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Melton AE, Moran K, Martinez P, Ellestad P, Milliken E, Morales W, Child AW, Richardson BA, Serpe M, Novak SJ, Buerki S. A genotype × environment experiment reveals contrasting response strategies to drought between populations of a keystone species ( Artemisia tridentata; Asteraceae). PLANT-ENVIRONMENT INTERACTIONS (HOBOKEN, N.J.) 2023; 4:201-214. [PMID: 37583876 PMCID: PMC10423975 DOI: 10.1002/pei3.10119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Revised: 06/18/2023] [Accepted: 07/11/2023] [Indexed: 08/17/2023]
Abstract
Western North America has been experiencing persistent drought exacerbated by climate change for over two decades. This extreme climate event is a clear threat to native plant communities. Artemisia tridentata is a keystone shrub species in western North America and is threatened by climate change, urbanization, and wildfire. A drought Genotype × Environment (G × E) experiment was conducted to assess phenotypic plasticity and differential gene expression in A. tridentata. The G × E experiment was performed on diploid A. tridentata seedlings from two populations (one from Idaho, USA and one from Utah, USA), which experience differing levels of drought stress during the summer months. Photosynthetic data, leaf temperature, and gene expression levels were compared between treatments and populations. The Utah population maintained higher photosynthetic rates and photosynthetic efficiency than the Idaho population under drought stress. The Utah population also exhibited far greater transcriptional plasticity than the Idaho population and expressed genes of response pathways distinct from those of the Idaho population. Populations of A. tridentata differ greatly in their drought response pathways, likely due to differences in response pathways that have evolved under distinct climatic regimes. Epigenetic processes likely contribute to the observed differences between the populations.
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Affiliation(s)
- Anthony E. Melton
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Kara Moran
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Peggy Martinez
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Paige Ellestad
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Erin Milliken
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Walker Morales
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Andrew W. Child
- Research Computing and Data ServicesUniversity of IdahoMoscowIdahoUSA
| | | | - Marcelo Serpe
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Stephen J. Novak
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Sven Buerki
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
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2
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Hopley T, Byrne M. Implications of climate change on a floodplain shrub: associations between genomic and environmental variation. Glob Ecol Conserv 2022. [DOI: 10.1016/j.gecco.2022.e02340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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3
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De Vitis M, Havens K, Barak RS, Egerton-Warburton L, Ernst AR, Evans M, Fant JB, Foxx AJ, Hadley K, Jabcon J, O’Shaughnessey J, Ramakrishna S, Sollenberger D, Taddeo S, Urbina-Casanova R, Woolridge C, Xu L, Zeldin J, Kramer AT. Why are some plant species missing from restorations? A diagnostic tool for temperate grassland ecosystems. FRONTIERS IN CONSERVATION SCIENCE 2022. [DOI: 10.3389/fcosc.2022.1028295] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
The U.N. Decade on Ecosystem Restoration aims to accelerate actions to prevent, halt, and reverse the degradation of ecosystems, and re-establish ecosystem functioning and species diversity. The practice of ecological restoration has made great progress in recent decades, as has recognition of the importance of species diversity to maintaining the long-term stability and functioning of restored ecosystems. Restorations may also focus on specific species to fulfill needed functions, such as supporting dependent wildlife or mitigating extinction risk. Yet even in the most carefully planned and managed restoration, target species may fail to germinate, establish, or persist. To support the successful reintroduction of ecologically and culturally important plant species with an emphasis on temperate grasslands, we developed a tool to diagnose common causes of missing species, focusing on four major categories of filters, or factors: genetic, biotic, abiotic, and planning & land management. Through a review of the scientific literature, we propose a series of diagnostic tests to identify potential causes of failure to restore target species, and treatments that could improve future outcomes. This practical diagnostic tool is meant to strengthen collaboration between restoration practitioners and researchers on diagnosing and treating causes of missing species in order to effectively restore them.
