1
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Liu Y, Wang Y, Willett SD, Zimmermann NE, Pellissier L. Escarpment evolution drives the diversification of the Madagascar flora. Science 2024; 383:653-658. [PMID: 38330102 DOI: 10.1126/science.adi0833] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2023] [Accepted: 01/04/2024] [Indexed: 02/10/2024]
Abstract
Madagascar exhibits high endemic biodiversity that has evolved with sustained and stable rates of speciation over the past several tens of millions of years. The topography of Madagascar is dominated by a mountainous continental rift escarpment, with the highest plant diversity and rarity found along the steep, eastern side of this geographic feature. Using a process-explicit model, we show that precipitation-driven erosion and landward retreat of this high-relief topography creates transient habitat organization through multiple mechanisms, including catchment expansion, isolation of highland remnants, and formation of topographic barriers. Habitat isolation and reconnection on a million-year timescale serves as an allopatric speciation pump creating the observed biodiversity.
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Affiliation(s)
- Yi Liu
- Swiss Federal Research Institute (WSL), 8903 Birmensdorf, Switzerland
- Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
| | - Yanyan Wang
- Department of Earth Sciences, ETH Zürich, 8092 Zürich, Switzerland
| | - Sean D Willett
- Department of Earth Sciences, ETH Zürich, 8092 Zürich, Switzerland
| | - Niklaus E Zimmermann
- Swiss Federal Research Institute (WSL), 8903 Birmensdorf, Switzerland
- Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
| | - Loïc Pellissier
- Swiss Federal Research Institute (WSL), 8903 Birmensdorf, Switzerland
- Department of Environmental Systems Science, ETH Zürich, 8092 Zürich, Switzerland
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2
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Salles T, Husson L, Lorcery M, Hadler Boggiani B. Landscape dynamics and the Phanerozoic diversification of the biosphere. Nature 2023; 624:115-121. [PMID: 38030724 PMCID: PMC10700141 DOI: 10.1038/s41586-023-06777-z] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Accepted: 10/23/2023] [Indexed: 12/01/2023]
Abstract
The long-term diversification of the biosphere responds to changes in the physical environment. Yet, over the continents, the nearly monotonic expansion of life started later in the early part of the Phanerozoic eon1 than the expansion in the marine realm, where instead the number of genera waxed and waned over time2. A comprehensive evaluation of the changes in the geodynamic and climatic forcing fails to provide a unified theory for the long-term pattern of evolution of life on Earth. Here we couple climate and plate tectonics models to numerically reconstruct the evolution of the Earth's landscape over the entire Phanerozoic eon, which we then compare to palaeo-diversity datasets from marine animal and land plant genera. Our results indicate that biodiversity is strongly reliant on landscape dynamics, which at all times determine the carrying capacity of both the continental domain and the oceanic domain. In the oceans, diversity closely adjusted to the riverine sedimentary flux that provides nutrients for primary production. On land, plant expansion was hampered by poor edaphic conditions until widespread endorheic basins resurfaced continents with a sedimentary cover that facilitated the development of soil-dependent rooted flora, and the increasing variety of the landscape additionally promoted their development.
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Affiliation(s)
- Tristan Salles
- School of Geosciences, The University of Sydney, Sydney, New South Wales, Australia.
| | - Laurent Husson
- CNRS, ISTerre, Université Grenoble-Alpes, Grenoble, France.
| | - Manon Lorcery
- School of Geosciences, The University of Sydney, Sydney, New South Wales, Australia
- CNRS, ISTerre, Université Grenoble-Alpes, Grenoble, France
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3
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Abstract
There are two main life cycles in plants-annual and perennial1,2. These life cycles are associated with different traits that determine ecosystem function3,4. Although life cycles are textbook examples of plant adaptation to different environments, we lack comprehensive knowledge regarding their global distributional patterns. Here we assembled an extensive database of plant life cycle assignments of 235,000 plant species coupled with millions of georeferenced datapoints to map the worldwide biogeography of these plant species. We found that annual plants are half as common as initially thought5-8, accounting for only 6% of plant species. Our analyses indicate that annuals are favoured in hot and dry regions. However, a more accurate model shows that the prevalence of annual species is driven by temperature and precipitation in the driest quarter (rather than yearly means), explaining, for example, why some Mediterranean systems have more annuals than desert systems. Furthermore, this pattern remains consistent among different families, indicating convergent evolution. Finally, we demonstrate that increasing climate variability and anthropogenic disturbance increase annual favourability. Considering future climate change, we predict an increase in annual prevalence for 69% of the world's ecoregions by 2060. Overall, our analyses raise concerns for ecosystem services provided by perennial plants, as ongoing changes are leading to a higher proportion of annual plants globally.
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Affiliation(s)
- Tyler Poppenwimer
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv, Israel
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot, Israel
| | - Itay Mayrose
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv, Israel.
| | - Niv DeMalach
- Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot, Israel.
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4
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Sage RF, Gilman IS, Smith JAC, Silvera K, Edwards EJ. Atmospheric CO2 decline and the timing of CAM plant evolution. Ann Bot 2023; 132:753-770. [PMID: 37642245 PMCID: PMC10799994 DOI: 10.1093/aob/mcad122] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Revised: 08/19/2023] [Accepted: 08/28/2023] [Indexed: 08/31/2023]
Abstract
BACKGROUND AND AIMS CAM photosynthesis is hypothesized to have evolved in atmospheres of low CO2 concentration in recent geological time because of its ability to concentrate CO2 around Rubisco and boost water use efficiency relative to C3 photosynthesis. We assess this hypothesis by compiling estimates of when CAM clades arose using phylogenetic chronograms for 73 CAM clades. We further consider evidence of how atmospheric CO2 affects CAM relative to C3 photosynthesis. RESULTS Where CAM origins can be inferred, strong CAM is estimated to have appeared in the past 30 million years in 46 of 48 examined clades, after atmospheric CO2 had declined from high (near 800 ppm) to lower (<450 ppm) values. In turn, 21 of 25 clades containing CAM species (but where CAM origins are less certain) also arose in the past 30 million years. In these clades, CAM is probably younger than the clade origin. We found evidence for repeated weak CAM evolution during the higher CO2 conditions before 30 million years ago, and possible strong CAM origins in the Crassulaceae during the Cretaceous period prior to atmospheric CO2 decline. Most CAM-specific clades arose in the past 15 million years, in a similar pattern observed for origins of C4 clades. CONCLUSIONS The evidence indicates strong CAM repeatedly evolved in reduced CO2 conditions of the past 30 million years. Weaker CAM can pre-date low CO2 and, in the Crassulaceae, strong CAM may also have arisen in water-limited microsites under relatively high CO2. Experimental evidence from extant CAM species demonstrates that elevated CO2 reduces the importance of nocturnal CO2 fixation by increasing the contribution of C3 photosynthesis to daily carbon gain. Thus, the advantage of strong CAM would be reduced in high CO2, such that its evolution appears less likely and restricted to more extreme environments than possible in low CO2.
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Affiliation(s)
- Rowan F Sage
- Department of Ecology and Evolutionary Biology, University of Toronto, 25 Willcocks Street, Toronto, ON, M5S 3B2, Canada
| | - Ian S Gilman
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06511, USA
| | - J Andrew C Smith
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Katia Silvera
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Erika J Edwards
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06511, USA
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5
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Hong DY. Integrating multiplicate data: A new trend for taxonomic study. J Integr Plant Biol 2023; 65:2021-2022. [PMID: 37503794 DOI: 10.1111/jipb.13548] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2023] [Revised: 08/15/2023] [Accepted: 07/26/2023] [Indexed: 07/29/2023]
Abstract
Taxonomy today encompasses classifi cation, phylogeny, and evolution. A pressing challenge faced by taxonomists is harnessing the vast amount of genomic data to effectively conduct research on hyper‐diverse taxa.
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Affiliation(s)
- De-Yuan Hong
- State Key Laboratory of Plant Diversity and Specialty Crops, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
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6
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Arbøll TP, Rasmussen SL, de Jonge N, Hansen AH, Pertoldi C, Nielsen JL. Revealing the secrets of a 2900-year-old clay brick, discovering a time capsule of ancient DNA. Sci Rep 2023; 13:13092. [PMID: 37608001 PMCID: PMC10444888 DOI: 10.1038/s41598-023-38191-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] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2023] [Accepted: 07/04/2023] [Indexed: 08/24/2023] Open
Abstract
The recent development of techniques to sequence ancient DNA has provided valuable insights into the civilisations that came before us. However, the full potential of these methods has yet to be realised. We extracted ancient DNA from a recently exposed fracture surface of a clay brick deriving from the palace of king Ashurnasirpal II (883-859 BCE) in Nimrud, Iraq. We detected 34 unique taxonomic groups of plants. With this research we have made the pioneering discovery that ancient DNA, effectively protected from contamination inside a mass of clay, can successfully be extracted from a 2900-year-old clay brick. We encourage future research into this subject, as the scientific prospects for this approach are substantial, potentially leading to a deeper understanding of ancient and lost civilisations.
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Affiliation(s)
- Troels Pank Arbøll
- Department of Cross-Cultural and Regional Studies, University of Copenhagen, Copenhagen, Denmark.
- Faculty of Asian and Middle Eastern Studies, University of Oxford, Oxford, UK.
- Linacre College, Oxford, UK.
| | - Sophie Lund Rasmussen
- Linacre College, Oxford, UK
- Wildlife Conservation Research Unit, The Recanati-Kaplan Centre, Department of Biology, University of Oxford, Abingdon, UK
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark
| | - Nadieh de Jonge
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark
| | - Anne Haslund Hansen
- Modern History and World Cultures, National Museum of Denmark, Copenhagen, Denmark
| | - Cino Pertoldi
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark
- Aalborg Zoo, Aalborg, Denmark
| | - Jeppe Lund Nielsen
- Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark
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7
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Pei LL, Zhang LL, Liu X, Jiang J. Role of microRNA miR171 in plant development. PeerJ 2023; 11:e15632. [PMID: 37456878 PMCID: PMC10340099 DOI: 10.7717/peerj.15632] [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] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Accepted: 06/02/2023] [Indexed: 07/18/2023] Open
Abstract
MicroRNAs (miRNAs) are endogenous non-coding small RNA with 19-24 nucleotides (nts) in length, which play an essential role in regulating gene expression at the post-transcriptional level. As one of the first miRNAs found in plants, miR171 is a typical class of conserved miRNAs. The miR171 sequences among different species are highly similar, and the vast majority of them have both "GAGCCG" and "CAAUAU" fragments. In addition to being involved in plant growth and development, hormone signaling and stress response, miR171 also plays multiple and important roles in plants through interactions with microbe and other small-RNAs. The miRNA functions by regulating the expression of target genes. Most of miR171's target genes are in the GRAS gene family, but also include some NSP, miRNAs, lncRNAs, and other genes. This review is intended to summarize recent updates on miR171 regarding its function in plant life and hopefully provide new ideas for understanding miR171 function and regulatory mechanisms.
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Affiliation(s)
- Ling Ling Pei
- College of Horticulture, Shenyang Agricultural University, Shenyang, Shenhe District, China
| | - Ling Ling Zhang
- College of Horticulture, Shenyang Agriculture University, Shenyang, Shenhe District, China
| | - Xin Liu
- Horticulture Department, Shenyang Agricultural University, Shenyang, Shenhe District, China
| | - Jing Jiang
- Horticulture Department, Shenyang Agricultural University, Shenyang, Shenhe District, China
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8
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Barajas Barbosa MP, Craven D, Weigelt P, Denelle P, Otto R, Díaz S, Price J, Fernández-Palacios JM, Kreft H. Assembly of functional diversity in an oceanic island flora. Nature 2023; 619:545-550. [PMID: 37438518 DOI: 10.1038/s41586-023-06305-z] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Accepted: 06/09/2023] [Indexed: 07/14/2023]
Abstract
Oceanic island floras are well known for their morphological peculiarities and exhibit striking examples of trait evolution1-3. These morphological shifts are commonly attributed to insularity and are thought to be shaped by the biogeographical processes and evolutionary histories of oceanic islands2,4. However, the mechanisms through which biogeography and evolution have shaped the distribution and diversity of plant functional traits remain unclear5. Here we describe the functional trait space of the native flora of an oceanic island (Tenerife, Canary Islands, Spain) using extensive field and laboratory measurements, and relate it to global trade-offs in ecological strategies. We find that the island trait space exhibits a remarkable functional richness but that most plants are concentrated around a functional hotspot dominated by shrubs with a conservative life-history strategy. By dividing the island flora into species groups associated with distinct biogeographical distributions and diversification histories, our results also suggest that colonization via long-distance dispersal and the interplay between inter-island dispersal and archipelago-level speciation processes drive functional divergence and trait space expansion. Contrary to our expectations, speciation via cladogenesis has led to functional convergence, and therefore only contributes marginally to functional diversity by densely packing trait space around shrubs. By combining biogeography, ecology and evolution, our approach opens new avenues for trait-based insights into how dispersal, speciation and persistence shape the assembly of entire native island floras.
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Affiliation(s)
- Martha Paola Barajas Barbosa
- Biodiversity, Macroecology & Biogeography, University of Göttingen, Göttingen, Germany.
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany.
- Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle (Saale), Germany.
| | - Dylan Craven
- Centro de Modelación y Monitoreo de Ecosistemas, Universidad Mayor, Santiago, Chile
- Data Observatory Foundation, Santiago, Chile
| | - Patrick Weigelt
- Biodiversity, Macroecology & Biogeography, University of Göttingen, Göttingen, Germany
- Campus-Institute Data Science, University of Göttingen, Göttingen, Germany
- Centre of Biodiversity and Sustainable Land Use (CBL), University of Göttingen, Göttingen, Germany
| | - Pierre Denelle
- Biodiversity, Macroecology & Biogeography, University of Göttingen, Göttingen, Germany
| | - Rüdiger Otto
- Island Ecology and Biogeography Research Group, Department of Botany, Ecology and Plant Physiology, Universidad de La Laguna, Canary Islands, Spain
| | - Sandra Díaz
- Instituto Multidisciplinario de Biología Vegetal (IMBIV), Consejo Nacional de Investigaciones Científicas y Técnicas and Facultad de Ciencias Exactas, Físicas y Naturales, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Jonathan Price
- Department of Geography and Environmental Science, University of Hawai'i at Hilo, Hilo, HI, USA
| | - José María Fernández-Palacios
- Island Ecology and Biogeography Research Group, Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias (IUETSPC), Universidad de La Laguna, Tenerife, Canary Islands, Spain
| | - Holger Kreft
- Biodiversity, Macroecology & Biogeography, University of Göttingen, Göttingen, Germany
- Campus-Institute Data Science, University of Göttingen, Göttingen, Germany
- Centre of Biodiversity and Sustainable Land Use (CBL), University of Göttingen, Göttingen, Germany
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9
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Papachristoforou A, Prodromou M, Hadjimitsis D, Christoforou M. Detecting and distinguishing between apicultural plants using UAV multispectral imaging. PeerJ 2023; 11:e15065. [PMID: 37077312 PMCID: PMC10108856 DOI: 10.7717/peerj.15065] [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] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Accepted: 02/23/2023] [Indexed: 04/21/2023] Open
Abstract
Detecting and distinguishing apicultural plants are important elements of the evaluation and quantification of potential honey production worldwide. Today, remote sensing can provide accurate plant distribution maps using rapid and efficient techniques. In the present study, a five-band multispectral unmanned aerial vehicle (UAV) was used in an established beekeeping area on Lemnos Island, Greece, for the collection of high-resolution images from three areas where Thymus capitatus and Sarcopoterium spinosum are present. Orthophotos of UAV bands for each area were used in combination with vegetation indices in the Google Earth Engine (GEE) platform, to classify the area occupied by the two plant species. From the five classifiers (Random Forest, RF; Gradient Tree Boost, GTB; Classification and Regression Trees, CART; Mahalanobis Minimum Distance, MMD; Support Vector Machine, SVM) in GEE, the RF gave the highest overall accuracy with a Kappa coefficient reaching 93.6%, 98.3%, 94.7%, and coefficient of 0.90, 0.97, 0.92 respectively for each case study. The training method used in the present study detected and distinguish the two plants with great accuracy and results were confirmed using 70% of the total score to train the GEE and 30% to assess the method's accuracy. Based on this study, identification and mapping of Thymus capitatus areas is possible and could help in the promotion and protection of this valuable species which, on many Greek Islands, is the sole foraging plant of honeybees.
