1
|
Wang Y, Yu D, Zhu S, Du X, Wang X. The genus Dioscorea L. (Dioscoreaceae), a review of traditional uses, phytochemistry, pharmacology, and toxicity. JOURNAL OF ETHNOPHARMACOLOGY 2024; 329:118069. [PMID: 38552992 DOI: 10.1016/j.jep.2024.118069] [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: 01/10/2024] [Revised: 02/29/2024] [Accepted: 03/16/2024] [Indexed: 04/11/2024]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE The genus Dioscorea, a member of the Dioscoreaceae family, comprises approximately 600 species and is widely distributed across temperate and tropical regions such as Asia, South Africa, and North America. The traditional medicinal uses of Dioscorea have been documented in Asian and African pharmacological systems. In Asia, this genus is traditionally used to treat respiratory illnesses, rheumatism, diabetes, diarrhea, dysentery, and other conditions. In Africa, this genus has been used to treat human immunodeficiency virus and ring worms. However, the traditional medicinal practices in North America rarely mention the use of this genus. AIM OF THE STUDY The aim of this review is to comprehensively review the genus Dioscorea, focusing on its traditional uses, phytochemical constituents, pharmacological activities, and potential toxicities. The research also aims to highlight the valuable bioactive compounds within Dioscorea and emphasize the need for further investigations into acute and chronic toxicity, activity mechanisms, molecular markers, and other relevant factors to contribute to the discovery of novel pharmaceuticals. MATERIALS AND METHODS A search for available information on Dioscorea was conducted using scientific databases, including PubMed, ISI-WOS, Scopus, and Google Scholar, as well as recent academic publications from reputable publishers and other literature sources. The search was not limited by language and spanned the literature published between 1950 and 2022. RESULTS This article provides a comprehensive review of the Dioscorea genus, focusing on its traditional uses, phytochemical constituents, pharmacological activities, and potential toxicities. Extensive research has been conducted on this genus, resulting in the isolation and examination of over 1000 compounds, including steroids, terpenoids, and flavonoids, to determine their biological activities. These activities include anti-tumor, anti-inflammatory, immunomodulatory, neuroprotective, hypoglycemic, and hypolipidemic effects. However, some studies have indicated the potential toxicity of high doses of Dioscorea, highlighting the need for further investigations to assess the safety of this genus. Additionally, this review explores potential avenues for future research and discusses the challenges associated with a comprehensive understanding of the Dioscorea genus. CONCLUSIONS Based on the existing literature, it can be concluded that Dioscorea is a valuable source of bioactive compounds that have the potential to treat various disorders. Future research should prioritize the investigation of acute and chronic toxicity, activity mechanisms, molecular markers, and other relevant factors. This review provides a comprehensive analysis of the Dioscorea genus, emphasizing its potential to enable a deeper exploration of the biological activity mechanisms of these plants and contribute to the discovery of novel pharmaceuticals.
Collapse
Affiliation(s)
- Yufei Wang
- School of Pharmacy, Heilongjiang University of Chinese Medicine, Harbin, Heilongjiang, 150040, China
| | - Dan Yu
- School of Pharmacy, Heilongjiang University of Chinese Medicine, Harbin, Heilongjiang, 150040, China
| | - Shaojie Zhu
- School of Pharmacy, Heilongjiang University of Chinese Medicine, Harbin, Heilongjiang, 150040, China
| | - Xiaowei Du
- School of Pharmacy, Heilongjiang University of Chinese Medicine, Harbin, Heilongjiang, 150040, China.
| | - Xijun Wang
- School of Pharmacy, Heilongjiang University of Chinese Medicine, Harbin, Heilongjiang, 150040, China.
| |
Collapse
|
2
|
Gogile A, Knierim D, Margaria P, Menzel W, Abide M, Kebede M, Kidanemariam D, Abraham A. White yam (Dioscorea rotundata) plants exhibiting virus-like symptoms are co-infected with a new potyvirus and a new crinivirus in Ethiopia. Virus Genes 2024:10.1007/s11262-024-02077-4. [PMID: 38833150 DOI: 10.1007/s11262-024-02077-4] [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: 04/19/2024] [Accepted: 05/16/2024] [Indexed: 06/06/2024]
Abstract
White yam (Dioscorea rotundata) plants collected from farmers' fields and planted at the Areka Agricultural Research Center, Southern Ethiopia, displayed mosaic, mottling, and chlorosis symptoms. To determine the presence of viral pathogens, an investigation for virome characterization was conducted by Illumina high-throughput sequencing. The bioinformatics analysis allowed the assembly of five viral genomes, which according to the ICTV criteria were assigned to a novel potyvirus (3 genome sequences) and a novel crinivirus (2 genome sequences). The potyvirus showed ~ 66% nucleotide (nt) identity in the polyprotein sequence to yam mosaic virus (NC004752), clearly below the demarcation criteria of 76% identity. For the crinivirus, the RNA 1 and RNA 2 shared the highest sequence identity to lettuce chlorosis virus, and alignment of the aa sequence of the RdRp, CP and HSP70h (~ 49%, 45% and 76% identity), considered for the demarcation criteria, revealed the finding of a novel virus species. The names Ethiopian yam virus (EYV) and Yam virus 1 (YV-1) are proposed for the two tentative new virus species.
