genetics, Max Planck Institute for Ornithology, 82319 Seewiesen, Germany.
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Affiliation(s)
- Rose J Swift
- Cornell Lab of Ornithology and Department of Natural Resources, Ithaca, NY
| | - Amanda D Rodewald
- Cornell Lab of Ornithology and Department of Natural Resources, Ithaca, NY
| | - Nathan R Senner
- Division of Biological Sciences, University of Montana, Missoula, MT
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12
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Wallis GL, Swift RJ, Atterbury R, Trappe S, Rinas U, Hemming FW, Wiebe MG, Trinci AP, Peberdy JF. The effect of pH on glucoamylase production, glycosylation and chemostat evolution of Aspergillus niger. Biochim Biophys Acta 2001; 1527:112-22. [PMID: 11479027 DOI: 10.1016/s0304-4165(01)00145-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The effect of ambient pH on production and glycosylation of glucoamylase (GAM) and on the generation of a morphological mutant produced by Aspergillus niger strain B1 (a transformant containing an additional 20 copies of the homologous GAM glaA gene) was studied. We have shown that a change in the pH from 4 to 5.4 during continuous cultivation of the A. niger B1 strain instigates or accelerates the spontaneous generation of a morphological mutant (LB). This mutant strain produced approx. 50% less extracellular protein and GAM during both chemostat and batch cultivation compared to another strain with parental-type morphology (PS). The intracellular levels of GAM were also lower in the LB strain. In addition, cultivation of the original parent B1 strain in a batch-pulse bioreactor at pH 5.5 resulted in a 9-fold drop in GAM production and a 5-fold drop in extracellular protein compared to that obtained at pH 4. Glycosylation analysis of the glucoamylases purified from shake-flask cultivation showed that both principal forms of GAM secreted by the LB strain possessed enhanced galactosylation (2-fold), compared to those of the PS. Four diagnostic methods (immunostaining, mild methanolysis, mild acid hydrolysis and beta-galactofuranosidase digestion) provided evidence that the majority of this galactose was of the furanoic conformation. The GAMs produced during batch-pulse cultivation at pH 5.5 similarly showed an approx. 2-fold increase in galactofuranosylation compared to pH 4. Interestingly, in both cases the increased galactofuranosylation appears primarily restricted to the O-linked glycan component. Ambient pH therefore regulates both GAM production and influences its glycosylation.
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Affiliation(s)
- G L Wallis
- School of Biological, University of Nottingham, UK.
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Swift RJ, Carter SF, Widdowson DA, Mason JR, Leak DJ. Expression of benzene dioxygenase from Pseudomonas putida ML2 in cis-1,2-cyclohexanediol-degrading pseudomonads. Appl Microbiol Biotechnol 2001; 55:721-6. [PMID: 11525620 DOI: 10.1007/s002530100593] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Benzene dioxygenase (BDO; EC 1.14.12.3) from Pseudomonas putida ML2 dihydroxylates benzene to produce cis-1,2-dihydroxy-cyclohexa-3,5-diene. As well as oxidising benzene and toluene, cell-free extracts of Escherichia coli JM109 expressing recombinant BDO oxidised cyclohexene, 1-methylcyclohexene and 3-methylcyclohexene. In an attempt to construct a novel metabolic pathway for the degradation of cyclohexene (via an initial BDO-mediated dihydroxylation of cyclohexene), cis-1,2-cyclohexanediol-degrading bacteria were isolated by enrichment culture. The bedC1C2BA genes encoding BDO (under the control of the tac promoter) were sub-cloned into pLAFR5, successfully conjugated into seven of the Gram-negative cis-1,2-cyclo-hexanediol-degrading isolates and stably maintained and expressed in three of them. However, despite their ability to grow on cis-1,2-cyclohexanediol as sole carbon source, express an active BDO and oxidise cyclohexene, none of the three strains was able to grow on cyclohexene as sole carbon source. Analysis revealed that BDO oxidised cyclohexene to a mixture of two products, a monohydroxylated (2-cyclohexen-1-ol) product and a dihydroxylated (cis-1,2-cyclohexanediol) product; and failure to grow on cyclohexene was attributed to the toxicity of metabolic intermediates accumulating from the 2-cyclohexen-1-ol metabolism.