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4
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Richardson BA, Massatti R, Islam‐Faridi N, Johnson S, Kilkenny FF. Assessing population genomic structure and polyploidy: a crucial step for native plant restoration. Restor Ecol 2022. [DOI: 10.1111/rec.13740] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | - Rob Massatti
- Southwest Biological Center, US Geological Survey Flagstaff Arizona
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5
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St.Clair JB, Richardson BA, Stevenson‐Molnar N, Howe GT, Bower AD, Erickson VJ, Ward B, Bachelet D, Kilkenny FF, Wang T. Seedlot Selection Tool and Climate‐Smart Restoration Tool: Web‐based tools for sourcing seed adapted to future climates. Ecosphere 2022. [DOI: 10.1002/ecs2.4089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Affiliation(s)
| | | | | | - Glenn T. Howe
- Department of Forest Ecosystems and Society Oregon State University Corvallis Oregon USA
| | - Andrew D. Bower
- Olympic National Forest USDA‐Forest Service Olympia Washington USA
| | | | - Brendan Ward
- Conservation Biology Institute Corvallis Oregon USA
| | | | | | - Tongli Wang
- Centre for Forest Conservation Genetics, Department of Forest and Conservation Science University of British Columbia Vancouver British Columbia Canada
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6
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Woolridge CB, Fant JB, Flores AI, Schultz K, Kramer AT. Variation in overall fitness due to seed source: projections for predictive provenancing. Restor Ecol 2022. [DOI: 10.1111/rec.13717] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Christopher B. Woolridge
- Negaunee Institute for Plant Conservation Science and Action, Chicago Botanic Garden Glencoe IL USA
- Plant Biology and Conservation Program Northwestern University Evanston IL USA
| | - Jeremie B. Fant
- Negaunee Institute for Plant Conservation Science and Action, Chicago Botanic Garden Glencoe IL USA
- Plant Biology and Conservation Program Northwestern University Evanston IL USA
| | - Ana I. Flores
- School of Life Sciences University of Hawai'i at Mānoa Honolulu HI USA
| | | | - Andrea T. Kramer
- Negaunee Institute for Plant Conservation Science and Action, Chicago Botanic Garden Glencoe IL USA
- Plant Biology and Conservation Program Northwestern University Evanston IL USA
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7
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Blonder B, Brodrick PG, Walton JA, Chadwick KD, Breckheimer IK, Marchetti S, Ray CA, Mock KE. Remote sensing of cytotype and its consequences for canopy damage in quaking aspen. GLOBAL CHANGE BIOLOGY 2022; 28:2491-2504. [PMID: 34962013 DOI: 10.1111/gcb.16064] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2021] [Revised: 12/19/2021] [Accepted: 12/19/2021] [Indexed: 06/14/2023]
Abstract
Mapping geographic mosaics of genetic variation and their consequences via genotype x environment interactions at large extents and high resolution has been limited by the scalability of DNA sequencing. Here, we address this challenge for cytotype (chromosome copy number) variation in quaking aspen, a drought-impacted foundation tree species. We integrate airborne imaging spectroscopy data with ground-based DNA sequencing data and canopy damage data in 391 km2 of southwestern Colorado. We show that (1) aspen cover and cytotype can be remotely sensed at 1 m spatial resolution, (2) the geographic mosaic of cytotypes is heterogeneous and interdigitated, (3) triploids have higher leaf nitrogen, canopy water content, and carbon isotope shifts (δ13 C) than diploids, and (4) canopy damage varies among cytotypes and depends on interactions with topography, canopy height, and trait variables. Triploids are at higher risk in hotter and drier conditions.
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Affiliation(s)
- Benjamin Blonder
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, California, USA
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, USA
- School of Life Sciences, Arizona State University, Tempe, Arizona, USA
| | - Philip G Brodrick
- Jet Propulsion Laboratory, California Institute of Technology, Pasadena, California, USA
| | - James A Walton
- Department of Wildland Resources, Utah State University, Logan, Utah, USA
| | - Katherine Dana Chadwick
- Department of Earth System Science, Stanford University, Stanford, California, USA
- Climate and Ecosystems Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
| | | | - Suzanne Marchetti
- Forest Health Protection, United States Forest Service, Gunnison, Colorado, USA
| | - Courtenay A Ray
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, California, USA
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, USA
- School of Life Sciences, Arizona State University, Tempe, Arizona, USA
| | - Karen E Mock
- Department of Wildland Resources, Utah State University, Logan, Utah, USA
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8
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Chen Z, Grossfurthner L, Loxterman JL, Masingale J, Richardson BA, Seaborn T, Smith B, Waits LP, Narum SR. Applying genomics in assisted migration under climate change: Framework, empirical applications, and case studies. Evol Appl 2022; 15:3-21. [PMID: 35126645 PMCID: PMC8792483 DOI: 10.1111/eva.13335] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Revised: 11/18/2021] [Accepted: 12/01/2021] [Indexed: 12/01/2022] Open
Abstract
The rate of global climate change is projected to outpace the ability of many natural populations and species to adapt. Assisted migration (AM), which is defined as the managed movement of climate-adapted individuals within or outside the species ranges, is a conservation option to improve species' adaptive capacity and facilitate persistence. Although conservation biologists have long been using genetic tools to increase or maintain diversity of natural populations, genomic techniques could add extra benefit in AM that include selectively neutral and adaptive regions of the genome. In this review, we first propose a framework along with detailed procedures to aid collaboration among scientists, agencies, and local and regional managers during the decision-making process of genomics-guided AM. We then summarize the genomic approaches for applying AM, followed by a literature search of existing incorporation of genomics in AM across taxa. Our literature search initially identified 729 publications, but after filtering returned only 50 empirical studies that were either directly applied or considered genomics in AM related to climate change across taxa of plants, terrestrial animals, and aquatic animals; 42 studies were in plants. This demonstrated limited application of genomic methods in AM in organisms other than plants, so we provide further case studies as two examples to demonstrate the negative impact of climate change on non-model species and how genomics could be applied in AM. With the rapidly developing sequencing technology and accumulating genomic data, we expect to see more successful applications of genomics in AM, and more broadly, in the conservation of biodiversity.