Collapse
Affiliation(s)
- Ashebir Gogile
- Department of Biotechnology, College of Natural and Applied Science, Addis Ababa Science and Technology University, Addis Ababa, Ethiopia.
- Department of Biology, College of Natural and Computational Sciences, Wolaita Sodo University, Wolaita Sodo, Ethiopia.
| | - Dennis Knierim
- Leibniz Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7 B, 38124, Brunswick, Germany
| | - Paolo Margaria
- Leibniz Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7 B, 38124, Brunswick, Germany
| | - Wulf Menzel
- Leibniz Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7 B, 38124, Brunswick, Germany
| | - Mereme Abide
- Department of Biotechnology, College of Natural and Applied Science, Addis Ababa Science and Technology University, Addis Ababa, Ethiopia
| | - Misrak Kebede
- Department of Biotechnology, College of Natural and Applied Science, Addis Ababa Science and Technology University, Addis Ababa, Ethiopia
| | - Dawit Kidanemariam
- Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria, South Africa
| | - Adane Abraham
- Department of Biotechnology, College of Natural and Applied Science, Addis Ababa Science and Technology University, Addis Ababa, Ethiopia.
- Department of Biological Sciences and Biotechnology, Botswana International University of Science and Technology, Palapye, Botswana.
| |
Collapse
|
3
|
Gogile A, Kebede M, Kidanemariam D, Abraham A. Identification of yam mosaic virus as the main cause of yam mosaic diseases in Ethiopia. Heliyon 2024; 10:e26387. [PMID: 38449648 PMCID: PMC10915350 DOI: 10.1016/j.heliyon.2024.e26387] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 01/18/2024] [Accepted: 02/12/2024] [Indexed: 03/08/2024] Open
Abstract
Yam (Dioscorea spp.) is a staple food crop with cultural, nutritional and economic significance for millions of small-scale farmers in sub-Saharan Africa. While various virus-like symptoms such as mosaic and chlorosis are frequently observed in yam fields in Ethiopia, little information is available on the prevalence, distribution, and molecular characteristics of viruses causing these symptoms. The aim of this study was to investigate the incidence and distribution of yam viruses and determine the primary cause of yam mosaic diseases (YMD) in Ethiopia. Both symptomatic (n = 280) and asymptomatic (n = 110) yam leaf samples were collected and tested for potyviruses using ACP-ELISA. In addition, the symptomatic leaf samples were screened for yam mosaic virus (YMV), yam mild mosaic virus (YMMV), and cucumber mosaic virus (CMV) by DAS-ELISA. Subsequently, total RNA was extracted from 130 leaf samples comprising 94 symptomatic and 36 asymptomatic samples representing the different study areas. The representative RT-PCR amplicons (n = 6) were Sanger sequenced. The ACP-ELISA and DAS-ELISA results showed 9.2%, and 12.9% YMV infection, respectively, while the RT-PCR analysis showed 28.5% YMV positivity rate. Both CMV and YMMV were not detected in any of the samples tested. Thus, YMV is confirmed as the primary cause of YMD in Ethiopia. YMV isolates from Ethiopia shared 92-93% nucleotide identity among themselves and 85-99% with other YMV isolates from the GenBank. Phylogenetic analysis revealed that YMV isolates from Ethiopia, South America, and west-central Africa have the most recent common ancestor, while isolates from China and Japan are clustered as sister groups. This study enhances our understanding of YMV's genetic diversity and provides valuable information regarding the first report of YMV in Ethiopia.