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Affiliation(s)
- Alexandros Papachristoforou
- Department of Food Science and Technology, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Department of Food Science and Nutrition, School of the Environment, University of the Aegean, Myrina, Greece
| | - Maria Prodromou
- Department of Civil Engineering and Geomatics, Cyprus University of Technology, Limassol, Cyprus
- Department of Environment and Climate, Eratosthenes Center of Excelence, Limassol, Cyprus
| | - Diofantos Hadjimitsis
- Department of Civil Engineering and Geomatics, Cyprus University of Technology, Limassol, Cyprus
- Department of Environment and Climate, Eratosthenes Center of Excelence, Limassol, Cyprus
| | - Michalakis Christoforou
- Department of Environment and Climate, Eratosthenes Center of Excelence, Limassol, Cyprus
- Department of Agricultural Science, Biotechnology and Food Science, Cyprus University of Technology, Limassol, Cyprus
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10
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Fernández-Martínez M, Peñuelas J, Chevallier F, Ciais P, Obersteiner M, Rödenbeck C, Sardans J, Vicca S, Yang H, Sitch S, Friedlingstein P, Arora VK, Goll DS, Jain AK, Lombardozzi DL, McGuire PC, Janssens IA. Diagnosing destabilization risk in global land carbon sinks. Nature 2023; 615:848-853. [PMID: 36813960 DOI: 10.1038/s41586-023-05725-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Accepted: 01/11/2023] [Indexed: 02/24/2023]
Abstract
Global net land carbon uptake or net biome production (NBP) has increased during recent decades1. Whether its temporal variability and autocorrelation have changed during this period, however, remains elusive, even though an increase in both could indicate an increased potential for a destabilized carbon sink2,3. Here, we investigate the trends and controls of net terrestrial carbon uptake and its temporal variability and autocorrelation from 1981 to 2018 using two atmospheric-inversion models, the amplitude of the seasonal cycle of atmospheric CO2 concentration derived from nine monitoring stations distributed across the Pacific Ocean and dynamic global vegetation models. We find that annual NBP and its interdecadal variability increased globally whereas temporal autocorrelation decreased. We observe a separation of regions characterized by increasingly variable NBP, associated with warm regions and increasingly variable temperatures, lower and weaker positive trends in NBP and regions where NBP became stronger and less variable. Plant species richness presented a concave-down parabolic spatial relationship with NBP and its variability at the global scale whereas nitrogen deposition generally increased NBP. Increasing temperature and its increasing variability appear as the most important drivers of declining and increasingly variable NBP. Our results show increasing variability of NBP regionally that can be mostly attributed to climate change and that may point to destabilization of the coupled carbon-climate system.
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Affiliation(s)
- Marcos Fernández-Martínez
- PLECO (Plants and Ecosystems), Department of Biology, University of Antwerp, Wilrijk, Belgium.
- CREAF, Campus de Bellaterra (UAB), Cerdanyola del Vallès, Spain.
- BEECA-UB, Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, Barcelona, Spain.
| | - Josep Peñuelas
- CREAF, Campus de Bellaterra (UAB), Cerdanyola del Vallès, Spain
- CSIC, Global Ecology Unit, CREAF-CSIC-UAB, Bellaterra, Barcelona, Spain
| | - Frederic Chevallier
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Philippe Ciais
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Michael Obersteiner
- International Institute for Applied Systems Analysis (IIASA), Laxenburg, Austria
- School of Geography and the Environment, University of Oxford, Oxford, UK
| | - Christian Rödenbeck
- Department of Biogeochmical Systems, Max Planck Institute for Biogeochemistry, Jena, Germany
| | - Jordi Sardans
- CREAF, Campus de Bellaterra (UAB), Cerdanyola del Vallès, Spain
- CSIC, Global Ecology Unit, CREAF-CSIC-UAB, Bellaterra, Barcelona, Spain
| | - Sara Vicca
- PLECO (Plants and Ecosystems), Department of Biology, University of Antwerp, Wilrijk, Belgium
| | - Hui Yang
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Stephen Sitch
- College of Life and Environmental Sciences, University of Exeter, Exeter, UK
| | - Pierre Friedlingstein
- College of Engineering, Mathematics, and Physical Sciences, University of Exeter, Exeter, UK
| | - Vivek K Arora
- Canadian Centre for Climate Modelling and Analysis, Climate Research Division, Environment and Climate Change Canada, Victoria, BC, Canada
| | - Daniel S Goll
- Laboratoire des Sciences du Climat et de l'Environnement, LSCE/IPSL, CEA-CNRS-UVSQ, Université Paris-Saclay, Gif-sur-Yvette, France
| | - Atul K Jain
- Department of Atmospheric Sciences, University of Illinois, Urbana, IL, USA
| | - Danica L Lombardozzi
- Climate and Global Dynamics Laboratory, National Center for Atmospheric Research, Boulder, CO, USA
| | - Patrick C McGuire
- Department of Meteorology, Department of Geography & Environmental Science, National Centre for Atmospheric Science, University of Reading, Reading, UK
| | - Ivan A Janssens
- PLECO (Plants and Ecosystems), Department of Biology, University of Antwerp, Wilrijk, Belgium
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11
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Viruel J, Hidalgo O, Pokorny L, Forest F, Gravendeel B, Wilkin P, Leitch IJ. A Bioinformatic Pipeline to Estimate Ploidy Level from Target Capture Sequence Data Obtained from Herbarium Specimens. Methods Mol Biol 2023; 2672:115-126. [PMID: 37335471 DOI: 10.1007/978-1-0716-3226-0_5] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/21/2023]
Abstract
Whole genome duplications (WGD) are frequent in many plant lineages; however, ploidy level variation is unknown in most species. The most widely used methods to estimate ploidy levels in plants are chromosome counts, which require living specimens, and flow cytometry estimates, which necessitate living or relatively recently collected samples. Newly described bioinformatic methods have been developed to estimate ploidy levels using high-throughput sequencing data, and these have been optimized in plants by calculating allelic ratio values from target capture data. This method relies on the maintenance of allelic ratios from the genome to the sequence data. For example, diploid organisms will generate allelic data in a 1:1 proportion, with an increasing number of possible allelic ratio combinations occurring in individuals with higher ploidy levels. In this chapter, we explain step-by-step this bioinformatic approach for the estimation of ploidy level.
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Affiliation(s)
| | - Oriane Hidalgo
- Royal Botanic Gardens, Kew, Richmond, UK
- Institut Botànic de Barcelona (IBB, CSIC-Ajuntament de Barcelona), Barcelona, Catalonia, Spain
| | - Lisa Pokorny
- Royal Botanic Gardens, Kew, Richmond, UK
- Institut Botànic de Barcelona (IBB, CSIC-Ajuntament de Barcelona), Barcelona, Catalonia, Spain
- Real Jardín Botánico (RJB-CSIC), Madrid, Spain
| | | | - Barbara Gravendeel
- Naturalis Biodiversity Center, Evolutionary Ecology, Leiden, Netherlands
- Radboud Institute for Biological and Environmental Sciences, Leiden University, Leiden, Netherlands
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12
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Chang M, Luo X, Zhang Y, Pang Y, Li M, Liu J, Da L, Song K. Land-use diversity can better predict urban spontaneous plant richness than impervious surface coverage at finer spatial scales. J Environ Manage 2022; 323:116205. [PMID: 36116254 DOI: 10.1016/j.jenvman.2022.116205] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Revised: 08/21/2022] [Accepted: 09/05/2022] [Indexed: 06/15/2023]
Abstract
Urban spontaneous plants, that are not intentionally propagated by humans and do not belong to the remnants of the natural habitats, not only occur in green spaces but are also distributed in diverse microhabitats in impervious surface areas. Impervious surface coverage is commonly used in studies on spontaneous plant diversity patterns in human-dominated landscapes; however, the role of habitat diversity (i.e., land-use diversity) has been overlooked. Here, we surveyed spontaneous plant composition and land uses (12 types) in 321 0.25 ha sampling sites on the Chongming District islands, Shanghai, to determine the role of land-use diversity in explaining species richness. We examined the linear relationships between species richness and land-use diversity, and quantified the importance of impervious surface coverage and land-use diversity using the random forest (RF) method. All these analyses were conducted for spatial scales from 0.25 to 5 ha in 0.25 ha increments. We found an overall positive relationship between species richness and land-use diversity, and the RF model predicted approximately 50% of the species richness variation at the smallest spatial scale. However, the positive relationship weakened with spatial scale increase, and a rapid decline in explanatory power occurred for all predictor variables in the RF model. Besides impervious surface coverage, both the vegetated and non-vegetated land-use diversity contributed substantially to the prediction of species richness at finer spatial scales. The findings clarify how land-use diversity, both in green spaces and impervious surface areas, affect urban spontaneous plant richness and should be considered in urban biodiversity conservation strategies at the neighborhood scale.
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Affiliation(s)
- Mingyang Chang
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China.
| | - Xinyi Luo
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China.
| | - Yaru Zhang
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China.
| | - Yulan Pang
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China.
| | - Menghan Li
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China.
| | - Jiajia Liu
- MOE Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science, School of Life Sciences, Fudan University, Shanghai 200438, China.
| | - Liangjun Da
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China; Institute of Eco-Chongming, Shanghai 200062, China; Technology Innovation Center for Land Spatial Eco-restoration in Metropolitan Area, Ministry of Natural Resources, Shanghai 200062, China.
| | - Kun Song
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China; Institute of Eco-Chongming, Shanghai 200062, China; Technology Innovation Center for Land Spatial Eco-restoration in Metropolitan Area, Ministry of Natural Resources, Shanghai 200062, China.
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13
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Larson CD, Rew LJ. Restoration intensity shapes floristic recovery after forest road decommissioning. J Environ Manage 2022; 319:115729. [PMID: 35853306 DOI: 10.1016/j.jenvman.2022.115729] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Revised: 06/29/2022] [Accepted: 07/09/2022] [Indexed: 06/15/2023]
Abstract
Forest roads fragment and degrade ecosystems and many have fallen into disrepair and are underutilized, to address these issues the United States Forest Service is restoring, or "decommissioning," thousands of kilometers of forest roads each year. Despite the prevalence of decommissioning and the importance of vegetation to restoration success, relatively little is known about floristic responses to different forest road decommissioning treatments or subsequent recovery to reference conditions. Over a ten year period, this study assessed floristic cover, diversity, and composition responses to and recovery on forest roads decommissioned using three treatments varying in intensity (abandonment, ripping, recontouring), in Montana, USA. Initially, floristic cover groups were lowest on the recontoured roads, however, they demonstrated the fastest temporal response (e.g. increased litter and vegetative cover). The floristic communities of both active treatments (ripped and recontoured) had more species and were more diverse than the communities of the abandoned (control) treatment. Among the three on-road plant communities, the recontoured treatment was most associated with desirable species, including the native shrubs Rosa woodsii and Spirea betulifolia, while the abandoned treatment was most associated with two non-native species, Taraxacum officinale and Trifolium repens. Assessed using a restoration index, recovery to reference conditions was limited in all treatments, however, the recontoured treatment had a positive restoration trajectory in seven of eight metrics and was the best recovered treatment. Community composition on the recontoured treatment had more native species than the other treatments, and was moving toward, though still substantially different from, reference communities. These findings demonstrate that restoration of forest roads benefit from active restoration methods and, while forest road recontouring facilitates floristic recovery in the first decade after decommissioning, full recovery will likely take years to decades longer.
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Affiliation(s)
- Christian D Larson
- Department of Land Resources and Environmental Sciences, Montana State University, 334 Leon Johnson Hall, Bozeman, MT, 59717, United States.
| | - Lisa J Rew
- Department of Land Resources and Environmental Sciences, Montana State University, 334 Leon Johnson Hall, Bozeman, MT, 59717, United States
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14
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Weemstra M, Roumet C, Cruz-Maldonado N, Anthelme F, Stokes A, Freschet GT. Environmental variation drives the decoupling of leaf and root traits within species along an elevation gradient. Ann Bot 2022; 130:419-430. [PMID: 35405006 PMCID: PMC9486920 DOI: 10.1093/aob/mcac052] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 04/06/2022] [Indexed: 06/14/2023]
Abstract
BACKGROUND AND AIMS Plant performance is enhanced by balancing above- and below-ground resource uptake through the intraspecific adjustment of leaf and root traits. It is assumed that these organ adjustments are at least partly coordinated, so that analogous leaf and root traits broadly covary. Understanding the extent of such intraspecific leaf-root trait covariation would strongly contribute to our understanding of how plants match above- and below-ground resource use strategies as their environment changes, but comprehensive studies are lacking. METHODS We measured analogous leaf and root traits from 11 species, as well as climate, soil and vegetation properties along a 1000-m elevation gradient in the French Alps. We determined how traits varied along the gradient, to what extent this variation was determined by the way different traits respond to environmental cues acting at different spatial scales (i.e. within and between elevations), and whether trait pairs covaried within species. KEY RESULTS Leaf and root trait patterns strongly diverged: across the 11 species along the gradient, intraspecific leaf trait patterns were largely consistent, whereas root trait patterns were highly idiosyncratic. We also observed that, when compared with leaves, intraspecific variation was greater in root traits, due to the strong effects of the local environment (i.e. at the same elevation), while landscape-level effects (i.e. at different elevations) were minor. Overall, intraspecific trait correlations between analogous leaf and root traits were nearly absent. CONCLUSIONS Our study suggests that environmental gradients at the landscape level, as well as local heterogeneity in soil properties, are the drivers of a strong decoupling between analogous leaf and root traits within species. This decoupling of plant resource acquisition strategies highlights how plants can exhibit diverse whole-plant acclimation strategies to modify above- and below-ground resource uptake, improving their resilience to environmental change.