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Affiliation(s)
- Zhongqi Chen
- Aquaculture Research InstituteUniversity of IdahoHagermanIdahoUSA
| | - Lukas Grossfurthner
- Bioinformatics and Computational Biology Graduate ProgramUniversity of IdahoHagermanIdahoUSA
| | - Janet L. Loxterman
- Department of Biological SciencesIdaho State UniversityPocatelloIdahoUSA
| | | | | | - Travis Seaborn
- Department of Fish and Wildlife ResourcesUniversity of IdahoMoscowIdahoUSA
| | - Brandy Smith
- Department of Biological SciencesIdaho State UniversityPocatelloIdahoUSA
| | - Lisette P. Waits
- Department of Fish and Wildlife ResourcesUniversity of IdahoMoscowIdahoUSA
| | - Shawn R. Narum
- Columbia River Inter‐Tribal Fish CommissionHagermanIdahoUSA
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9
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Mahood AL, Jones RO, Board DI, Balch JK, Chambers JC. Interannual climate variability mediates changes in carbon and nitrogen pools caused by annual grass invasion in a semiarid shrubland. GLOBAL CHANGE BIOLOGY 2022; 28:267-284. [PMID: 34614268 PMCID: PMC9291498 DOI: 10.1111/gcb.15921] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2021] [Accepted: 09/26/2021] [Indexed: 05/13/2023]
Abstract
Exotic plant invasions alter ecosystem properties and threaten ecosystem functions globally. Interannual climate variability (ICV) influences both plant community composition (PCC) and soil properties, and interactions between ICV and PCC may influence nitrogen (N) and carbon (C) pools. We asked how ICV and non-native annual grass invasion covary to influence soil and plant N and C in a semiarid shrubland undergoing widespread ecosystem transformation due to invasions and altered fire regimes. We sampled four progressive stages of annual grass invasion at 20 sites across a large (25,000 km2 ) landscape for plant community composition, plant tissue N and C, and soil total N and C in 2013 and 2016, which followed 2 years of dry and wet conditions, respectively. Multivariate analyses and ANOVAs showed that in invasion stages where native shrub and perennial grass and forb communities were replaced by annual grass-dominated communities, the ecosystem lost more soil N and C in wet years. Path analysis showed that high water availability led to higher herbaceous cover in all invasion stages. In stages with native shrubs and perennial grasses, higher perennial grass cover was associated with increased soil C and N, while in annual-dominated stages, higher annual grass cover was associated with losses of soil C and N. Also, soil total C and C:N ratios were more homogeneous in annual-dominated invasion stages as indicated by within-site standard deviations. Loss of native shrubs and perennial grasses and forbs coupled with annual grass invasion may lead to long-term declines in soil N and C and hamper restoration efforts. Restoration strategies that use innovative techniques and novel species to address increasing temperatures and ICV and emphasize maintaining plant community structure-shrubs, grasses, and forbs-will allow sagebrush ecosystems to maintain C sequestration, soil fertility, and soil heterogeneity.
