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Lavrent'yeva SI, Ivachenko LE, Blinova AA, Bondarenko ON, Kuznetsova VA. Chemical Composition of Seeds in Soybean Glycine soja (Fabaceae) of Amur Oblast. DOKLADY BIOLOGICAL SCIENCES : PROCEEDINGS OF THE ACADEMY OF SCIENCES OF THE USSR, BIOLOGICAL SCIENCES SECTIONS 2024:10.1134/S0012496624701114. [PMID: 39128955 DOI: 10.1134/s0012496624701114] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2024] [Revised: 05/30/2024] [Accepted: 06/06/2024] [Indexed: 08/13/2024]
Abstract
The wild soybean Glycine soja Sieb. et Zucc. is an ancestor of the cultivated soybean Glycine max (L.) Merr. and a source of many valuable genes missing in the G. max genome, including genes that determine stress resistance to adverse environmental factors. Biochemical parameters (protein, oil, ascorbic acid, carotene, higher fatty acids, and specific activities and multiple forms of enzymes of the oxidoreductase and hydrolase classes) were studied in five G. soja accessions from the collection of the All-Russian Institute of Soybean (КА-1413, КА-342, КBl-29, КBl-24, and Kеl-72). The accessions provide unique natural gene banks. Wild seeds were collected in three districts (Arkharinskii, Blagoveshchensk, and Belogorskii) of Amur Oblast. Based on superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), polyphenol oxidase (PPO), ribonuclease (RNase), acid phosphatase, esterase, and amylase (AML) activities and biochemical parameters of seeds, the G. soja accession KA-1413 was found to have higher contents of protein, oleic acid, and linolenic acid; a lower polyphenol oxidase specific activity; and higher activities of SODs, esterases, and RNases. The accession KA-1413 was therefore recommended to use as a source of dominant genes in breeding to increase the adaptive potential of new soybean varieties. A higher heterogeneity of multiple forms was observed for SOD, AML, RNase, and esterase, which can provide markers of adaptation to environmental conditions.
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Affiliation(s)
- S I Lavrent'yeva
- All-Russian Institute of Soybean, Blagoveshchensk, Russia.
- Blagoveshchensk State Pedagogical University, Blagoveshchensk, Russia.
| | - L E Ivachenko
- All-Russian Institute of Soybean, Blagoveshchensk, Russia
- Blagoveshchensk State Pedagogical University, Blagoveshchensk, Russia
| | - A A Blinova
- All-Russian Institute of Soybean, Blagoveshchensk, Russia
| | - O N Bondarenko
- All-Russian Institute of Soybean, Blagoveshchensk, Russia
| | - V A Kuznetsova
- Vavilov All-Russian Institute of Plant Genetic Resources, Vladivostok, Russia
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Chialva M, Stelluti S, Novero M, Masson S, Bonfante P, Lanfranco L. Genetic and functional traits limit the success of colonisation by arbuscular mycorrhizal fungi in a tomato wild relative. PLANT, CELL & ENVIRONMENT 2024. [PMID: 38953693 DOI: 10.1111/pce.15007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2024] [Revised: 05/29/2024] [Accepted: 06/06/2024] [Indexed: 07/04/2024]
Abstract
To understand whether domestication had an impact on susceptibility and responsiveness to arbuscular mycorrhizal fungi (AMF) in tomato (Solanum lycopersicum), we investigated two tomato cultivars ("M82" and "Moneymaker") and a panel of wild relatives including S. neorickii, S. habrochaites and S. pennellii encompassing the whole Lycopersicon clade. Most genotypes revealed good AM colonisation levels when inoculated with the AMF Funneliformis mosseae. By contrast, both S. pennellii accessions analysed showed a very low colonisation, but with normal arbuscule morphology, and a negative response in terms of root and shoot biomass. This behaviour was independent of fungal identity and environmental conditions. Genomic and transcriptomic analyses revealed in S. pennellii the lack of genes identified within QTLs for AM colonisation, a limited transcriptional reprogramming upon mycorrhization and a differential regulation of strigolactones and AM-related genes compared to tomato. Donor plants experiments indicated that the AMF could represent a cost for S. pennellii: F. mosseae could extensively colonise the root only when it was part of a mycorrhizal network, but a higher mycorrhization led to a higher inhibition of plant growth. These results suggest that genetics and functional traits of S. pennellii are responsible for the limited extent of AMF colonisation.
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Affiliation(s)
- Matteo Chialva
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
| | - Stefania Stelluti
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
| | - Mara Novero
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
| | - Simon Masson
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
| | - Paola Bonfante
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
| | - Luisa Lanfranco
- Department of Life Sciences and Systems Biology, University of Torino, Torino, Italy
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Yao R, Wang B, Heinrich M, Wang Q, Xiao P. Genetic diversity of food-medicinal Lycium spp. in China: Insights from chloroplast genome. CHINESE HERBAL MEDICINES 2024; 16:401-411. [PMID: 39072208 PMCID: PMC11283223 DOI: 10.1016/j.chmed.2024.02.003] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2023] [Revised: 12/09/2023] [Accepted: 02/08/2024] [Indexed: 07/30/2024] Open
Abstract
Objective Goji (fruits of Lycium spp.) is commonly consumed as food and medicine. The increasing market demand for goji has led to its wide cultivation and broad breeding, which might cause loss of genetic diversity. This study aims to uncover the genetic diversity of the cultivated and wild Lycium. Methods The chloroplast genome (CPG) of 34 accessions of Chinese food-medicinal Lycium spp., including the popular cultivars and their wild relatives, was re-sequenced and assembled, based on which the genetic diversity was evaluated. Results Sequence structural comparison shows that CPG is comparatively conserved within species. Phylogenetic analysis indicates that CPG is sufficient for the discrimination of Lycium species; combined with nuclear ribosomal internal transcribed spacer (Nr ITS) sequences, materials with mixed genetic backgrounds can be identified. Nucleotide diversity analysis reveals that the modern cultivars are probably with a common maternal parent, while the wild accessions are with higher level of genetic diversity. Conclusion For the first time this study reveals the intraspecies genetic diversity of Lycium spp. using CPG, highlighting the urgent conservation demand of wild genetic resources of Lycium. Our study also demonstrates that CPG provides crucial evidence for identification of Lycium species with mixed genetic backgrounds and highlights the importance of the wild relatives in genetic diversity conservation. This CPG-based technology will contribute to the sustainable development of medicinal plants broadly.
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Affiliation(s)
- Ruyu Yao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China
| | - Bin Wang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
- Hainan Provincial Key Laboratory of Resources Conservation and Development of Southern Medicine, Hainan Branch of the Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Haikou 570311, China
| | - Michael Heinrich
- Research Group ‘Pharmacognosy and Phytotherapy’, UCL School of Pharmacy, University of London, London WC1N1AX, United Kingdom
| | - Qiuling Wang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
| | - Peigen Xiao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
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Francisqueti AM, Marin RR, Hengling MM, Hosomi ST, Pritchard HW, Custódio CC, Machado-Neto NB. Orchid seeds are not always short lived in a conventional seed bank! ANNALS OF BOTANY 2024; 133:941-952. [PMID: 38365444 DOI: 10.1093/aob/mcae021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 02/09/2024] [Indexed: 02/18/2024]
Abstract
BACKGROUND AND AIMS Orchid seeds are reputed to be short lived in dry, cold storage conditions, potentially limiting the use of conventional seed banks for long-term ex situ conservation. This work explores whether Cattleya seeds are long lived or not during conventional storage (predried to ~12 % relative humidity, then stored at -18 °C). METHODS We explored the possible interaction of factors influencing seed lifespan in eight species of the genus Cattleya using physiological (germination and vigour), biochemical (gas chromatography), biophysical (differential scanning calorimetry) and morphometric methods. Seeds were desiccated to ~3 % moisture content and stored at -18 °C for more than a decade, and seed quality was measured via three in vitro germination techniques. Tetrazolium staining was also used to monitor seed viability during storage. The morphometric and germination data were subjected to ANOVA and cluster analysis, and seed lifespan was subjected to probit analysis. KEY RESULTS Seeds of all Cattleya species were found to be desiccation tolerant, with predicted storage lifespans (P50y) of ~30 years for six species and much longer for two species. Cluster analysis showed that the three species with the longest-lived seeds had smaller (9-11 %) airspaces around the embryo. The post-storage germination method impacted the quality assessment; seeds equilibrated at room temperature for 24 h or in 10 % sucrose solution had improved germination, particularly for the seeds with the smallest embryos. Chromatography revealed that the seeds of all eight species were rich in linoleic acid, and differential scanning calorimetry identified a peak that might be auxiliary to selecting long-lived seeds. CONCLUSIONS These findings show that not all orchids produce seeds that are short lived, and our trait analyses might help to strengthen prediction of seed longevity in diverse orchid species.
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Affiliation(s)
- Ana Maria Francisqueti
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
| | - Rafael Rubio Marin
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
| | - Mariane Marangoni Hengling
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
| | - Silvério Takao Hosomi
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
| | - Hugh W Pritchard
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, PR China
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, West Sussex RH17 6TN, UK
| | - Ceci Castilho Custódio
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
| | - Nelson Barbosa Machado-Neto
- Unoeste Campus II, Agronomy College, Building 2, room 201, Rodovia Raposo Tavares, km 572. Limoeiro, Presidente Prudente SP, 19067-175, Brazil
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Maxted N, Magos Brehm J, Abulaila K, Al-Zein MS, Kehel Z, Yazbek M. Review of Crop Wild Relative Conservation and Use in West Asia and North Africa. PLANTS (BASEL, SWITZERLAND) 2024; 13:1343. [PMID: 38794414 PMCID: PMC11124793 DOI: 10.3390/plants13101343] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Revised: 04/24/2024] [Accepted: 04/26/2024] [Indexed: 05/26/2024]
Abstract
Ensuring global food security in the face of climate change is critical to human survival. With a predicted human population of 9.6 billion in 2050 and the demand for food supplies expected to increase by 60% globally, but with a parallel potential reduction in crop production for wheat by 6.0%, rice by 3.2%, maize by 7.4%, and soybean by 3.1% by the end of the century, maintaining future food security will be a challenge. One potential solution is new climate-smart varieties created using the breadth of diversity inherent in crop wild relatives (CWRs). Yet CWRs are threatened, with 16-35% regarded as threatened and a significantly higher percentage suffering genetic erosion. Additionally, they are under-conserved, 95% requiring additional ex situ collections and less than 1% being actively conserved in situ; they also often grow naturally in disturbed habitats limiting standard conservation measures. The urgent requirement for active CWR conservation is widely recognized in the global policy context (Convention on Biological Diversity post-2020 Global Biodiversity Framework, UN Sustainable Development Goals, the FAO Second Global Plan of Action for PGRFA, and the FAO Framework for Action on Biodiversity for Food and Agriculture) and breeders highlight that the lack of CWR diversity is unnecessarily limiting crop improvement. CWRs are not spread evenly across the globe; they are focused in hotspots and the hottest region for CWR diversity is in West Asia and North Africa (WANA). The region has about 40% of global priority taxa and the top 17 countries with maximum numbers of CWR taxa per unit area are all in WANA. Therefore, improved CWR active conservation in WANA is not only a regional but a critical global priority. To assist in the achievement of this goal, we will review the following topics for CWRs in the WANA region: (1) conservation status, (2) community-based conservation, (3) threat status, (4) diversity use, (5) CURE-CWR hub: (ICARDA Centre of Excellence), and (6) recommendations for research priorities. The implementation of the recommendations is likely to significantly improve CWRs in situ and ex situ conservation and will potentially at least double the availability of the full breadth of CWR diversity found in WANA to breeders, and so enhance regional and global food and nutritional security.
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Affiliation(s)
- Nigel Maxted
- School of Biosciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, UK;
| | - Joana Magos Brehm
- School of Biosciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, UK;
| | - Khaled Abulaila
- National Agricultural Research Center, P.O. Box 639, Baq’a 19381, Jordan;
| | - Mohammad Souheil Al-Zein
- Department of Biology and Natural History Museum, American University of Beirut, P.O. Box 11-0236, Beirut 1107-2020, Lebanon;
- Genetic Resources Section, International Center for Agricultural Research in the Dry Areas, Beirut 1108-2010, Lebanon; (Z.K.); (M.Y.)
| | - Zakaria Kehel
- Genetic Resources Section, International Center for Agricultural Research in the Dry Areas, Beirut 1108-2010, Lebanon; (Z.K.); (M.Y.)
| | - Mariana Yazbek
- Genetic Resources Section, International Center for Agricultural Research in the Dry Areas, Beirut 1108-2010, Lebanon; (Z.K.); (M.Y.)
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Verleysen L, Depecker J, Bollen R, Asimonyio J, Hatangi Y, Kambale JL, Mwanga Mwanga I, Ebele T, Dhed'a B, Stoffelen P, Ruttink T, Vandelook F, Honnay O. Crop-to-wild gene flow in wild coffee species: the case of Coffea canephora in the Democratic Republic of the Congo. ANNALS OF BOTANY 2024; 133:917-930. [PMID: 38441303 PMCID: PMC11089259 DOI: 10.1093/aob/mcae034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Accepted: 03/01/2024] [Indexed: 05/14/2024]
Abstract
BACKGROUND AND AIMS Plant breeders are increasingly turning to crop wild relatives (CWRs) to ensure food security in a rapidly changing environment. However, CWR populations are confronted with various human-induced threats, including hybridization with their nearby cultivated crops. This might be a particular problem for wild coffee species, which often occur near coffee cultivation areas. Here, we briefly review the evidence for wild Coffea arabica (cultivated as Arabica coffee) and Coffea canephora (cultivated as Robusta coffee) and then focused on C. canephora in the Yangambi region in the Democratic Republic of the Congo. There, we examined the geographical distribution of cultivated C. canephora and the incidence of hybridization between cultivated and wild individuals within the rainforest. METHODS We collected 71 C. canephora individuals from home gardens and 12 C. canephora individuals from the tropical rainforest in the Yangambi region and genotyped them using genotyping-by-sequencing (GBS). We compared the fingerprints with existing GBS data from 388 C. canephora individuals from natural tropical rainforests and the INERA Coffee Collection, a Robusta coffee field gene bank and the most probable source of cultivated genotypes in the area. We then established robust diagnostic fingerprints that genetically differentiate cultivated from wild coffee, identified cultivated-wild hybrids and mapped their geographical position in the rainforest. KEY RESULTS We identified cultivated genotypes and cultivated-wild hybrids in zones with clear anthropogenic activity, and where cultivated C. canephora in home gardens may serve as a source for crop-to-wild gene flow. We found relatively few hybrids and backcrosses in the rainforests. CONCLUSIONS The cultivation of C. canephora in close proximity to its wild gene pool has led to cultivated genotypes and cultivated-wild hybrids appearing within the natural habitats of C. canephora. Yet, given the high genetic similarity between the cultivated and wild gene pool, together with the relatively low incidence of hybridization, our results indicate that the overall impact in terms of risk of introgression remains limited so far.
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Affiliation(s)
- Lauren Verleysen
- Division of Ecology, Evolution and Biodiversity Conservation, KU Leuven, Leuven, Belgium
- Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Melle, Belgium
| | - Jonas Depecker
- Division of Ecology, Evolution and Biodiversity Conservation, KU Leuven, Leuven, Belgium
- Meise Botanic Garden, Meise, Belgium
- KU Leuven Plant Institute, Leuven, Belgium
| | - Robrecht Bollen
- Division of Ecology, Evolution and Biodiversity Conservation, KU Leuven, Leuven, Belgium
- Meise Botanic Garden, Meise, Belgium
| | - Justin Asimonyio
- Centre de Surveillance de la Biodiversité et Université de Kisangani, Kisangani, DR Congo
| | - Yves Hatangi
- Meise Botanic Garden, Meise, Belgium
- Université de Kisangani, Kisangani, DR Congo
- Liège University, Gembloux Agro-Bio Tech, Gembloux, Belgium
| | - Jean-Léon Kambale
- Centre de Surveillance de la Biodiversité et Université de Kisangani, Kisangani, DR Congo
| | | | - Thsimi Ebele
- Institut National des Etudes et Recherches Agronomique, Yangambi, DR Congo
| | | | | | - Tom Ruttink
- Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Melle, Belgium
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
| | - Filip Vandelook
- Division of Ecology, Evolution and Biodiversity Conservation, KU Leuven, Leuven, Belgium
- Meise Botanic Garden, Meise, Belgium
| | - Olivier Honnay
- Division of Ecology, Evolution and Biodiversity Conservation, KU Leuven, Leuven, Belgium
- KU Leuven Plant Institute, Leuven, Belgium
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Conejo-Rodríguez DF, Gonzalez-Guzman JJ, Ramirez-Gil JG, Wenzl P, Urban MO. Digital descriptors sharpen classical descriptors, for improving genebank accession management: A case study on Arachis spp. and Phaseolus spp. PLoS One 2024; 19:e0302158. [PMID: 38696404 PMCID: PMC11065210 DOI: 10.1371/journal.pone.0302158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2023] [Accepted: 03/27/2024] [Indexed: 05/04/2024] Open
Abstract
High-throughput phenotyping brings new opportunities for detailed genebank accessions characterization based on image-processing techniques and data analysis using machine learning algorithms. Our work proposes to improve the characterization processes of bean and peanut accessions in the CIAT genebank through the identification of phenomic descriptors comparable to classical descriptors including methodology integration into the genebank workflow. To cope with these goals morphometrics and colorimetry traits of 14 bean and 16 forage peanut accessions were determined and compared to the classical International Board for Plant Genetic Resources (IBPGR) descriptors. Descriptors discriminating most accessions were identified using a random forest algorithm. The most-valuable classification descriptors for peanuts were 100-seed weight and days to flowering, and for beans, days to flowering and primary seed color. The combination of phenomic and classical descriptors increased the accuracy of the classification of Phaseolus and Arachis accessions. Functional diversity indices are recommended to genebank curators to evaluate phenotypic variability to identify accessions with unique traits or identify accessions that represent the greatest phenotypic variation of the species (functional agrobiodiversity collections). The artificial intelligence algorithms are capable of characterizing accessions which reduces costs generated by additional phenotyping. Even though deep analysis of data requires new skills, associating genetic, morphological and ecogeographic diversity is giving us an opportunity to establish unique functional agrobiodiversity collections with new potential traits.