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Affiliation(s)
| | - C Roumet
- CEFE, University of Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - N Cruz-Maldonado
- AMAP, INRAE, CIRAD, IRD, CNRS, University of Montpellier, Montpellier, France
| | - F Anthelme
- AMAP, INRAE, CIRAD, IRD, CNRS, University of Montpellier, Montpellier, France
| | - A Stokes
- AMAP, INRAE, CIRAD, IRD, CNRS, University of Montpellier, Montpellier, France
| | - G T Freschet
- Station d’Ecologie Théorique et Expérimentale, CNRS, 2 route du CNRS, 09200 Moulis, France
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15
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Xu Y, Zheng ZW, Guo ZD, Dou SQ, Huang WT. [Dynamic Variation in Vegetation Cover and Its Influencing Factor Detection in the Yangtze River Basin from 2000 to 2020]. Huan Jing Ke Xue 2022; 43:3730-3740. [PMID: 35791556 DOI: 10.13227/j.hjkx.202112081] [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] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Studies on the dynamic variation in vegetation cover and detecting its influencing factors are highly valuable for monitoring regional ecological environment quality and evaluating forestry restoration project effects. In this study, on the basis of the MODIS normalized difference vegetation index (NDVI), in situ climate data, digital elevation model, population density, nighttime lights using Theil-Sen Median analysis, Mann-Kendall significance test, stability analysis, and geographical detector model, the spatiotemporal variation and stability of vegetation cover in the context of multi-spatiotemporal scales were analyzed, and the dominant influencing factors that affect the spatial differentiation of vegetation cover were further detected. The results showed that the vegetation cover showed a fluctuant increasing trend, and the changing trend exhibited obvious spatial heterogeneity with the increasing rate being higher in the middle and lower in the east and west portion of the Yangtze River basin from 2000 to 2020. At the sub-basin scale, except for that in the Taihu Lake basin, the vegetation cover in all sub-basin units exhibited an increasing trend during the study period. The areas with an increasing trend accounted for 84.09% of the study area, in which the areas with extremely significant increases and significant increases accounted for 53.67%, which were mainly distributed in the Wujiang River basin, Yibin-yichang, Jialing River basin, Han River basin, and Dongting Lake basin. The vegetation cover showed lower stability in the upper reaches of the Jinsha-shigu River basin and Taihu Lake basin and higher stability in other sub-basin units of the study area. Elevation was an important factor affecting the vegetation variation in all sub-basin areas. Climatic factors presented the highest impact on vegetation variation in the upper reaches of the Jinsha-shigu River basin, and human activities exhibited the greatest impact on vegetation variation in the Wujiang River basin, lower reaches of Hukou basin, and Taihu Lake basin. The interaction of the two influencing factors on vegetation variation showed mutual and non-linear enhancement, and the interaction between elevation and wind speed presented the highest value, with an explanatory power of 68%. The ecological exploration results showed that human activities combined with topographic factors and climate factors, except for slope and relative humidity, significantly differed in the explanatory power of vegetation variation in the Yangtze River basin. These results can provide a basis for formulating comprehensive vegetation resource management in the Yangtze River basin that takes into account regional climate, topography, and human activities.
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Affiliation(s)
- Yong Xu
- College of Geomatics and Geoinformation, Guilin University of Technology, Guilin 541006, China
| | - Zhi-Wei Zheng
- College of Geomatics and Geoinformation, Guilin University of Technology, Guilin 541006, China
| | - Zhen-Dong Guo
- College of Geomatics and Geoinformation, Guilin University of Technology, Guilin 541006, China
| | - Shi-Qing Dou
- College of Geomatics and Geoinformation, Guilin University of Technology, Guilin 541006, China
| | - Wen-Ting Huang
- College of Geomatics and Geoinformation, Guilin University of Technology, Guilin 541006, China
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16
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Zhu H, Huang Y, Li Y, Yu F, Zhang G, Fan L, Zhou J, Li Z, Yuan M. Predicting plant diversity in beach wetland downstream of Xiaolangdi reservoir with UAV and satellite multispectral images. Sci Total Environ 2022; 819:153059. [PMID: 35031373 DOI: 10.1016/j.scitotenv.2022.153059] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Revised: 01/05/2022] [Accepted: 01/07/2022] [Indexed: 06/14/2023]
Abstract
Accurate and timely acquisition of plant diversity information downstream of the reservoir is helpful to understand the impact mechanism of reservoir operation on wetland plant diversity and formulate reasonable water and sediment regulation strategies. In this study, we conducted field surveys in two communities (Phragmites australis and Tamarix chinensis) at a typical wetland in the lower reaches of Xiaolangdi Reservoir on the Yellow River, and employed UAV and Gaofen 1B multispectral images to estimate the wetland plant diversity. Results showed that most diversity indexes had a higher correlation with the mean of spectral vegetation indexes (DVI, RVI, NDVI, SAVI, and MSAVI). The diversity indexes (C_SP and C_SW) constructed by relative coverage had a better overall correlation with spectral indexes. Interestingly, opposite correlations were found between Tamarix chinensis and Phragmites australis plots. We further gave a deep insight into the interspecific associations in Phragmites australis and Tamarix chinensis plots with the variance ratio (VR) method. It was found that plant species in Tamarix chinensis plot showed positive association (VR > 1), with a VR value of 1.095. Plant species in Phragmites australis plot had a negative association (VR < 1), with a VR value of 0.983. In Phragmites australis plot, C_SP and C_SW showed a significant decreasing trend (r2 of 0.36 and 0.33 respectively, and P values less than 0.001) with the increase of Phragmites australis coverage. Moreover, the effect of spatial resolution was not significant on plant diversity estimation. Correlations between remote sensing indexes and diversity indexes were improved with the quadrat size changing from 2 m × 2 m to 4 m × 4 m. These findings demonstrate promising approaches for remote sensing of wetland plant diversity and indicate that the type of wetland plant community determines the relationship between diversity index and spectral index.
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Affiliation(s)
- Honglei Zhu
- Henan Normal University, Xinxiang, Henan 453007, China; Puyang Field Scientific Observation and Research Station for Yellow River Wetland Ecosystem, Henan Province, China.
| | - Yanwei Huang
- Henan Normal University, Xinxiang, Henan 453007, China
| | - Yingchen Li
- Henan Normal University, Xinxiang, Henan 453007, China; Puyang Field Scientific Observation and Research Station for Yellow River Wetland Ecosystem, Henan Province, China
| | - Fei Yu
- Henan Normal University, Xinxiang, Henan 453007, China; Puyang Field Scientific Observation and Research Station for Yellow River Wetland Ecosystem, Henan Province, China
| | - Guoyuan Zhang
- Henan Normal University, Xinxiang, Henan 453007, China
| | - Linlin Fan
- Henan Normal University, Xinxiang, Henan 453007, China
| | - Jiahui Zhou
- Henan Normal University, Xinxiang, Henan 453007, China
| | - Zihan Li
- Henan Normal University, Xinxiang, Henan 453007, China
| | - Meng Yuan
- Henan Normal University, Xinxiang, Henan 453007, China
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17
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Wu S, Wang Y, Wang Z, Shrestha N, Liu J. Species divergence with gene flow and hybrid speciation on the Qinghai-Tibet Plateau. New Phytol 2022; 234:392-404. [PMID: 35020198 DOI: 10.1111/nph.17956] [Citation(s) in RCA: 37] [Impact Index Per Article: 18.5] [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: 09/16/2021] [Accepted: 12/09/2021] [Indexed: 06/14/2023]
Abstract
The Qinghai-Tibet Plateau (QTP) sensu lato (sl), comprising the platform, the Himalaya and the Hengduan Mountains, is characterized by a large number of endemic plant species. This evolutionary cradle may have arisen from explosive species diversification because of geographic isolation. However, gene flow has been widely detected during the speciation processes of all groups examined, suggesting that natural selection may have also played an important role during species divergence in this region. In addition, natural hybrids have been recovered in almost all species-rich genera. This suggests that numerous species in this region are still 'on the speciation pathway to complete reproductive isolation (RI)'. Such hybrids could directly develop into new species through hybrid polyploidization and homoploid hybrid speciation (HHS). HHS may take place more easily than previously thought through alternate inheritance of alleles of parents at multiple RI loci. Therefore, isolation, selection and hybridization could together have promoted species diversification of numerous plant genera on the QTP sl. We emphasize the need for identification and functional analysis of alleles of major genes for speciation, and especially encourage investigations of parallel adaptive divergence causing RI across different lineages within similar but specific habitats in this region.
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Affiliation(s)
- Shengdan Wu
- State Key Laboratory of Grassland Agro-Ecosystems and College of Ecology, Lanzhou University, Lanzhou, 730000, China
| | - Yi Wang
- Key Laboratory for Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Zefu Wang
- Key Laboratory for Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Nawal Shrestha
- State Key Laboratory of Grassland Agro-Ecosystems and College of Ecology, Lanzhou University, Lanzhou, 730000, China
| | - Jianquan Liu
- State Key Laboratory of Grassland Agro-Ecosystems and College of Ecology, Lanzhou University, Lanzhou, 730000, China
- Key Laboratory for Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
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18
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Tian ZH, Ren ZG, Wei HT. [Driving Mechanism of the Spatiotemporal Evolution of Vegetation in the Yellow River Basin from 2000 to 2020]. Huan Jing Ke Xue 2022; 43:743-751. [PMID: 35075848 DOI: 10.13227/j.hjkx.202105213] [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] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The NDVI (normalized difference vegetation index) was used as the vegetation coverage index. Based on the NDVI and weather data from 2000 to 2020, the characteristics of the spatiotemporal evolution and the driving mechanism of vegetation were investigated by using correlation analysis, the Theil-Sen estimator, the Mann-Kendall method, and multivariate residual trend analysis. The results showed that the growing season average NDVI in the Yellow River basin was a fluctuating upward trend of 0.005 a-1 from 2000 to 2020. Areas with significantly improved vegetation in the basin were mainly distributed in the Qinling Mountains, the Northern Shaanxi Plateau, and the Lvliang Mountains in the midstream. The average value of the partial correlation coefficient between the growing season average NDVI and rainfall in the Yellow River basin was 0.57, and the average value of the partial correlation coefficient between the growing season average NDVI and temperature was 0.49. The impact of rainfall on vegetation was higher than that of temperature. The areas where human activities significantly improved vegetation growth were mainly distributed in the northern Shaanxi Plateau, the Lvliang Mountains, and southern Ningxia. The areas where human activities inhibited vegetation growth were mainly distributed in cities with strong human activities such as Yinchuan, Baotou, Xi'an, Luoyang, Zhengzhou, and Taiyuan. Human activities and climate change contributed to 72% and 28% of the vegetation change in the Yellow River basin. Driven by human activities and climate change, the area where vegetation growth has improved in the Yellow River basin accounted for 96.4% of the basin area, of which the contribution rate of human activities greater than 80% of the area accounted for 34.3%, which was mainly distributed in the middle and southeast of the basin. The area with a contribution rate of climate change greater than 80% accounted for 4.2%, which was mainly distributed in the Sichuan-Tibet Plateau and Longzhong Loess Plateau in the basin. The results of this research can provide scientific support for the ecological protection and high-quality development of the Yellow River basin.
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Affiliation(s)
- Zhi-Hui Tian
- School of Earth Sciences and Technology, Zhengzhou University, Zhengzhou 450000, China
- Joint Laboratory of Eco-Meteorology, Zhengzhou University-Chinese Academy of Meteorological Sciences, Zhengzhou 450000, China
| | - Zu-Guang Ren
- College of Chemistry, Zhengzhou University, Zhengzhou 450000, China
| | - Hai-Tao Wei
- School of Earth Sciences and Technology, Zhengzhou University, Zhengzhou 450000, China
- Joint Laboratory of Eco-Meteorology, Zhengzhou University-Chinese Academy of Meteorological Sciences, Zhengzhou 450000, China
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Engelstad P, Jarnevich CS, Hogan T, Sofaer HR, Pearse IS, Sieracki JL, Frakes N, Sullivan J, Young NE, Prevéy JS, Belamaric P, LaRoe J. INHABIT: A web-based decision support tool for invasive plant species habitat visualization and assessment across the contiguous United States. PLoS One 2022; 17:e0263056. [PMID: 35134065 PMCID: PMC8824347 DOI: 10.1371/journal.pone.0263056] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Accepted: 01/11/2022] [Indexed: 11/18/2022] Open
Abstract
Narrowing the communication and knowledge gap between producers and users of scientific data is a longstanding problem in ecological conservation and land management. Decision support tools (DSTs), including websites or interactive web applications, provide platforms that can help bridge this gap. DSTs can most effectively disseminate and translate research results when producers and users collaboratively and iteratively design content and features. One data resource seldom incorporated into DSTs are species distribution models (SDMs), which can produce spatial predictions of habitat suitability. Outputs from SDMs can inform management decisions, but their complexity and inaccessibility can limit their use by resource managers or policy makers. To overcome these limitations, we present the Invasive Species Habitat Tool (INHABIT), a novel, web-based DST built with R Shiny to display spatial predictions and tabular summaries of habitat suitability from SDMs for invasive plants across the contiguous United States. INHABIT provides actionable science to support the prevention and management of invasive species. Two case studies demonstrate the important role of end user feedback in confirming INHABIT's credibility, utility, and relevance.
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Affiliation(s)
- Peder Engelstad
- Natural Resource Ecology Laboratory, Colorado State University, Fort Collins, Colorado, United States of America
| | - Catherine S. Jarnevich
- U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | - Terri Hogan
- National Park Service, Fort Collins, Colorado, United States of America
| | - Helen R. Sofaer
- U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | - Ian S. Pearse
- U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | | | - Neil Frakes
- National Park Service, Joshua Tree National Park, Twentynine Palms, California, United States of America
| | - Julia Sullivan
- Student Contractor to the U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | - Nicholas E. Young
- Natural Resource Ecology Laboratory, Colorado State University, Fort Collins, Colorado, United States of America
| | - Janet S. Prevéy
- U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | - Pairsa Belamaric
- Student Contractor to the U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
| | - Jillian LaRoe
- Student Contractor to the U.S. Geological Survey, Fort Collins Science Center, Fort Collins, Colorado, United States of America
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20
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Devi A, Hussain SA, Sharma M, Gopi GV, Badola R. Seasonal pattern of food habits of large herbivores in riverine alluvial grasslands of Brahmaputra floodplains, Assam. Sci Rep 2022; 12:482. [PMID: 35013461 PMCID: PMC8748768 DOI: 10.1038/s41598-021-04295-4] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2021] [Accepted: 12/13/2021] [Indexed: 11/21/2022] Open
Abstract
Jarman-Bell (1974) hypothesized that in the dry savanna of Africa, small-bodied herbivores tend to browse more on forage with high protein and low fibre content. This implies browsing on high nutritive forage by meso-herbivores, and grazing and mixed feeding on coarse forage by mega-herbivores. We tested this hypothesis in the riverine alluvial grasslands of the Kaziranga National Park (KNP), where seasonal flood and fire play an important role in shaping the vegetation structure. We analyzed the feeding habits and quality of major forage species consumed by three mega-herbivores, viz. greater one-horned rhino, Asian elephant, and Asiatic wild buffalo, and three meso-herbivores, viz. swamp deer, hog deer, and sambar. We found that both mega and meso-herbivores were grazers and mixed feeders. Overall, 25 forage plants constituted more than 70% of their diet. Among monocots, family Poaceae with Saccharum spp. (contributing > 9% of the diet), and, among dicots, family Rhamnaceae with Ziziphus jujuba (contributing > 4% of the diet) fulfilled the dietary needs. In the dry season, the concentration of crude protein, neutral detergent fibre, calcium, sodium, and phosphorous varied significantly between monocots and dicots, whereas only calcium and sodium concentrations varied significantly in the wet season. Dicots were found to be more nutritious throughout the year. Compared to the dry season, the monocots, viz. Alpinia nigra, Carex vesicaria, Cynodon dactylon, Echinochloa crus-galli, Hemarthria compressa, Imperata cylindrica, and Saccharum spp., with their significantly high crude protein, were more nutritious during the wet season. Possibly due to the availability of higher quality monocots in the wet season, both mega and meso-herbivores consume it in high proportion. We concluded that the Jarman-Bell principle does not apply to riverine alluvial grasslands as body size did not explain the interspecific dietary patterns of the mega and meso-herbivores. This can be attributed to seasonal floods, habitat and forage availability, predation risk, and management practices such as controlled burning of the grasslands. The ongoing succession and invasion processes, anthropogenic pressures, and lack of grassland conservation policy are expected to affect the availability of the principal forage and suitable habitat of large herbivores in the Brahmaputra floodplains, which necessitates wet grassland-based management interventions for the continued co-existence of large herbivores in such habitats.