Collapse
Affiliation(s)
- Ashebir Gogile
- Department of Biotechnology, College of Natural and Applied Sciences, Addis Ababa Science and Technology University, P.O.Box 16417, Addis Ababa, Ethiopia
- Department of Biology, College of Natural and Computational Sciences, Wolaita Sodo University, P.O.Box 138, Wolaita Sodo, Ethiopia
| | - Misrak Kebede
- Department of Biotechnology, College of Natural and Applied Sciences, Addis Ababa Science and Technology University, P.O.Box 16417, Addis Ababa, Ethiopia
| | - Dawit Kidanemariam
- Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria, South Africa
| | - Adane Abraham
- Department of Biotechnology, College of Natural and Applied Sciences, Addis Ababa Science and Technology University, P.O.Box 16417, Addis Ababa, Ethiopia
- Department of Biological Sciences and Biotechnology, Botswana International University of Science and Technology, Private Bag 16, Palapye, Botswana
| |
Collapse
|
4
|
Okoye B, Ofoeze M, Ejechi M, Onwuka S, Nwafor S, Onyemauwa N, Ukeje B, Eluagu C, Obidiegwu J, Olaosebikan O, Madu T. Prioritizing preferred traits in the yam value chain in Nigeria: a gender situation analysis. FRONTIERS IN SOCIOLOGY 2023; 8:1232626. [PMID: 38024787 PMCID: PMC10679750 DOI: 10.3389/fsoc.2023.1232626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 10/09/2023] [Indexed: 12/01/2023]
Abstract
This study describes what did and did not work in the prioritization of preferred traits within the value chain of yam and associated food products (boiled and pounded yam) in Nigeria. Demand-led breeding protocols have enhanced participatory methods along gender lines to increase the clarity of information on the yam traits preferred by farmers and other end users. Drawing on the experience of the cross-cutting gender team at the National Root Crops Research Institute (NRCRI), Umudike, and partners, this study documents the successes and constraints in the use of gender-inclusive approaches for effective breeding. Methods in our gender studies involve critical assessment of the distinction between quantitative and qualitative research, with particular attention to measurement. Various techniques for data collection, such as interviews, observation, and archival studies, are assessed to locate their potential for constructing successful research projects. The methods used include participatory varietal selection, participatory plant breeding, focused discussions with farmer groups, value chain mapping, G+ tools, trait preferences (processing and consumption), triangulation of multi-disciplinary datasets, and social survey research. Yam production in southeast Nigeria is dominated by men, while women are the main processors. Gendered power play, access to resources, and decision-making have been found to constrain women's participation in yam production (and in yam research). Sex disaggregation was applied within the value chain studies to capture the complementarity and differences in the perceptions of women and men. The methods used facilitated the development and release to farmers in 2023 of three improved yam varieties with consumer-preferred characteristics such as high yield, high dry matter content, white tubers, and good boiling and pounding capability. The success stories also show that effective communication and cooperation within the gender cross-cutting team and farmer groups are important for better results. When gender specialists, food scientists, and breeders work together, innovations are created, challenges are overcome, and information is shared.
Collapse
Affiliation(s)
- Benjamin Okoye
- National Root Crops Research Institute, Umudike, Nigeria
| | - Miriam Ofoeze
- National Root Crops Research Institute, Umudike, Nigeria
| | - Mercy Ejechi
- National Root Crops Research Institute, Umudike, Nigeria
| | - Samuel Onwuka
- National Root Crops Research Institute, Umudike, Nigeria
| | - Solomon Nwafor
- National Root Crops Research Institute, Umudike, Nigeria
| | | | - Blessing Ukeje
- National Root Crops Research Institute, Umudike, Nigeria
| | - Chinwe Eluagu
- National Root Crops Research Institute, Umudike, Nigeria
| | - Jude Obidiegwu
- National Root Crops Research Institute, Umudike, Nigeria
| | | | - Tessy Madu
- National Root Crops Research Institute, Umudike, Nigeria
| |
Collapse
|
5
|
Festus RO, Seal SE, Prempeh R, Quain MD, Silva G. Improved Reverse Transcription Loop-Mediated Isothermal Amplification (RT-LAMP) for the Rapid and Sensitive Detection of Yam mosaic virus. Viruses 2023; 15:1592. [PMID: 37515278 PMCID: PMC10383231 DOI: 10.3390/v15071592] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Revised: 07/14/2023] [Accepted: 07/19/2023] [Indexed: 07/30/2023] Open
Abstract
Yam (Dioscorea spp.) productivity is constrained significantly by the lack of a formal seed system. Vegetative propagation, through tuber setts as 'seed' yams, encourages the recycling of virus-infected planting materials, contributing to high virus incidence and yield losses. Efforts are ongoing to increase the production of high-quality seed yams in a formal seed system to reduce virus-induced yield losses and enhance the crop's productivity and food security. Specific and sensitive diagnostic tests are imperative to prevent the multiplication of virus-infected materials contributing to a sustainable seed yam certification system. During routine indexing of yam accessions, discrepancies were observed between the results obtained from the reverse transcription loop-mediated isothermal amplification (RT-LAMP) test and those from reverse transcription polymerase chain reaction (RT-PCR); RT-LAMP failed to detect Yam mosaic virus (YMV) in some samples that tested positive by RT-PCR. This prompted the design of a new set of LAMP primers, YMV1-OPT primers. These primers detected as little as 0.1 fg/µL of purified RNA obtained from a YMV-infected plant, a sensitivity equivalent to that obtained with RT-PCR. RT-LAMP using YMV1-OPT primers is recommended for all future virus-indexing of seed yams for YMV, offering a rapid, sensitive, and cost-effective approach.