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Affiliation(s)
- Diego Felipe Conejo-Rodríguez
- Genetic Resources Program, International Center for Tropical Agriculture (CIAT), Palmira, Valle del Cauca, Colombia
- Bean Physiology and Breeding Program, International Center for Tropical Agriculture (CIAT), Palmira, Valle del Cauca, Colombia
- Facultad de Ciencias Agropecuarias, Universidad Nacional de Colombia Sede Palmira, Palmira, Valle del Cauca, Colombia
| | - Juan José Gonzalez-Guzman
- Genetic Resources Program, International Center for Tropical Agriculture (CIAT), Palmira, Valle del Cauca, Colombia
| | - Joaquín Guillermo Ramirez-Gil
- Departamento de Agronomía, Facultad de Ciencias Agrarias, Universidad Nacional de Colombia Sede Bogotá, Bogotá, Colombia
| | - Peter Wenzl
- Genetic Resources Program, International Center for Tropical Agriculture (CIAT), Palmira, Valle del Cauca, Colombia
| | - Milan Oldřich Urban
- Bean Physiology and Breeding Program, International Center for Tropical Agriculture (CIAT), Palmira, Valle del Cauca, Colombia
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Levis C, Flores BM, Campos-Silva JV, Peroni N, Staal A, Padgurschi MCG, Dorshow W, Moraes B, Schmidt M, Kuikuro TW, Kuikuro H, Wauja K, Kuikuro K, Kuikuro A, Fausto C, Franchetto B, Watling J, Lima H, Heckenberger M, Clement CR. Contributions of human cultures to biodiversity and ecosystem conservation. Nat Ecol Evol 2024; 8:866-879. [PMID: 38503867 DOI: 10.1038/s41559-024-02356-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2022] [Accepted: 02/05/2024] [Indexed: 03/21/2024]
Abstract
The expansion of globalized industrial societies is causing global warming, ecosystem degradation, and species and language extinctions worldwide. Mainstream conservation efforts still focus on nature protection strategies to revert this crisis, often overlooking the essential roles of Indigenous Peoples and Local Communities (IP&LC) in protecting biodiversity and ecosystems globally. Here we assess the scientific literature to identify relationships between biodiversity (including ecosystem diversity) and cultural diversity, and investigate how these connections may affect conservation outcomes in tropical lowland South America. Our assessment reveals a network of interactions and feedbacks between biodiversity and diverse IP&LC, suggesting interconnectedness and interdependencies from which multiple benefits to nature and societies emerge. We illustrate our findings with five case studies of successful conservation models, described as consolidated or promising 'social-ecological hope spots', that show how engagement with IP&LC of various cultures may be the best hope for biodiversity and ecosystem conservation, particularly when aligned with science and technology. In light of these five inspiring cases, we argue that conservation science and policies need to recognize that protecting and promoting both biological and cultural diversities can provide additional co-benefits and solutions to maintain ecosystems resilient in the face of global changes.
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Affiliation(s)
- Carolina Levis
- Programa de Pós-graduação em Ecologia, Universidade Federal de Santa Catarina, Florianópolis, Brazil.
- Affiliated scholar, Brazil LAB, Princeton University, Princeton, NJ, USA.
| | - Bernardo M Flores
- Programa de Pós-graduação em Ecologia, Universidade Federal de Santa Catarina, Florianópolis, Brazil
| | - João Vitor Campos-Silva
- Instituto Juruá, Manaus, Brazil
- Instituto de Ciências Biológicas e da Saúde, Universidade Federal de Alagoas, Maceió, Brazil
- Instituto Nacional de Pesquisas da Amazônia, Manaus, Brazil
| | - Nivaldo Peroni
- Programa de Pós-graduação em Ecologia, Universidade Federal de Santa Catarina, Florianópolis, Brazil
| | - Arie Staal
- Copernicus Institute of Sustainable Development, Utrecht University, Utrecht, The Netherlands
| | - Maíra C G Padgurschi
- Instituto Nacional de Pesquisas da Amazônia, Manaus, Brazil
- Centro de Pesquisas Meteorológicas e Climáticas aplicadas à Agricultura, University of Campinas, Campinas, Brazil
| | - Wetherbee Dorshow
- Department of Anthropology, University of New Mexico, Albuquerque, NM, USA
- Earth Analytic, Puente Institute, Santa Fe, NM, USA
| | - Bruno Moraes
- Earth Analytic, Puente Institute, Santa Fe, NM, USA
- Museu Paraense Emílio Goeldi, Belém, Brazil
| | - Morgan Schmidt
- Laboratório de Estudos Interdisciplinares em Arqueologia, Universidade Federal de Santa Catarina, Florianópolis, Brazil
- Department of Anthropology, University of Florida, Gainesville, FL, USA
- Department of Earth Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - Taku Wate Kuikuro
- Associação Indígena Kuikuro do Alto Xingu, Aldeia Ipatse, Território Indígena do Alto Xingu, Canarana and Gaúcha do Norte, Mato Grosso, Brazil
| | - Huke Kuikuro
- Associação Indígena Kuikuro do Alto Xingu, Aldeia Ipatse, Território Indígena do Alto Xingu, Canarana and Gaúcha do Norte, Mato Grosso, Brazil
| | - Kumessi Wauja
- Associação Indígena Kuikuro do Alto Xingu, Aldeia Ipatse, Território Indígena do Alto Xingu, Canarana and Gaúcha do Norte, Mato Grosso, Brazil
| | - Kalutata Kuikuro
- Associação Indígena Kuikuro do Alto Xingu, Aldeia Ipatse, Território Indígena do Alto Xingu, Canarana and Gaúcha do Norte, Mato Grosso, Brazil
| | - Afukaka Kuikuro
- Associação Indígena Kuikuro do Alto Xingu, Aldeia Ipatse, Território Indígena do Alto Xingu, Canarana and Gaúcha do Norte, Mato Grosso, Brazil
| | - Carlos Fausto
- Programa de Pós-Graduação em Antropologia Social, Museu Nacional, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
- Visiting Research Scholar, Princeton Institute for International and Regional Studies, Brazil LAB, Princeton University, Princeton, NJ, USA
| | - Bruna Franchetto
- Programa de Pós-Graduação em Antropologia Social, Museu Nacional, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Jennifer Watling
- Museum of Archaeology and Ethnology, University of São Paulo, São Paulo, Brazil
| | | | | | - Charles R Clement
- Instituto de Ciências Biológicas e da Saúde, Universidade Federal de Alagoas, Maceió, Brazil
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Gao S, Li M, Hu Y, Zhang T, Guo J, Sun M, Shi L. Comparative differences in maintaining membrane fluidity and remodeling cell wall between Glycine soja and Glycine max leaves under drought. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 209:108545. [PMID: 38537381 DOI: 10.1016/j.plaphy.2024.108545] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 03/15/2024] [Accepted: 03/19/2024] [Indexed: 04/06/2024]
Abstract
Water shortage is one of the most important environmental factors limiting crop yield. In this study, we used wild soybean (Glycine soja Sieb. et Zucc.) and soybean (Glycinemax (L.) Merr.) seedlings as experimental materials, simulated drought stress using soil gravimetry, measured growth and physiological parameters, and analyzed differentially expressed genes and metabolites in the leaves of seedling by integrated transcriptomics and metabolomics techniques. The results indicate that under water deficit, Glycine soja maintained stable photosynthate by accumulating Mg2+, Fe3+, Mn2+, Zn2+ and B3+, and improved water absorption by increasing root growth. Notably, Glycine soja enhanced linoleic acid metabolism and plasma membrane intrinsic protein (PIP1) gene expression to maintain membrane fluidity, and increased pentose, glucuronate and galactose metabolism and thaumatin protein genes expression to remodel the cell wall, thereby increasing water-absorption to better tolerate to drought stress. In addition, it was found that secondary phenolic metabolism, such as phenylpropane biosynthesis, flavonoid biosynthesis and ascobate and aldarate metabolism were weakened, resulting in the collapse of the antioxidant system, which was the main reason for the sensitivity of Glycine max to drought stress. These results provide new insights into plant adaptation to water deficit and offer a theoretical basis for breeding soybean varieties with drought tolerance.
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Affiliation(s)
- Shujuan Gao
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
| | - Mingxia Li
- School of Life Sciences, Changchun Normal University, Changchun, 130032, China.
| | - Yunan Hu
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
| | - Tao Zhang
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
| | - Jixun Guo
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
| | - Mingzhou Sun
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
| | - Lianxuan Shi
- Institute of Grassland Science, Northeast Normal University, Key Laboratory of Vegetation Ecology, Ministry of Education, Changchun, 130024, China.
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10
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Krieg CP, Smith DD, Adams MA, Berger J, Layegh Nikravesh N, von Wettberg EJ. Greater ecophysiological stress tolerance in the core environment than in extreme environments of wild chickpea (Cicer reticulatum). Sci Rep 2024; 14:5744. [PMID: 38459248 PMCID: PMC10923935 DOI: 10.1038/s41598-024-56457-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 03/05/2024] [Indexed: 03/10/2024] Open
Abstract
Global climate change and land use change underlie a need to develop new crop breeding strategies, and crop wild relatives (CWR) have become an important potential source of new genetic material to improve breeding efforts. Many recent approaches assume adaptive trait variation increases towards the relative environmental extremes of a species range, potentially missing valuable trait variation in more moderate or typical climates. Here, we leveraged distinct genotypes of wild chickpea (Cicer reticulatum) that differ in their relative climates from moderate to more extreme and perform targeted assessments of drought and heat tolerance. We found significance variation in ecophysiological function and stress tolerance between genotypes but contrary to expectations and current paradigms, it was individuals from more moderate climates that exhibited greater capacity for stress tolerance than individuals from warmer and drier climates. These results indicate that wild germplasm collection efforts to identify adaptive variation should include the full range of environmental conditions and habitats instead of only environmental extremes, and that doing so may significantly enhance the success of breeding programs broadly.
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Affiliation(s)
| | | | - Mark A Adams
- Swinburne University of Technology, Hawthorn, VIC, Australia
| | - Jens Berger
- CSIRO, Agriculture and Food, Perth, WA, Australia
| | | | - Eric J von Wettberg
- Department of Plant and Soil Science, University of Vermont, Burlington, VT, USA
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11
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Sayde E, Chalak L, Baydoun S, Shehadeh A, El Zein H, Al Beyrouthy J, Yazbek M. Surveying and mapping cereals and legumes wild relatives in Mount Hermon (Bekaa, Lebanon). Ecol Evol 2024; 14:e10943. [PMID: 38469046 PMCID: PMC10926055 DOI: 10.1002/ece3.10943] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 10/25/2023] [Accepted: 01/03/2024] [Indexed: 03/13/2024] Open
Abstract
Crop Wild Relatives (CWR) should be highly prioritized, monitored, and conserved as they have an immense effect on sustainability and livelihood. In this study we aim to survey and map cereal and legume wild relatives of Fabaceae and Poaceae families. Mount Hermon, Bekaa side, Lebanon. A set of 46 CWR species were targeted based on desk selection analysis and prioritization by the International Center for Agricultural Research in Dry Areas genebank for their potential importance in breeding programs. A botanical survey of 17 sites of the various habitats of Mount Hermon was performed during April-June 2021 using a systematic transect/quadrate sampling method. Recorded genera and species were accurately georeferenced and then mapped with the DIVA-GIS program. In total, 854 occurrences were observed belonging to 34 species of Fabaceae and 12 species of Poaceae. High H' Shannon diversity values were recorded in three sites (Al Fakiaa, Sham El Hafour and Ain Ata- al Berke) of the Mount with values ranking between 2.45 and 2.83. This was confirmed by the richness distribution maps of genera and species. Richness distribution maps provide relevant clues on candidate sites for high concentrations of each of the species under study. At least the three sites, hosting 87% of the surveyed CWR's species, can be considered for further in situ conservation actions.
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Affiliation(s)
- Eliane Sayde
- Faculty of Agronomy, Department of Plant ProductionLebanese UniversityBeirutLebanon
| | - Lamis Chalak
- Faculty of Agronomy, Department of Plant ProductionLebanese UniversityBeirutLebanon
| | - Safaa Baydoun
- Research Center for Environment and DevelopmentBeirut Arab UniversityBekaaLebanon
| | - Ali Shehadeh
- International Center for Agricultural Research in Dry Areas (ICARDA)BeirutLebanon
| | | | | | - Mariana Yazbek
- International Center for Agricultural Research in Dry Areas (ICARDA)BeirutLebanon
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12
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Zhou Y, Song R, Nevo E, Fu X, Wang X, Wang Y, Wang C, Chen J, Sun G, Sun D, Ren X. Genomic evidence for climate-linked diversity loss and increased vulnerability of wild barley spanning 28 years of climate warming. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 913:169679. [PMID: 38163608 DOI: 10.1016/j.scitotenv.2023.169679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 12/19/2023] [Accepted: 12/23/2023] [Indexed: 01/03/2024]
Abstract
The information on how plant populations respond genetically to climate warming is scarce. Here, landscape genomic and machine learning approaches were integrated to assess genetic response of 10 wild barley (Hordeum vulgare ssp. spontaneum; WB) populations in the past and future, using whole genomic sequencing (WGS) data. The WB populations were sampled in 1980 and again in 2008. Phylogeny of accessions was roughly in conformity with sampling sites, which accompanied by admixture/introgressions. The 28-y climate warming resulted in decreased genetic diversity, increased selection pressure, and an increase in deleterious single nucleotide polymorphism (dSNP) numbers, heterozygous deleterious and total deleterious burdens for WB. Genome-environment associations identified some candidate genes belonging to peroxidase family (HORVU2Hr1G057450, HORVU4Hr1G052060 and HORVU4Hr1G057210) and heat shock protein 70 family (HORVU2Hr1G112630). The gene HORVU2Hr1G120170 identified by selective sweep analysis was under strong selection during the climate warming of the 28-y, and its derived haplotypes were fixed by WB when faced with the 28-y increasingly severe environment. Temperature variables were found to be more important than precipitation variables in influencing genomic variation, with an eco-physiological index gdd5 (growing degree-days at the baseline threshold temperature of 5 °C) being the most important determinant. Gradient forest modelling revealed higher predicted genomic vulnerability in Sede Boqer under future climate scenarios at 2041-2070 and 2071-2100. Additionally, estimates of effective population size (Ne) tracing back to 250 years indicated a forward decline in all populations over time. Our assessment about past genetic response and future vulnerability of WB under climate warming is crucial for informing conservation efforts for wild cereals and rational use strategies.
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Affiliation(s)
- Yu Zhou
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Ruilian Song
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Eviator Nevo
- Institute of Evolution, University of Haifa, Mount Carmel, 31905 Haifa, Israel
| | - Xiaoqin Fu
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Xiaofang Wang
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Yixiang Wang
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Chengyang Wang
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Junpeng Chen
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Genlou Sun
- Saint Mary's University, Halifax, NS B3H 3C3, Canada
| | - Dongfa Sun
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Xifeng Ren
- Hubei Hongshan Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China.
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13
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Singh S, Singh R, Priyadarsini S, Ola AL. Genomics empowering conservation action and improvement of celery in the face of climate change. PLANTA 2024; 259:42. [PMID: 38270699 DOI: 10.1007/s00425-023-04321-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Accepted: 12/23/2023] [Indexed: 01/26/2024]
Abstract
MAIN CONCLUSION Integration of genomic approaches like whole genome sequencing, functional genomics, evolutionary genomics, and CRISPR/Cas9-based genome editing has accelerated the improvement of crop plants including leafy vegetables like celery in the face of climate change. The anthropogenic climate change is a real peril to the existence of life forms on our planet, including human and plant life. Climate change is predicted to be a significant threat to biodiversity and food security in the coming decades and is rapidly transforming global farming systems. To avoid the ghastly future in the face of climate change, the elucidation of shifts in the geographical range of plant species, species adaptation, and evolution is necessary for plant scientists to develop climate-resilient strategies. In the post-genomics era, the increasing availability of genomic resources and integration of multifaceted genomics elements is empowering biodiversity conservation action, restoration efforts, and identification of genomic regions adaptive to climate change. Genomics has accelerated the true characterization of crop wild relatives, genomic variations, and the development of climate-resilient varieties to ensure food security for 10 billion people by 2050. In this review, we have summarized the applications of multifaceted genomic tools, like conservation genomics, whole genome sequencing, functional genomics, genome editing, pangenomics, in the conservation and adaptation of plant species with a focus on celery, an aromatic and medicinal Apiaceae vegetable. We focus on how conservation scientists can utilize genomics and genomic data in conservation and improvement.