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Affiliation(s)
- Anita Devi
- Wildlife Institute of India, Chandrabani, Post Box # 18, Dehra Dun, Uttarakhand, 248001, India
| | - Syed Ainul Hussain
- Wildlife Institute of India, Chandrabani, Post Box # 18, Dehra Dun, Uttarakhand, 248001, India.
| | - Monika Sharma
- Wildlife Institute of India, Chandrabani, Post Box # 18, Dehra Dun, Uttarakhand, 248001, India
| | | | - Ruchi Badola
- Wildlife Institute of India, Chandrabani, Post Box # 18, Dehra Dun, Uttarakhand, 248001, India
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Abstract
Large mammal herbivores are important drivers of plant evolution and vegetation patterns, but the extent to which plant trait and ecosystem geography currently reflect the historical distribution of extinct megafauna is unknown. We address this question for South and Central America (Neotropical biogeographic realm) by compiling data on plant defence traits, climate, soil, and fire, as well as on the historical distribution of extinct megafauna and extant mammal herbivores. We show that historical mammal herbivory, especially by extinct megafauna, and soil fertility explain substantial variability in wood density, leaf size, spines and latex. We also identified three distinct regions (''antiherbiomes''), differing in plant defences, environmental conditions, and megafauna history. These patterns largely matched those observed in African ecosystems, where abundant megafauna still roams, and suggest that some ecoregions experienced savanna-to-forest shifts following megafauna extinctions. Here, we show that extinct megafauna left a significant imprint on current ecosystem biogeography.
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Affiliation(s)
- Vinicius L Dantas
- Institute of Geography, Federal University of Uberlandia (UFU), Av. João Naves de Avila, 2121, Uberlandia, 38400-902, MG, Brazil.
| | - Juli G Pausas
- Centro de Investigaciones sobre Desertificación, Spanish National Research Council (CIDE-CSIC), Ctra. Naquera Km. 4.5 (IVIA), Montcada, 46113, Valencia, Spain
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Di Marsico M, Paytuvi Gallart A, Sanseverino W, Aiese Cigliano R. GreeNC 2.0: a comprehensive database of plant long non-coding RNAs. Nucleic Acids Res 2022; 50:D1442-D1447. [PMID: 34723326 PMCID: PMC8728176 DOI: 10.1093/nar/gkab1014] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Revised: 10/08/2021] [Accepted: 10/12/2021] [Indexed: 02/04/2023] Open
Abstract
The Green Non-Coding Database (GreeNC) is one of the reference databases for the study of plant long non-coding RNAs (lncRNAs). Here we present our most recent update where 16 species have been updated, while 78 species have been added, resulting in the annotation of more than 495 000 lncRNAs. Moreover, sequence clustering was applied providing information about sequence conservation and gene families. The current version of the database is available at: http://greenc.sequentiabiotech.com/wiki2/Main_Page.
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Affiliation(s)
- Marco Di Marsico
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università degli Studi di Perugia, Borgo XX Giugno 74, 06121 Perugia, Italy
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23
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Sritharan MS, Scheele BC, Blanchard W, Lindenmayer DB. Spatial associations between plants and vegetation community characteristics provide insights into the processes influencing plant rarity. PLoS One 2021; 16:e0260215. [PMID: 34928957 PMCID: PMC8687526 DOI: 10.1371/journal.pone.0260215] [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] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2021] [Accepted: 11/04/2021] [Indexed: 11/30/2022] Open
Abstract
Determining the drivers of plant rarity is a major challenge in ecology. Analysing spatial associations between different plant species can provide an exploratory avenue for understanding the ecological drivers of plant rarity. Here, we examined the different types of spatial associations between rare and common plants to determine if they influence the occurrence patterns of rare species. We completed vegetation surveys at 86 sites in woodland, forest, and heath communities in south-east Australia. We also examined two different rarity measures to quantify how categorisation criteria affected our results. Rare species were more likely to have positive associations with both rare and common species across all three vegetation communities. However, common species had positive or negative associations with rare and other common species, depending on the vegetation community in which they occurred. Rare species were positively associated with species diversity in forest communities. In woodland communities, rare species were associated negatively with species diversity but positively associated with species evenness. Rare species with high habitat specificity were more clustered spatially than expected by chance. Efforts to understand the drivers of plant rarity should use rarity definitions that consider habitat specificity. Our findings suggest that examining spatial associations between plants can help understand the drivers of plant rarity.
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Affiliation(s)
- Meena S. Sritharan
- Threatened Species Recovery Hub, Fenner School of Environment and Society, The Australian National University, Canberra, Australian Capital Territory, Australia
| | - Ben C. Scheele
- Threatened Species Recovery Hub, Fenner School of Environment and Society, The Australian National University, Canberra, Australian Capital Territory, Australia
| | - Wade Blanchard
- Fenner School of Environment and Society, The Australian National University, Canberra, Australian Capital Territory, Australia
| | - David B. Lindenmayer
- Threatened Species Recovery Hub, Fenner School of Environment and Society, The Australian National University, Canberra, Australian Capital Territory, Australia
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24
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Sarmashghi S, Balaban M, Rachtman E, Touri B, Mirarab S, Bafna V. Estimating repeat spectra and genome length from low-coverage genome skims with RESPECT. PLoS Comput Biol 2021; 17:e1009449. [PMID: 34780468 PMCID: PMC8629397 DOI: 10.1371/journal.pcbi.1009449] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2021] [Revised: 11/29/2021] [Accepted: 09/13/2021] [Indexed: 01/26/2023] Open
Abstract
The cost of sequencing the genome is dropping at a much faster rate compared to assembling and finishing the genome. The use of lightly sampled genomes (genome-skims) could be transformative for genomic ecology, and results using k-mers have shown the advantage of this approach in identification and phylogenetic placement of eukaryotic species. Here, we revisit the basic question of estimating genomic parameters such as genome length, coverage, and repeat structure, focusing specifically on estimating the k-mer repeat spectrum. We show using a mix of theoretical and empirical analysis that there are fundamental limitations to estimating the k-mer spectra due to ill-conditioned systems, and that has implications for other genomic parameters. We get around this problem using a novel constrained optimization approach (Spline Linear Programming), where the constraints are learned empirically. On reads simulated at 1X coverage from 66 genomes, our method, REPeat SPECTra Estimation (RESPECT), had 2.2% error in length estimation compared to 27% error previously achieved. In shotgun sequenced read samples with contaminants, RESPECT length estimates had median error 4%, in contrast to other methods that had median error 80%. Together, the results suggest that low-pass genomic sequencing can yield reliable estimates of the length and repeat content of the genome. The RESPECT software will be publicly available at https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_shahab-2Dsarmashghi_RESPECT.git&d=DwIGAw&c=-35OiAkTchMrZOngvJPOeA&r=ZozViWvD1E8PorCkfwYKYQMVKFoEcqLFm4Tg49XnPcA&m=f-xS8GMHKckknkc7Xpp8FJYw_ltUwz5frOw1a5pJ81EpdTOK8xhbYmrN4ZxniM96&s=717o8hLR1JmHFpRPSWG6xdUQTikyUjicjkipjFsKG4w&e=. The cost of sequencing the genome is dropping at a much faster rate compared to assembling and finishing the genome. The use of lightly sampled genomes (genome skims) could be transformative for genomic ecology. Analyzing genome skims, mostly based on statistics of small oligomers, remains challenging, but recent results have shown the advantage of this approach for the identification and phylogenetic placement of eukaryotic species. In this paper, we present a method, RESPECT, to estimate genomic properties such as genome length and repetitiveness from low-coverage genome skims. We trained RESPECT using assembled genomes and tested it on low-coverage simulated and real reads. Benchmarking results reveal that RESPECT has excellent accuracy in estimating the genome length compared to other methods, and can provide critical information regarding the repeat structure of the genome.
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Affiliation(s)
- Shahab Sarmashghi
- Department of Electrical & Computer Engineering, University of California, San Diego, La Jolla, California, United States of America
| | - Metin Balaban
- Bioinformatics & Systems Biology Graduate Program, University of California, San Diego, La Jolla, California, United States of America
| | - Eleonora Rachtman
- Bioinformatics & Systems Biology Graduate Program, University of California, San Diego, La Jolla, California, United States of America
| | - Behrouz Touri
- Department of Electrical & Computer Engineering, University of California, San Diego, La Jolla, California, United States of America
| | - Siavash Mirarab
- Department of Electrical & Computer Engineering, University of California, San Diego, La Jolla, California, United States of America
| | - Vineet Bafna
- Department of Computer Science & Engineering, University of California, San Diego, La Jolla, California, United States of America
- * E-mail:
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25
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Reboledo G, Agorio AD, Vignale L, Batista-García RA, Ponce De León I. Transcriptional profiling reveals conserved and species-specific plant defense responses during the interaction of Physcomitrium patens with Botrytis cinerea. Plant Mol Biol 2021; 107:365-385. [PMID: 33521880 DOI: 10.1007/s11103-021-01116-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [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: 08/03/2020] [Accepted: 01/03/2021] [Indexed: 06/12/2023]
Abstract
Evolutionary conserved defense mechanisms present in extant bryophytes and angiosperms, as well as moss-specific defenses are part of the immune response of Physcomitrium patens. Bryophytes and tracheophytes are descendants of early land plants that evolved adaptation mechanisms to cope with different kinds of terrestrial stresses, including drought, variations in temperature and UV radiation, as well as defense mechanisms against microorganisms present in the air and soil. Although great advances have been made on pathogen perception and subsequent defense activation in angiosperms, limited information is available in bryophytes. In this study, a transcriptomic approach uncovered the molecular mechanisms underlying the defense response of the bryophyte Physcomitrium patens (previously Physcomitrella patens) against the important plant pathogen Botrytis cinerea. A total of 3.072 differentially expressed genes were significantly affected during B. cinerea infection, including genes encoding proteins with known functions in angiosperm immunity and involved in pathogen perception, signaling, transcription, hormonal signaling, metabolic pathways such as shikimate and phenylpropanoid, and proteins with diverse role in defense against biotic stress. Similarly as in other plants, B. cinerea infection leads to downregulation of genes involved in photosynthesis and cell cycle progression. These results highlight the existence of evolutionary conserved defense responses to pathogens throughout the green plant lineage, suggesting that they were probably present in the common ancestors of land plants. Moreover, several genes acquired by horizontal transfer from prokaryotes and fungi, and a high number of P. patens-specific orphan genes were differentially expressed during B. cinerea infection, suggesting that they are important players in the moss immune response.
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Affiliation(s)
- Guillermo Reboledo
- Departamento de Biología Molecular, Instituto de Investigaciones Biológicas Clemente Estable, Montevideo, Uruguay
| | - Astri D Agorio
- Departamento de Biología Molecular, Instituto de Investigaciones Biológicas Clemente Estable, Montevideo, Uruguay
| | - Lucía Vignale
- Departamento de Biología Molecular, Instituto de Investigaciones Biológicas Clemente Estable, Montevideo, Uruguay
| | | | - Inés Ponce De León
- Departamento de Biología Molecular, Instituto de Investigaciones Biológicas Clemente Estable, Montevideo, Uruguay.
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Shahin SM, Jaleel A, Alyafei MAM. The Essential Oil-Bearing Plants in the United Arab Emirates (UAE): An Overview. Molecules 2021; 26:6486. [PMID: 34770890 PMCID: PMC8587291 DOI: 10.3390/molecules26216486] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Revised: 10/10/2021] [Accepted: 10/18/2021] [Indexed: 11/16/2022] Open
Abstract
Essential Oils (EOs) are expensive hydrocarbons produced exclusively by specific species in the plant kingdom. Their applications have deep roots in traditional herbal medicine, which lacks scientific evidence. Nowadays, more than ever, there is a growing global interest in research-based discoveries that maintain and promote health conditions. Consequently, EOs became a much attractive topic for both research and industry, with revenues reaching billions of dollars annually. In this work, we provide key guidance to all essential oil-bearing plants growing in the United Arab Emirates (UAE). The comprehensive data were collected following an extensive, up-to-date literature review. The results identified 137 plant species, including indigenous and naturalized ones, in the UAE, citing over 180 published research articles. The general overview included plant botanical names, synonyms, common names (Arabic and English), families and taxonomic authority. The study acts as a baseline and accelerator for research, industry and discoveries in multiple disciplines relying on essential oil-bearing plants.
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Affiliation(s)
- Suzan Marwan Shahin
- Department of Integrative Agriculture, College of Agriculture and Veterinary Medicine, United Arab Emirates University, Al Ain 15551, United Arab Emirates; (S.M.S.); (A.J.)
- Research and Development Head, Umm Al Quwain University, Umm Al Quwain 536, United Arab Emirates
| | - Abdul Jaleel
- Department of Integrative Agriculture, College of Agriculture and Veterinary Medicine, United Arab Emirates University, Al Ain 15551, United Arab Emirates; (S.M.S.); (A.J.)
| | - Mohammed Abdul Muhsen Alyafei
- Department of Integrative Agriculture, College of Agriculture and Veterinary Medicine, United Arab Emirates University, Al Ain 15551, United Arab Emirates; (S.M.S.); (A.J.)
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27
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García-Callejas D, Bartomeus I, Godoy O. The spatial configuration of biotic interactions shapes coexistence-area relationships in an annual plant community. Nat Commun 2021; 12:6192. [PMID: 34702825 PMCID: PMC8548393 DOI: 10.1038/s41467-021-26487-2] [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] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2021] [Accepted: 09/24/2021] [Indexed: 11/18/2022] Open
Abstract
The increase of species richness with area is a universal phenomenon on Earth. However, this observation contrasts with our poor understanding of how these species-area relationships (SARs) emerge from the collective effects of area, spatial heterogeneity, and local interactions. By combining a structuralist approach with five years of empirical observations in a highly-diverse Mediterranean grassland, we show that spatial heterogeneity plays a little role in the accumulation of species richness with area in our system. Instead, as we increase the sampled area more species combinations are realized, and they coexist mainly due to direct pairwise interactions rather than by changes in single-species dominance or by indirect interactions. We also identify a small set of transient species with small population sizes that are consistently found across spatial scales. These findings empirically support the importance of the architecture of species interactions together with stochastic events for driving coexistence- and species-area relationships.
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Affiliation(s)
- David García-Callejas
- Estación Biológica de Doñana, C/Américo Vespucio 26, 41092, Seville, Spain.
- Departamento de Biología, Instituto Universitario de Investigación Marina (INMAR), Universidad de Cádiz, E-11510, Puerto Real, Spain.
| | - Ignasi Bartomeus
- Estación Biológica de Doñana, C/Américo Vespucio 26, 41092, Seville, Spain
| | - Oscar Godoy
- Departamento de Biología, Instituto Universitario de Investigación Marina (INMAR), Universidad de Cádiz, E-11510, Puerto Real, Spain
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28
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Wieczorek D, Żyszka-Haberecht B, Kafka A, Lipok J. Phosphonates as Unique Components of Plant Seeds-A Promising Approach to Use Phosphorus Profiles in Plant Chemotaxonomy. Int J Mol Sci 2021; 22:11501. [PMID: 34768931 PMCID: PMC8584234 DOI: 10.3390/ijms222111501] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 10/18/2021] [Accepted: 10/23/2021] [Indexed: 11/16/2022] Open
Abstract
Phosphorus is one of the most important elements essential for all living beings. Plants accumulate and store phosphorous in various forms that have diverse physiological and biochemical functions. In this study, we determine and then examine the phosphorus profiles of seeds of plants belonging to different taxa based on extractable inorganic phosphates and organic forms of phosphorus. We paid particular attention to the presence of natural phosphonates in the tested materials. The inorganic phosphates were determined colorimetrically, whereas phosphorus profiles were created by using 31P NMR spectroscopy. Our study on phosphorus profiles revealed that the obtainedsets of data vary significantly among the representatives of different taxa and were somehow specific for families of plants. It should be emphasised that the measurements obtained using 31P NMR spectroscopy undoubtedly confirmed-for the first time-the presence of phosphonates among the natural components of plant seeds. Hence, the classification of plants considering the phosphorus profiles, including the presence of phosphonates, may be a new additional chemotaxonomic feature.