Collapse
Affiliation(s)
- Ruth O Festus
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Susan E Seal
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Ruth Prempeh
- Council for Scientific and Industrial Research-Crops Research Institute, Fumesua, Kumasi P.O. Box 3785, Ghana
| | - Marian D Quain
- Council for Scientific and Industrial Research-Crops Research Institute, Fumesua, Kumasi P.O. Box 3785, Ghana
| | - Gonçalo Silva
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| |
Collapse
|
6
|
Adejumobi II, Agre PA, Adewumi AS, Shonde TE, Cipriano IM, Komoy JL, Adheka JG, Onautshu DO. Association mapping in multiple yam species (Dioscorea spp.) of quantitative trait loci for yield-related traits. BMC PLANT BIOLOGY 2023; 23:357. [PMID: 37434107 DOI: 10.1186/s12870-023-04350-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2022] [Accepted: 06/16/2023] [Indexed: 07/13/2023]
Abstract
BACKGROUND Yam (Dioscorea spp.) is multiple species with various ploidy level and considered as cash crop in many producing areas. Selection based phenotyping for yield and its related traits such as mosaic virus and anthracnose diseases resistance and plant vigor in multiple species of yam is lengthy however, marker information has proven to enhance selection efficiency. METHODOLOGY In this study, a panel of 182 yam accessions distributed across six yam species were assessed for diversity and marker-traits association study using SNP markers generated from Diversity Array Technology platform. For the traits association analysis, the relation matrix alongside the population structure were used as co-factor to avoid false discovery using Multiple random Mixed Linear Model (MrMLM) followed by gene annotation. RESULTS Accessions performance were significantly different (p < 0.001) across all the traits with high broad-sense heritability (H2). Phenotypic and genotypic correlations showed positive relationships between yield and vigor but negative for yield and yam mosaic disease severity. Population structure revealed k = 6 as optimal clusters-based species. A total of 22 SNP markers were identified to be associated with yield, vigor, mosaic and anthracnose diseases resistance. Gene annotation for the significant SNP loci identified some putative genes associated with primary metabolism, pest and resistance to anthracnose disease, maintenance of NADPH in biosynthetic reaction especially those involving nitro-oxidative stress for resistance to mosaic virus, and seed development, photosynthesis, nutrition use efficiency, stress tolerance, vegetative and reproductive development for tuber yield. CONCLUSION This study provides valuable insights into the genetic control of plant vigor, anthracnose, mosaic virus resistance, and tuber yield in yam and thus, opens an avenue for developing additional genomic resources for markers-assisted selection focusing on multiple yam species.
Collapse
Affiliation(s)
- I I Adejumobi
- Department of Biotechnology, Faculty of Science, University of Kisangani, Kisangani, DR, Congo
- International Institute of Tropical Agriculture, Lagos, Nigeria
| | - Paterne A Agre
- International Institute of Tropical Agriculture, Lagos, Nigeria.