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Affiliation(s)
- Saurabh Singh
- Department of Vegetable Science, Rani Lakshmi Bai Central Agricultural University, Jhansi, UP, 284003, India.
| | - Rajender Singh
- Division of Crop Improvement and Seed Technology, ICAR-Central Potato Research Institute (CPRI), Shimla, India
| | - Srija Priyadarsini
- Institute of Agricultural Sciences, SOA (Deemed to be University), Bhubaneswar, 751029, India
| | - Arjun Lal Ola
- Department of Vegetable Science, Rani Lakshmi Bai Central Agricultural University, Jhansi, UP, 284003, India
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14
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Castillo-Lorenzo E, Breman E, Gómez Barreiro P, Viruel J. Current status of global conservation and characterisation of wild and cultivated Brassicaceae genetic resources. Gigascience 2024; 13:giae050. [PMID: 39110621 PMCID: PMC11304946 DOI: 10.1093/gigascience/giae050] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 04/23/2024] [Accepted: 06/28/2024] [Indexed: 08/10/2024] Open
Abstract
BACKGROUND The economic importance of the globally distributed Brassicaceae family resides in the large diversity of crops within the family and the substantial variety of agronomic and functional traits they possess. We reviewed the current classifications of crop wild relatives (CWRs) in the Brassicaceae family with the aim of identifying new potential cross-compatible species from a total of 1,242 species using phylogenetic approaches. RESULTS In general, cross-compatibility data between wild species and crops, as well as phenotype and genotype characterisation data, were available for major crops but very limited for minor crops, restricting the identification of new potential CWRs. Around 70% of wild Brassicaceae did not have genetic sequence data available in public repositories, and only 40% had chromosome counts published. Using phylogenetic distances, we propose 103 new potential CWRs for this family, which we recommend as priorities for cross-compatibility tests with crops and for phenotypic characterisation, including 71 newly identified CWRs for 10 minor crops. From the total species used in this study, more than half had no records of being in ex situ conservation, and 80% were not assessed for their conservation status or were data deficient (IUCN Red List Assessments). CONCLUSIONS Great efforts are needed on ex situ conservation to have accessible material for characterising and evaluating the species for future breeding programmes. We identified the Mediterranean region as one key conservation area for wild Brassicaceae species, with great numbers of endemic and threatened species. Conservation assessments are urgently needed to evaluate most of these wild Brassicaceae.
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Affiliation(s)
- Elena Castillo-Lorenzo
- Royal Botanic Gardens, Kew, Wakehurst, Partnerships department, Ardingly, Haywards Heath, West Sussex, RH17 6TN, UK
| | - Elinor Breman
- Royal Botanic Gardens, Kew, Wakehurst, Partnerships department, Ardingly, Haywards Heath, West Sussex, RH17 6TN, UK
| | - Pablo Gómez Barreiro
- Royal Botanic Gardens, Kew, Wakehurst, Science Operations, Ardingly, Haywards Heath, West Sussex RH17 6TN, UK
| | - Juan Viruel
- Royal Botanic Gardens, Kew, Richmond, Research department, Surrey, TW9 3AE, UK
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15
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Kägi C, Petitpierre B, Meyer P, Lötscher Y, Eggenberg S, Aubry S. Fostering in situ conservation of wild relatives of forage crops. FRONTIERS IN PLANT SCIENCE 2023; 14:1287430. [PMID: 38023832 PMCID: PMC10643147 DOI: 10.3389/fpls.2023.1287430] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 10/16/2023] [Indexed: 12/01/2023]
Abstract
Most plant conservation strategies generally overlook the intra-specific genetic diversity of crop gene pools. Focusing on forage crops and their wild relatives, we present a novel approach to address the conservation of these species on meadows. Two-thirds of Swiss agricultural land is green land, mostly used for forage purposes, and their genetic diversity is being threatened. We focused here on eight plant associations gathering at least 18 taxa considered priority crop wild relatives of forage crops. Since 2020, about 1,217 high-quality surfaces (representing 1,566 hectares) nationwide have been integrated into an innovative auction-based policy instrument dedicated to conserving these populations. Here, we report the benefits and hurdles of implementing this bottom-up approach and try to estimate the quality of conservation of the forage plants' CWR gene pool. Although we focus on the Swiss case, our approach to in situ conservation offers opportunities to effectively guide conservation in other contexts. We also discuss possible ways to improve CWR conservation policy, particularly the need to better consider the populations and habitat levels.
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Affiliation(s)
- Christina Kägi
- Federal Office for Agriculture (FOAG), Federal Department of Economic Affairs, Education and Research EAER, Bern, Switzerland
| | | | - Philipp Meyer
- Federal Office for Agriculture (FOAG), Federal Department of Economic Affairs, Education and Research EAER, Bern, Switzerland
| | - Yvonne Lötscher
- Federal Office for Agriculture (FOAG), Federal Department of Economic Affairs, Education and Research EAER, Bern, Switzerland
| | | | - Sylvain Aubry
- Federal Office for Agriculture (FOAG), Federal Department of Economic Affairs, Education and Research EAER, Bern, Switzerland
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16
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Weise S, Hoekstra R, Kutschan KJ, Oppermann M, van Treuren R, Lohwasser U. Analysis of gaps in rapeseed ( Brassica napus L.) collections in European genebanks. FRONTIERS IN PLANT SCIENCE 2023; 14:1244467. [PMID: 37877086 PMCID: PMC10591083 DOI: 10.3389/fpls.2023.1244467] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Accepted: 09/06/2023] [Indexed: 10/26/2023]
Abstract
Rapeseed is one of the most important agricultural crops and is used in many ways. Due to the advancing climate crisis, the yield potential of rapeseed is increasingly impaired. In addition to changing environmental conditions, the expansion of cultivated areas also favours the infestation of rapeseed with various pests and pathogens. This results in the need for continuous further development of rapeseed varieties. To this end, the potential of the rapeseed gene pool should be exploited, as the various species included in it contain promising resistance alleles against pests and pathogens. In general, the biodiversity of crops and their wild relatives is increasingly endangered. In order to conserve them and to provide impulses for breeding activities as well, strategies for the conservation of plant genetic resources are necessary. In this study, we investigated to what extent the different species of the rapeseed gene pool are conserved in European genebanks and what gaps exist. In addition, a niche modelling approach was used to investigate how the natural distribution ranges of these species are expected to change by the end of the century, assuming different climate change scenarios. It was found that most species of the rapeseed gene pool are significantly underrepresented in European genebanks, especially regarding representation of the natural distribution areas. The situation is exacerbated by the fact that the natural distributions are expected to change, in some cases significantly, as a result of ongoing climate change. It is therefore necessary to further develop strategies to prevent the loss of wild relatives of rapeseed. Based on the results of the study, as a first step we have proposed a priority list of species that should be targeted for collecting in order to conserve the biodiversity of the rapeseed gene pool in the long term.
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Affiliation(s)
- Stephan Weise
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Seeland, Germany
| | - Roel Hoekstra
- Centre for Genetic Resources, the Netherlands (CGN), Wageningen University & Research, Wageningen, Netherlands
| | - Kim Jana Kutschan
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Seeland, Germany
| | - Markus Oppermann
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Seeland, Germany
| | - Rob van Treuren
- Centre for Genetic Resources, the Netherlands (CGN), Wageningen University & Research, Wageningen, Netherlands
| | - Ulrike Lohwasser
- Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) OT Gatersleben, Seeland, Germany
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17
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Hendriks KP, Kiefer C, Al-Shehbaz IA, Bailey CD, Hooft van Huysduynen A, Nikolov LA, Nauheimer L, Zuntini AR, German DA, Franzke A, Koch MA, Lysak MA, Toro-Núñez Ó, Özüdoğru B, Invernón VR, Walden N, Maurin O, Hay NM, Shushkov P, Mandáková T, Schranz ME, Thulin M, Windham MD, Rešetnik I, Španiel S, Ly E, Pires JC, Harkess A, Neuffer B, Vogt R, Bräuchler C, Rainer H, Janssens SB, Schmull M, Forrest A, Guggisberg A, Zmarzty S, Lepschi BJ, Scarlett N, Stauffer FW, Schönberger I, Heenan P, Baker WJ, Forest F, Mummenhoff K, Lens F. Global Brassicaceae phylogeny based on filtering of 1,000-gene dataset. Curr Biol 2023; 33:4052-4068.e6. [PMID: 37659415 DOI: 10.1016/j.cub.2023.08.026] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Revised: 06/22/2023] [Accepted: 08/08/2023] [Indexed: 09/04/2023]
Abstract
The mustard family (Brassicaceae) is a scientifically and economically important family, containing the model plant Arabidopsis thaliana and numerous crop species that feed billions worldwide. Despite its relevance, most phylogenetic trees of the family are incompletely sampled and often contain poorly supported branches. Here, we present the most complete Brassicaceae genus-level family phylogenies to date (Brassicaceae Tree of Life or BrassiToL) based on nuclear (1,081 genes, 319 of the 349 genera; 57 of the 58 tribes) and plastome (60 genes, 265 genera; all tribes) data. We found cytonuclear discordance between the two, which is likely a result of rampant hybridization among closely and more distantly related lineages. To evaluate the impact of such hybridization on the nuclear phylogeny reconstruction, we performed five different gene sampling routines, which increasingly removed putatively paralog genes. Our cleaned subset of 297 genes revealed high support for the tribes, whereas support for the main lineages (supertribes) was moderate. Calibration based on the 20 most clock-like nuclear genes suggests a late Eocene to late Oligocene origin of the family. Finally, our results strongly support a recently published new family classification, dividing the family into two subfamilies (one with five supertribes), together representing 58 tribes. This includes five recently described or re-established tribes, including Arabidopsideae, a monogeneric tribe accommodating Arabidopsis without any close relatives. With a worldwide community of thousands of researchers working on Brassicaceae and its diverse members, our new genus-level family phylogeny will be an indispensable tool for studies on biodiversity and plant biology.
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Affiliation(s)
- Kasper P Hendriks
- Department of Biology, Botany, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany; Functional Traits Group, Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, the Netherlands.
| | - Christiane Kiefer
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 345, 69120 Heidelberg, Germany
| | | | - C Donovan Bailey
- Department of Biology, New Mexico State University, PO Box 30001, MSC 3AF, Las Cruces, NM 88003, USA
| | - Alex Hooft van Huysduynen
- Functional Traits Group, Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, the Netherlands; Department of Biology, University of Antwerp, Groenenborgerlaan 171, 2020 Antwerp, Belgium
| | - Lachezar A Nikolov
- Department of Molecular, Cell and Developmental Biology, University of California, 610 Charles E. Young Dr. S., Los Angeles, CA 90095, USA
| | - Lars Nauheimer
- Australian Tropical Herbarium, James Cook University, PO Box 6811, Cairns, QLD 4870, Australia
| | | | - Dmitry A German
- South-Siberian Botanical Garden, Altai State University, Barnaul, Lesosechnaya Ulitsa, 25, Barnaul, Altai Krai, Russia
| | - Andreas Franzke
- Heidelberg Botanic Garden, Heidelberg University, Im Neuenheimer Feld 361, 69120 Heidelberg, Germany
| | - Marcus A Koch
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 345, 69120 Heidelberg, Germany
| | - Martin A Lysak
- CEITEC-Central European Institute of Technology, Masaryk University, Kamenice 5, Brno 625 00, Czech Republic
| | - Óscar Toro-Núñez
- Departamento de Botánica, Universidad de Concepción, Barrio Universitario, Concepción, Chile
| | - Barış Özüdoğru
- Department of Biology, Hacettepe University, Beytepe, Ankara 06800, Türkiye
| | - Vanessa R Invernón
- Sorbonne Université, Muséum National d'Histoire Naturelle, Institut de Systématique, Évolution, Biodiversité (ISYEB), CP 39, 57 rue Cuvier, 75231 Paris Cedex 05, France
| | - Nora Walden
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 345, 69120 Heidelberg, Germany
| | - Olivier Maurin
- Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AE, UK
| | - Nikolai M Hay
- Department of Biology, Duke University, Durham, NC 27708, USA
| | - Philip Shushkov
- Department of Chemistry, Indiana University, 800 E. Kirkwood Ave., Bloomington, IN 47405, USA
| | - Terezie Mandáková
- CEITEC-Central European Institute of Technology, Masaryk University, Kamenice 5, Brno 625 00, Czech Republic
| | - M Eric Schranz
- Biosystematics Group, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, the Netherlands
| | - Mats Thulin
- Department of Organismal Biology, Uppsala University, Norbyvägen 18, 752 36 Uppsala, Sweden
| | | | - Ivana Rešetnik
- Department of Biology, University of Zagreb, Marulićev trg 20/II, 10000 Zagreb, Croatia
| | - Stanislav Španiel
- Institute of Botany, Slovak Academy of Sciences, Plant Science and Biodiversity Centre, Dúbravská cesta 9, 845 23 Bratislava, Slovakia
| | - Elfy Ly
- Functional Traits Group, Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, the Netherlands; Wetsus, European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911 MA Leeuwarden, the Netherlands; Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands
| | - J Chris Pires
- Soil and Crop Sciences, Colorado State University, 307 University Ave., Fort Collins, CO 80523-1170, USA
| | - Alex Harkess
- HudsonAlpha Institute for Biotechnology, 601 Genome Way Northwest, Huntsville, AL 35806, USA
| | - Barbara Neuffer
- Department of Biology, Botany, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany
| | - Robert Vogt
- Botanischer Garten und Botanisches Museum, Freie Universität Berlin, Königin-Luise-Straße 6-8, 14195 Berlin, Germany
| | - Christian Bräuchler
- Department of Botany, Natural History Museum Vienna, Burgring 7, 1010 Vienna, Austria
| | - Heimo Rainer
- Department of Botany, Natural History Museum Vienna, Burgring 7, 1010 Vienna, Austria
| | - Steven B Janssens
- Department of Biology, KU Leuven, Kasteelpark Arenberg 31 - box 2435, 3001 Leuven, Belgium; Meise Botanic Garden, Nieuwelaan 38, 1860 Meise, Belgium
| | - Michaela Schmull
- Harvard University Herbaria, 22 Divinity Ave., Cambridge, MA 02138, USA
| | - Alan Forrest
- Centre for Middle Eastern Plants, Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh EH3 5LR, UK
| | - Alessia Guggisberg
- ETH Zürich, Institut für Integrative Biologie, Universitätstrasse 16, 8092 Zürich, Switzerland
| | - Sue Zmarzty
- Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AE, UK
| | - Brendan J Lepschi
- Australian National Herbarium, Centre for Australian National Biodiversity Research, Clunies Ross St, Acton, ACT 2601, Australia
| | - Neville Scarlett
- La Trobe University, Plenty Road and Kingsbury Dr., Bundoora, VIC 3086, Australia
| | - Fred W Stauffer
- Conservatory and Botanic Gardens of Geneva, CP 60, Chambésy, 1292 Geneva, Switzerland
| | - Ines Schönberger
- Manaaki Whenua Landcare Research, Allan Herbarium, PO Box 69040, Lincoln, New Zealand
| | - Peter Heenan
- Manaaki Whenua Landcare Research, Allan Herbarium, PO Box 69040, Lincoln, New Zealand
| | | | - Félix Forest
- Royal Botanic Gardens, Kew, Richmond, Surrey TW9 3AE, UK
| | - Klaus Mummenhoff
- Department of Biology, Botany, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany.
| | - Frederic Lens
- Functional Traits Group, Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, the Netherlands; Institute of Biology Leiden, Plant Sciences, Leiden University, Sylviusweg 72, 2333 BE Leiden, the Netherlands.
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18
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Liu X, Arshad R, Wang X, Li WM, Zhou Y, Ge XJ, Huang HR. The phased telomere-to-telomere reference genome of Musa acuminata, a main contributor to banana cultivars. Sci Data 2023; 10:631. [PMID: 37716992 PMCID: PMC10505225 DOI: 10.1038/s41597-023-02546-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Accepted: 09/05/2023] [Indexed: 09/18/2023] Open
Abstract
Musa acuminata is a main wild contributor to banana cultivars. Here, we reported a haplotype-resolved and telomere-to-telomere reference genome of M. acuminata by incorporating PacBio HiFi reads, Nanopore ultra-long reads, and Hi-C data. The genome size of the two haploid assemblies was estimated to be 469.83 Mb and 470.21 Mb, respectively. Multiple assessments confirmed the contiguity (contig N50: 16.53 Mb and 18.58 Mb; LAI: 20.18 and 19.48), completeness (BUSCOs: 98.57% and 98.57%), and correctness (QV: 45.97 and 46.12) of the genome. The repetitive sequences accounted for about half of the genome size. In total, 40,889 and 38,269 protein-coding genes were annotated in the two haploid assemblies, respectively, of which 9.56% and 3.37% were newly predicted. Genome comparison identified a large reciprocal translocation involving 3 Mb and 10 Mb from chromosomes 01 and 04 within M. acuminata. This reference genome of M. acuminata provides a valuable resource for further understanding of subgenome evolution of Musa species, and precise genetic improvement of banana.
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Affiliation(s)
- Xin Liu
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China
- South China National Botanical Garden, Guangzhou, 510650, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Rida Arshad
- National Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Xu Wang
- National Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
| | - Wei-Ming Li
- School of Marine Sciences and Biotechnology, Guangxi University for Nationalities, Nanning, 530008, China
| | - Yongfeng Zhou
- National Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
- National Key Laboratory of Tropical Crop Breeding, Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China
| | - Xue-Jun Ge
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China
- South China National Botanical Garden, Guangzhou, 510650, China
| | - Hui-Run Huang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
- South China National Botanical Garden, Guangzhou, 510650, China.