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Affiliation(s)
- Dorota Wieczorek
- Department of Pharmacy and Ecological Chemistry, Institute of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland; (B.Ż.-H.); (A.K.); (J.L.)
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29
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Lv D, Liu X, Dong Y, Yan Z, Zhang X, Wang P, Yuan X, Li Y. Comparison of Gut Bacterial Communities of Fall Armyworm ( Spodoptera frugiperda) Reared on Different Host Plants. Int J Mol Sci 2021; 22:ijms222011266. [PMID: 34681926 PMCID: PMC8540368 DOI: 10.3390/ijms222011266] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 10/15/2021] [Accepted: 10/17/2021] [Indexed: 01/19/2023] Open
Abstract
Spodoptera frugiperda is a highly polyphagous and invasive agricultural pest that can harm more than 300 plants and cause huge economic losses to crops. Symbiotic bacteria play an important role in the host biology and ecology of herbivores, and have a wide range of effects on host growth and adaptation. In this study, high-throughput sequencing technology was used to investigate the effects of different hosts (corn, wild oat, oilseed rape, pepper, and artificial diet) on gut microbial community structure and diversity. Corn is one of the most favored plants of S. frugiperda. We compared the gut microbiota on corn with and without a seed coating agent. The results showed that Firmicutes and Bacteroidetes dominated the gut microbial community. The microbial abundance on oilseed rape was the highest, the microbial diversity on wild oat was the lowest, and the microbial diversity on corn without a seed coating agent was significantly higher than that with such an agent. PCoA analysis showed that there were significant differences in the gut microbial community among different hosts. PICRUSt analysis showed that most of the functional prediction categories were related to metabolic and cellular processes. The results showed that the gut microbial community of S. frugiperda was affected not only by the host species, but also by different host treatments, which played an important role in host adaptation. It is important to deepen our understanding of the symbiotic relationships between invasive organisms and microorganisms. The study of the adaptability of host insects contributes to the development of more effective and environmentally friendly pest management strategies.
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Affiliation(s)
- Dongbiao Lv
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
| | - Xueying Liu
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
| | - Yanlu Dong
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
| | - Zizheng Yan
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
| | - Xuan Zhang
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
| | - Ping Wang
- Department of Entomology, Cornell University, Geneva, NY 14456, USA;
| | - Xiangqun Yuan
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
- Correspondence: (X.Y.); (Y.L.)
| | - Yiping Li
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China; (D.L.); (X.L.); (Y.D.); (Z.Y.); (X.Z.)
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Xianyang 712100, China
- Correspondence: (X.Y.); (Y.L.)
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30
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Rinkert A, Misiewicz TM, Carter BE, Salmaan A, Whittall JB. Bird nests as botanical time capsules: DNA barcoding identifies the contents of contemporary and historical nests. PLoS One 2021; 16:e0257624. [PMID: 34614003 PMCID: PMC8494352 DOI: 10.1371/journal.pone.0257624] [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] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 09/06/2021] [Indexed: 11/18/2022] Open
Abstract
Bird nests in natural history collections are an abundant yet vastly underutilized source of genetic information. We sequenced the nuclear ribosomal internal transcribed spacer to identify plant species used as nest material in two contemporary (2003 and 2018) and two historical (both 1915) nest specimens constructed by Song Sparrows (Melospiza melodia) and Savannah Sparrows (Passerculus sandwichensis). A total of 13 (22%) samples yielded single, strong bands that could be identified using GenBank resources: six plants (Angiospermae), six green algae (Chlorophyta), and one ciliate (Ciliophora). Two native plant species identified in the nests included Festuca microstachys, which was introduced to the nest collection site by restoration practitioners, and Rosa californica, identified in a nest collected from a lost habitat that existed about 100 years ago. Successful sequencing was correlated with higher sample mass and DNA quality, suggesting future studies should select larger pieces of contiguous material from nests and materials that appear to have been fresh when incorporated into the nest. This molecular approach was used to distinguish plant species that were not visually identifiable, and did not require disassembling the nest specimens as is a traditional practice with nest material studies. The many thousands of nest specimens in natural history collections hold great promise as sources of genetic information to address myriad ecological questions.
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Affiliation(s)
- Alex Rinkert
- Department of Biological Sciences, San José State University, San José, CA, United States of America
- * E-mail:
| | - Tracy M. Misiewicz
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, United States of America
| | - Benjamin E. Carter
- Department of Biological Sciences, San José State University, San José, CA, United States of America
| | - Aleezah Salmaan
- Department of Biology, Santa Clara University, Santa Clara, CA, United States of America
| | - Justen B. Whittall
- Department of Biology, Santa Clara University, Santa Clara, CA, United States of America
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31
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Zhu ZX, Nizamani MM, Harris AJ, Wang HF. Anthropogenic factors are stronger drivers of patterns of endemic plant diversity on Hainan Island of China than natural environmental factors. PLoS One 2021; 16:e0257575. [PMID: 34587202 PMCID: PMC8480898 DOI: 10.1371/journal.pone.0257575] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 09/06/2021] [Indexed: 11/19/2022] Open
Abstract
The roles of natural and anthropogenic factors in contributing to the organization of biodiversity at large and small scales have long been challenging to disentangle, and doing so has never been attempted for the island province of Hainan in China based on patterns of taxonomic and phylogenetic diversity. Therefore, in this study, we evaluated the taxonomic and phylogenetic diversity of endemic plants on the island as a function of anthropogenic and natural variables based on non-metric multi-dimensional scaling (NMDS) ordination and generated generalized linear models (GLMs). We found that the highest phylogenetic diversity (1006) and the lowest mean phylogenetic distance (515.5) was in the provincial capital, Haikou. The NMDS analyses indicated that taxonomic diversity was significantly correlated with industrial revenue (p = 0.006) and population (p = 0.004). Furthermore, most phylogenetic diversity indices were strongly correlated with population and agricultural revenue, while the sampled natural environmental variables were not significantly correlated with plant diversity indices. These findings indicate that anthropogenic factors are the main present-day driving forces of plant diversity in Hainan, though we did detect a significant latitudinal diversity gradient of richness that likely reflects the historical roles of natural environmental factors in the organization of biodiversity on the island. Overall, our results are alarming for biodiversity of the island and indicate that conservation and sustainable use of endemic plant species must be made a critical priority.
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Affiliation(s)
- Zhi-Xin Zhu
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou, China
| | - Mir Muhammad Nizamani
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou, China
| | - A. J. Harris
- Key Laboratory of Plant Resource Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Science, Guangzhou, China
| | - Hua-Feng Wang
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, College of Tropical Crops, Hainan University, Haikou, China
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Abstract
Temporal shifts to drier climates impose environmental stresses on plant communities that may result in community reassembly and threatened ecosystem services, but also may trigger self-organization in spatial patterns of biota and resources, which act to relax these stresses. The complex relationships between these counteracting processes - community reassembly and spatial self-organization - have hardly been studied. Using a spatio-temporal model of dryland plant communities and a trait-based approach, we study the response of such communities to increasing water-deficit stress. We first show that spatial patterning acts to reverse shifts from fast-growing species to stress-tolerant species, as well as to reverse functional-diversity loss. We then show that spatial self-organization buffers the impact of further stress on community structure. Finally, we identify multistability ranges of uniform and patterned community states and use them to propose forms of non-uniform ecosystem management that integrate the need for provisioning ecosystem services with the need to preserve community structure.
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Affiliation(s)
- Bidesh K Bera
- Department of Solar Energy and Environmental Physics, BIDR, Ben-Gurion University of the NegevSede Boqer CampusIsrael
| | - Omer Tzuk
- Physics Department, Ben-Gurion University of the NegevBeer ShevaIsrael
| | - Jamie JR Bennett
- Department of Solar Energy and Environmental Physics, BIDR, Ben-Gurion University of the NegevSede Boqer CampusIsrael
| | - Ehud Meron
- Department of Solar Energy and Environmental Physics, BIDR, Ben-Gurion University of the NegevSede Boqer CampusIsrael
- Physics Department, Ben-Gurion University of the NegevBeer ShevaIsrael
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33
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Abstract
The genomes of higher eukaryotes are partitioned into topologically associated domains or TADs, and insulators (also known as boundary elements) are the key elements responsible for their formation and maintenance. Insulators were first identified and extensively studied in Drosophila as well as mammalian genomes, and have also been described in yeast and plants. In addition, many insulator proteins are known in Drosophila, and some have been investigated in mammals. However, much less is known about this important class of non-coding DNA elements in plant genomes. In this review, we take a detailed look at known plant insulators across different species and provide an overview of potential determinants of plant insulator functions, including cis-elements and boundary proteins. We also discuss methods previously used in attempts to identify plant insulators, provide a perspective on their importance for research and biotechnology, and discuss areas of potential future research.
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34
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Hu W, Ran J, Dong L, Du Q, Ji M, Yao S, Sun Y, Gong C, Hou Q, Gong H, Chen R, Lu J, Xie S, Wang Z, Huang H, Li X, Xiong J, Xia R, Wei M, Zhao D, Zhang Y, Li J, Yang H, Wang X, Deng Y, Sun Y, Li H, Zhang L, Chu Q, Li X, Aqeel M, Manan A, Akram MA, Liu X, Li R, Li F, Hou C, Liu J, He JS, An L, Bardgett RD, Schmid B, Deng J. Aridity-driven shift in biodiversity-soil multifunctionality relationships. Nat Commun 2021; 12:5350. [PMID: 34504089 PMCID: PMC8429721 DOI: 10.1038/s41467-021-25641-0] [Citation(s) in RCA: 70] [Impact Index Per Article: 23.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Accepted: 08/12/2021] [Indexed: 11/09/2022] Open
Abstract
Relationships between biodiversity and multiple ecosystem functions (that is, ecosystem multifunctionality) are context-dependent. Both plant and soil microbial diversity have been reported to regulate ecosystem multifunctionality, but how their relative importance varies along environmental gradients remains poorly understood. Here, we relate plant and microbial diversity to soil multifunctionality across 130 dryland sites along a 4,000 km aridity gradient in northern China. Our results show a strong positive association between plant species richness and soil multifunctionality in less arid regions, whereas microbial diversity, in particular of fungi, is positively associated with multifunctionality in more arid regions. This shift in the relationships between plant or microbial diversity and soil multifunctionality occur at an aridity level of ∼0.8, the boundary between semiarid and arid climates, which is predicted to advance geographically ∼28% by the end of the current century. Our study highlights that biodiversity loss of plants and soil microorganisms may have especially strong consequences under low and high aridity conditions, respectively, which calls for climate-specific biodiversity conservation strategies to mitigate the effects of aridification.
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Affiliation(s)
- Weigang Hu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jinzhi Ran
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Longwei Dong
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Qiajun Du
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Mingfei Ji
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Shuran Yao
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Yuan Sun
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Chunmei Gong
- College of Horticulture, Northwest A&F University, Yangling, China
| | - Qingqing Hou
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Haiyang Gong
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Renfei Chen
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jingli Lu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Shubin Xie
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Zhiqiang Wang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Heng Huang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Xiaowei Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Junlan Xiong
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Rui Xia
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Maohong Wei
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Dongmin Zhao
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Yahui Zhang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jinhui Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Huixia Yang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Xiaoting Wang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Yan Deng
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Ying Sun
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Hailing Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Liang Zhang
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Qipeng Chu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Xinwei Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Muhammad Aqeel
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Abdul Manan
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Muhammad Adnan Akram
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Xianghan Liu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Rui Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Fan Li
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Chen Hou
- Department of Biological Science, Missouri University of Science and Technology, Rolla, MO, USA
| | - Jianquan Liu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jin-Sheng He
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Lizhe An
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Richard D Bardgett
- Department of Earth and Environmental Sciences, The University of Manchester, Manchester, UK.
| | - Bernhard Schmid
- Department of Geography, Remote Sensing Laboratories, University of Zurich, Zurich, Switzerland.
| | - Jianming Deng
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou, China.
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Jha SG, Borowsky AT, Cole BJ, Fahlgren N, Farmer A, Huang SSC, Karia P, Libault M, Provart NJ, Rice SL, Saura-Sanchez M, Agarwal P, Ahkami AH, Anderton CR, Briggs SP, Brophy JAN, Denolf P, Di Costanzo LF, Exposito-Alonso M, Giacomello S, Gomez-Cano F, Kaufmann K, Ko DK, Kumar S, Malkovskiy AV, Nakayama N, Obata T, Otegui MS, Palfalvi G, Quezada-Rodríguez EH, Singh R, Uhrig RG, Waese J, Van Wijk K, Wright RC, Ehrhardt DW, Birnbaum KD, Rhee SY. Vision, challenges and opportunities for a Plant Cell Atlas. eLife 2021; 10:e66877. [PMID: 34491200 PMCID: PMC8423441 DOI: 10.7554/elife.66877] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 08/26/2021] [Indexed: 02/06/2023] Open
Abstract
With growing populations and pressing environmental problems, future economies will be increasingly plant-based. Now is the time to reimagine plant science as a critical component of fundamental science, agriculture, environmental stewardship, energy, technology and healthcare. This effort requires a conceptual and technological framework to identify and map all cell types, and to comprehensively annotate the localization and organization of molecules at cellular and tissue levels. This framework, called the Plant Cell Atlas (PCA), will be critical for understanding and engineering plant development, physiology and environmental responses. A workshop was convened to discuss the purpose and utility of such an initiative, resulting in a roadmap that acknowledges the current knowledge gaps and technical challenges, and underscores how the PCA initiative can help to overcome them.