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Affiliation(s)
- Adam L. Mahood
- Department of GeographyUniversity of Colorado BoulderBoulderColoradoUSA
- Earth LabUniversity of ColoradoBoulderColoradoUSA
| | - Rachel O. Jones
- Department of Biological & Ecological EngineeringOregon State UniversityCorvallisOregonUSA
| | - David I. Board
- US Forest ServiceRocky Mountain Research StationRenoNevadaUSA
| | - Jennifer K. Balch
- Department of GeographyUniversity of Colorado BoulderBoulderColoradoUSA
- Earth LabUniversity of ColoradoBoulderColoradoUSA
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10
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Blonder B, Ray CA, Walton JA, Castaneda M, Chadwick KD, Clyne MO, Gaüzère P, Iversen LL, Lusk M, Strimbeck GR, Troy S, Mock KE. Cytotype and genotype predict mortality and recruitment in Colorado quaking aspen (Populus tremuloides). ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2021; 31:e02438. [PMID: 34374163 DOI: 10.1002/eap.2438] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Revised: 02/27/2021] [Accepted: 04/16/2021] [Indexed: 06/13/2023]
Abstract
Species responses to climate change depend on environment, genetics, and interactions among these factors. Intraspecific cytotype (ploidy level) variation is a common type of genetic variation in many species. However, the importance of intraspecific cytotype variation in determining demography across environments is poorly known. We studied quaking aspen (Populus tremuloides), which occurs in diploid and triploid cytotypes. This widespread tree species is experiencing contractions in its western range, which could potentially be linked to cytotype-dependent drought tolerance. We found that interactions between cytotype and environment drive mortality and recruitment across 503 plots in Colorado. Triploids were more vulnerable to mortality relative to diploids and had reduced recruitment on more drought-prone and disturbed plots relative to diploids. Furthermore, there was substantial genotype-dependent variation in demography. Thus, cytotype and genotype variation are associated with decline in this foundation species. Future assessment of demographic responses to climate change will benefit from knowledge of how genetic and environmental mosaics interact to determine species' ecophysiology and demography.
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Affiliation(s)
- Benjamin Blonder
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, 81224, USA
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, California, 94720, USA
| | - Courtenay A Ray
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, 81224, USA
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, California, 94720, USA
| | - James A Walton
- Department of Wildland Resources and Ecology Center, Utah State University, Logan, Utah, 84322-5230, USA
| | - Marco Castaneda
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, 81224, USA
- East Los Angeles College, Monterey Park, California, 91754, USA
| | - K Dana Chadwick
- Department of Earth System Science, Stanford University, Stanford, California, 94305, USA
- Climate and Ecosystems Division, Lawrence Berkeley National Laboratory, Berkeley, California, 94720, USA
| | - Michael O Clyne
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
| | - Pierre Gaüzère
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
| | - Lars L Iversen
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
| | - Madison Lusk
- School of Life Sciences, Arizona State University, Tempe, Arizona, 85281, USA
| | - G Richard Strimbeck
- Department of Biology, Norwegian University of Science and Technology, Trondheim, 7491, Norway
| | - Savannah Troy
- Rocky Mountain Biological Laboratory, Crested Butte, Colorado, 81224, USA
| | - Karen E Mock
- Department of Wildland Resources and Ecology Center, Utah State University, Logan, Utah, 84322-5230, USA
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11
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Melton AE, Beck J, Galla SJ, Jenkins J, Handley L, Kim M, Grimwood J, Schmutz J, Richardson BA, Serpe M, Novak S, Buerki S. A draft genome provides hypotheses on drought tolerance in a keystone plant species in Western North America threatened by climate change. Ecol Evol 2021; 11:15417-15429. [PMID: 34765187 PMCID: PMC8571618 DOI: 10.1002/ece3.8245] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 08/12/2021] [Accepted: 10/01/2021] [Indexed: 11/17/2022] Open
Abstract
Climate change presents distinct ecological and physiological challenges to plants as extreme climate events become more common. Understanding how species have adapted to drought, especially ecologically important nonmodel organisms, will be crucial to elucidate potential biological pathways for drought adaptation and inform conservation strategies. To aid in genome-to-phenome research, a draft genome was assembled for a diploid individual of Artemisia tridentata subsp. tridentata, a threatened keystone shrub in western North America. While this taxon has few genetic resources available and genetic/genomics work has proven difficult due to genetic heterozygosity in the past, a draft genome was successfully assembled. Aquaporin (AQP) genes and their promoter sequences were mined from the draft genome to predict mechanisms regulating gene expression and generate hypotheses on key genes underpinning drought response. Fifty-one AQP genes were fully assembled within the draft genome. Promoter and phylogenetic analyses revealed putative duplicates of A. tridentata subsp. tridentata AQPs which have experienced differentiation in promoter elements, potentially supporting novel biological pathways. Comparison with nondrought-tolerant congener supports enrichments of AQP genes in this taxon during adaptation to drought stress. Differentiation of promoter elements revealed that paralogues of some genes have evolved to function in different pathways, highlighting these genes as potential candidates for future research and providing critical hypotheses for future genome-to-phenome work.