| | - A S Adewumi
- International Institute of Tropical Agriculture, Lagos, Nigeria
| | - T E Shonde
- International Institute of Tropical Agriculture, Lagos, Nigeria
| | - I M Cipriano
- Department of Biotechnology, Faculty of Science, University of Kisangani, Kisangani, DR, Congo
| | - J L Komoy
- Department of Biotechnology, Faculty of Science, University of Kisangani, Kisangani, DR, Congo
| | - J G Adheka
- Department of Biotechnology, Faculty of Science, University of Kisangani, Kisangani, DR, Congo
| | - D O Onautshu
- Department of Biotechnology, Faculty of Science, University of Kisangani, Kisangani, DR, Congo
| |
Collapse
|
7
|
Hu Z, Luo Z, Wang Y, Zhou Q, Liu S, Wang Q. Texture Feature Extraction from 1H NMR Spectra for the Geographical Origin Traceability of Chinese Yam. Foods 2023; 12:2476. [PMID: 37444214 DOI: 10.3390/foods12132476] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 06/20/2023] [Accepted: 06/20/2023] [Indexed: 07/15/2023] Open
Abstract
Adulteration is widespread in the herbal and food industry and seriously restricts traditional Chinese medicine development. Accurate identification of geo-authentic herbs ensures drug safety and effectiveness. In this study, 1H NMR combined intelligent "rotation-invariant uniform local binary pattern" identification was implemented for the geographical origin confirmation of geo-authentic Chinese yam (grown in Jiaozuo, Henan province) from Chinese yams grown in other locations. Our results showed that the texture feature of 1H NMR image extracted with rotation-invariant uniform local binary pattern for identification is far superior compared to the original NMR data. Furthermore, data preprocessing is necessary. Moreover, the model combining a feature extraction algorithm and support vector machine (SVM) classifier demonstrated good robustness. This approach is advantageous, as it is accurate, rapid, simple, and inexpensive. It is also suitable for the geographical origin traceability of other geographical indication agricultural products.
Collapse
Affiliation(s)
- Zhongyi Hu
- College of Computer Science and Artifical Intelligence, Wenzhou University, Wenzhou 325035, China
- Intelligent Information Systems Institute, Wenzhou University, Wenzhou 325035, China
| | - Zhenzhen Luo
- Zhenhai District Finance Bureau, Ningbo 315202, China
| | - Yanli Wang
- National Health Commission Key Laboratory of Birth Defect Prevention, Henan Institute of Reproductive Health Science and Technology, Zhengzhou 450002, China
| | - Qiuju Zhou
- College of Chemistry and Chemical Engineering, Xinyang Normal University, Xinyang 464000, China
| | - Shuangyan Liu
- High & New Technology Research Center, Henan Academy of Sciences, Zhengzhou 450002, China
| | - Qiang Wang
- High & New Technology Research Center, Henan Academy of Sciences, Zhengzhou 450002, China
- School of Medicine, Huanghe Science and Technology College, Zhengzhou 450063, China
| |
Collapse
|
8
|
Riekötter J, Oklestkova J, Muth J, Twyman RM, Epping J. Transcriptomic analysis of Chinese yam ( Dioscorea polystachya Turcz.) variants indicates brassinosteroid involvement in tuber development. Front Nutr 2023; 10:1112793. [PMID: 37215221 PMCID: PMC10196131 DOI: 10.3389/fnut.2023.1112793] [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: 11/30/2022] [Accepted: 04/11/2023] [Indexed: 05/24/2023] Open
Abstract
Dioscorea is an important but underutilized genus of flowering plants that grows predominantly in tropical and subtropical regions. Several species, known as yam, develop large underground tubers and aerial bulbils that are used as food. The Chinese yam (D. polystachya Turcz.) is one of the few Dioscorea species that grows well in temperate regions and has been proposed as a climate-resilient crop to enhance food security in Europe. However, the fragile, club-like tubers are unsuitable for mechanical harvesting, which is facilitated by shorter and thicker storage organs. Brassinosteroids (BRs) play a key role in plant cell division, cell elongation and proliferation, as well as in the gravitropic response. We collected RNA-Seq data from the head, middle and tip of two tuber shape variants: F60 (long, thin) and F2000 (short, thick). Comparative transcriptome analysis of F60 vs. F2000 revealed 30,229 differentially expressed genes (DEGs), 1,393 of which were differentially expressed in the growing tip. Several DEGs are involved in steroid/BR biosynthesis or signaling, or may be regulated by BRs. The quantification of endogenous BRs revealed higher levels of castasterone (CS), 28-norCS, 28-homoCS and brassinolide in F2000 compared to F60 tubers. The highest BR levels were detected in the growing tip, and CS was the most abundant (439.6 ± 196.41 pmol/g in F2000 and 365.6 ± 112.78 pmol/g in F60). Exogenous 24-epi-brassinolide (epi-BL) treatment (20 nM) in an aeroponic system significantly increased the width-to-length ratio (0.045 ± 0.002) compared to the mock-treated plants (0.03 ± 0.002) after 7 weeks, indicating that exogenous epi-BL produces shorter and thicker tubers. In this study we demonstrate the role of BRs in D. polystachya tuber shape, providing insight into the role of plant hormones in yam storage organ development. We found that BRs can influence tuber shape in Chinese yam by regulating the expression of genes involved cell expansion. Our data can help to improve the efficiency of Chinese yam cultivation, which could provide an alternative food source and thus contribute to future food security in Europe.