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Affiliation(s)
- Suryatapa Ghosh Jha
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
| | - Alexander T Borowsky
- Department of Botany and Plant Sciences, University of California, RiversideRiversideUnited States
| | - Benjamin J Cole
- Joint Genome Institute, Lawrence Berkeley National LaboratoryWalnut CreekUnited States
| | - Noah Fahlgren
- Donald Danforth Plant Science CenterSt. LouisUnited States
| | - Andrew Farmer
- National Center for Genome ResourcesSanta FeUnited States
| | | | - Purva Karia
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
- Department of Cell and Systems Biology, University of TorontoTorontoCanada
| | - Marc Libault
- Department of Agronomy and Horticulture, University of Nebraska-LincolnLincolnUnited States
| | - Nicholas J Provart
- Department of Cell and Systems Biology and the Centre for the Analysis of Genome Evolution and Function, University of TorontoTorontoCanada
| | - Selena L Rice
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
| | - Maite Saura-Sanchez
- Consejo Nacional de Investigaciones Científicas y Técnicas, Instituto de Investigaciones Fisiológicas y Ecológicas Vinculadas a la Agricultura, Facultad de Agronomía, Universidad de Buenos AiresBuenos AiresArgentina
| | - Pinky Agarwal
- National Institute of Plant Genome ResearchNew DelhiIndia
| | - Amir H Ahkami
- Environmental Molecular Sciences Division, Pacific Northwest National LaboratoryRichlandUnited States
| | - Christopher R Anderton
- Environmental Molecular Sciences Division, Pacific Northwest National LaboratoryRichlandUnited States
| | - Steven P Briggs
- Department of Biological Sciences, University of California, San DiegoSan DiegoUnited States
| | | | | | - Luigi F Di Costanzo
- Department of Agricultural Sciences, University of Naples Federico IINapoliItaly
| | - Moises Exposito-Alonso
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
- Department of Plant Biology, Carnegie Institution for ScienceTübingenGermany
| | | | - Fabio Gomez-Cano
- Department of Biochemistry and Molecular Biology, Michigan State UniversityEast LansingUnited States
| | - Kerstin Kaufmann
- Department for Plant Cell and Molecular Biology, Institute for Biology, Humboldt-Universitaet zu BerlinBerlinGermany
| | - Dae Kwan Ko
- Great Lakes Bioenergy Research Center, Michigan State UniversityEast LansingUnited States
| | - Sagar Kumar
- Department of Plant Breeding & Genetics, Mata Gujri College, Fatehgarh Sahib, Punjabi UniversityPatialaIndia
| | - Andrey V Malkovskiy
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
| | - Naomi Nakayama
- Department of Bioengineering, Imperial College LondonLondonUnited Kingdom
| | - Toshihiro Obata
- Department of Biochemistry, University of Nebraska-LincolnMadisonUnited States
| | - Marisa S Otegui
- Department of Botany, University of Wisconsin-MadisonMadisonUnited States
| | - Gergo Palfalvi
- Division of Evolutionary Biology, National Institute for Basic BiologyOkazakiJapan
| | - Elsa H Quezada-Rodríguez
- Ciencias Agrogenómicas, Escuela Nacional de Estudios Superiores Unidad León, Universidad Nacional Autónoma de MéxicoLeónMexico
| | - Rajveer Singh
- School of Agricultural Biotechnology, Punjab Agricultural UniversityLudhianaIndia
| | - R Glen Uhrig
- Department of Science, University of AlbertaEdmontonCanada
| | - Jamie Waese
- Department of Cell and Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of TorontoTorontoCanada
| | - Klaas Van Wijk
- School of Integrated Plant Science, Plant Biology Section, Cornell UniversityIthacaUnited States
| | - R Clay Wright
- Department of Biological Systems Engineering, Virginia TechBlacksburgUnited States
| | - David W Ehrhardt
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
| | - Kenneth D Birnbaum
- Center for Genomics and Systems Biology, New York UniversityNew YorkUnited States
| | - Seung Y Rhee
- Department of Plant Biology, Carnegie Institution for ScienceStanfordUnited States
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Wu B, Peng H, Sheng M, Luo H, Wang X, Zhang R, Xu F, Xu H. Evaluation of phytoremediation potential of native dominant plants and spatial distribution of heavy metals in abandoned mining area in Southwest China. Ecotoxicol Environ Saf 2021; 220:112368. [PMID: 34082243 DOI: 10.1016/j.ecoenv.2021.112368] [Citation(s) in RCA: 34] [Impact Index Per Article: 11.3] [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: 10/17/2020] [Revised: 05/17/2021] [Accepted: 05/23/2021] [Indexed: 05/22/2023]
Abstract
A field investigation on the content of heavy metals in soils and dominant plants was conducted in three sites (A<0.5 km, B<1.0 km, C<1.5 km) with different distances of mine tailings. The spatial distribution of heavy metals and the accumulation in plants were compared, and the candidate species for ecosystem restoration were selected. The results indicated that the soil was polluted by chromium (Cr), Cadmium (Cd), copper (Cu), nickel (Ni) in varying degrees, which is 2.07, 2.60, 1.79, and 4.49 times higher than the Class-Ⅱ standard in China. The concentrate of Ni, Cd, and Zinc (Zn) increased, while Cr, Lead (Pb), and Cu decreased with the distance from the mine tailings. 73 species (34 families) were found and mainly herbaceous plants. The concentrate of Cd, Cu, Cr, and Ni in 29 dominant plants were measured and 66.67%, 21.43%, 100%, 47.62% plants exceeded the normal concentration range. Based on the comparative analysis of heavy metal content, bioconcentration factor, and translocation factor in plants, Polygonum capitatum has good phytoextraction ability, Boehmeria nivea, Chrysanthemum indicum, Miscanthus floridulus, Conyza canadensis, Rubus setchuenensis, Senecio scandens, and Arthraxon hispidus showed remarkable phytostabilization abilities of Cr, Cd, Ni, and Cu, which can be used as potential phytoremediation candidate.
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Affiliation(s)
- Bohan Wu
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - He Peng
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - Mingping Sheng
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - Huanyan Luo
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - Xitong Wang
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - Rong Zhang
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China
| | - Fei Xu
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China.
| | - Heng Xu
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, PR China; Key Laboratory of Environment Protection, Soil Ecological Protection and Pollution Control, Sichuan University & Department of Ecology and Environment of Sichuan, Chengdu 610065, Sichuan, PR China.
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37
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Henriques GJB, van Vliet S, Doebeli M. Multilevel selection favors fragmentation modes that maintain cooperative interactions in multispecies communities. PLoS Comput Biol 2021; 17:e1008896. [PMID: 34516543 PMCID: PMC8460008 DOI: 10.1371/journal.pcbi.1008896] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 09/23/2021] [Accepted: 08/27/2021] [Indexed: 02/02/2023] Open
Abstract
Reproduction is one of the requirements for evolution and a defining feature of life. Yet, across the tree of life, organisms reproduce in many different ways. Groups of cells (e.g., multicellular organisms, colonial microbes, or multispecies biofilms) divide by releasing propagules that can be single-celled or multicellular. What conditions determine the number and size of reproductive propagules? In multicellular organisms, existing theory suggests that single-cell propagules prevent the accumulation of deleterious mutations (e.g., cheaters). However, groups of cells, such as biofilms, sometimes contain multiple metabolically interdependent species. This creates a reproductive dilemma: small daughter groups, which prevent the accumulation of cheaters, are also unlikely to contain the species diversity that is required for ecological success. Here, we developed an individual-based, multilevel selection model to investigate how such multi-species groups can resolve this dilemma. By tracking the dynamics of groups of cells that reproduce by fragmenting into smaller groups, we identified fragmentation modes that can maintain cooperative interactions. We systematically varied the fragmentation mode and calculated the maximum mutation rate that communities can withstand before being driven to extinction by the accumulation of cheaters. We find that for groups consisting of a single species, the optimal fragmentation mode consists of releasing single-cell propagules. For multi-species groups we find various optimal strategies. With migration between groups, single-cell propagules are favored. Without migration, larger propagules sizes are optimal; in this case, group-size dependent fissioning rates can prevent the accumulation of cheaters. Our work shows that multi-species groups can evolve reproductive strategies that allow them to maintain cooperative interactions.
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Affiliation(s)
| | - Simon van Vliet
- Department of Zoology, University of British Columbia, Vancouver, Canada
- Biozentrum, University of Basel, Basel, Switzerland
| | - Michael Doebeli
- Department of Zoology, University of British Columbia, Vancouver, Canada
- Department of Mathematics, University of British Columbia, Vancouver, Canada
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Bystriakova N, Tovar C, Monro A, Moat J, Hendrigo P, Carretero J, Torres-Morales G, Diazgranados M. Colombia's bioregions as a source of useful plants. PLoS One 2021; 16:e0256457. [PMID: 34449804 PMCID: PMC8396733 DOI: 10.1371/journal.pone.0256457] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Accepted: 08/06/2021] [Indexed: 11/19/2022] Open
Abstract
The aim of our study was to assess the importance of different Colombian bioregions in terms of the supply of useful plant species and the quality of the available distribution data. We assembled a dataset of georeferenced collection localities of all vascular plants of Colombia available from global and local online databases. We then assembled a list of species, subspecies and varieties of Colombia's useful plants and retrieved all point locality information associated with these taxa. We overlaid both datasets with a map of Colombia's bioregions to retrieve all species and useful species distribution records in each bioregion. To assess the reliability of our estimates of species numbers, we identified information gaps, in geographic and environmental space, by estimating their completeness and coverage. Our results confirmed that Colombia's third largest bioregion, the Andean moist forest followed by the Amazon, Pacific, Llanos and Caribbean moist forests contained the largest numbers of useful plant species. Medicinal use was the most common useful attribute across all bioregions, followed by Materials, Environmental uses, and Human Food. In all bioregions, except for the Andean páramo, the proportion of well-surveyed 10×10 km grid cells (with ≥ 25 observation records of useful plants) was below 50% of the total number of surveyed cells. Poor survey coverage was observed in the three dry bioregions: Caribbean deserts and xeric shrublands, and Llanos and Caribbean dry forests. This suggests that additional primary data is needed. We document knowledge gaps that will hinder the incorporation of useful plants into Colombia's stated plans for a bioeconomy and their sustainable management. In particular, future research should focus on the generation of additional primary data on the distribution of useful plants in the Amazon and Llanos (Orinoquia) regions where both survey completeness and coverage appeared to be less adequate compared with other regions.
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Affiliation(s)
- Nadia Bystriakova
- Core Research Laboratories, The Natural History Museum, London, United Kingdom
| | | | | | - Justin Moat
- Royal Botanic Gardens, Kew, London, United Kingdom
| | - Pablo Hendrigo
- Centro Nacional de Conservação da Flora, Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
| | | | - Germán Torres-Morales
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
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Ross SRPJ, Arnoldi JF, Loreau M, White CD, Stout JC, Jackson AL, Donohue I. Universal scaling of robustness of ecosystem services to species loss. Nat Commun 2021; 12:5167. [PMID: 34453056 PMCID: PMC8397752 DOI: 10.1038/s41467-021-25507-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Accepted: 08/04/2021] [Indexed: 01/07/2023] Open
Abstract
Ensuring reliable supply of services from nature is key to the sustainable development and well-being of human societies. Varied and frequently complex relationships between biodiversity and ecosystem services have, however, frustrated our capacity to quantify and predict the vulnerability of those services to species extinctions. Here, we use a qualitative Boolean modelling framework to identify universal drivers of the robustness of ecosystem service supply to species loss. These drivers comprise simple features of the networks that link species to the functions they perform that, in turn, underpin a service. Together, they define what we call network fragility. Using data from >250 real ecological networks representing services such as pollination and seed-dispersal, we demonstrate that network fragility predicts remarkably well the robustness of empirical ecosystem services. We then show how to quantify contributions of individual species to ecosystem service robustness, enabling quantification of how vulnerability scales from species to services. Our findings provide general insights into the way species, functional traits, and the links between them together determine the vulnerability of ecosystem service supply to biodiversity loss.
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Affiliation(s)
- Samuel R P-J Ross
- Department of Zoology, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - Jean-François Arnoldi
- Department of Zoology, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
- Theoretical and Experimental Ecological Station, CNRS, Moulis, France
| | - Michel Loreau
- Theoretical and Experimental Ecological Station, CNRS, Moulis, France
| | - Cian D White
- Department of Botany, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - Jane C Stout
- Department of Botany, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - Andrew L Jackson
- Department of Zoology, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - Ian Donohue
- Department of Zoology, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland.
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Hily JM, Poulicard N, Kubina J, Reynard JS, Spilmont AS, Fuchs M, Lemaire O, Vigne E. Metagenomic analysis of nepoviruses: diversity, evolution and identification of a genome region in members of subgroup A that appears to be important for host range. Arch Virol 2021; 166:2789-2801. [PMID: 34370094 PMCID: PMC8421298 DOI: 10.1007/s00705-021-05111-0] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Accepted: 04/01/2021] [Indexed: 11/26/2022]
Abstract
Data mining and metagenomic analysis of 277 open reading frame sequences of bipartite RNA viruses of the genus Nepovirus, family Secoviridae, were performed, documenting how challenging it can be to unequivocally assign a virus to a particular species, especially those in subgroups A and C, based on some of the currently adopted taxonomic demarcation criteria. This work suggests a possible need for their amendment to accommodate pangenome information. In addition, we revealed a host-dependent structure of arabis mosaic virus (ArMV) populations at a cladistic level and confirmed a phylogeographic structure of grapevine fanleaf virus (GFLV) populations. We also identified new putative recombination events in members of subgroups A, B and C. The evolutionary specificity of some capsid regions of ArMV and GFLV that were described previously and biologically validated as determinants of nematode transmission was circumscribed in silico. Furthermore, a C-terminal segment of the RNA-dependent RNA polymerase of members of subgroup A was predicted to be a putative host range determinant based on statistically supported higher π (substitutions per site) values for GFLV and ArMV isolates infecting Vitis spp. compared with non-Vitis-infecting ArMV isolates. This study illustrates how sequence information obtained via high-throughput sequencing can increase our understanding of mechanisms that modulate virus diversity and evolution and create new opportunities for advancing studies on the biology of economically important plant viruses.
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Affiliation(s)
- J M Hily
- IFV, Le Grau-Du-Roi, France.
- Université de Strasbourg, INRAE, SVQV, UMR-A 1131, F-68000, Colmar, France.
| | - N Poulicard
- PHIM, Université Montpellier, IRD, INRAE, Cirad, SupAgro, Montpellier, France
| | - J Kubina
- Université de Strasbourg, INRAE, SVQV, UMR-A 1131, F-68000, Colmar, France
| | - J S Reynard
- Institute for Plant Production Science, Agroscope, 1260, Nyon, Switzerland
| | | | - M Fuchs
- Cornell University, Geneva, NY, USA
| | - O Lemaire
- Université de Strasbourg, INRAE, SVQV, UMR-A 1131, F-68000, Colmar, France
| | - E Vigne
- Université de Strasbourg, INRAE, SVQV, UMR-A 1131, F-68000, Colmar, France.
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41
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Baumbach L, Warren DL, Yousefpour R, Hanewinkel M. Climate change may induce connectivity loss and mountaintop extinction in Central American forests. Commun Biol 2021; 4:869. [PMID: 34267317 PMCID: PMC8282624 DOI: 10.1038/s42003-021-02359-9] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Accepted: 06/14/2021] [Indexed: 11/14/2022] Open
Abstract
The tropical forests of Central America serve a pivotal role as biodiversity hotspots and provide ecosystem services securing human livelihood. However, climate change is expected to affect the species composition of forest ecosystems, lead to forest type transitions and trigger irrecoverable losses of habitat and biodiversity. Here, we investigate potential impacts of climate change on the environmental suitability of main plant functional types (PFTs) across Central America. Using a large database of occurrence records and physiological data, we classify tree species into trait-based groups and project their suitability under three representative concentration pathways (RCPs 2.6, 4.5 and 8.5) with an ensemble of state-of-the-art correlative modelling methods. Our results forecast transitions from wet towards generalist or dry forest PFTs for large parts of the study region. Moreover, suitable area for wet-adapted PFTs is projected to latitudinally diverge and lose connectivity, while expected upslope shifts of montane species point to high risks of mountaintop extinction. These findings underline the urgent need to safeguard the connectivity of habitats through biological corridors and extend protected areas in the identified transition hotspots.