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19
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Han Q, Liu Y, Jiang H, Chen X, Feng H. Evaluation of Climate Change Impacts on the Potential Distribution of Wild Radish in East Asia. PLANTS (BASEL, SWITZERLAND) 2023; 12:3187. [PMID: 37765351 PMCID: PMC10534784 DOI: 10.3390/plants12183187] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Revised: 08/30/2023] [Accepted: 08/30/2023] [Indexed: 09/29/2023]
Abstract
Climate change can exert a considerable influence on the geographic distribution of many taxa, including coastal plants and populations of some plant species closely related to those used as agricultural crops. East Asian wild radish, Raphanus raphanistrum subsp. sativus, is an annual coastal plant that is a wild relative of the cultivated radish (R. sativus). It has served as source of genetic material that has been helpful to develop and improve the quality and yield of radish crops. To assess the impact of climate change on wild radish in East Asia, we analyzed its distribution at different periods using the maximum entropy model (MaxEnt). The results indicated that the precipitation of the driest month (bio14) and precipitation seasonality (bio15) were the two most dominant environmental factors that affected the geographical distribution of wild radish in East Asia. The total potential area suitable for wild radish is 102.5574 × 104 km2, mainly located along the seacoasts of southern China, Korea, and the Japanese archipelago. Compared with its current distribution regions, the potentially suitable areas for wild radish in the 2070s will further increase and expand northwards in Japan, especially on the sand beach habitats of Hokkaido. This research reveals the spatiotemporal changes for the coastal plant wild radish under global warming and simultaneously provides a vital scientific basis for effective utilization and germplasm innovation for radish cultivars to achieve sustainable agriculture development.
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Affiliation(s)
- Qingxiang Han
- College of Life Sciences, Zaozhuang University, Zaozhuang 277160, China;
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China;
| | - Ye Liu
- School of Environmental Studies, University of Geosciences (Wuhan), Wuhan 430078, China;
| | - Hongsheng Jiang
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China;
| | - Xietian Chen
- Wuhan Britain-China School, Wuhan 430030, China;
| | - Huizhe Feng
- College of Life Sciences, Zaozhuang University, Zaozhuang 277160, China;
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20
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Crandall ED, Toczydlowski RH, Liggins L, Holmes AE, Ghoojaei M, Gaither MR, Wham BE, Pritt AL, Noble C, Anderson TJ, Barton RL, Berg JT, Beskid SG, Delgado A, Farrell E, Himmelsbach N, Queeno SR, Trinh T, Weyand C, Bentley A, Deck J, Riginos C, Bradburd GS, Toonen RJ. Importance of timely metadata curation to the global surveillance of genetic diversity. CONSERVATION BIOLOGY : THE JOURNAL OF THE SOCIETY FOR CONSERVATION BIOLOGY 2023; 37:e14061. [PMID: 36704891 PMCID: PMC10751740 DOI: 10.1111/cobi.14061] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Revised: 12/27/2022] [Accepted: 01/07/2023] [Indexed: 05/18/2023]
Abstract
Genetic diversity within species represents a fundamental yet underappreciated level of biodiversity. Because genetic diversity can indicate species resilience to changing climate, its measurement is relevant to many national and global conservation policy targets. Many studies produce large amounts of genome-scale genetic diversity data for wild populations, but most (87%) do not include the associated spatial and temporal metadata necessary for them to be reused in monitoring programs or for acknowledging the sovereignty of nations or Indigenous peoples. We undertook a distributed datathon to quantify the availability of these missing metadata and to test the hypothesis that their availability decays with time. We also worked to remediate missing metadata by extracting them from associated published papers, online repositories, and direct communication with authors. Starting with 848 candidate genomic data sets (reduced representation and whole genome) from the International Nucleotide Sequence Database Collaboration, we determined that 561 contained mostly samples from wild populations. We successfully restored spatiotemporal metadata for 78% of these 561 data sets (n = 440 data sets with data on 45,105 individuals from 762 species in 17 phyla). Examining papers and online repositories was much more fruitful than contacting 351 authors, who replied to our email requests 45% of the time. Overall, 23% of our email queries to authors unearthed useful metadata. The probability of retrieving spatiotemporal metadata declined significantly as age of the data set increased. There was a 13.5% yearly decrease in metadata associated with published papers or online repositories and up to a 22% yearly decrease in metadata that were only available from authors. This rapid decay in metadata availability, mirrored in studies of other types of biological data, should motivate swift updates to data-sharing policies and researcher practices to ensure that the valuable context provided by metadata is not lost to conservation science forever.
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Affiliation(s)
- Eric D Crandall
- Department of Biology, Pennsylvania State University, University Park, Pennsylvania, USA
| | - Rachel H Toczydlowski
- Ecology, Evolution, and Behavior Program, Department of Integrative Biology, Michigan State University, East Lansing, Michigan, USA
| | - Libby Liggins
- School of Natural Sciences, Massey University, Auckland, New Zealand
| | - Ann E Holmes
- Department of Animal Science, University of California, Davis, Davis, California, USA
| | - Maryam Ghoojaei
- Department of Biology, University of Central Florida, Orlando, Florida, USA
| | - Michelle R Gaither
- Department of Biology, University of Central Florida, Orlando, Florida, USA
| | - Briana E Wham
- Department of Research Informatics and Publishing, The Pennsylvania State University Libraries, Pennsylvania State University, University Park, Pennsylvania, USA
| | - Andrea L Pritt
- Madlyn L. Hanes Library, The Pennsylvania State University Libraries, Pennsylvania State University, Middletown, Pennsylvania, USA
| | - Cory Noble
- School of Natural Sciences, Massey University, Auckland, New Zealand
| | - Tanner J Anderson
- Department of Anthropology, University of Oregon, Eugene, Oregon, USA
| | - Randi L Barton
- Department of Marine Science, California State University Monterey Bay, Seaside, California, USA
- Moss Landing Marine Laboratories, Moss Landing, California, USA
| | - Justin T Berg
- UOG Marine Laboratory, University of Guam, Mangilao, Guam
| | - Sofia G Beskid
- Department of Integrative Biology, University of Texas at Austin, Austin, Texas, USA
| | - Alonso Delgado
- Department of Evolution, Ecology, and Organismal Biology, The Ohio State University, Columbus, Ohio, USA
| | - Emily Farrell
- Department of Biology, University of Central Florida, Orlando, Florida, USA
| | - Nan Himmelsbach
- Department of Natural Science, Hawai'i Pacific University, Honolulu, Hawaii, USA
| | - Samantha R Queeno
- Department of Anthropology, University of Oregon, Eugene, Oregon, USA
| | - Thienthanh Trinh
- Department of Biology, University of Central Florida, Orlando, Florida, USA
| | - Courtney Weyand
- Department of Biological Sciences, Auburn University, Auburn, Alabama, USA
| | - Andrew Bentley
- Biodiversity Institute, University of Kansas, Lawrence, Kansas, USA
| | - John Deck
- Berkeley Natural History Museums, University of California, Berkeley, Berkeley, California, USA
| | - Cynthia Riginos
- School of Biological Sciences, The University of Queensland, Brisbane, Queensland, Australia
| | - Gideon S Bradburd
- Ecology, Evolution, and Behavior Program, Department of Integrative Biology, Michigan State University, East Lansing, Michigan, USA
| | - Robert J Toonen
- Hawai'i Institute of Marine Biology, University of Hawai'i at Mānoa, Kaneohe, Hawaii, USA
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21
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Flint-Garcia S, Feldmann MJ, Dempewolf H, Morrell PL, Ross-Ibarra J. Diamonds in the not-so-rough: Wild relative diversity hidden in crop genomes. PLoS Biol 2023; 21:e3002235. [PMID: 37440605 PMCID: PMC10368281 DOI: 10.1371/journal.pbio.3002235] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Revised: 07/25/2023] [Indexed: 07/15/2023] Open
Abstract
Crop production is becoming an increasing challenge as the global population grows and the climate changes. Modern cultivated crop species are selected for productivity under optimal growth environments and have often lost genetic variants that could allow them to adapt to diverse, and now rapidly changing, environments. These genetic variants are often present in their closest wild relatives, but so are less desirable traits. How to preserve and effectively utilize the rich genetic resources that crop wild relatives offer while avoiding detrimental variants and maladaptive genetic contributions is a central challenge for ongoing crop improvement. This Essay explores this challenge and potential paths that could lead to a solution.
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Affiliation(s)
- Sherry Flint-Garcia
- Plant Genetics Research Unit, United States Department of Agriculture, Agricultural Research Service, Columbia, Missouri, United States of America
| | - Mitchell J. Feldmann
- Department of Plant Sciences, University of California, Davis, California, United States of America
| | | | - Peter L. Morrell
- Department of Agronomy and Plant Genetics, University of Minnesota, Minneapolis, Minnesota, United States of America
| | - Jeffrey Ross-Ibarra
- Department of Evolution and Ecology, Center for Population Biology, and Genome Center, University of California, Davis, California, United States of America
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22
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Jabari M, Golparvar A, Sorkhilalehloo B, Shams M. Investigation of genetic diversity of Iranian wild relatives of bread wheat using ISSR and SSR markers. J Genet Eng Biotechnol 2023; 21:73. [PMID: 37382843 DOI: 10.1186/s43141-023-00526-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 06/08/2023] [Indexed: 06/30/2023]
Abstract
BACKGROUND Wild relatives of wheat are one of the most important genetic resources to use in wheat breeding programs. Therefore, identifying wild relatives of wheat and being aware of their diversity, is undeniably effective in expanding the richness of the gene pool and the genetic base of new cultivars and can be a useful tool for breeders in the future. The present study was performed to evaluate the molecular diversity among 49 accessions of the genera Aegilops and Triticum in the National Plant Gene Bank of Iran using two DNA-based markers, i.e., SSR and ISSR. Also, the present study aimed to examine the relationships among the accessions studied belonging to different genetic backgrounds. RESULTS Ten SSR and tan ISSR primers produced 2065 and 1524 polymorphism bands, respectively. The number of Polymorphic Bands (NPB), the Polymorphism Information Content (PIC), Marker Index (MI), and Resolving Power (Rp) in SSR marker was 162 to 317, 0.830 to 0.919, 1.326 to 3.167, and 3.169 to 5.692, respectively, and in the ISSR marker, it was from 103 to 185, 0.377 to 0.441, 0.660 to 1.151, and 3.169 to 5.693, respectively. This indicates the efficiency of both markers in detecting polymorphism among the accessions studied. The ISSR marker had a higher polymorphism rate, MI, and Rp than the SSR marker. Molecular analysis of variance for both DNA-based markers showed that the genetic variation within the species was more than the genetic diversity between them. The high level of genomic diversity discovered in the Aegilops and Triticum species proved to provide an ideal gene pool for discovering genes useful for wheat breeding. The accessions were classified into eight groups based on SSR and ISSR markers using the UPGMA method of cluster analysis. According to the cluster analysis results, despite similarities between the accessions of a given province, in most cases, the geographical pattern was not in accordance with that observed using the molecular clustering. Based on the coordinate analysis, neighboring groups showed the maximum similarities, and distant ones revealed the maximum genetic distance from each other. The genetic structure analysis successfully separated accessions for their ploidy levels. CONCLUSIONS Both markers provided a comprehensive model of genetic diversity between Iranian accessions of Aegilops and Triticum genera. Primers used in the present study were effective, informative, and genome-specific which could be used in genome explanatory experiments.
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Affiliation(s)
- Maryam Jabari
- Department of Agronomy and Plant Breeding, College of Agriculture, Islamic Azad University, Isfahan (Khorasgan) Isfahan Branch, Iran
| | - Ahmadreza Golparvar
- Department of Agronomy and Plant Breeding, College of Agriculture, Islamic Azad University, Isfahan (Khorasgan) Isfahan Branch, Iran
| | - Behzad Sorkhilalehloo
- Genetic Research Department and the National Plant Genebank of Iran, Seed and Plant Improvement Institute, Agricultural Research, Education and Extension Organization, AREEO, Karaj, Iran.
| | - Majid Shams
- Department of Agronomy and Plant Breeding, College of Agriculture, Islamic Azad University, Isfahan (Khorasgan) Isfahan Branch, Iran
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23
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Wang N, Cao S, Liu Z, Xiao H, Hu J, Xu X, Chen P, Ma Z, Ye J, Chai L, Guo W, Larkin RM, Xu Q, Morrell PL, Zhou Y, Deng X. Genomic conservation of crop wild relatives: A case study of citrus. PLoS Genet 2023; 19:e1010811. [PMID: 37339133 DOI: 10.1371/journal.pgen.1010811] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Accepted: 06/01/2023] [Indexed: 06/22/2023] Open
Abstract
Conservation of crop wild relatives is critical for plant breeding and food security. The lack of clarity on the genetic factors that lead to endangered status or extinction create difficulties when attempting to develop concrete recommendations for conserving a citrus wild relative: the wild relatives of crops. Here, we evaluate the conservation of wild kumquat (Fortunella hindsii) using genomic, geographical, environmental, and phenotypic data, and forward simulations. Genome resequencing data from 73 accessions from the Fortunella genus were combined to investigate population structure, demography, inbreeding, introgression, and genetic load. Population structure was correlated with reproductive type (i.e., sexual and apomictic) and with a significant differentiation within the sexually reproducing population. The effective population size for one of the sexually reproducing subpopulations has recently declined to ~1,000, resulting in high levels of inbreeding. In particular, we found that 58% of the ecological niche overlapped between wild and cultivated populations and that there was extensive introgression into wild samples from cultivated populations. Interestingly, the introgression pattern and accumulation of genetic load may be influenced by the type of reproduction. In wild apomictic samples, the introgressed regions were primarily heterozygous, and genome-wide deleterious variants were hidden in the heterozygous state. In contrast, wild sexually reproducing samples carried a higher recessive deleterious burden. Furthermore, we also found that sexually reproducing samples were self-incompatible, which prevented the reduction of genetic diversity by selfing. Our population genomic analyses provide specific recommendations for distinct reproductive types and monitoring during conservation. This study highlights the genomic landscape of a wild relative of citrus and provides recommendations for the conservation of crop wild relatives.
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Affiliation(s)
- Nan Wang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Shuo Cao
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Zhongjie Liu
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Hua Xiao
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Jianbing Hu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
| | - Xiaodong Xu
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Peng Chen
- Institute of Horticultural Research, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Zhiyao Ma
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
| | - Junli Ye
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
| | - Lijun Chai
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
| | - Wenwu Guo
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Robert M Larkin
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Qiang Xu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Peter L Morrell
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota, United States of America
| | - Yongfeng Zhou
- State Key Laboratory of Tropical Crop Breeding, Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Synthetic Biology, Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, China
- State Key Laboratory of Tropical Crop Breeding, Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Xiuxin Deng
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
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24
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Cortés AJ, Barnaby JY. Editorial: Harnessing genebanks: High-throughput phenotyping and genotyping of crop wild relatives and landraces. FRONTIERS IN PLANT SCIENCE 2023; 14:1149469. [PMID: 36968416 PMCID: PMC10036837 DOI: 10.3389/fpls.2023.1149469] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/22/2023] [Accepted: 01/26/2023] [Indexed: 06/18/2023]
Affiliation(s)
- Andrés J. Cortés
- Corporación Colombiana de Investigación Agropecuaria – AGROSAVIA, C.I. La Selva, Rionegro, Colombia
| | - Jinyoung Y. Barnaby
- U.S. Department of Agriculture, U.S. National Arboretum, Floral and Nursery Plants Research Unit, Beltsville, MD, United States
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25
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Flourish with the wild. NATURE PLANTS 2023; 9:373-374. [PMID: 36944841 DOI: 10.1038/s41477-023-01386-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
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26
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Zhao X, Guo Y, Kang L, Yin C, Bi A, Xu D, Zhang Z, Zhang J, Yang X, Xu J, Xu S, Song X, Zhang M, Li Y, Kear P, Wang J, Liu Z, Fu X, Lu F. Population genomics unravels the Holocene history of bread wheat and its relatives. NATURE PLANTS 2023; 9:403-419. [PMID: 36928772 DOI: 10.1038/s41477-023-01367-3] [Citation(s) in RCA: 27] [Impact Index Per Article: 27.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2022] [Accepted: 02/08/2023] [Indexed: 05/06/2023]
Abstract
Deep knowledge of crop biodiversity is essential to improving global food security. Despite bread wheat serving as a keystone crop worldwide, the population history of bread wheat and its relatives, both cultivated and wild, remains elusive. By analysing whole-genome sequences of 795 wheat accessions, we found that bread wheat originated from the southwest coast of the Caspian Sea and underwent a slow speciation process, lasting ~3,300 yr owing to persistent gene flow from its relatives. Soon after, bread wheat spread across Eurasia and reached Europe, South Asia and East Asia ~7,000 to ~5,000 yr ago, shaping a diversified but occasionally convergent adaptive landscape in novel environments. By contrast, the cultivated relatives of bread wheat experienced a population decline by ~82% over the past ~2,000 yr due to the food choice shift of humans. Further biogeographical modelling predicted a continued population shrinking of many bread wheat relatives in the coming decades because of their vulnerability to the changing climate. These findings will guide future efforts in protecting and utilizing wheat biodiversity to enhance global wheat production.