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Affiliation(s)
- Anthony E. Melton
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - James Beck
- Department of ComputingBoise State UniversityBoiseIdahoUSA
| | | | - Jerry Jenkins
- HudsonAlpha Institute for BiotechnologyHuntsvilleAlabamaUSA
| | - Lori Handley
- HudsonAlpha Institute for BiotechnologyHuntsvilleAlabamaUSA
| | - Min Kim
- HudsonAlpha Institute for BiotechnologyHuntsvilleAlabamaUSA
| | - Jane Grimwood
- HudsonAlpha Institute for BiotechnologyHuntsvilleAlabamaUSA
| | - Jeremy Schmutz
- HudsonAlpha Institute for BiotechnologyHuntsvilleAlabamaUSA
| | | | - Marcelo Serpe
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Stephen Novak
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
| | - Sven Buerki
- Department of Biological SciencesBoise State UniversityBoiseIdahoUSA
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12
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Galla SJ, Brown L, Couch-Lewis Ngāi Tahu Te Hapū O Ngāti Wheke Ngāti Waewae Y, Cubrinovska I, Eason D, Gooley RM, Hamilton JA, Heath JA, Hauser SS, Latch EK, Matocq MD, Richardson A, Wold JR, Hogg CJ, Santure AW, Steeves TE. The relevance of pedigrees in the conservation genomics era. Mol Ecol 2021; 31:41-54. [PMID: 34553796 PMCID: PMC9298073 DOI: 10.1111/mec.16192] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2021] [Revised: 09/12/2021] [Accepted: 09/17/2021] [Indexed: 01/21/2023]
Abstract
Over the past 50 years conservation genetics has developed a substantive toolbox to inform species management. One of the most long‐standing tools available to manage genetics—the pedigree—has been widely used to characterize diversity and maximize evolutionary potential in threatened populations. Now, with the ability to use high throughput sequencing to estimate relatedness, inbreeding, and genome‐wide functional diversity, some have asked whether it is warranted for conservation biologists to continue collecting and collating pedigrees for species management. In this perspective, we argue that pedigrees remain a relevant tool, and when combined with genomic data, create an invaluable resource for conservation genomic management. Genomic data can address pedigree pitfalls (e.g., founder relatedness, missing data, uncertainty), and in return robust pedigrees allow for more nuanced research design, including well‐informed sampling strategies and quantitative analyses (e.g., heritability, linkage) to better inform genomic inquiry. We further contend that building and maintaining pedigrees provides an opportunity to strengthen trusted relationships among conservation researchers, practitioners, Indigenous Peoples, and Local Communities.
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Affiliation(s)
- Stephanie J Galla
- Department of Biological Sciences, Boise State University, Boise, Idaho, USA.,School of Biological Sciences, University of Canterbury, Christchurch, Canterbury, New Zealand
| | - Liz Brown
- New Zealand Department of Conservation, Twizel, Canterbury, New Zealand
| | | | - Ilina Cubrinovska
- School of Biological Sciences, University of Canterbury, Christchurch, Canterbury, New Zealand
| | - Daryl Eason
- New Zealand Department of Conservation, Invercargill, Southland, New Zealand
| | - Rebecca M Gooley
- Smithsonian-Mason School of Conservation, Front Royal, Maryland, USA.,Center for Species Survival, Smithsonian Conservation Biology Institute, National Zoological Park, Washington, District of Columbia, USA
| | - Jill A Hamilton
- Department of Biological Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Julie A Heath
- Department of Biological Sciences, Boise State University, Boise, Idaho, USA
| | - Samantha S Hauser
- Department of Biological Sciences, University of Wisconsin-Milwaukee, Milwaukee, Wisconsin, USA
| | - Emily K Latch
- Department of Biological Sciences, University of Wisconsin-Milwaukee, Milwaukee, Wisconsin, USA
| | - Marjorie D Matocq
- Department of Natural Resources and Environmental Science, Program in Ecology, Evolution and Conservation Biology, University of Nevada Reno, Reno, Nevada, USA
| | - Anne Richardson
- The Isaac Conservation and Wildlife Trust, Christchurch, Canterbury, New Zealand
| | - Jana R Wold
- School of Biological Sciences, University of Canterbury, Christchurch, Canterbury, New Zealand
| | - Carolyn J Hogg
- School of Life and Environmental Sciences, University of Sydney, Sydney, NSW, Australia
| | - Anna W Santure
- School of Biological Sciences, University of Auckland, Auckland, Auckland, New Zealand
| | - Tammy E Steeves
- School of Biological Sciences, University of Canterbury, Christchurch, Canterbury, New Zealand
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13
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Abstract
Reforestation and restoration using nursery-produced seedlings is often the most reliable way to ensure successful establishment and rapid growth of native plants. Plant establishment success—that is, the ability for the plant to develop within a set period of time with minimal further interventions needed—depends greatly on decisions made prior to planting, and yet nursery-grown plants are often produced independently of considering the range of stressors encountered after nursery production. The optimal plant or seedling will vary greatly with species and site (depending on edaphic and environmental conditions), and in having the biological capacity to withstand human and wildlife pressures placed upon vegetative communities. However, when nursery production strategies incorporate knowledge of genetic variability, address limiting factors, and include potential mitigating measures, meeting the objectives of the planting project—be it reforestation or restoration—becomes more likely. The Target Plant Concept (TPC) is an effective framework for defining, producing, and handling seedlings and other types of plant material based on specific characteristics suited to a given site. These characteristics are often scientifically derived from testing factors that are linked to outplanting success, such as seedling morphology and physiology, genetic source, and capacity to overcome limiting factors on outplanting sites. This article briefly summarizes the current knowledge drawn from existing literature for each component of the TPC framework, thereby helping land managers and scientists to meet objectives and accelerate reforestation and restoration trajectories.