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Affiliation(s)
- Lukas Baumbach
- Chair of Forestry Economics and Forest Planning, University of Freiburg, Freiburg, Germany.
| | - Dan L Warren
- Biodiversity and Biocomplexity Unit, Okinawa Institute of Science and Technology, Onna-son, Okinawa, Japan
| | - Rasoul Yousefpour
- Chair of Forestry Economics and Forest Planning, University of Freiburg, Freiburg, Germany
| | - Marc Hanewinkel
- Chair of Forestry Economics and Forest Planning, University of Freiburg, Freiburg, Germany
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Rahim SA, Kodandaramaiah U, Kulkarni A, Barua D. Striking between-population floral divergences in a habitat specialized plant. PLoS One 2021; 16:e0253038. [PMID: 34181672 PMCID: PMC8238184 DOI: 10.1371/journal.pone.0253038] [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] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 05/27/2021] [Indexed: 11/19/2022] Open
Abstract
When the habitat occupied by a specialist species is patchily distributed, limited gene flow between the fragmented populations may allow population differentiation and eventual speciation. 'Sky islands'-montane habitats that form terrestrial islands-have been shown to promote diversification in many taxa through this mechanism. We investigate floral variation in Impatiens lawii, a plant specialized on laterite rich rocky plateaus that form sky islands in the northern Western Ghats mountains of India. We focus on three plateaus separated from each other by ca. 7 to 17 km, and show that floral traits have diverged strongly between these populations. In contrast, floral traits have not diverged in the congeneric I. oppositifolia, which co-occurs with I. lawii in the plateaus, but is a habitat generalist that is also found in the intervening valleys. We conducted common garden experiments to test whether the differences in I. lawii are due to genetic differentiation or phenotypic plasticity. There were strong differences in floral morphology between experimental plants sourced from the three populations, and the relative divergences between population pairs mirrored that seen in the wild, indicating that the populations are genetically differentiated. Common garden experiments confirmed that there was no differentiation in I. oppositifolia. Field floral visitation surveys indicated that the observed differences in floral traits have consequences for I. lawii populations, by reducing the number of visitors and changing the relative abundance of different floral visitor groups. Our results highlight the role of habitat specialization in diversification, and corroborates the importance of sky islands as centres of diversification.
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Affiliation(s)
- Sumayya Abdul Rahim
- IISER-TVM Centre for Research and Education in Ecology and Evolution (ICREEE), Indian Institute of Science Education and Research Thiruvananthapuram, Thiruvananthapuram, Kerala, India
| | - Ullasa Kodandaramaiah
- IISER-TVM Centre for Research and Education in Ecology and Evolution (ICREEE), Indian Institute of Science Education and Research Thiruvananthapuram, Thiruvananthapuram, Kerala, India
| | - Aboli Kulkarni
- Department of Biology, Indian Institute of Science Education and Research, Pune, Maharashtra, India
| | - Deepak Barua
- Department of Biology, Indian Institute of Science Education and Research, Pune, Maharashtra, India
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Fristoe TS, Chytrý M, Dawson W, Essl F, Heleno R, Kreft H, Maurel N, Pergl J, Pyšek P, Seebens H, Weigelt P, Vargas P, Yang Q, Attorre F, Bergmeier E, Bernhardt-Römermann M, Biurrun I, Boch S, Bonari G, Botta-Dukát Z, Bruun HH, Byun C, Čarni A, Carranza ML, Catford JA, Cerabolini BEL, Chacón-Madrigal E, Ciccarelli D, Ćušterevska R, de Ronde I, Dengler J, Golub V, Haveman R, Hough-Snee N, Jandt U, Jansen F, Kuzemko A, Küzmič F, Lenoir J, Macanović A, Marcenò C, Martin AR, Michaletz ST, Mori AS, Niinemets Ü, Peterka T, Pielech R, Rašomavičius V, Rūsiņa S, Dias AS, Šibíková M, Šilc U, Stanisci A, Jansen S, Svenning JC, Swacha G, van der Plas F, Vassilev K, van Kleunen M. Dimensions of invasiveness: Links between local abundance, geographic range size, and habitat breadth in Europe's alien and native floras. Proc Natl Acad Sci U S A 2021; 118:e2021173118. [PMID: 34050023 PMCID: PMC8179145 DOI: 10.1073/pnas.2021173118] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Understanding drivers of success for alien species can inform on potential future invasions. Recent conceptual advances highlight that species may achieve invasiveness via performance along at least three distinct dimensions: 1) local abundance, 2) geographic range size, and 3) habitat breadth in naturalized distributions. Associations among these dimensions and the factors that determine success in each have yet to be assessed at large geographic scales. Here, we combine data from over one million vegetation plots covering the extent of Europe and its habitat diversity with databases on species' distributions, traits, and historical origins to provide a comprehensive assessment of invasiveness dimensions for the European alien seed plant flora. Invasiveness dimensions are linked in alien distributions, leading to a continuum from overall poor invaders to super invaders-abundant, widespread aliens that invade diverse habitats. This pattern echoes relationships among analogous dimensions measured for native European species. Success along invasiveness dimensions was associated with details of alien species' introduction histories: earlier introduction dates were positively associated with all three dimensions, and consistent with theory-based expectations, species originating from other continents, particularly acquisitive growth strategists, were among the most successful invaders in Europe. Despite general correlations among invasiveness dimensions, we identified habitats and traits associated with atypical patterns of success in only one or two dimensions-for example, the role of disturbed habitats in facilitating widespread specialists. We conclude that considering invasiveness within a multidimensional framework can provide insights into invasion processes while also informing general understanding of the dynamics of species distributions.
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Affiliation(s)
- Trevor S Fristoe
- Ecology, Department of Biology, University of Konstanz, D-78457 Konstanz, Germany;
| | - Milan Chytrý
- Department of Botany and Zoology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic
| | - Wayne Dawson
- Department of Biosciences, Durham University, Durham DH1 3LE, United Kingdom
| | - Franz Essl
- Bioinvasions, Global Change, Macroecology-research group, Division of Conservation Biology, Vegetation Ecology and Landscape Ecology, Department of Botany and Biodiversity Research, University of Vienna, 1030 Vienna, Austria
| | - Ruben Heleno
- Centre for Functional Ecology, Department of Life Sciences, University of Coimbra, 3000-456 Coimbra, Portugal
| | - Holger Kreft
- Biodiversity, Macroecology & Biogeography, University of Goettingen, D-37077 Göttingen, Germany
- Centre of Biodiversity and Sustainable Land Use, University of Goettingen, D-37077 Göttingen, Germany
| | - Noëlie Maurel
- Ecology, Department of Biology, University of Konstanz, D-78457 Konstanz, Germany
| | - Jan Pergl
- Department of Invasion Ecology, Institute of Botany, Czech Academy of Sciences, CZ-252 43 Průhonice, Czech Republic
| | - Petr Pyšek
- Department of Invasion Ecology, Institute of Botany, Czech Academy of Sciences, CZ-252 43 Průhonice, Czech Republic
- Department of Ecology, Faculty of Science, Charles University, CZ-128 44 Prague, Czech Republic
| | - Hanno Seebens
- Senckenberg Biodiversity and Climate Research Centre, 60325 Frankfurt am Main, Germany
| | - Patrick Weigelt
- Biodiversity, Macroecology & Biogeography, University of Goettingen, D-37077 Göttingen, Germany
| | - Pablo Vargas
- Real Jardín Botánico, Consejo Superior de Investigaciones Científicas, 28014 Madrid, Spain
| | - Qiang Yang
- Ecology, Department of Biology, University of Konstanz, D-78457 Konstanz, Germany
| | - Fabio Attorre
- Environmental Biology, Sapienza University of Rome, 00185 Roma, Italy
| | - Erwin Bergmeier
- Vegetation Analysis & Phytodiversity, University of Göttingen, 37073 Göttingen, Germany
| | | | - Idoia Biurrun
- Plant Biology and Ecology, University of the Basque Country, 48080 Bilbao, Spain
| | - Steffen Boch
- Biodiversity and Conservation Biology, Swiss Federal Research Institute for Forest, Snow and Landscape Research, CH-8903 Birmensdorf, Switzerland
| | - Gianmaria Bonari
- Faculty of Science and Technology, Free University of Bolzano-Bozen, 39100 Bolzano, Italy
| | - Zoltán Botta-Dukát
- Centre for Ecological Research, Institute of Ecology and Botany, 2163 Vácrátót, Hungary
| | - Hans Henrik Bruun
- Department of Biology, University of Copenhagen 2100 Copenhagen, Denmark
| | - Chaeho Byun
- Department of Biological Sciences and Biotechnology, Andong National University, Andong 36729, Korea
| | - Andraž Čarni
- Institute of Biology, Research Centre of the Slovenian Academy of Sciences and Arts, 1000 Ljubljana, Slovenia
- Faculty for Viticulture and Enology, University of Nova Gorica, 5000 Nova Gorica, Slovenia
| | | | - Jane A Catford
- Department of Geography, King's College London, London WC2B 2BG, United Kingdom
| | - Bruno E L Cerabolini
- Department of Biotechnologies and Life Sciences, University of Insubria, I-21100 Varese, Italy
| | | | | | - Renata Ćušterevska
- Institute of Biology, Faculty of Natural Sciences and Mathematics, Ss. Cyril and Methodius University, Skopje 1000, North Macedonia
| | - Iris de Ronde
- Central Government Real Estate Agency, Ministry of the Interior and Kingdom Relations, 6700AA Wageningen, The Netherlands
| | - Jürgen Dengler
- Vegetation Ecology, Institue of Natural Resource Sciences, Zurich University of Applied Sciences, 8820 Wädenswil, Switzerland
- Plant Ecology, Bayreuth Center for Ecology and Environmental Research, University of Bayreuth, 95447 Bayreuth, Germany
- German Centre for Integrative Biodiversity Research Halle-Jena-Leipzig, 04103 Leipzig, Germany
| | - Valentin Golub
- Laboratory of Phytocenology, Samara Federal Research Scientific Center, Institute of Ecology of Volga River Basin, Russian Academy of Sciences, 445003 Togliatti, Russia
| | - Rense Haveman
- Central Government Real Estate Agency, Ministry of the Interior and Kingdom Relations, 6700AA Wageningen, The Netherlands
| | - Nate Hough-Snee
- Four Peaks Environmental Science and Data Solutions, Wenatchee, WA 98801
| | - Ute Jandt
- German Centre for Integrative Biodiversity Research Halle-Jena-Leipzig, 04103 Leipzig, Germany
- Institute of Biology/Geobotany and Botanical Garden, Martin-Luther-University Halle-Wittenberg, 06108 Halle (Saale), Germany
| | - Florian Jansen
- Faculty of Agricultural and Environmental Sciences, University of Rostock, 18059 Rostock, Germany
| | - Anna Kuzemko
- M.G. Kjolodny Institute of Botany, National Academy of Sciences of Ukraine, 01601 Kyiv, Ukraine
| | - Filip Küzmič
- Jovan Hadži Institute of Biology, Research Centre of the Slovenian Academy of Sciences and Arts, 1000 Ljubljana, Slovenia
| | - Jonathan Lenoir
- UR Ecologie et Dynamique des Systèmes Anthropisés, UMR 7058 CNRS, Université de Picardie Jules Verne, 80037 Amiens, France
| | - Armin Macanović
- Department of Biology, Faculty of Science, Center for Ecology and Natural Resources-Academician Sulejman Redžić, University of Sarajevo, Sarajevo 71000, Bosnia and Herzegovina
| | - Corrado Marcenò
- Department of Botany and Zoology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic
| | - Adam R Martin
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada
| | - Sean T Michaletz
- Department of Botany and Biodiversity Research Centre, The University of British Columbia, Vancouver, BC V6T 1Z4, Canada
| | - Akira S Mori
- Graduate School of Environment and Information Sciences, Yokohama National University, Yokohama 240-8501, Japan
| | - Ülo Niinemets
- Chair of Crop Science and Plant Biology, Estonian University of Life Sciences, 51006 Tartu, Estonia
| | - Tomáš Peterka
- Department of Botany and Zoology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic
| | - Remigiusz Pielech
- Department of Forest Biodiversity, University of Agriculture in Kraków, 31-425 Kraków, Poland
- Foundation for Biodiversity Research, 50-231 Wrocław, Poland
| | | | - Solvita Rūsiņa
- Department of Geography, Faculty of Geography and Earth Sciences, University of Latvia, LV-1004 Riga, Latvia
| | - Arildo S Dias
- Department of Physical Geography, Goethe University, 60438 Frankfurt am Main, Germany
| | - Mária Šibíková
- Department of Geobotany, Plant Science and Biodiversity Center, Slovak Academy of Sciences, 845 23 Bratislava, Slovakia
| | - Urban Šilc
- Institute of Biology, Research Centre of the Slovenian Academy of Sciences and Arts, 1000 Ljubljana, Slovenia
| | - Angela Stanisci
- Department of Bioscience and Territory, EnvixLab, University of Molise, 86039 Termoli, Italy
| | - Steven Jansen
- Institute of Systematic Botany and Ecology, Ulm University, 89081 Ulm, Germany
| | - Jens-Christian Svenning
- Department of Biology, Center for Biodiversity Dynamics in a Changing World, Aarhus University, DK-8000 Aarhus C, Denmark
| | - Grzegorz Swacha
- Department of Vegetation Ecology, Botanical Garden, University of Wrocław, 50-137 Wrocław, Poland
| | - Fons van der Plas
- Plant Ecology and Nature Conservation Group, Wageningen University, 6700AA Wageningen, The Netherlands
| | - Kiril Vassilev
- Department of Plant and Fungal Diversity and Resources, Institute of Biodiversity and Ecosystem Research, 1113 Sofia, Bulgaria
| | - Mark van Kleunen
- Ecology, Department of Biology, University of Konstanz, D-78457 Konstanz, Germany
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou 318000, China
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Allen WJ, Waller LP, Barratt BIP, Dickie IA, Tylianakis JM. Exotic plants accumulate and share herbivores yet dominate communities via rapid growth. Nat Commun 2021; 12:2696. [PMID: 33976206 PMCID: PMC8113582 DOI: 10.1038/s41467-021-23030-1] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2020] [Accepted: 04/07/2021] [Indexed: 11/08/2022] Open
Abstract
Herbivores may facilitate or impede exotic plant invasion, depending on their direct and indirect interactions with exotic plants relative to co-occurring natives. However, previous studies investigating direct effects have mostly used pairwise native-exotic comparisons with few enemies, reached conflicting conclusions, and largely overlooked indirect interactions such as apparent competition. Here, we ask whether native and exotic plants differ in their interactions with invertebrate herbivores. We manipulate and measure plant-herbivore and plant-soil biota interactions in 160 experimental mesocosm communities to test several invasion hypotheses. We find that compared with natives, exotic plants support higher herbivore diversity and biomass, and experience larger proportional biomass reductions from herbivory, regardless of whether specialist soil biota are present. Yet, exotics consistently dominate community biomass, likely due to their fast growth rates rather than strong potential to exert apparent competition on neighbors. We conclude that polyphagous invertebrate herbivores are unlikely to play significant direct or indirect roles in mediating plant invasions, especially for fast-growing exotic plants.
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Affiliation(s)
- Warwick J Allen
- The Bio-Protection Research Centre, School of Biological Sciences, University of Canterbury, Christchurch, New Zealand.