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Affiliation(s)
- Xuebo Zhao
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yafei Guo
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Lipeng Kang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Changbin Yin
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
| | - Aoyue Bi
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Daxing Xu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Zhiliang Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jijin Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Xiaohan Yang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jun Xu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Song Xu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Xinyue Song
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
- State Key Laboratory of Conservation and Utilization of Bio-Resources in Yunnan and Center for Life Sciences, School of Life Sciences, Yunnan University, Kunming, China
| | - Ming Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yiwen Li
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
| | - Philip Kear
- International Potato Center-China Center for Asia and the Pacific, Beijing, China
| | - Jing Wang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
| | - Zhiyong Liu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Xiangdong Fu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Fei Lu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China.
- University of Chinese Academy of Sciences, Beijing, China.
- CAS-JIC Centre of Excellence for Plant and Microbial Science (CEPAMS), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
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Lebeda A, Burdon JJ. Studying Wild Plant Pathosystems to Understand Crop Plant Pathosystems: Status, Gaps, Challenges, and Perspectives. PHYTOPATHOLOGY 2023; 113:365-380. [PMID: 36256745 DOI: 10.1094/phyto-01-22-0018-per] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Phytopathology is a highly complex scientific discipline. Initially, its focus was on the study of plant-pathogen interactions in agricultural and forestry production systems. Host-pathogen interactions in natural plant communities were generally overlooked until the 1970s when plant pathologists and evolutionary biologists started to take an interest in these interactions, and their dynamics in natural plant populations, communities, and ecosystems. This article introduces the general principles of plant pathosystems, provides a basic critical overview of current knowledge of host-pathogen interactions in natural plant pathosystems, and shows how this knowledge is important for future developments in plant pathology especially as it applies in cropping systems, ecology, and evolutionary biology. Plant pathosystems can be further divided according to the structure and origin of control, as autonomous (wild plant pathosystems, WPPs) or deterministic (crop plant pathosystems, CPPs). WPPs are characterized by the disease triangle and closed-loop (feedback) controls, and CPPs are characterized by the disease tetrahedron and open-loop (non-feedback) controls. Basic general, ecological, genetic, and population structural and functional differences between WPPs and CPPs are described. It is evident that we lack a focus on long-term observations and research of diseases and their dynamics in natural plant populations, metapopulations, communities, ecosystems, and biomes, as well as their direct or indirect relationships to CPPs. Differences and connections between WPPs and CPPs, and why, and how, these are important for agriculture varies. WPP and CPP may be linked by strong biological interactions, especially where the pathogen is in common. This is demonstrated through a case study of lettuce (Lactuca spp., L. serriola and L. sativa) and lettuce downy mildew (Bremia lactucae). In other cases where there is no such direct biological linkage, the study of WPPs can provide a deeper understanding of how ecology and genetics interacts to drive disease through time. These studies provide insights into ways in which farming practices may be changed to limit disease development. Research on interactions between pathosystems, the "cross-talk" of WPPs and CPPs, is still very limited and, as shown in interactions between wild and cultivated Lactuca spp.-B. lactucae associations, can be highly complex. The implications and applications of this knowledge in plant breeding, crop management, and disease control measures are considered. This review concludes with a discussion of theoretical, general and specific aspects, challenges and limits of future WPP research, and application of their results in agriculture.
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Affiliation(s)
- Aleš Lebeda
- Department of Botany, Faculty of Science, Palacký University in Olomouc, Šlechtitelů 27, 783 71 Olomouc, Czech Republic
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Dodd RJ, Chadwick DR, Hill PW, Hayes F, Sánchez-Rodríguez AR, Gwynn-Jones D, Smart SM, Jones DL. Resilience of ecosystem service delivery in grasslands in response to single and compound extreme weather events. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 861:160660. [PMID: 36464051 DOI: 10.1016/j.scitotenv.2022.160660] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2022] [Revised: 11/29/2022] [Accepted: 11/29/2022] [Indexed: 06/17/2023]
Abstract
Extreme weather events are increasing in frequency and magnitude with profound effects on ecosystem functioning. Further, there is now a greater likelihood that multiple extreme events are occurring within a single year. Here we investigated the effect of a single drought, flood or compound (flood + drought) extreme event on temperate grassland ecosystem processes in a field experiment. To assess system resistance and resilience, we studied changes in a wide range of above- and below-ground indicators (plant diversity and productivity, greenhouse gas emissions, soil chemical, physical and biological metrics) during the 8 week stress events and then for 2 years post-stress. We hypothesized that agricultural grasslands would have different degrees of resistance and resilience to flood and drought stress. We also investigated two alternative hypotheses that the combined flood + drought treatment would either, (A) promote ecosystem resilience through more rapid recovery of soil moisture conditions or (B) exacerbate the impact of the single flood or drought event. Our results showed that flooding had a much greater effect than drought on ecosystem processes and that the grassland was more resistant and resilient to drought than to flood. The immediate impact of flooding on all indicators was negative, especially for those related to production, and climate and water regulation. Flooding stress caused pronounced and persistent shifts in soil microbial and plant communities with large implications for nutrient cycling and long-term ecosystem function. The compound flood + drought treatment failed to show a more severe impact than the single extreme events. Rather, there was an indication of quicker recovery of soil and microbial parameters suggesting greater resilience in line with hypothesis (A). This study clearly reveals that contrasting extreme weather events differentially affect grassland ecosystem function but that concurrent events of a contrasting nature may promote ecosystem resilience to future stress.
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Affiliation(s)
- Rosalind J Dodd
- UK Centre for Ecology and Hydrology, Lancaster Environment Centre, Library Ave, Bailrigg LA1 4AP, UK; Environment Centre Wales, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK.
| | - David R Chadwick
- Environment Centre Wales, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK
| | - Paul W Hill
- Environment Centre Wales, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK
| | - Felicity Hayes
- UK Centre for Ecology and Hydrology, Environment Centre Wales, Bangor, Gwynedd LL57 2UW, UK
| | - Antonio R Sánchez-Rodríguez
- Environment Centre Wales, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK; Departamento de Agronomía, Universidad de Córdoba, Córdoba 14071, Spain
| | - Dylan Gwynn-Jones
- Department of Life Sciences, Aberystwyth University, Aberystwyth, Ceredigion SY23 3DA, UK
| | - Simon M Smart
- UK Centre for Ecology and Hydrology, Lancaster Environment Centre, Library Ave, Bailrigg LA1 4AP, UK
| | - Davey L Jones
- Environment Centre Wales, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK; SoilsWest, Centre for Sustainable Farming Systems, Food Futures Institute, Murdoch University, Murdoch, WA 6105, Australia
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Maxted N, Magos Brehm J. Maximizing the crop wild relative resources available to plant breeders for crop improvement. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2023. [DOI: 10.3389/fsufs.2023.1010204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023] Open
Abstract
Crop breeders are currently facing the need to continue increasing crop production to feed the growing human population, while mitigating the negative impacts of climate change on agriculture. Taxonomic and genetic diversity, which includes taxa, genes and alleles that offer novel sources of resistance to pests, disease and abiotic factors that affect crop quality and quantity, are a key tool for crop breeders to address these challenges. Lack of access to this diversity is currently limiting crop improvement. This paper focuses on how the breeder's requirement for greater diversity may be met despite the continue challenges of growing human population, and the impacts of climate change. It is argued that gene pool diversity is largely concentrated in crop wild relatives (CWR) and their more active conservation, especially focusing on in situ conservation applications, will enable the breeding challenges to be met. Further, that the science of in situ conservation is only now coming of age but is sufficiently advanced to facilitate the establishment of integrated national, regional, and global in situ CWR conservation networks. For humankind to substantially benefit from the additional adaptive diversity made available through these collaborative networks for CWR in situ conservation for the first time, breeders need to be provided with the critical resources necessary to address the negative impacts of climate changes on food production—therefore promoting greater global food security.
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The impact of climate change on the future distribution of priority crop wild relatives in Indonesia and implications for conservation planning. J Nat Conserv 2023. [DOI: 10.1016/j.jnc.2023.126368] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023]
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Thingnam SS, Lourembam DS, Tongbram PS, Lokya V, Tiwari S, Khan MK, Pandey A, Hamurcu M, Thangjam R. A Perspective Review on Understanding Drought Stress Tolerance in Wild Banana Genetic Resources of Northeast India. Genes (Basel) 2023; 14:genes14020370. [PMID: 36833297 PMCID: PMC9957078 DOI: 10.3390/genes14020370] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Revised: 01/22/2023] [Accepted: 01/25/2023] [Indexed: 02/04/2023] Open
Abstract
The enormous perennial monocotyledonous herb banana (Musa spp.), which includes dessert and cooking varieties, is found in more than 120 countries and is a member of the order Zingiberales and family Musaceae. The production of bananas requires a certain amount of precipitation throughout the year, and its scarcity reduces productivity in rain-fed banana-growing areas due to drought stress. To increase the tolerance of banana crops to drought stress, it is necessary to explore crop wild relatives (CWRs) of banana. Although molecular genetic pathways involved in drought stress tolerance of cultivated banana have been uncovered and understood with the introduction of high-throughput DNA sequencing technology, next-generation sequencing (NGS) techniques, and numerous "omics" tools, unfortunately, such approaches have not been thoroughly implemented to utilize the huge potential of wild genetic resources of banana. In India, the northeastern region has been reported to have the highest diversity and distribution of Musaceae, with more than 30 taxa, 19 of which are unique to the area, accounting for around 81% of all wild species. As a result, the area is regarded as one of the main locations of origin for the Musaceae family. The understanding of the response of the banana genotypes of northeastern India belonging to different genome groups to water deficit stress at the molecular level will be useful for developing and improving drought tolerance in commercial banana cultivars not only in India but also worldwide. Hence, in the present review, we discuss the studies conducted to observe the effect of drought stress on different banana species. Moreover, the article highlights the tools and techniques that have been used or that can be used for exploring and understanding the molecular basis of differentially regulated genes and their networks in different drought stress-tolerant banana genotypes of northeast India, especially wild types, for unraveling their potential novel traits and genes.
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Affiliation(s)
| | | | - Punshi Singh Tongbram
- Department of Biotechnology, School of Life Sciences, Mizoram University, Aizawl 796004, India
| | - Vadthya Lokya
- Plant Tissue Culture and Genetic Engineering Lab, National Agri-Food Biotechnology Institute (NABI), Department of Biotechnology, Ministry of Science and Technology (Government of India), Sector 81, Knowledge City, S.A.S. Nagar, Mohali 140306, India
| | - Siddharth Tiwari
- Plant Tissue Culture and Genetic Engineering Lab, National Agri-Food Biotechnology Institute (NABI), Department of Biotechnology, Ministry of Science and Technology (Government of India), Sector 81, Knowledge City, S.A.S. Nagar, Mohali 140306, India
| | - Mohd. Kamran Khan
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya 42079, Turkey
| | - Anamika Pandey
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya 42079, Turkey
| | - Mehmet Hamurcu
- Department of Soil Science and Plant Nutrition, Faculty of Agriculture, Selcuk University, Konya 42079, Turkey
| | - Robert Thangjam
- Department of Biotechnology, School of Life Sciences, Mizoram University, Aizawl 796004, India
- Department of Life Sciences, School of Life Sciences, Manipur University, Imphal 795003, India
- Correspondence:
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Sotomayor DA, Ellis D, Salas A, Gomez R, Sanchez RA, Carrillo F, Giron C, Quispe V, Manrique-Carpintero NC, Anglin NL, Zorrilla C. Collecting wild potato species ( Solanum sect. Petota) in Peru to enhance genetic representation and fill gaps in ex situ collections. FRONTIERS IN PLANT SCIENCE 2023; 14:1044718. [PMID: 36794213 PMCID: PMC9923048 DOI: 10.3389/fpls.2023.1044718] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Accepted: 01/12/2023] [Indexed: 06/18/2023]
Abstract
Crop wild relatives (CWRs) are important sources of novel genes, due to their high variability of response to biotic and abiotic stresses, which can be invaluable for crop genetic improvement programs. Recent studies have shown that CWRs are threatened by several factors, including changes in land-use and climate change. A large proportion of CWRs are underrepresented in genebanks, making it necessary to take action to ensure their long-term ex situ conservation. With this aim, 18 targeted collecting trips were conducted during 2017/2018 in the center of origin of potato (Solanum tuberosum L.), targeting 17 diverse ecological regions of Peru. This was the first comprehensive wild potato collection in Peru in at least 20 years and encompassed most of the unique habitats of potato CWRs in the country. A total of 322 wild potato accessions were collected as seed, tubers, and whole plants for ex situ storage and conservation. They belonged to 36 wild potato species including one accession of S. ayacuchense that was not conserved previously in any genebank. Most accessions required regeneration in the greenhouse prior to long-term conservation as seed. The collected accessions help reduce genetic gaps in ex situ conserved germplasm and will allow further research questions on potato genetic improvement and conservation strategies to be addressed. These potato CWRs are available by request for research, training, and breeding purposes under the terms of the International Treaty for Plant Genetic Resources for Food and Agriculture (ITPGRFA) from the Instituto Nacional de Innovacion Agraria (INIA) and the International Potato Center (CIP) in Lima-Peru.
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Affiliation(s)
- Diego A. Sotomayor
- Direccion de Recursos Geneticos y Biotecnologia, Instituto Nacional de Innovacion Agraria (INIA), Lima, Peru
- Facultad de Ciencias, Universidad Nacional Agraria La Molina (UNALM), Lima, Peru
| | - David Ellis
- Centro Internacional de la Papa (CIP), Lima, Peru
| | | | - Rene Gomez
- Centro Internacional de la Papa (CIP), Lima, Peru
| | - Rosa A. Sanchez
- Direccion de Recursos Geneticos y Biotecnologia, Instituto Nacional de Innovacion Agraria (INIA), Lima, Peru
- Facultad de Ciencias, Universidad Nacional Agraria La Molina (UNALM), Lima, Peru
| | - Fredesvinda Carrillo
- Direccion de Recursos Geneticos y Biotecnologia, Instituto Nacional de Innovacion Agraria (INIA), Lima, Peru
| | - Carolina Giron
- Direccion de Recursos Geneticos y Biotecnologia, Instituto Nacional de Innovacion Agraria (INIA), Lima, Peru
| | | | | | - Noelle L. Anglin
- Centro Internacional de la Papa (CIP), Lima, Peru
- USDA ARS Small Grains and Potato Germplasm Unit, Aberdeen, ID, United States
| | - Cinthya Zorrilla
- Direccion de Recursos Geneticos y Biotecnologia, Instituto Nacional de Innovacion Agraria (INIA), Lima, Peru
- International Atomic Energy Agency, Plant Breeding and Genetics Section, Joint FAO/IAEA Center of Nuclear Techniques in Food and Agriculture, Vienna, Austria
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Kapazoglou A, Gerakari M, Lazaridi E, Kleftogianni K, Sarri E, Tani E, Bebeli PJ. Crop Wild Relatives: A Valuable Source of Tolerance to Various Abiotic Stresses. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12020328. [PMID: 36679041 PMCID: PMC9861506 DOI: 10.3390/plants12020328] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Revised: 12/22/2022] [Accepted: 12/23/2022] [Indexed: 05/27/2023]
Abstract
Global climate change is one of the major constraints limiting plant growth, production, and sustainability worldwide. Moreover, breeding efforts in the past years have focused on improving certain favorable crop traits, leading to genetic bottlenecks. The use of crop wild relatives (CWRs) to expand genetic diversity and improve crop adaptability seems to be a promising and sustainable approach for crop improvement in the context of the ongoing climate challenges. In this review, we present the progress that has been achieved towards CWRs exploitation for enhanced resilience against major abiotic stressors (e.g., water deficiency, increased salinity, and extreme temperatures) in crops of high nutritional and economic value, such as tomato, legumes, and several woody perennial crops. The advances in -omics technologies have facilitated the elucidation of the molecular mechanisms that may underlie abiotic stress tolerance. Comparative analyses of whole genome sequencing (WGS) and transcriptomic profiling (RNA-seq) data between crops and their wild relative counterparts have unraveled important information with respect to the molecular basis of tolerance to abiotic stressors. These studies have uncovered genomic regions, specific stress-responsive genes, gene networks, and biochemical pathways associated with resilience to adverse conditions, such as heat, cold, drought, and salinity, and provide useful tools for the development of molecular markers to be used in breeding programs. CWRs constitute a highly valuable resource of genetic diversity, and by exploiting the full potential of this extended allele pool, new traits conferring abiotic-stress tolerance may be introgressed into cultivated varieties leading to superior and resilient genotypes. Future breeding programs may greatly benefit from CWRs utilization for overcoming crop production challenges arising from extreme environmental conditions.