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14
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McCormick ML, Carr AN, Massatti R, Winkler DE, De Angelis P, Olwell P. How to increase the supply of native seed to improve restoration success: the US native seed development process. Restor Ecol 2021. [DOI: 10.1111/rec.13499] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Molly L. McCormick
- Southwest Biological Science Center U.S. Geological Survey 2255 N Gemini Dr Flagstaff Arizona 86001 U.S.A
| | - Amanda N. Carr
- Negaunee Institute for Plant Conservation Science and Action Chicago Botanic Garden 1000 Lake Cook Road Glencoe Illinois 60022 U.S.A
| | - Rob Massatti
- Southwest Biological Science Center U.S. Geological Survey 2255 N Gemini Dr Flagstaff Arizona 86001 U.S.A
| | - Daniel E. Winkler
- Southwest Biological Science Center U.S. Geological Survey 2290 S West Resource Blvd Moab Utah 84532 U.S.A
| | - Patricia De Angelis
- Division of Scientific Authority U.S. Fish and Wildlife Service, International Affairs 5275 Leesburg Pike Falls Church Virginia 22041‐3803 U.S.A
| | - Peggy Olwell
- Plant Conservation and Restoration Program Bureau of Land Management 1387 S Vinnell Way Boise Idaho 83709 U.S.A
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15
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Marinoni L, Parra Quijano M, Zabala JM, Pensiero JF, Iriondo JM. Spatiotemporal seed transfer zones as an efficient restoration strategy in response to climate change. Ecosphere 2021. [DOI: 10.1002/ecs2.3462] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Affiliation(s)
- L. Marinoni
- Programa de Documentación, Conservación y Valoración de la Flora Nativa (PRODOCOVA) Facultad de Ciencias Agrarias Universidad Nacional del Litoral Kreder 2805 Esperanza Santa Fe3080Argentina
- Consejo de Nacional de Investigaciones Científicas y Técnicas Ciudad Autónoma de Buenos Aires Argentina
| | - M. Parra Quijano
- Departamento de Agronomía Universidad Nacional de Colombia sede Bogotá Ciudad Universitaria Bogota D.C. Colombia
| | - J. M. Zabala
- Programa de Documentación, Conservación y Valoración de la Flora Nativa (PRODOCOVA) Facultad de Ciencias Agrarias Universidad Nacional del Litoral Kreder 2805 Esperanza Santa Fe3080Argentina
- Consejo de Nacional de Investigaciones Científicas y Técnicas Ciudad Autónoma de Buenos Aires Argentina
| | - J. F. Pensiero
- Programa de Documentación, Conservación y Valoración de la Flora Nativa (PRODOCOVA) Facultad de Ciencias Agrarias Universidad Nacional del Litoral Kreder 2805 Esperanza Santa Fe3080Argentina
- Consejo de Nacional de Investigaciones Científicas y Técnicas Ciudad Autónoma de Buenos Aires Argentina
| | - J. M. Iriondo
- Área de Biodiversidad y Conservación ESCET Universidad Rey Juan Carlos Mostoles, Madrid Spain
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16
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Shryock DF, Washburn LK, DeFalco LA, Esque TC. Harnessing landscape genomics to identify future climate resilient genotypes in a desert annual. Mol Ecol 2021; 30:698-717. [PMID: 33007116 DOI: 10.1111/mec.15672] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2019] [Revised: 09/22/2020] [Accepted: 09/22/2020] [Indexed: 12/16/2022]
Abstract
Local adaptation features critically in shaping species responses to changing environments, complicating efforts to revegetate degraded areas. Rapid climate change poses an additional challenge that could reduce fitness of even locally sourced seeds in restoration. Predictive restoration strategies that apply seeds with favourable adaptations to future climate may promote long-term resilience. Landscape genomics is increasingly used to assess spatial patterns in local adaption and may represent a cost-efficient approach for identifying future-adapted genotypes. To demonstrate such an approach, we genotyped 760 plants from 64 Mojave Desert populations of the desert annual Plantago ovata. Genome scans on 5,960 SNPs identified 184 potentially adaptive loci related to climate and satellite vegetation metrics. Causal modelling indicated that variation in potentially adaptive loci was not confounded by isolation by distance or isolation by habitat resistance. A generalized dissimilarity model (GDM) attributed spatial turnover in potentially adaptive loci to temperature, precipitation and NDVI amplitude, a measure of vegetation green-up potential. By integrating a species distribution model (SDM), we find evidence that summer maximum temperature may both constrain the range of P. ovata and drive adaptive divergence in populations exposed to higher temperatures. Within the species' current range, warm-adapted genotypes are predicted to experience a fivefold expansion in climate niche by midcentury and could harbour key adaptations to cope with future climate. We recommend eight seed transfer zones and project each zone into its relative position in future climate. Prioritizing seed collection efforts on genotypes with expanding future habitat represents a promising strategy for restoration practitioners to address rapidly changing climates.