Collapse
Affiliation(s)
- Jenny Riekötter
- Department of Biology, Institute of Plant Biology and Biotechnology, University of Münster, Münster, Germany
| | - Jana Oklestkova
- Laboratory of Growth Regulators, The Czech Academy of Science, Institute of Experimental Botany and Palacký University, Faculty of Science, Olomouc, Czechia
| | - Jost Muth
- Fraunhofer Institute for Molecular Biology and Applied Ecology (IME), Aachen, Germany
| | | | - Janina Epping
- Department of Biology, Institute of Plant Biology and Biotechnology, University of Münster, Münster, Germany
| |
Collapse
|
9
|
Neina D, Agyarko-Mintah E. The Terra Preta Model soil for sustainable sedentary yam production in West Africa. Heliyon 2023; 9:e15896. [PMID: 37168885 PMCID: PMC10165410 DOI: 10.1016/j.heliyon.2023.e15896] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2022] [Revised: 02/21/2023] [Accepted: 04/25/2023] [Indexed: 05/13/2023] Open
Abstract
Current declines in yam yields amidst increasing cultivated areas, land scarcity, and population surges call for more sustainable sedentary yam production systems. This study explored the nature of Amazonian Dark Earths (ADEs) as a basis for the formation of a related soil type known as the Terra Preta Model (TPM) soil for future sedentary yam systems. It builds on the influence of human beings in soil management and the formation of Anthrosols. Previous studies on the ADEs and biochar were synthesized to establish the fundamental assumptions required to form the TPM soil. The practical approach to forming the TPM soils is based on the intentional, integrated and prolonged use of biochar, municipal solid wastes, agro-industry wastes and products of ecological sanitation. Tillage options such as mounding, ridging, trenching and sack farming could be used for yam production on the TPM soils. Unlike natural soils, the longevity of ADE fertility is subject to debate depending on crops grown and cropping cycles. Therefore, a crop rotation plan is recommended to maintain the fertility of the TPM soils. The TPM soils, if adopted, are considered worthwhile for the long-term benefit of biodiversity conservation, efficient waste management, enhanced ecosystem services provided by soils and extensive adoption of ecological sanitation.
Collapse
Affiliation(s)
- Dora Neina
- Department of Soil Science, P.O. Box LG 245, School of Agriculture, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
- Corresponding author.
| | - Eunice Agyarko-Mintah
- Biotechnology & Nuclear Agricultural Research Institute, Ghana Atomic Energy Commission, P. O. Box LG 80, Legon, Accra, Ghana
| |
Collapse
|
10
|
Campos M, Kelley E, Gravendeel B, Médail F, Maarten Christenhusz JM, Fay MF, Catalán P, Leitch IJ, Forest F, Wilkin P, Viruel J. Genomic, spatial and morphometric data for discrimination of four species in the Mediterranean Tamus clade of yams (Dioscorea, Dioscoreaceae). ANNALS OF BOTANY 2023; 131:635-654. [PMID: 36681900 PMCID: PMC10147332 DOI: 10.1093/aob/mcad018] [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: 10/22/2022] [Accepted: 01/23/2023] [Indexed: 05/20/2023]
Abstract
BACKGROUND AND AIMS Among the numerous pantropical species of the yam genus, Dioscorea, only a small group occurs in the Mediterranean basin, including two narrow Pyrenean endemics (Borderea clade) and two Mediterranean-wide species (D. communis and D. orientalis, Tamus clade). However, several currently unrecognized species and infraspecific taxa have been described in the Tamus clade due to significant morphological variation associated with D. communis. Our overarching aim was to investigate taxon delimitation in the Tamus clade using an integrative approach combining phylogenomic, spatial and morphological data. METHODS We analysed 76 herbarium samples using Hyb-Seq genomic capture to sequence 260 low-copy nuclear genes and plastomes, together with morphometric and environmental modelling approaches. KEY RESULTS Phylogenomic reconstructions confirmed that the two previously accepted species of the Tamus clade, D. communis and D. orientalis, are monophyletic and form sister clades. Three subclades showing distinctive geographic patterns were identified within D. communis. These subclades were also identifiable from morphometric and climatic data, and introgression patterns were inferred between subclades in the eastern part of the distribution of D. communis. CONCLUSIONS We propose a taxonomy that maintains D. orientalis, endemic to the eastern Mediterranean region, and splits D. communis sensu lato into three species: D. edulis, endemic to Macaronesia (Canary Islands and Madeira); D. cretica, endemic to the eastern Mediterranean region; and D. communis sensu stricto, widespread across western and central Europe. Introgression inferred between D. communis s.s. and D. cretica is likely to be explained by their relatively recent speciation at the end of the Miocene, disjunct isolation in eastern and western Mediterranean glacial refugia and a subsequent westward recolonization of D. communis s.s. Our study shows that the use of integrated genomic, spatial and morphological approaches allows a more robust definition of species boundaries and the identification of species that previous systematic studies failed to uncover.