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Affiliation(s)
- Aliki Kapazoglou
- Institute of Olive Tree, Subtropical Crops and Viticulture (IOSV), Department of Vitis, Hellenic Agricultural Organization-Dimitra (ELGO-Dimitra), Sofokli Venizelou 1, Lykovrysi, 14123 Athens, Greece
| | - Maria Gerakari
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Efstathia Lazaridi
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Konstantina Kleftogianni
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Efi Sarri
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Eleni Tani
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
| | - Penelope J. Bebeli
- Laboratory of Plant Breeding and Biometry, Department of Crop Science, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece
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Brilhante M, Catarino S, Darbyshire I, Bandeira S, Moldão M, Duarte MC, Romeiras MM. Diversity patterns and conservation of the Vigna spp. in Mozambique: A comprehensive study. Front Ecol Evol 2023. [DOI: 10.3389/fevo.2022.1057785] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Abstract
Mozambique supports a high diversity of native legume species, including many Crop Wild Relatives (CWRs). Among them, the still understudied genus Vigna is a particularly notable and promising donor of favorable traits for crop improvement. This study aims to provide an updated overview of Vigna CWRs diversity in Mozambique, defining a conservation strategy for priority target taxa and areas. A checklist of Vigna taxa was prepared and using five criteria (taxonomic group, ethnobotanical value, global and regional distributions, and ex situ conservation status), the prioritization of each taxon was determined. The distribution of Vigna native to Mozambique was studied and diversity hotspots were detected; gaps in in situ conservation were analyzed by overlaying species distribution with Mozambique’s Protected Areas Network. Maps predicting the differences between future conditions and baseline values were performed to investigate expected changes in temperature and precipitation in Vigna’s occurrence areas. There are 21 Vigna native taxa occurring in Mozambique, with the Chimanimani Mountains and Mount Gorongosa, as diversity hotspots for the genus. Following the IUCN Red List criteria, 13 taxa are of Least Concern, while the remaining eight are currently Not Evaluated. According to their priority level for further conservation actions, 24% of the taxa are of high priority, 67% of medium priority, and 9% of low priority. The important hotspot of Chimanimani Mountains is among the areas most affected by the predicted future increase in temperature and reduction of rainfall. The obtained distribution and species richness maps, represent a relevant first tool to evaluate and improve the effectiveness of Protected Areas and IPAs of Mozambique for the conservation of Vigna CWRs. The in situ gap analysis showed that 52% of the Vigna taxa are unprotected; this could be overcome by establishing reserves in Vigna diversity centers, considering the different types of habitats to which the different taxa are adapted, and by increasing in situ protection for the high priority ones. The ex situ conservation of Vigna is very limited and storing seed collections of these CWRs, is an essential component in global food security, as some taxa seem suitable as donors of genetic material to increase resistance to pests and diseases, or to drought and salinity. Overall, we provide recommendations for future research, collecting, and management, to conserve Vigna CWR in Mozambique, providing new data for their sustainable use in crop enhancement, as well as proposing measures for future conservation programs.
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Lavoie A, Thomas E, Olivier A. Local working collections as the foundation for an integrated conservation of Theobroma cacao L. in Latin America. Front Ecol Evol 2023. [DOI: 10.3389/fevo.2022.1063266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
The intraspecific diversity of cacao has traditionally been preserved in genebanks. However, these establishments face various challenges, notably insufficient funding, accession redundancy, misidentification and lack of wild cacao population samples. In natural environments, it is expected that unknown varieties of cacao may still be found, but wild populations of cacao are increasingly threatened by climate change, deforestation, habitat loss, land use changes and poor knowledge. Farmers also retain diversity, but on-farm conservation is affected by geopolitical, economic, management and cultural issues, that are influenced at multiple scales, from the household to the international market. Taking separately, ex situ, in situ and on-farm conservation have not achieved adequate conservation fostering the inclusion of all stakeholders and the broad use of cacao diversity. We analyze the use of the traditional conservation strategies (ex situ, in situ and on-farm) and propose an integrated approach based on local working collections to secure cacao diversity in the long term. We argue that national conservation networks should be implemented in countries of origin to simultaneously maximize alpha (diversity held in any given working collection), beta (the change in diversity between working collections in different regions) and gamma diversity (overall diversity in a country).
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Raggi L, Zucchini C, Gigante D, Negri V. In situ occurrence and protection of crop wild relatives in Italian sites of natura 2000 network: Insights from a data-driven approach. FRONTIERS IN PLANT SCIENCE 2022; 13:1080615. [PMID: 36618609 PMCID: PMC9814127 DOI: 10.3389/fpls.2022.1080615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 11/30/2022] [Indexed: 06/17/2023]
Abstract
Aim of this work is to evaluate the in situ status of different crop wild relative species in Italy by analysing the geographic distribution of their populations and to suggests possible strategies to improve their future conservation. The work has been focused on different species of the Allium, Beta, Brassica, Secale and Triticum genera that are of priority at European and global levels for the economic importance of the related crops, the level of threat, as well as the potential for use. Using information available in the Italian National Geoportal, geographical distribution and the overall percentage of populations occurring in Natura 2000 sites was initially analysed. In addition, due to the economic importance of the genus and species distribution in Italy, Brassica glabrescens, B. insularis, B. macrocarpa, B. montana, B. procumbens, B. rupestris, B. villosa were the object of additional analyses based on more detailed occurrence data, retrieved from multiple databases, and including land cover/land use and in situ and ex situ density analyses. Geographical distribution data were retrieved for 1,996 in situ populations belonging to 60 crop wild relative species: Allium (43), Brassica (11), Triticum (4), Beta (1) and Secale (1). Percentages of population occurring in Natura 2000 sites are quite different when the different species are considered; this also applies to Brassica species in most need of protection. Results of land cover/land use analysis showed that Brassica populations outside Natura 2000 areas mainly occur in anthropized sites while those within Natura 2000 mainly in sites characterised by natural and seminatural conditions. Areas where genetic reserves could be instituted and that could be the target of future Brassica resources collection missions are also suggested. Based on a large dataset of punctual geographical distribution data of population occurrences across the territory, this research shows that, in Italy, crop wild relatives in situ are in a quite precarious condition especially when species in most need of protection are considered. Our data also highlight the role of Natura 2000 Network in favouring in situ protection of these precious resources in Europe.
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Davis CC. The herbarium of the future. Trends Ecol Evol 2022; 38:412-423. [PMID: 36549958 DOI: 10.1016/j.tree.2022.11.015] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 11/29/2022] [Accepted: 11/30/2022] [Indexed: 12/24/2022]
Abstract
The ~400 million specimens deposited across ~3000 herbaria are essential for: (i) understanding where plants have lived in the past, (ii) forecasting where they may live in the future, and (iii) delineating their conservation status. An open access 'global metaherbarium' is emerging as these specimens are digitized, mobilized, and interlinked online. This virtual biodiversity resource is attracting new users who are accelerating traditional applications of herbaria and generating basic and applied scientific innovations, including e-monographs and floras produced by diverse, interdisciplinary, and inclusive teams; robust machine-learning algorithms for species identification and phenotyping; collection and synthesis of ecological trait data at large spatiotemporal and phylogenetic scales; and exhibitions and installations that convey the beauty of plants and the value of herbaria in addressing broader societal issues.
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Affiliation(s)
- Charles C Davis
- Department of Organismic and Evolutionary Biology, Harvard University Herbaria, 22 Divinity Avenue, Cambridge, MA 02138, USA.
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Aguirre-Liguori JA, Morales-Cruz A, Gaut BS. Evaluating the persistence and utility of five wild Vitis species in the context of climate change. Mol Ecol 2022; 31:6457-6472. [PMID: 36197804 PMCID: PMC10092629 DOI: 10.1111/mec.16715] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Revised: 09/23/2022] [Accepted: 09/29/2022] [Indexed: 01/13/2023]
Abstract
Crop wild relatives (CWRs) have the capacity to contribute novel traits to agriculture. Given climate change, these contributions may be especially vital for the persistence of perennial crops, because perennials are often clonally propagated and consequently do not evolve rapidly. By studying the landscape genomics of samples from five Vitis CWRs (V. arizonica, V. mustangensis, V. riparia, V. berlandieri and V. girdiana) in the context of projected climate change, we addressed two goals. The first was to assess the relative potential of different CWR accessions to persist in the face of climate change. By integrating species distribution models with adaptive genetic variation, additional genetic features such as genomic load and a phenotype (resistance to Pierce's Disease), we predicted that accessions from one species (V. mustangensis) are particularly well-suited to persist in future climates. The second goal was to identify which CWR accessions may contribute to bioclimatic adaptation for grapevine (V. vinifera) cultivation. To do so, we evaluated whether CWR accessions have the allelic capacity to persist if moved to locations where grapevines are cultivated in the United States. We identified six candidates from V. mustangensis and hypothesized that they may prove useful for contributing alleles that can mitigate climate impacts on viticulture. By identifying candidate germplasm, this study takes a conceptual step toward assessing the genomic and bioclimatic characteristics of CWRs.
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Affiliation(s)
- Jonas A Aguirre-Liguori
- Department of Ecology and Evolutionary Biology, University of California, Irvine, California, USA
| | - Abraham Morales-Cruz
- Department of Ecology and Evolutionary Biology, University of California, Irvine, California, USA
| | - Brandon S Gaut
- Department of Ecology and Evolutionary Biology, University of California, Irvine, California, USA
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Tirnaz S, Zandberg J, Thomas WJW, Marsh J, Edwards D, Batley J. Application of crop wild relatives in modern breeding: An overview of resources, experimental and computational methodologies. FRONTIERS IN PLANT SCIENCE 2022; 13:1008904. [PMID: 36466237 PMCID: PMC9712971 DOI: 10.3389/fpls.2022.1008904] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Accepted: 10/25/2022] [Indexed: 06/01/2023]
Abstract
Global agricultural industries are under pressure to meet the future food demand; however, the existing crop genetic diversity might not be sufficient to meet this expectation. Advances in genome sequencing technologies and availability of reference genomes for over 300 plant species reveals the hidden genetic diversity in crop wild relatives (CWRs), which could have significant impacts in crop improvement. There are many ex-situ and in-situ resources around the world holding rare and valuable wild species, of which many carry agronomically important traits and it is crucial for users to be aware of their availability. Here we aim to explore the available ex-/in- situ resources such as genebanks, botanical gardens, national parks, conservation hotspots and inventories holding CWR accessions. In addition we highlight the advances in availability and use of CWR genomic resources, such as their contribution in pangenome construction and introducing novel genes into crops. We also discuss the potential and challenges of modern breeding experimental approaches (e.g. de novo domestication, genome editing and speed breeding) used in CWRs and the use of computational (e.g. machine learning) approaches that could speed up utilization of CWR species in breeding programs towards crop adaptability and yield improvement.
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Lohonya K, Livermore L, Wajer J, Crowther R, Devenish E. Digitisation of the Natural History Museum's collection of Dalbergia, Pterocarpus and the subtribe Phaseolinae (Fabaceae, Faboideae). Biodivers Data J 2022; 10:e94939. [PMID: 36761652 PMCID: PMC9836434 DOI: 10.3897/bdj.10.e94939] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Accepted: 11/08/2022] [Indexed: 11/16/2022] Open
Abstract
Background In 2018, the Natural History Museum (NHMUK, herbarium code: BM) undertook a pilot digitisation project together with the Royal Botanic Gardens Kew (project Lead) and the Royal Botanic Garden Edinburgh to collectively digitise non-type herbarium material of the subtribe Phaseolinae and the genera Dalbergia L.f. and Pterocarpus Jacq. (rosewoods and padauk), all from the economically important family of legumes (Leguminosae or Fabaceae).These taxonomic groups were chosen to provide specimen data for two potential use cases: 1) to support the development of dry beans as a sustainable and resilient crop; 2) to aid conservation and sustainable use of rosewoods and padauk. Collectively, these use case studies support the aims of the UK's Department for Environment Food & Rural Affairs (DEFRA)-allocated, Official Development Assistance (ODA) funding. New information We present the images and metadata for 11,222 NHMUK specimens. The metadata includes label transcription and georeferencing, along with summary data on geographic, taxonomic, collector and temporal coverage. We also provide timings and the methodology for our transcription and georeferencing protocols. Approximately 35% of specimens digitised were collected in ODA-listed countries, in tropical Africa, but also in South East Asia and South America.
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Affiliation(s)
- Krisztina Lohonya
- The Natural History Museum, London, United KingdomThe Natural History MuseumLondonUnited Kingdom
| | - Laurence Livermore
- The Natural History Museum, London, United KingdomThe Natural History MuseumLondonUnited Kingdom
| | - Jacek Wajer
- The Natural History Museum, London, United KingdomThe Natural History MuseumLondonUnited Kingdom
| | - Robyn Crowther
- The Natural History Museum, London, United KingdomThe Natural History MuseumLondonUnited Kingdom
| | - Elizabeth Devenish
- The Natural History Museum, London, United KingdomThe Natural History MuseumLondonUnited Kingdom
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Civantos-Gómez I, Rubio Teso ML, Galeano J, Rubiales D, Iriondo JM, García-Algarra J. Climate change conditions the selection of rust-resistant candidate wild lentil populations for in situ conservation. FRONTIERS IN PLANT SCIENCE 2022; 13:1010799. [PMID: 36407589 PMCID: PMC9669080 DOI: 10.3389/fpls.2022.1010799] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Accepted: 10/14/2022] [Indexed: 06/02/2023]
Abstract
Crop Wild Relatives (CWR) are a valuable source of genetic diversity that can be transferred to commercial crops, so their conservation will become a priority in the face of climate change. Bizarrely, in situ conserved CWR populations and the traits one might wish to preserve in them are themselves vulnerable to climate change. In this study, we used a quantitative machine learning predictive approach to project the resistance of CWR populations of lentils to a common disease, lentil rust, caused by fungus Uromyces viciae-fabae. Resistance is measured through a proxy quantitative value, DSr (Disease Severity relative), quite complex and expensive to get. Therefore, machine learning is a convenient tool to predict this magnitude using a well-curated georeferenced calibration set. Previous works have provided a binary outcome (resistant vs. non-resistant), but that approach is not fine enough to answer three practical questions: which variables are key to predict rust resistance, which CWR populations are resistant to rust under current environmental conditions, and which of them are likely to keep this trait under different climate change scenarios. We first predict rust resistance in present time for crop wild relatives that grow up inside protected areas. Then, we use the same models under future climate IPCC (Intergovernmental Panel on Climate Change) scenarios to predict future DSr values. Populations that are rust-resistant by now and under future conditions are optimal candidates for further evaluation and in situ conservation of this valuable trait. We have found that rust-resistance variation as a result of climate change is not uniform across the geographic scope of the study (the Mediterranean basin), and that candidate populations share some interesting common environmental conditions.
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Affiliation(s)
- Iciar Civantos-Gómez
- Complex System Group, Universidad Politécnica de Madrid, Madrid, Spain
- Faculty of Economics and Business Administration, Universidad Pontificia Comillas, Madrid, Spain
| | - María Luisa Rubio Teso
- ECOEVO Research Group, Área de Biodiversidad y Conservación, Universidad Rey Juan Carlos, Madrid, Spain
| | - Javier Galeano
- Complex System Group, Universidad Politécnica de Madrid, Madrid, Spain
| | - Diego Rubiales
- Instituto de Agricultura Sostenible (CSIC) Avenida Menéndez Pidal s/n Campus Alameda del Obispo, Córdoba, Spain
| | - José María Iriondo
- ECOEVO Research Group, Área de Biodiversidad y Conservación, Universidad Rey Juan Carlos, Madrid, Spain
| | - Javier García-Algarra
- DRACO Research Group, Centro Universitario de Tecnología y Arte Digital, Las Rozas, Spain
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Bina H, Yousefzadeh H, Venon A, Remoué C, Rousselet A, Falque M, Faramarzi S, Chen X, Samanchina J, Gill D, Kabaeva A, Giraud T, Hosseinpour B, Abdollahi H, Gabrielyan I, Nersesyan A, Cornille A. Evidence of an additional centre of apple domestication in Iran, with contributions from the Caucasian crab apple Malus orientalis Uglitzk. to the cultivated apple gene pool. Mol Ecol 2022; 31:5581-5601. [PMID: 35984725 DOI: 10.1111/mec.16667] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2021] [Revised: 07/08/2022] [Accepted: 08/09/2022] [Indexed: 12/29/2022]
Abstract
Divergence processes in crop-wild fruit tree complexes in pivotal regions for plant domestication such as the Caucasus and Iran remain little studied. We investigated anthropogenic and natural divergence processes in apples in these regions using 26 microsatellite markers amplified in 550 wild and cultivated samples. We found two genetically distinct cultivated populations in Iran that are differentiated from Malus domestica, the standard cultivated apple worldwide. Coalescent-based inferences showed that these two cultivated populations originated from specific domestication events of Malus orientalis in Iran. We found evidence of substantial wild-crop and crop-crop gene flow in the Caucasus and Iran, as has been described in apple in Europe. In addition, we identified seven genetically differentiated populations of wild apple (M. orientalis), not introgressed by the cultivated apple. Niche modelling combined with genetic diversity estimates indicated that these wild populations likely resulted from range changes during past glaciations. This study identifies Iran as a key region in the domestication of apple and M. orientalis as an additional contributor to the cultivated apple gene pool. Domestication of the apple tree therefore involved multiple origins of domestication in different geographic locations and substantial crop-wild hybridization, as found in other fruit trees. This study also highlights the impact of climate change on the natural divergence of a wild fruit tree and provides a starting point for apple conservation and breeding programmes in the Caucasus and Iran.