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Affiliation(s)
- Daniel F Shryock
- U.S. Geological Survey, Western Ecological Research Center, Henderson, NV, USA
| | | | - Lesley A DeFalco
- U.S. Geological Survey, Western Ecological Research Center, Henderson, NV, USA
| | - Todd C Esque
- U.S. Geological Survey, Western Ecological Research Center, Henderson, NV, USA
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Davidson BE, Germino MJ. Spatial grain of adaptation is much finer than ecoregional-scale common gardens reveal. Ecol Evol 2020; 10:9920-9931. [PMID: 33005354 PMCID: PMC7520178 DOI: 10.1002/ece3.6651] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 07/11/2020] [Accepted: 07/20/2020] [Indexed: 11/24/2022] Open
Abstract
Adaptive variation among plant populations must be known for effective conservation and restoration of imperiled species and predicting their responses to a changing climate. Common-garden experiments, in which plants sourced from geographically distant populations are grown together such that genetic differences may be expressed, have provided much insight on adaptive variation. Common-garden experiments also form the foundation for climate-based seed-transfer guidelines. However, the spatial scale at which population differentiation occurs is rarely addressed, leaving a critical information gap for parameterizing seed-transfer guidelines and assessing species' climate vulnerability. We asked whether adaptation was evident among populations of a foundational perennial within a single "empirical" seed-transfer zone (based on previous common-garden findings evaluating very distant populations) but different "provisional" seed zones (groupings of areas of similar climate and are not parameterized from common-garden data). Seedlings from three populations originating from similar conditions within an intermediate elevation were planted into gardens nearby at the same elevation, or 250-450 m higher or lower in elevation and 0.4-25 km away. Substantial variation was observed between gardens in survival (ranging 2%-99%), foliar crown volume (7.8-22.6 dm3), and reproductive effort (0%-65%), but not among the three transplanted populations. The between garden variation was inversely related to climatic differences between the gardens and seed-source populations, specifically the site differences in maximum-minimum annual temperatures. Results suggest that substantial site-specificity in adaptation can occur at finer scales than is accounted for in empirical seed-transfer guidance when the guidance is derived from broadscale common-garden studies. Being within the same empirical seed zone, geographic unit, and even within 10 km distance may not qualify as "local" in the context of seed transfer. Moving forward, designing common-garden experiments so that they allow for testing the scale of adaptation will help in translating the resulting seed-transfer guidance to restoration projects.
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Affiliation(s)
- Bill E. Davidson
- Forest and Rangeland Ecosystem Science CenterU.S. Geological SurveyBoiseIDUSA
| | - Matthew J. Germino
- Forest and Rangeland Ecosystem Science CenterU.S. Geological SurveyBoiseIDUSA
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18
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Gillard MB, Drenovsky RE, Thiébaut G, Tarayre M, Futrell CJ, Grewell BJ. Seed source regions drive fitness differences in invasive macrophytes. AMERICAN JOURNAL OF BOTANY 2020; 107:749-760. [PMID: 32406537 PMCID: PMC7384113 DOI: 10.1002/ajb2.1475] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2019] [Accepted: 02/27/2020] [Indexed: 06/11/2023]
Abstract
PREMISE Worldwide, ecosystems are threatened by global changes, including biological invasions. Invasive species arriving in novel environments experience new climatic conditions that can affect their successful establishment. Determining the response of functional traits and fitness components of invasive populations from contrasting environments can provide a useful framework to assess species responses to climate change and the variability of these responses among source populations. Much research on macrophytes has focused on establishment from clonal fragments; however, colonization from sexual propagules has rarely been studied. Our objective was to compare trait responses of plants generated from sexual propagules sourced from three climatic regions but grown under common environmental conditions, using L. peploides subsp. montevidensis as a model taxon. METHODS We grew seedlings to reproductive stage in experimental mesocosms under a mediterranean California (MCA) climate from seeds collected in oceanic France (OFR), mediterranean France (MFR), and MCA. RESULTS Seed source region was a major factor influencing differences among invasive plants recruiting from sexual propagules of L. peploides subsp. montevidensis. Trait responses of young individual recruits from MCA and OFR, sourced from geographically distant and climatically distinct source regions, were the most different. The MCA individuals accumulated more biomass, flowered earlier, and had higher leaf N concentrations than the OFR plants. Those from MFR had intermediate profiles. CONCLUSIONS By showing that the closer a seedling is from its parental climate, the better it performs, this study provides new insights to the understanding of colonization of invasive plant species and informs its management under novel and changing environmental conditions.