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Affiliation(s)
- R J Swift
- Department of Biochemistry, Imperial College of Science, Technology and Medicine, South Kensington, London, UK
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Swift RJ, Karandikar A, Griffen AM, Punt PJ, van den Hondel CA, Robson GD, Trinci AP, Wiebe MG. The Effect of organic nitrogen sources on recombinant glucoamylase production by Aspergillus niger in chemostat culture. Fungal Genet Biol 2000; 31:125-33. [PMID: 11170742 DOI: 10.1006/fgbi.2000.1241] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Aspergillus niger B1, a recombinant strain carrying 20 extra copies of the native glucoamylase gene, was grown in glucose-limited chemostat cultures supplemented with various organic nitrogen sources (dilution rate 0.12 +/- 0.01 h(-1), pH 5.4). In cultures supplemented with l-alanine, l-methionine, casamino acids, or peptone, specific glucoamylase (GAM) production rapidly decreased to less than 20% of the initial level. Reducing the pH of the culture to 4.0 resulted in stable GAM production for up to 400 h. Morphological mutants (a light brown and a dark brown mutant) appeared in each fermentation and generally displaced B1. Light brown mutants had higher selection coefficients relative to B1 than dark brown mutants and became the dominant strain in all fermentations except those maintained at pH 4.0. Several mutants isolated from these cultures had reduced ability to produce GAM in batch culture, although few had lost copies of the glaA gene. Some mutants had methylated DNA.
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Affiliation(s)
- R J Swift
- School of Biological Sciences, University of Manchester, 1.800 Stopford Building, Manchester, M13 9PL, United Kingdom
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Wallis GL, Swift RJ, Hemming FW, Trinci AP, Peberdy JF. Glucoamylase overexpression and secretion in Aspergillus niger: analysis of glycosylation. Biochim Biophys Acta 1999; 1472:576-86. [PMID: 10564772 DOI: 10.1016/s0304-4165(99)00188-9] [Citation(s) in RCA: 45] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
We have studied the effects of overexpression and secretion of a homologous model glycoprotein, glucoamylase (GAM-1), on glycosylation in a single gene copy wild-type parent and multiple gene copy transformants of Aspergillus niger. In batch culture the B36 strain, which possess 80 additional copies of the GAM glaA gene, secreted about 5-8-fold more protein and GAM-1 than the parent strain (N402). A comparison of the glycosylation of GAM-1 secreted by the parent strain with that secreted by the multiple copy and hyper-secreting B36 strain showed that both the N-linked and O-linked glycan composition was very similar. Short oligomannose N-linked glycans were found (Man(7-8)GlcNAc(2)). O-Linked glycans were comprised of short (1-3 residues) oligosaccharide chains of mannose and galactose. Evidence is presented that this galactose is present in the novel galactofuranose conformation. This glycan composition of GAM-1 differed from that of a commercially available (A. niger) GAM source. Microsomes prepared from the mycelium showed a 2-3-fold co-ordinated increase in the activity of the dolichol phosphate:glycosyltransferases. Similar results were obtained from strains B1 (20 copies of glaA) and N402 when grown at a low dilution rate in a chemostat, although both the levels of GAM secretion and the activities of the dolichol phosphate:glycosyltransferases were lower than found in batch culture. These data suggest that A. niger is capable of secreting large amounts of a single glycoprotein combined with higher activity levels of the dolichol phosphate:glycosyltransferases without an increase in the heterogeneity of the glycan structures. Thus, from a biotechnological viewpoint, protein glycosylation may not be a bottleneck to enhanced glycoprotein production using A. niger.