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Affiliation(s)
- Hamid Bina
- Department of Forestry, Tarbiat Modares University, Noor, Iran
| | - Hamed Yousefzadeh
- Department of Environmental Science, Biodiversity Branch, Natural Resources Faculty, Tarbiat Modares University, Noor, Iran
| | - Anthony Venon
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
| | - Carine Remoué
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
| | - Agnès Rousselet
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
| | - Matthieu Falque
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
| | - Shadab Faramarzi
- Department of Plant Production and Genetics, Faculty of Agriculture, Razi University, Kermanshah, Iran
| | - Xilong Chen
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
| | | | - David Gill
- Fauna & Flora International, Cambridge, UK
| | | | - Tatiana Giraud
- Ecologie Systematique Evolution, Universite Paris-Saclay, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Batool Hosseinpour
- Department of Agriculture, Iranian Research Organization for Science and Technology (IROST), Institute of Agriculture, Tehran, Iran
| | - Hamid Abdollahi
- Temperate Fruits Research Centre, Horticultural Sciences Research Institute, Agricultural Research, Education and Extension Organization (AREEO), Karaj, Iran
| | - Ivan Gabrielyan
- Department of Palaeobotany, A. Takhtajyan Institute of Botany, Armenian National Academy of Sciences, Yerevan, Armenia
| | - Anush Nersesyan
- Department of Conservation of Genetic Resources of Armenian Flora, A. Takhtajyan Institute of Botany, Armenian National Academy of Sciences, Yerevan, Armenia
| | - Amandine Cornille
- Université Paris-Saclay, INRAE, CNRS, AgroParisTech, GQE - Le Moulon, Gif-sur-Yvette, France
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Flanagan NS, Navia-Samboni A, González-Pérez EN, Mendieta-Matallana H. Distribution and conservation of vanilla crop wild relatives: the value of local community engagement for biodiversity research. NEOTROPICAL BIOLOGY AND CONSERVATION 2022. [DOI: 10.3897/neotropical.17.e86792] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Natural vanilla is a high-value crop with demand increasing globally. Crop wild relatives (CWR) represent valuable agrobiodiversity and are prioritized in the Global Strategy for Plant Conservation. Vanilla species are naturally rare with historically infrequent botanical collections. Despite their importance as CWR, fewer than 10% of Vanilla species have been evaluated for the IUCN Red List. Colombia is a diversity center for Vanilla species, yet many remote regions are lacking detailed floristic characterization. We show that the participation of rural communities in scientific endeavor enhances capacity to register biodiversity. We report two Vanilla species in the under-explored region of the Serranía de las Quinchas in the mid–Magdalena River valley in Colombia, including the first report for Colombia of Vanilla karen-christianae. For this, and the second species, Vanilla dressleri, we present descriptions with photographic botanical illustrations, updated distribution maps, and preliminary conservation status assessment. Both species are of elevated conservation concern, categorized as Endangered – EN: B2a,b(ii,iii,iv,v) following IUCN criteria. Within Colombia, all recorded occurrences for both species fall outside protected areas. Vanilla crop wild relatives in Colombia have urgent conservation needs. The Serranía de las Quinchas is a priority for further botanical exploration for Vanilla, as well as other protected areas with appropriate habitat. In situ conservation should be complemented with ex situ actions. Community participation in biodiversity research is recommended in this and other remote regions as an integral step towards enhancing biodiversity research and community-based conservation.
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Mahaut L, Pironon S, Barnagaud JY, Bretagnolle F, Khoury CK, Mehrabi Z, Milla R, Phillips C, Rieseberg LH, Violle C, Renard D. Matches and mismatches between the global distribution of major food crops and climate suitability. Proc Biol Sci 2022; 289:20221542. [PMID: 36168758 PMCID: PMC9515644 DOI: 10.1098/rspb.2022.1542] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 09/06/2022] [Indexed: 09/30/2023] Open
Abstract
Over the course of history, humans have moved crops from their regions of origin to new locations across the world. The social, cultural and economic drivers of these movements have generated differences not only between current distributions of crops and their climatic origins, but also between crop distributions and climate suitability for their production. Although these mismatches are particularly important to inform agricultural strategies on climate change adaptation, they have, to date, not been quantified consistently at the global level. Here, we show that the relationships between the distributions of 12 major food crops and climate suitability for their yields display strong variation globally. After investigating the role of biophysical, socio-economic and historical factors, we report that high-income world regions display a better match between crop distribution and climate suitability. In addition, although crops are farmed predominantly in the same climatic range as their wild progenitors, climate suitability is not necessarily higher there, a pattern that reflects the legacy of domestication history on current crop distribution. Our results reveal how far the global distribution of major crops diverges from their climatic optima and call for greater consideration of the multiple dimensions of the crop socio-ecological niche in climate change adaptive strategies.
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Affiliation(s)
- Lucie Mahaut
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Samuel Pironon
- Royal Botanic Gardens, Kew, Richmond, UK
- UN Environment Programme World Conservation Monitoring Center (UNEP-WCMC), Cambridge, UK
| | | | | | - Colin K. Khoury
- International Center for Tropical Agriculture (CIAT), Km 17, Recta Cali-Palmira, Apartado Aéreo 6713, Cali 763537, Colombia
- San Diego Botanic Garden, 230 Quail Gardens Drive, Encinitas, CA 92024, USA
| | - Zia Mehrabi
- Institute for Resources Environment and Sustainability, School of Public Policy and Global Affairs, University of British Columbia, Vancouver, BC, Canada, V6R 2A5
| | - Ruben Milla
- Universidad Rey Juan Carlos, Escuela Superior de Ciencias Experimentales y Tecnología, Mostoles, Spain
| | | | - Loren H. Rieseberg
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada, V6R 2A5
| | - Cyrille Violle
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Montpellier, France
| | - Delphine Renard
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Montpellier, France
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Eastwood RJ, Tambam BB, Aboagye LM, Akparov ZI, Aladele SE, Allen R, Amri A, Anglin NL, Araya R, Arrieta-Espinoza G, Asgerov A, Awang K, Awas T, Barata AM, Boateng SK, Magos Brehm J, Breidy J, Breman E, Brenes Angulo A, Burle ML, Castañeda-Álvarez NP, Casimiro P, Chaves NF, Clemente AS, Cockel CP, Davey A, De la Rosa L, Debouck DG, Dempewolf H, Dokmak H, Ellis D, Faruk A, Freitas C, Galstyan S, García RM, Ghimire KH, Guarino L, Harker R, Hope R, Humphries AW, Jamora N, Jatoi SA, Khutsishvili M, Kikodze D, Kyratzis AC, León-Lobos P, Liu U, Mainali RP, Mammadov AT, Manrique-Carpintero NC, Manzella D, Mat Ali MS, Medeiros MB, Guzmán MAM, Mikatadze-Pantsulaia T, Mohamed ETI, Monteros-Altamirano Á, Morales A, Müller JV, Mulumba JW, Nersesyan A, Nóbrega H, Nyamongo DO, Obreza M, Okere AU, Orsenigo S, Ortega-Klose F, Papikyan A, Pearce TR, Pinheiro de Carvalho MAA, Prohens J, Rossi G, Salas A, Singh Shrestha D, Siddiqui SU, Smith PP, Sotomayor DA, Tacán M, Tapia C, Toledo Á, Toll J, Vu DT, Vu TD, Way MJ, Yazbek M, Zorrilla C, Kilian B. Adapting Agriculture to Climate Change: A Synopsis of Coordinated National Crop Wild Relative Seed Collecting Programs across Five Continents. PLANTS 2022; 11:plants11141840. [PMID: 35890473 PMCID: PMC9319254 DOI: 10.3390/plants11141840] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 06/29/2022] [Accepted: 06/29/2022] [Indexed: 11/16/2022]
Abstract
The Adapting Agriculture to Climate Change Project set out to improve the diversity, quantity, and accessibility of germplasm collections of crop wild relatives (CWR). Between 2013 and 2018, partners in 25 countries, heirs to the globetrotting legacy of Nikolai Vavilov, undertook seed collecting expeditions targeting CWR of 28 crops of global significance for agriculture. Here, we describe the implementation of the 25 national collecting programs and present the key results. A total of 4587 unique seed samples from at least 355 CWR taxa were collected, conserved ex situ, safety duplicated in national and international genebanks, and made available through the Multilateral System (MLS) of the International Treaty on Plant Genetic Resources for Food and Agriculture (Plant Treaty). Collections of CWR were made for all 28 targeted crops. Potato and eggplant were the most collected genepools, although the greatest number of primary genepool collections were made for rice. Overall, alfalfa, Bambara groundnut, grass pea and wheat were the genepools for which targets were best achieved. Several of the newly collected samples have already been used in pre-breeding programs to adapt crops to future challenges.
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Affiliation(s)
- Ruth J. Eastwood
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
- Correspondence:
| | - Beri B. Tambam
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Lawrence M. Aboagye
- CSIR—Plant Genetic Resources Research Institute, Bunso P.O. Box 7, Ghana; (L.M.A.); (S.K.B.)
| | - Zeynal I. Akparov
- Genetic Resources Institute of Azerbaijan NAS, 155 Azadlig Avenue, Baku AZ1106, Azerbaijan; (Z.I.A.); (A.A.); (A.T.M.)
| | - Sunday E. Aladele
- National Centre for Genetic Resources and Biotechnology, Moor Plantation, Ibadan PMB 5382, Nigeria; (S.E.A.); (A.U.O.)
| | - Richard Allen
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Ahmed Amri
- The International Center for Agricultural Research in the Dry Areas, Dalia Bldg, 2nd Floor Bashir El Kassar Street Verdun, Beirut 1108-2010, Lebanon; (A.A.); (M.Y.)
| | - Noelle L. Anglin
- USDA ARS Small Grains and Potato Germplasm Research, 1691 S 2700 W, Aberdeen, ID 83210, USA;
| | - Rodolfo Araya
- Estación Experimental Agrícola Fabio Baudrit Moreno, Universidad de Costa Rica, 3 km W of Catholic Church of Barrio San José, La Garita, Alajuela 183-4050, Costa Rica; (R.A.); (N.F.C.)
| | - Griselda Arrieta-Espinoza
- Centro de Investigación en Biología Celular y Molecular, Universidad de Costa Rica, Ciudad de la Investigación—C.P., San José 11501-2050, Costa Rica;
| | - Aydin Asgerov
- Genetic Resources Institute of Azerbaijan NAS, 155 Azadlig Avenue, Baku AZ1106, Azerbaijan; (Z.I.A.); (A.A.); (A.T.M.)
| | - Khadijah Awang
- Malaysian Agricultural Research and Development Institute (MARDI), Persiaran MARDI-UPM, Serdang 43400, Malaysia; (K.A.); (M.S.M.A.)
| | - Tesfaye Awas
- Ethiopian Biodiversity Institute, Comoros Street, Yeka Subcity, Addis Ababa P.O. Box 30726, Ethiopia;
| | - Ana Maria Barata
- Banco Português de Germoplasma Vegetal, INIAV, Quinta de S. José, São Pedro de Merelim, 4700-859 Braga, Portugal;
| | - Samuel Kwasi Boateng
- CSIR—Plant Genetic Resources Research Institute, Bunso P.O. Box 7, Ghana; (L.M.A.); (S.K.B.)
| | - Joana Magos Brehm
- Jardim Botânico, Museu Nacional de Historia Natural e da Ciência, Universidade de Lisboa, R. da Escola Politécnica 56, 1250-102 Lisboa, Portugal; (J.M.B.); (A.S.C.)
| | - Joelle Breidy
- Lebanese Agricultural Research Institute, Tal Amara, Rayak P.O. Box 287, Lebanon; (J.B.); (H.D.)
| | - Elinor Breman
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Arturo Brenes Angulo
- Centro de Investigaciones Agronómicas, Universidad de Costa Rica, San José 11501-2060, Costa Rica;
| | - Marília L. Burle
- Embrapa Genetic Resources and Biotechnology, Parque Estação Biológica, Av. W5 Norte (Final), Brasília 70770-917, DF, Brazil; (M.L.B.); (M.B.M.)
| | - Nora P. Castañeda-Álvarez
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Pedro Casimiro
- Direção Regional do Ambiente e Alterações Climáticas, Rua Cônsul Dabney, Colónia Alemã, Apartado 140, 9900-014 Horta, Portugal;
| | - Néstor F. Chaves
- Estación Experimental Agrícola Fabio Baudrit Moreno, Universidad de Costa Rica, 3 km W of Catholic Church of Barrio San José, La Garita, Alajuela 183-4050, Costa Rica; (R.A.); (N.F.C.)
| | - Adelaide S. Clemente
- Jardim Botânico, Museu Nacional de Historia Natural e da Ciência, Universidade de Lisboa, R. da Escola Politécnica 56, 1250-102 Lisboa, Portugal; (J.M.B.); (A.S.C.)
| | - Christopher P. Cockel
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Alexandra Davey
- Fauna & Flora International, The David Attenborough Building, Pembroke Street, Cambridge CB2 3QZ, UK; (A.D.); (R.H.)
| | - Lucía De la Rosa
- Plant Genetic Resources Centre, National Institute for Agricultural and Food Research and Technology (CRF-INIA), CSIC, Finca La Canaleja, A2 km 36, 28800 Alcalá de Henares, Spain; (L.D.l.R.); (R.M.G.)
| | - Daniel G. Debouck
- Alliance Bioversity International Center of Tropical Agriculture, km 17, Recta Cali-Palmira, Apartado Aéreo 6713, Cali 763537, Colombia;
| | - Hannes Dempewolf
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Hiba Dokmak
- Lebanese Agricultural Research Institute, Tal Amara, Rayak P.O. Box 287, Lebanon; (J.B.); (H.D.)
| | - David Ellis
- International Potato Center, Avenida La Molina 1895, La Molina, Lima 15023, Peru; (D.E.); (N.C.M.-C.); (A.S.)
| | - Aisyah Faruk
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Cátia Freitas
- Banco de Sementes dos Açores, Rua de São Lourenço, nº 23 Flamengos, 9900-401 Horta, Portugal;
| | - Sona Galstyan
- Institute of Botany after A. Takhtajyan of the National Academy of Sciences of the Republic of Armenia, Acharyan Street 1, Yerevan 0040, Armenia; (S.G.); (A.N.); (A.P.)
| | - Rosa M. García
- Plant Genetic Resources Centre, National Institute for Agricultural and Food Research and Technology (CRF-INIA), CSIC, Finca La Canaleja, A2 km 36, 28800 Alcalá de Henares, Spain; (L.D.l.R.); (R.M.G.)
| | - Krishna H. Ghimire
- National Agriculture Genetic Resources Centre, Nepal Agricultural Research Council (NARC), Khumaltar, Lalitpur P.O. Box. 3605, Nepal; (K.H.G.); (R.P.M.); (D.S.S.)
| | - Luigi Guarino
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Ruth Harker
- Natural England, Foss House, Kings Pool, 1-2 Peasholme Green, York YO1 7PX, UK;
| | - Roberta Hope
- Fauna & Flora International, The David Attenborough Building, Pembroke Street, Cambridge CB2 3QZ, UK; (A.D.); (R.H.)
| | - Alan W. Humphries
- South Australian Research and Development Institute, Plant Research Centre, Waite Precinct, Gate 2b Hartley Grove, Urrbrae, SA 5064, Australia;
| | - Nelissa Jamora
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Shakeel Ahmad Jatoi
- Bio-Resources Conservation Institute, National Agricultural Research Centre, Park Road, Islamabad 45500, Pakistan; (S.A.J.); (S.U.S.)
| | - Manana Khutsishvili
- Institute of Botany, Ilia State University, 1 Botanikuri str., 0105 Tbilisi, Georgia; (M.K.); (D.K.)
| | - David Kikodze
- Institute of Botany, Ilia State University, 1 Botanikuri str., 0105 Tbilisi, Georgia; (M.K.); (D.K.)
| | - Angelos C. Kyratzis
- Agricultural Research Institute, Athalassa, P.O. Box 22016, Nicosia 1516, Cyprus;
| | - Pedro León-Lobos
- Instituto de Investigaciones Agropecuarias, Fidel Oteíza 1956, Pisos 12, Providencia, Santiago 8320000, Chile; (P.L.-L.); (F.O.-K.)
| | - Udayangani Liu
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Ram P. Mainali
- National Agriculture Genetic Resources Centre, Nepal Agricultural Research Council (NARC), Khumaltar, Lalitpur P.O. Box. 3605, Nepal; (K.H.G.); (R.P.M.); (D.S.S.)
| | - Afig T. Mammadov
- Genetic Resources Institute of Azerbaijan NAS, 155 Azadlig Avenue, Baku AZ1106, Azerbaijan; (Z.I.A.); (A.A.); (A.T.M.)
| | | | | | - Mohd Shukri Mat Ali
- Malaysian Agricultural Research and Development Institute (MARDI), Persiaran MARDI-UPM, Serdang 43400, Malaysia; (K.A.); (M.S.M.A.)
| | - Marcelo B. Medeiros
- Embrapa Genetic Resources and Biotechnology, Parque Estação Biológica, Av. W5 Norte (Final), Brasília 70770-917, DF, Brazil; (M.L.B.); (M.B.M.)
| | - María A. Mérida Guzmán
- Institute of Agricultural Science and Technology, km 21.5 Highway to the Pacific, Bárcena, Villa Nueva, Guatemala;
| | | | - El Tahir Ibrahim Mohamed
- Agricultural Plant Genetic Resources Conservation and Research Centre, Agricultural Research Corporation, Wad Medani P.O. Box 126, Sudan;
| | - Álvaro Monteros-Altamirano
- Instituto Nacional de Investigaciones Agropecuarias, Avenida Amazonas y Eloy Alfaro, Edificio MAG, Cuarto Piso, Quito 170518, Ecuador; (Á.M.-A.); (M.T.); (C.T.)
| | - Aura Morales
- Centro Nacional de Tecnología “Enrique Álvarez Córdova”, km 33.5 Carretera a Santa Ana, San Andrés, Ciudad Arce, La Libertad, El Salvador;
| | - Jonas V. Müller
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - John W. Mulumba
- Plant Genetic Resources Centre, National Agricultural Research Organization, Plot 2-4 Berkeley Road, Entebbe P.O. Box 40, Uganda;
| | - Anush Nersesyan
- Institute of Botany after A. Takhtajyan of the National Academy of Sciences of the Republic of Armenia, Acharyan Street 1, Yerevan 0040, Armenia; (S.G.); (A.N.); (A.P.)
| | - Humberto Nóbrega
- ISOPlexis—Centro de Agricultura Sustentável e Tecnologia Alimentar, Universidade da Madeira, Campus da Penteada, 9020-105 Funchal, Portugal; (M.A.A.P.d.C.); (H.N.)
| | - Desterio O. Nyamongo
- Kenya Agricultural and Livestock Research Organisation, Genetic Resources Research Institute, Nairobi P.O. Box 30148-00100, Kenya;
| | - Matija Obreza
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Anthony U. Okere
- National Centre for Genetic Resources and Biotechnology, Moor Plantation, Ibadan PMB 5382, Nigeria; (S.E.A.); (A.U.O.)
| | - Simone Orsenigo
- Department of Earth and Environmental Sciences, Pavia University, Via Sant’Epifanio 14, 27100 Pavia, Italy; (S.O.); (G.R.)
| | - Fernando Ortega-Klose
- Instituto de Investigaciones Agropecuarias, Fidel Oteíza 1956, Pisos 12, Providencia, Santiago 8320000, Chile; (P.L.-L.); (F.O.-K.)
| | - Astghik Papikyan
- Institute of Botany after A. Takhtajyan of the National Academy of Sciences of the Republic of Armenia, Acharyan Street 1, Yerevan 0040, Armenia; (S.G.); (A.N.); (A.P.)
| | - Timothy R. Pearce
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Miguel A. A. Pinheiro de Carvalho
- ISOPlexis—Centro de Agricultura Sustentável e Tecnologia Alimentar, Universidade da Madeira, Campus da Penteada, 9020-105 Funchal, Portugal; (M.A.A.P.d.C.); (H.N.)