- The Bio-Protection Research Centre, Lincoln University, Lincoln, New Zealand.
| | - Lauren P Waller
- The Bio-Protection Research Centre, School of Biological Sciences, University of Canterbury, Christchurch, New Zealand
- The Bio-Protection Research Centre, Lincoln University, Lincoln, New Zealand
| | - Barbara I P Barratt
- AgResearch, Invermay Research Centre, Mosgiel, New Zealand
- Department of Botany, University of Otago, Dunedin, New Zealand
| | - Ian A Dickie
- The Bio-Protection Research Centre, School of Biological Sciences, University of Canterbury, Christchurch, New Zealand
| | - Jason M Tylianakis
- The Bio-Protection Research Centre, School of Biological Sciences, University of Canterbury, Christchurch, New Zealand
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45
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Adejumo SA, Oniosun B, Akpoilih OA, Adeseko A, Arowo DO. Anatomical changes, osmolytes accumulation and distribution in the native plants growing on Pb-contaminated sites. Environ Geochem Health 2021; 43:1537-1549. [PMID: 32601905 DOI: 10.1007/s10653-020-00649-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [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: 09/30/2019] [Accepted: 06/17/2020] [Indexed: 06/11/2023]
Abstract
Native plants growing on heavy-metal-contaminated sites are the potential candidates for phytoremediation of contaminated sites due to their tolerance and adaptation to toxic environment. For better application of the technology, in-depth knowledge and understanding of the anatomy and physiology of these plant species are essential. In this study, anatomical changes in roots and leaves of various plant species growing on Pb-contaminated sites as well as osmolytes (proline, PR; glycine betaine, GB; and phenolics, PH) production and distribution in different plant parts were investigated. The soil and plant samples were collected in triplicates from two different Pb-contaminated sites, while control plants were collected from the University of Ibadan. The plants were washed and partitioned into different parts for anatomical and biochemical studies, and soil adhering to the roots of different plant species was collected for the determination of Pb contents. Sporobolus pyramidalis, Cynodon dactylon, Imperata cylindrica, Eleusine indica, Gomphrena celosioides, Rhinconspora corymbosa and Echinochloa colona are the plant species common to these contaminated sites. Though with variations based on the site, thick epidermis and sclerenchyma, pronounced and numerous vascular bundles as well as trichomes were some of the anatomical characteristics of these metallophytes from contaminated sites compared to their counterparts from uncontaminated site. These plants also produced PR, GB and PH, with PH being the highest followed by PR and GB. Accumulation in different parts of the plants also varied depending on the plant species and the osmolyte. They were more in the leaf than other plant parts. Among the plant species, Sporobolus pyramidalis had the highest value of proline (3.26 and 2.63 µg/g FW) and glycine betaine (3.44 and 2.23 µg/FW) in the leaf and stem, respectively, followed by Cynodon dactylon having 2.20 and 0.89 µg/g FW proline and 2.02 and 0.94 µg/g FW glycine betaine. On the Pb accumulation in plant, more lead (Pb) was found in the roots than other plant parts. Gomphrena celosioides accumulated the highest Pb (4537.50 and 1081.50 mg/kg) in the root and shoot, respectively, followed by Eleusine indica (3988 and 699.00 mg/kg), while the lowest values were recorded for Echinochloa colona (36.87 and 5.97 mg/kg). In rhizospheric soils, G. celosioides had the highest Pb content (34,405.00 mg/kg) which was higher than other rhizospheric soils. In conclusion, phenolics were produced more in these metallophytes and all the osmolytes were more in leaf than root. Anatomical modifications in response to heavy metal exposure differed between plant species and level of contamination. Lead accumulation in plant also varied depending on plant species.
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Affiliation(s)
- Sifau A Adejumo
- Environmental Biology Unit, Department of Crop Protection and Environmental Biology Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria.
| | - Bosede Oniosun
- Environmental Biology Unit, Department of Crop Protection and Environmental Biology Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - Okemena Agnes Akpoilih
- Environmental Biology Unit, Department of Crop Protection and Environmental Biology Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - Abiodun Adeseko
- Environmental Biology Unit, Department of Crop Protection and Environmental Biology Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - Dorcas Omotayo Arowo
- Environmental Biology Unit, Department of Crop Protection and Environmental Biology Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
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Deneu B, Servajean M, Bonnet P, Botella C, Munoz F, Joly A. Convolutional neural networks improve species distribution modelling by capturing the spatial structure of the environment. PLoS Comput Biol 2021; 17:e1008856. [PMID: 33872302 PMCID: PMC8084334 DOI: 10.1371/journal.pcbi.1008856] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [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: 05/15/2020] [Revised: 04/29/2021] [Accepted: 03/08/2021] [Indexed: 11/18/2022] Open
Abstract
Convolutional Neural Networks (CNNs) are statistical models suited for learning complex visual patterns. In the context of Species Distribution Models (SDM) and in line with predictions of landscape ecology and island biogeography, CNN could grasp how local landscape structure affects prediction of species occurrence in SDMs. The prediction can thus reflect the signatures of entangled ecological processes. Although previous machine-learning based SDMs can learn complex influences of environmental predictors, they cannot acknowledge the influence of environmental structure in local landscapes (hence denoted "punctual models"). In this study, we applied CNNs to a large dataset of plant occurrences in France (GBIF), on a large taxonomical scale, to predict ranked relative probability of species (by joint learning) to any geographical position. We examined the way local environmental landscapes improve prediction by performing alternative CNN models deprived of information on landscape heterogeneity and structure ("ablation experiments"). We found that the landscape structure around location crucially contributed to improve predictive performance of CNN-SDMs. CNN models can classify the predicted distributions of many species, as other joint modelling approaches, but they further prove efficient in identifying the influence of local environmental landscapes. CNN can then represent signatures of spatially structured environmental drivers. The prediction gain is noticeable for rare species, which open promising perspectives for biodiversity monitoring and conservation strategies. Therefore, the approach is of both theoretical and practical interest. We discuss the way to test hypotheses on the patterns learnt by CNN, which should be essential for further interpretation of the ecological processes at play.
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Affiliation(s)
- Benjamin Deneu
- Inria, Montpellier, France
- LIRMM, Univ Montpellier, CNRS, Montpellier, France
- AMAP, Univ Montpellier, CIRAD, CNRS, INRAE, IRD, Montpellier, France
| | - Maximilien Servajean
- LIRMM, Univ Montpellier, CNRS, Montpellier, France
- AMIS, Université Paul Valéry Montpellier, CNRS, Montpellier, France
| | - Pierre Bonnet
- AMAP, Univ Montpellier, CIRAD, CNRS, INRAE, IRD, Montpellier, France
- CIRAD, UMR AMAP, Montpellier, France
| | - Christophe Botella
- Inria, Montpellier, France
- LIRMM, Univ Montpellier, CNRS, Montpellier, France
- AMAP, Univ Montpellier, CIRAD, CNRS, INRAE, IRD, Montpellier, France
| | | | - Alexis Joly
- Inria, Montpellier, France
- LIRMM, Univ Montpellier, CNRS, Montpellier, France
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Jiang W, Liu L, Xiao H, Zhu S, Li W, Liu Y. Composition and distribution of vegetation in the water level fluctuating zone of the Lantsang cascade reservoir system using UAV multispectral imagery. PLoS One 2021; 16:e0247682. [PMID: 33780473 PMCID: PMC8007002 DOI: 10.1371/journal.pone.0247682] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Accepted: 02/10/2021] [Indexed: 12/03/2022] Open
Abstract
With the development of a large number of tall dams and large cascade reservoir projects in the Lantsang River Basin, a large water level fluctuating zone (WLFZ) containing cascading reservoirs has formed. This newborn ecosystem is related to the sustainable development of hydropower projects, and has become a new problem to be studied urgently. Taking WLFZs in the Huangdeng, Xiaowan and Nuozhadu Reservoirs in the Lantsang River Basin as study areas, this study used multi-spectral remote-sensing field data obtained with unmanned aerial vehicles (UAVs) to ascertain the species types, coverage, distribution characteristics, dominant species and pioneer species of naturally restored vegetation. The considered data were subjected to UAV data processing, vegetation classification using multi-spectral images and a geographic information system (GIS) terrain-distribution analysis. Results show that: Polygonum Plebeium, Cynodon dactylon, Xanthium sibiricum, Ageratum conyzoides, Eleusine indica, Digitaria sanguinalis and Verbena officinalis are the dominant species of vegetation that could be naturally restored in the WLFZ; the vegetation coverage and the number of species are significantly positively correlated with the age and restoration periods of the WLFZ; the vegetation coverage of each study area increases at first, and then decreases, as a function of elevation; gentle slopes about 0-25°are more suitable for vegetation restoration. This study provides first-hand data on the natural restoration of vegetation in WLFZs, and gives a useful reference for its ecological restoration as a consequence of hydropower cascade development in the Lantsang River Basin. Finally, the study demonstrates that light UAV remote sensing is an attractive choice for investigating vegetation in reservoir WLFZs.
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Affiliation(s)
- Weiwei Jiang
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
| | - Lun Liu
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
| | - Henglin Xiao
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
| | - Song Zhu
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
| | - Wentao Li
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
| | - Ying Liu
- School of Civil Engineering, Architecture and Environment, Hubei University of Technology, Wuhan, Hubei Province, P.R.China
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48
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Bokhorst S, Convey P, Casanova-Katny A, Aerts R. Warming impacts potential germination of non-native plants on the Antarctic Peninsula. Commun Biol 2021; 4:403. [PMID: 33767327 PMCID: PMC7994377 DOI: 10.1038/s42003-021-01951-3] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Accepted: 03/03/2021] [Indexed: 11/09/2022] Open
Abstract
The Antarctic Peninsula is under pressure from non-native plants and this risk is expected to increase under climate warming. Establishment and subsequent range expansion of non-native plants depend in part on germination ability under Antarctic conditions, but quantifying these processes has yet to receive detailed study. Viability testing and plant growth responses under simulated Antarctic soil surface conditions over an annual cycle show that 16 non-native species, including grasses, herbs, rushes and a succulent, germinated and continued development under a warming scenario. Thermal germination requirement (degree day sum) was calculated for each species and field soil-temperature recordings indicate that this is satisfied as far south as 72° S. Here, we show that the establishment potential of non-native species, in number and geographical range, is considerably greater than currently suggested by species distribution modelling approaches, with important implications for risk assessments of non-native species along the Antarctic Peninsula.
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Affiliation(s)
- Stef Bokhorst
- Department of Ecological Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
| | - Peter Convey
- British Antarctic Survey, Natural Environment Research Council, Cambridge, UK
| | - Angélica Casanova-Katny
- Laboratorio de Ecofisiologia Vegetal y Núcleo de Estudios Ambientales (NEA), Facultad de Recursos Naturales, Universidad Católica de Temuco, Temuco, Chile
| | - Rien Aerts
- Department of Ecological Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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Stryamets N, Fontefrancesco MF, Mattalia G, Prakofjewa J, Pieroni A, Kalle R, Stryamets G, Sõukand R. Just beautiful green herbs: use of plants in cultural practices in Bukovina and Roztochya, Western Ukraine. J Ethnobiol Ethnomed 2021; 17:12. [PMID: 33663565 PMCID: PMC7931611 DOI: 10.1186/s13002-021-00439-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2020] [Accepted: 02/10/2021] [Indexed: 05/12/2023]
Abstract
BACKGROUND The use of plants in rituals is a little explored corner of biocultural diversity which has developed through time within a complex socio-ecological system. Indeed, rituals are complex interactions between humans and biodiversity shaped by history, culture, and ethnic belonging. Yet, in Western Ukraine, such rituals were forbidden for over 50 years (1939-1991). The current revival of rituals by rural inhabitants is an untapped reservoir of local ecological knowledge. The aim of the present study was to identify the ritual use of wild and cultivated plants in two regions of Western Ukraine, Bukovina and Roztochya, and to compare the findings with historical data. Moreover, we analyzed attitudes toward the ritual use of plants and interactions with the local environment. METHODS We conducted 31 in-depth semi-structured interviews among Orthodox Hutsuls of Bukovina and 16 interviews among Greek Catholic rural inhabitants of Roztochya during summer 2018 focusing on the ritual uses of plants. RESULTS We documented 28 plant taxa among Bukovinian Hutsuls and 58 plant taxa among inhabitants in Roztochya that were used in 7 religious festivals (of which two were celebrated differently in the two communities). Plants were mainly used in bouquets, but also for decorating churches and houses or in fruit baskets. In both communities, almost 25% of the interviewees could not name the plants they collected for bouquets, but rather referred to "just beautiful green herbs" one can get in meadows, forests, and gardens. Comparison with historical data shows a smaller number of taxa currently used (wild taxa have been lost), yet the persistence of 18 taxa used both now and a century ago. CONCLUSIONS Contemporary practices concerning the use of plants in Christian rituals in Bukovina and Roztochya can be contextualized in the broader phenomenon of the revitalization of traditional environmental knowledge and practices that have characterized Europe over the past 30 years and in particular Eastern Europe after socialism. The current religious use of plants is to a certain extent the revitalization of historical rituals supported by various internal (knowledge from older generations) and external (church authorities and fashion in the region) drivers. Further research should address changes in regions with longer and more severe prohibition of religious practices and their revival.
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Affiliation(s)
- N Stryamets
- Ca' Foscari University of Venice, Via Torino, 155, Venice, VE, Italy.
| | - M F Fontefrancesco
- University of Gastronomic Sciences, Piazza Vittorio Emanuele 9, 12042, Bra, Pollenzo, CN, Italy
- Durham University, South Rd, DH1 3LE, Durham, UK
| | - G Mattalia
- Ca' Foscari University of Venice, Via Torino, 155, Venice, VE, Italy
| | - J Prakofjewa
- Ca' Foscari University of Venice, Via Torino, 155, Venice, VE, Italy
| | - A Pieroni
- University of Gastronomic Sciences, Piazza Vittorio Emanuele 9, 12042, Bra, Pollenzo, CN, Italy
- Medical Analysis Department, Tishk International University, Erbil, Kurdistan Region, 44001, Iraq
| | - R Kalle
- University of Gastronomic Sciences, Piazza Vittorio Emanuele 9, 12042, Bra, Pollenzo, CN, Italy
| | - G Stryamets
- Nature reserve "Roztochya", Sitchovyh Strilciv 7, Ivano-Frankove, Lviv region, 81070, Ukraine
| | - R Sõukand
- Ca' Foscari University of Venice, Via Torino, 155, Venice, VE, Italy
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Famutimi OG, Adewale IO. Induction and catalytic properties of grasshopper (Zonocerus variegatus) glutathione transferase fed on different food plants. Comp Biochem Physiol C Toxicol Pharmacol 2021; 241:108970. [PMID: 33412298 DOI: 10.1016/j.cbpc.2020.108970] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Revised: 12/21/2020] [Accepted: 12/24/2020] [Indexed: 11/15/2022]
Abstract
In order to establish the role of diet on the induction and catalytic properties of glutathione transferase (GST) in insects, variegated grasshopper (Zonocerus variegatus) was exposed to different food plants separately for 30 days and the properties of the induced enzyme were then investigated. Insects fed on cassava (M. esculenta) leaves had the highest GST induction followed by insects fed on bitter leaf (V. amygdalina). Z. variegatus that fed in the wild on different food plants had the least suggesting that allelochemicals in the food plants have a compensatory toxicity-alleviating actions on one another. 1-Chloro-2,4-dinitrobenzene (CDNB) was the best substrate for all the induced GST however, the mode of binding of the substrate to the induced enzyme was not the same. GST from M. esculenta-fed insect showed ping-pong kinetic mechanism whereas GSTs from V. amygdalina and T. procumbens-fed insects showed random sequential mode of substrate binding. Catalytic efficiency (kcat/Km) of GST from M. esculenta-fed insects was 3-8-fold higher than other induced enzymes. Commercial insecticides- cypermethrin and lindane had an inhibition constant, Ki, of 0.13±0.004 mM and 0.68±0.09 mM, respectively, suggesting that the concentration as used in the field (0.03 mM for cypermethrin and 0.3 mM for lindane) would have little effect on the insect's GST. The study concluded that higher GST activity are induced in insects that fed on monotonous diets than those that fed on various food plants. Hindgut appears to be the primary organ of detoxication. The catalytic properties of the induced enzymes are different from one another.
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Affiliation(s)
- Oladoyin Grace Famutimi
- Department of Biochemistry and Molecular Biology, Obafemi Awolowo University, Ile-Ife, Nigeria
| | - Isaac Olusanjo Adewale
- Department of Biochemistry and Molecular Biology, Obafemi Awolowo University, Ile-Ife, Nigeria.
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