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Affiliation(s)
- Morgane B. Gillard
- USDA‐Agricultural Research ServiceInvasive Species and Pollinator Health Research UnitDepartment of Plant Sciences MS‐4University of California, Davis1 Shields AvenueDavisCA95616USA
| | | | | | | | - Caryn J. Futrell
- USDA‐Agricultural Research ServiceInvasive Species and Pollinator Health Research UnitDepartment of Plant Sciences MS‐4University of California, Davis1 Shields AvenueDavisCA95616USA
| | - Brenda J. Grewell
- USDA‐Agricultural Research ServiceInvasive Species and Pollinator Health Research UnitDepartment of Plant Sciences MS‐4University of California, Davis1 Shields AvenueDavisCA95616USA
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19
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Zaiats A, Lazarus BE, Germino MJ, Serpe MD, Richardson BA, Buerki S, Caughlin TT. Intraspecific variation in surface water uptake in a perennial desert shrub. Funct Ecol 2020. [DOI: 10.1111/1365-2435.13546] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Andrii Zaiats
- Department of Biological Sciences Boise State University Boise ID USA
| | - Brynne E. Lazarus
- U.S. Geological Survey, Forest and Rangeland Ecosystem Science Center Boise ID USA
| | - Matthew J. Germino
- U.S. Geological Survey, Forest and Rangeland Ecosystem Science Center Boise ID USA
| | - Marcelo D. Serpe
- Department of Biological Sciences Boise State University Boise ID USA
| | | | - Sven Buerki
- Department of Biological Sciences Boise State University Boise ID USA
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20
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Requena-Mullor JM, Maguire KC, Shinneman DJ, Caughlin TT. Integrating anthropogenic factors into regional-scale species distribution models-A novel application in the imperiled sagebrush biome. GLOBAL CHANGE BIOLOGY 2019; 25:3844-3858. [PMID: 31180605 DOI: 10.1111/gcb.14728] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 05/10/2019] [Indexed: 06/09/2023]
Abstract
Species distribution models (SDMs) that rely on regional-scale environmental variables will play a key role in forecasting species occurrence in the face of climate change. However, in the Anthropocene, a number of local-scale anthropogenic variables, including wildfire history, land-use change, invasive species, and ecological restoration practices can override regional-scale variables to drive patterns of species distribution. Incorporating these human-induced factors into SDMs remains a major research challenge, in part because spatial variability in these factors occurs at fine scales, rendering prediction over regional extents problematic. Here, we used big sagebrush (Artemisia tridentata Nutt.) as a model species to explore whether including human-induced factors improves the fit of the SDM. We applied a Bayesian hurdle spatial approach using 21,753 data points of field-sampled vegetation obtained from the LANDFIRE program to model sagebrush occurrence and cover by incorporating fire history metrics and restoration treatments from 1980 to 2015 throughout the Great Basin of North America. Models including fire attributes and restoration treatments performed better than those including only climate and topographic variables. Number of fires and fire occurrence had the strongest relative effects on big sagebrush occurrence and cover, respectively. The models predicted that the probability of big sagebrush occurrence decreases by 1.2% (95% CI: -6.9%, 0.6%) when one fire occurs and cover decreases by 44.7% (95% CI: -47.9%, -41.3%) if at least one fire occurred over the 36 year period of record. Restoration practices increased the probability of big sagebrush occurrence but had minimal effect on cover. Our results demonstrate the potential value of including disturbance and land management along with climate in models to predict species distributions. As an increasing number of datasets representing land-use history become available, we anticipate that our modeling framework will have broad relevance across a range of biomes and species.
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Affiliation(s)
| | - Kaitlin C Maguire
- Forest and Rangeland Ecosystem Science Center, U.S. Geological Survey, Boise, Idaho
| | - Douglas J Shinneman
- Forest and Rangeland Ecosystem Science Center, U.S. Geological Survey, Boise, Idaho
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