- CITAB—Centro de Investigação e Tecnologias Agroambientais e Biológicas, 5001-801 Vila Real, Portugal
| | - Jaime Prohens
- Institute for the Conservation and Improvement of Valencian Agrodiversity (COMAV), Universitat Politècnica de València, Camino de Vera 14, 46022 Valencia, Spain;
| | - Graziano Rossi
- Department of Earth and Environmental Sciences, Pavia University, Via Sant’Epifanio 14, 27100 Pavia, Italy; (S.O.); (G.R.)
| | - Alberto Salas
- International Potato Center, Avenida La Molina 1895, La Molina, Lima 15023, Peru; (D.E.); (N.C.M.-C.); (A.S.)
| | - Deepa Singh Shrestha
- National Agriculture Genetic Resources Centre, Nepal Agricultural Research Council (NARC), Khumaltar, Lalitpur P.O. Box. 3605, Nepal; (K.H.G.); (R.P.M.); (D.S.S.)
| | - Sadar Uddin Siddiqui
- Bio-Resources Conservation Institute, National Agricultural Research Centre, Park Road, Islamabad 45500, Pakistan; (S.A.J.); (S.U.S.)
| | - Paul P. Smith
- Botanic Gardens Conservation International, Descanso House, 199 Kew Road, Richmond TW9 3BW, UK;
| | - Diego A. Sotomayor
- Subdirección de Recursos Genéticos, Instituto Nacional de Innovación Agraria, Av. La Molina 1981, La Molina, Lima 15024, Peru;
- Facultad de Ciencias, Universidad Nacional Agraria La Molina, Av. La Molina s/n, La Molina, Lima 15024, Peru
| | - Marcelo Tacán
- Instituto Nacional de Investigaciones Agropecuarias, Avenida Amazonas y Eloy Alfaro, Edificio MAG, Cuarto Piso, Quito 170518, Ecuador; (Á.M.-A.); (M.T.); (C.T.)
| | - César Tapia
- Instituto Nacional de Investigaciones Agropecuarias, Avenida Amazonas y Eloy Alfaro, Edificio MAG, Cuarto Piso, Quito 170518, Ecuador; (Á.M.-A.); (M.T.); (C.T.)
| | - Álvaro Toledo
- Food and Agriculture Organization of the United Nations, Viale delle Terme di Caracalla s/n, 00153 Roma, Italy;
| | - Jane Toll
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
| | - Dang Toan Vu
- Plant Resources Center, Vietnam Academy of Agricultural Sciences, An Khanh, Hoai Duc, Ha Noi 131000, Vietnam; (D.T.V.); (T.D.V.)
| | - Tuong Dang Vu
- Plant Resources Center, Vietnam Academy of Agricultural Sciences, An Khanh, Hoai Duc, Ha Noi 131000, Vietnam; (D.T.V.); (T.D.V.)
| | - Michael J. Way
- Royal Botanic Gardens, Kew, Wakehurst, Ardingly, Haywards Heath RH17 6TN, UK; (R.A.); (E.B.); (C.P.C.); (A.F.); (U.L.); (J.V.M.); (T.R.P.); (M.J.W.)
| | - Mariana Yazbek
- The International Center for Agricultural Research in the Dry Areas, Dalia Bldg, 2nd Floor Bashir El Kassar Street Verdun, Beirut 1108-2010, Lebanon; (A.A.); (M.Y.)
| | - Cinthya Zorrilla
- Joint FAO/IAEA Centre of Nuclear Techniques in Food and Agriculture, Plant Breeding and Genetics Section, 1400 Vienna, Austria;
| | - Benjamin Kilian
- Global Crop Diversity Trust, Platz der Vereinten Nationen 7, 53113 Bonn, Germany; (B.B.T.); (N.P.C.-Á.); (H.D.); (L.G.); (N.J.); (M.O.); (J.T.); (B.K.)
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Phylogenetic Analysis and Flower Color Evolution of the Subfamily Linoideae (Linaceae). PLANTS 2022; 11:plants11121579. [PMID: 35736730 PMCID: PMC9231132 DOI: 10.3390/plants11121579] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/08/2022] [Revised: 06/09/2022] [Accepted: 06/09/2022] [Indexed: 11/17/2022]
Abstract
The taxonomy of the subfamily Linoideae at the intergeneric and section levels has been questioned throughout the years, and the evolution of floral characters remains poorly understood. In particular, the evolution of flower color is still uncertain, despite its ecological importance and being one of the most variable and striking traits in Angiospermae. We evaluated the phylogenetic relationships of the genera and sections and used the phylogeny to reconstruct the ancestral state of flower color. The results suggest reevaluating the taxonomic status of segregated genera and re-incorporating them into Linum. Four of the five sections currently accepted were recovered as monophyletic (Cathartolinum, Dasylinum, Linum, and Syllinum). We propose accepting the section Stellerolinon and reevaluating Linopsis, whose representatives were recovered in three separate clades. The ancestral flower color for Linoideae was yellow-white. The flower colors purple and yellow-white were recovered at the deepest nodes of the two main clades. Pink, blue, and red colors were the most recent to evolve. These results appear to be related to diversification events, biogeographical history, and ecological aspects of the subfamily. Our reconstruction constitutes the first plausible scenario that explores the evolution of flower color, leading to new testable hypotheses for future research on the flax group.
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Abstract
Indigenous peoples are important stewards of biodiversity, often living near and possessing intimate knowledge of ecosystems. As a result, species new to science may be long known to indigenous people. While the scientific endeavor has long benefitted from indigenous knowledge, it has usually not engaged with it on equal footing1,2. While Linnaean taxonomy offers a broad framework for global comparisons, it may lack the detailed local insights possessed by indigenous peoples. This study illustrates how meaningful engagement with indigenous knowledge - throughout the scientific process - can improve biodiversity science and promote conservation1,2, particularly in studies of crop wild relatives, an international priority3 for food security in the face of climate change4. Two species of fruit trees recognized as distinct by the Iban and Dusun peoples, but considered a single species in current Linnaean taxonomy, were confirmed as distinct taxa by molecular studies. They correspond to Artocarpus odoratissimus Blanco and Artocarpus mutabilis Becc., whose distinguishing characteristics were clarified by members of indigenous communities.
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48
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Manda L, Idohou R, Assogbadjo AE, Agbangla C. Climate Change Reveals Contractions and Expansions in the Distribution of Suitable Habitats for the Neglected Crop Wild Relatives of the Genus Vigna (Savi) in Benin. FRONTIERS IN CONSERVATION SCIENCE 2022. [DOI: 10.3389/fcosc.2022.870041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Sustainable conservation of crop wild relatives is one of the pathways to securing global food security amid climate change threats to biodiversity. However, their conservation is partly limited by spatio-temporal distribution knowledge gaps mostly because they are not morphologically charismatic species to attract conservation attention. Therefore, to contribute to the conservation planning of crop wild relatives, this study assessed the present-day distribution and predicted the potential effect of climate change on the distribution of 15 Vigna crop wild relative taxa in Benin under two future climate change scenarios (RCP 4.5 and RCP 8.5) at the 2055-time horizon. MaxEnt model, species occurrence records, and a combination of climate- and soil-related variables were used. The model performed well (AUC, mean = 0.957; TSS, mean = 0.774). The model showed that (i) precipitation of the driest quarter and isothermality were the dominant environmental variables influencing the distribution of the 15 wild Vigna species in Benin; (ii) about half of the total land area of Benin was potentially a suitable habitat of the studied species under the present climate; (iii) nearly one-third of the species may shift their potentially suitable habitat ranges northwards and about half of the species may lose their suitable habitats by 5 to 40% by 2055 due to climate change; and (iv) the existing protected area network in Benin was ineffective in conserving wild Vigna under the current or future climatic conditions, as it covered only about 10% of the total potentially suitable habitat of the studied species. The study concludes that climate change will have both negative and positive effects on the habitat suitability distribution of Vigna crop wild relatives in Benin such that the use of the existing protected areas alone may not be the only best option to conserve the wild Vigna diversity. Integrating multiple in situ and ex situ conservation approaches taking into account “other effective area-based conservation measures” is recommended. This study provides a crucial step towards the development of sustainable conservation strategies for Vigna crop wild relatives in Benin and West Africa.
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Eyland D, Luchaire N, Cabrera‐Bosquet L, Parent B, Janssens SB, Swennen R, Welcker C, Tardieu F, Carpentier SC. High-throughput phenotyping reveals differential transpiration behaviour within the banana wild relatives highlighting diversity in drought tolerance. PLANT, CELL & ENVIRONMENT 2022; 45:1647-1663. [PMID: 35297073 PMCID: PMC9310827 DOI: 10.1111/pce.14310] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 01/22/2022] [Indexed: 06/14/2023]
Abstract
Crop wild relatives, the closely related species of crops, may harbour potentially important sources of new allelic diversity for (a)biotic tolerance or resistance. However, to date, wild diversity is only poorly characterized and evaluated. Banana has a large wild diversity but only a narrow proportion is currently used in breeding programmes. The main objective of this study was to evaluate genotype-dependent transpiration responses in relation to the environment. By applying continuous high-throughput phenotyping, we were able to construct genotype-specific transpiration response models in relation to light, VPD and soil water potential. We characterized and evaluated six (sub)species and discerned four phenotypic clusters. Significant differences were observed in leaf area, cumulative transpiration and transpiration efficiency. We confirmed a general stomatal-driven 'isohydric' drought avoidance behaviour, but discovered genotypic differences in the onset and intensity of stomatal closure. We pinpointed crucial genotype-specific soil water potentials when drought avoidance mechanisms were initiated and when stress kicked in. Differences between (sub)species were dependent on environmental conditions, illustrating the need for high-throughput dynamic phenotyping, modelling and validation. We conclude that the banana wild relatives contain useful drought tolerance traits, emphasising the importance of their conservation and potential for use in breeding programmes.
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Affiliation(s)
- David Eyland
- Laboratory of Tropical Crop Improvement, Division of Crop BiotechnicsKU LeuvenLeuvenBelgium
| | - Nathalie Luchaire
- Département Environnement et AgronomieLEPSE, Univ Montpellier, INRAE, Institut AgroMontpellierFrance
| | - Llorenç Cabrera‐Bosquet
- Département Environnement et AgronomieLEPSE, Univ Montpellier, INRAE, Institut AgroMontpellierFrance
| | - Boris Parent
- Département Environnement et AgronomieLEPSE, Univ Montpellier, INRAE, Institut AgroMontpellierFrance
| | - Steven B. Janssens
- Department ResearchMeise Botanic GardenMeiseBelgium
- Department of BiologyKU LeuvenLeuvenBelgium
| | - Rony Swennen
- Laboratory of Tropical Crop Improvement, Division of Crop BiotechnicsKU LeuvenLeuvenBelgium
- Banana and Plantain Crop ImprovementInternational Institute of Tropical AgricultureKampalaUganda
| | - Claude Welcker
- Département Environnement et AgronomieLEPSE, Univ Montpellier, INRAE, Institut AgroMontpellierFrance
| | - François Tardieu
- Département Environnement et AgronomieLEPSE, Univ Montpellier, INRAE, Institut AgroMontpellierFrance
| | - Sebastien C. Carpentier
- Laboratory of Tropical Crop Improvement, Division of Crop BiotechnicsKU LeuvenLeuvenBelgium
- Biodiversity for Food and AgricultureBioversity InternationalLeuvenBelgium
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50
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Dussarrat T, Prigent S, Latorre C, Bernillon S, Flandin A, Díaz FP, Cassan C, Van Delft P, Jacob D, Varala K, Joubes J, Gibon Y, Rolin D, Gutiérrez RA, Pétriacq P. Predictive metabolomics of multiple Atacama plant species unveils a core set of generic metabolites for extreme climate resilience. THE NEW PHYTOLOGIST 2022; 234:1614-1628. [PMID: 35288949 PMCID: PMC9324839 DOI: 10.1111/nph.18095] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Accepted: 02/28/2022] [Indexed: 06/14/2023]
Abstract
Current crop yield of the best ideotypes is stagnating and threatened by climate change. In this scenario, understanding wild plant adaptations in extreme ecosystems offers an opportunity to learn about new mechanisms for resilience. Previous studies have shown species specificity for metabolites involved in plant adaptation to harsh environments. Here, we combined multispecies ecological metabolomics and machine learning-based generalized linear model predictions to link the metabolome to the plant environment in a set of 24 species belonging to 14 families growing along an altitudinal gradient in the Atacama Desert. Thirty-nine common compounds predicted the plant environment with 79% accuracy, thus establishing the plant metabolome as an excellent integrative predictor of environmental fluctuations. These metabolites were independent of the species and validated both statistically and biologically using an independent dataset from a different sampling year. Thereafter, using multiblock predictive regressions, metabolites were linked to climatic and edaphic stressors such as freezing temperature, water deficit and high solar irradiance. These findings indicate that plants from different evolutionary trajectories use a generic metabolic toolkit to face extreme environments. These core metabolites, also present in agronomic species, provide a unique metabolic goldmine for improving crop performances under abiotic pressure.
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Affiliation(s)
- Thomas Dussarrat
- Departamento de Genética Molecular y MicrobiologíaPontificia Universidad Católica de ChileFONDAP Center for Genome Regulation and Millenium Institute for Integrative Biology (iBio)Av Libertador Bernardo O'Higgins 340SantiagoChile
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
| | - Sylvain Prigent
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Claudio Latorre
- Departamento de EcologíaPontificia Universidad Católica de ChileAv Libertador Bernardo O'Higgins 340SantiagoChile
- Institute of Ecology and Biodiversity (IEB)Las Palmeras3425ÑuñoaSantiagoChile
| | - Stéphane Bernillon
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Amélie Flandin
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Francisca P. Díaz
- Departamento de Genética Molecular y MicrobiologíaPontificia Universidad Católica de ChileFONDAP Center for Genome Regulation and Millenium Institute for Integrative Biology (iBio)Av Libertador Bernardo O'Higgins 340SantiagoChile
| | - Cédric Cassan
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Pierre Van Delft
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
- Laboratoire de Biogenèse Membranaire, CNRSUniv. Bordeaux, UMR 5200Villenave d'OrnonFrance
| | - Daniel Jacob
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Kranthi Varala
- Department of Horticulture and Landscape ArchitecturePurdue UniversityWest LafayetteIN47907USA
- Center for Plant BiologyPurdue UniversityWest LafayetteIN47907USA
| | - Jérôme Joubes
- Laboratoire de Biogenèse Membranaire, CNRSUniv. Bordeaux, UMR 5200Villenave d'OrnonFrance
| | - Yves Gibon
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Dominique Rolin
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
| | - Rodrigo A. Gutiérrez
- Departamento de Genética Molecular y MicrobiologíaPontificia Universidad Católica de ChileFONDAP Center for Genome Regulation and Millenium Institute for Integrative Biology (iBio)Av Libertador Bernardo O'Higgins 340SantiagoChile
| | - Pierre Pétriacq
- Univ. BordeauxINRAEUMR1332 BFP, 33882Villenave d'OrnonFrance
- Bordeaux MetabolomeMetaboHUBPHENOME‐EMPHASIS33140Villenave d'OrnonFrance
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