Collapse
Affiliation(s)
- Miguel Campos
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
- Department of Plant Biology and Ecology, University of Seville, 41012, Spain
- Universidad de Zaragoza-Escuela Politécnica Superior de Huesca, 22071, Huesca, Spain
| | - Emma Kelley
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
| | - Barbara Gravendeel
- Naturalis Biodiversity Center, Leiden 2333 CR, The Netherlands
- Radboud Institute for Biological and Environmental Sciences, RIBES 6500 GL, Nijmegen, The Netherlands
| | - Frédéric Médail
- Institut Méditerranéen de Biodiversité et d’Écologie marine et continentale (IMBE), Aix Marseille University, Avignon University, CNRS, IRD, Campus Aix, Technopôle de l’Environnement Arbois-Méditerranée, F-13545 Aix-en-Provence cedex 4, France
| | | | - Michael F Fay
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
- School of Biological Sciences, University of Western Australia, Crawley, WA 6009, Australia
| | - Pilar Catalán
- Universidad de Zaragoza-Escuela Politécnica Superior de Huesca, 22071, Huesca, Spain
- Grupo de Bioquímica, Biofísica y Biología Computacional (BIFI, UNIZAR), Unidad Asociada al CSIC, Zaragoza 50018, Spain
| | | | - Félix Forest
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
| | - Paul Wilkin
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
| | - Juan Viruel
- Royal Botanic Gardens, Kew, Richmond TW9 3DS, UK
| |
Collapse
|
11
|
Wang Z, Zhao S, Tao S, Hou G, Zhao F, Tan S, Meng Q. Dioscorea spp.: Bioactive Compounds and Potential for the Treatment of Inflammatory and Metabolic Diseases. Molecules 2023; 28:molecules28062878. [PMID: 36985850 PMCID: PMC10051580 DOI: 10.3390/molecules28062878] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 03/18/2023] [Accepted: 03/21/2023] [Indexed: 03/30/2023] Open
Abstract
Dioscorea spp. belongs to the Dioscoreaceae family, known as "yams", and contains approximately 600 species with a wide distribution. It is a major food source for millions of people in tropical and subtropical regions. Dioscorea has great medicinal and therapeutic capabilities and is a potential source of bioactive substances for the prevention and treatment of many diseases. In recent years, increasing attention has been paid to the phytochemicals of Dioscorea, such as steroidal saponins, polyphenols, allantoin, and, in particular, polysaccharides and diosgenin. These bioactive compounds possess anti-inflammatory activity and are protective against a variety of inflammatory diseases, such as enteritis, arthritis, dermatitis, acute pancreatitis, and neuroinflammation. In addition, they play an important role in the prevention and treatment of metabolic diseases, including obesity, dyslipidemia, diabetes, and non-alcoholic fatty liver disease. Their mechanisms of action are related to the modulation of a number of key signaling pathways and molecular targets. This review mainly summarizes recent studies on the bioactive compounds of Dioscorea and its treatment of inflammatory and metabolic diseases, and highlights the underlying molecular mechanisms. In conclusion, Dioscorea is a promising source of bioactive components and has the potential to develop novel natural bioactive compounds for the prevention and treatment of inflammatory and metabolic diseases.