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Affiliation(s)
- G L Wallis
- School of Biomedical Science (Biochemistry), The Medical School, Queens Medical Centre, The University of Nottingham, Nottingham, UK
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Abstract
The production of glucoamylase (GAM) by Aspergillus niger B1, a genetic transformant containing an additional 20 copies of the homologous glucoamylase gene (glaA) was studied in nutrient (maltodextrin)-limited chemostat and nutrient-excess pH auxostat cultures. In these culture systems the specific production rate of GAM increased with dilution rate and reached a maximum (up to 15.0 mg GAM [g biomass]-1 h-1) when A. niger B1 was grown at its maximum specific growth rate in pH auxostat culture, indicating that GAM is a growth-associated product. The appearance of spontaneous morphological mutants was observed in all continuous flow cultures grown at pH 5.4, with a light brown mutant always displacing the parental strain. However, no morphological mutants were observed in cultures grown at pH 4.0. Further, when A. niger B1 was grown in pH auxostat culture, the specific production rate of GAM was 31% higher at pH 4.0 than at pH 5.4. Southern blot analyses showed that some morphological mutants (including the light brown mutant) isolated from a pH auxostat culture had lost copies of the glaA genes.
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Affiliation(s)
- R J Swift
- School of Biological Sciences, University of Manchester, United Kingdom
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Withers JM, Swift RJ, Wiebe MG, Robson GD, Punt PJ, van den Hondel CA, Trinci AP. Optimization and stability of glucoamylase production by recombinant strains of Aspergillus niger in chemostat culture. Biotechnol Bioeng 1998; 59:407-18. [PMID: 10099354] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023]
Abstract
When grown on a medium containing 5 g maltodextrin L-1, Aspergillus niger transformant N402[pAB6-10]B1, which has an additional 20 copies of the glucoamylase (glaA) gene, produced 320 +/- 8 mg (mean +/- S.E.) glucoamylase (GAM) L-1 in batch culture and 373 +/- 9 mg GAM L-1 in maltodextrin-limited chemostat culture at a dilution rate of 0.13 h-1. These values correspond to specific production rates (qp) of 5.6 and 16.0 mg GAM [g biomass]-1 h-1, respectively. In maltodextrin-limited chemostat cultures grown at dilution rates from 0.06 to 0.14 h-1, GAM was produced by B1 in a growth-correlated manner, demonstrating that a continuous flow culture system operated at a high dilution rate is an efficient way of producing this enzyme. In chemostat cultures grown at high dilution rates, GAM production in chemostat cultures was repressed when the limiting nutrient was fructose or xylose, but derepressed when the limiting nutrient was glucose (qp, 12.0), potassium (6.2), ammonium (4.1), phosphate (2.0), magnesium (1.5) or sulphate (0.9). For chemostat cultures grown at a dilution rate of 0.13 h-1, the addition of 5 g mycopeptone L-1 to a glucose-mineral salts medium resulted in a 64% increase in GAM concentration (from 303 +/- 12 to 496 +/- 10 mg GAM L-1) and a 37% increase in specific production rate (from 12.0 +/- 0.4 to 16.4 +/- 1.6 mg GAM [g biomass]-1 h-1). However, although recombinant protein production was stable for at least 948 h (191 generations) when A. niger B1 was grown in chemostat culture on glucose-mineral salts medium, it was stable for less than 136 h (27 generations) on medium containing mycopeptone. The predominant morphological mutants occurring after prolonged chemostat culture were shown to have selective advantage in the chemostat over the parental strain. Compared to their parental strains, two morphological mutants had similar GAM production levels, while a third had a reduced production level. Growth tests and molecular analysis revealed that the number of glaA gene copies in this latter strain (B1-M) was reduced, which could explain its reduced GAM production. Shake-flask cultures carried out with the various morphological mutants revealed that in batch culture all three strains produced considerably less GAM than their parent strains and even less than N402. We show that physiological changes in these morphological mutants contribute to this decreased level of GAM production.
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Affiliation(s)
- J M Withers
- School of Biological Sciences, 1.800 Stopford Building, University of Manchester, Manchester, M13 9PT, United Kingdom
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