Collapse
Affiliation(s)
- Zhen Wang
- Key Laboratory of Molecular Pharmacology and Drug Evaluation, School of Pharmacy, Yantai University, Yantai 264005, China
| | - Shengnan Zhao
- Key Laboratory of Molecular Pharmacology and Drug Evaluation, School of Pharmacy, Yantai University, Yantai 264005, China
| | - Siyu Tao
- Physiology Group, Department of Basic and Applied Medical Sciences, Ghent University, 9000 Ghent, Belgium
| | - Guige Hou
- School of Pharmacy, Binzhou Medical University, Yantai 264003, China
| | - Fenglan Zhao
- Key Laboratory of Molecular Pharmacology and Drug Evaluation, School of Pharmacy, Yantai University, Yantai 264005, China
| | - Shenpeng Tan
- Key Laboratory of Molecular Pharmacology and Drug Evaluation, School of Pharmacy, Yantai University, Yantai 264005, China
| | - Qingguo Meng
- Key Laboratory of Molecular Pharmacology and Drug Evaluation, School of Pharmacy, Yantai University, Yantai 264005, China
| |
Collapse
|
12
|
Analysis of Genetic Diversity and Population Structure in Yam (Dioscorea Species) Germplasm Using Start Codon Targeted (SCoT) Molecular Markers. INTERNATIONAL JOURNAL OF PLANT BIOLOGY 2023. [DOI: 10.3390/ijpb14010025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2023] Open
Abstract
Yam (Dioscorea spp.) is an important food security crop with economic, nutritional, and medicinal value. It is a source of carbohydrates for millions of people in tropical and sub-tropical regions of Africa, Asia, South America, the Caribbean, and the South Pacific Islands. Determining the appropriate parents for breeding programs is the most important decision that plant breeders must make to maximize genetic variability and produce excellent recombinant varieties. However, adequate genetic diversity and the population structure of yam accessions in Kenya are not available to guide accurate selection of parents for breeding. In the present study, 25 start-codon-targeted (SCoT) molecular markers were used to determine the genetic diversity and population structure among 20 yam accessions grown in Kenya. A total of 294 fragments were amplified, of which 95% were polymorphic with an average of 11.16 polymorphic fragments per primer. The polymorphic information content (PIC) value and primer resolving power (Rp) of 0.58 and 5.91, respectively, revealed high genetic diversity among the accessions. A dendrogram based on the unweighted pair group method of arithmetic means (UPGMA) grouped the 20 yam accessions into two clusters at 0.61 genetic similarity coefficients. Bayesian structure analysis revealed the existence of three subpopulations and some admixed accessions. Analysis of molecular variance (AMOVA) revealed a variance of 60% within the subpopulations and 40% among the subpopulations. The high degree of genetic diversity in the yam accessions successfully exhibited by SCoT molecular markers may serve as a valuable aid to widen the genetic base in yam breeding programs. The selection and hybridization of parental lines from the different clusters and sub-clusters identified could provide a foundation and could be exploited for yam breeding and variety development.
Collapse
|
13
|
Lu RS, Hu K, Zhang FJ, Sun XQ, Chen M, Zhang YM. Pan-Plastome of Greater Yam ( Dioscorea alata) in China: Intraspecific Genetic Variation, Comparative Genomics, and Phylogenetic Analyses. Int J Mol Sci 2023; 24:ijms24043341. [PMID: 36834753 PMCID: PMC9968032 DOI: 10.3390/ijms24043341] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Revised: 02/01/2023] [Accepted: 02/06/2023] [Indexed: 02/10/2023] Open
Abstract
Dioscorea alata L. (Dioscoreaceae), commonly known as greater yam, water yam, or winged yam, is a popular tuber vegetable/food crop worldwide, with nutritional, health, and economical importance. China is an important domestication center of D. alata, and hundreds of cultivars (accessions) have been established. However, genetic variations among Chinese accessions remain ambiguous, and genomic resources currently available for the molecular breeding of this species in China are very scarce. In this study, we generated the first pan-plastome of D. alata, based on 44 Chinese accessions and 8 African accessions, and investigated the genetic variations, plastome evolution, and phylogenetic relationships within D. alata and among members of the section Enantiophyllum. The D. alata pan-plastome encoded 113 unique genes and ranged in size from 153,114 to 153,161 bp. A total of four whole-plastome haplotypes (Haps I-IV) were identified in the Chinese accessions, showing no geographical differentiation, while all eight African accessions shared the same whole-plastome haplotype (Hap I). Comparative genomic analyses revealed that all four whole plastome haplotypes harbored identical GC content, gene content, gene order, and IR/SC boundary structures, which were also highly congruent with other species of Enantiophyllum. In addition, four highly divergent regions, i.e., trnC-petN, trnL-rpl32, ndhD-ccsA, and exon 3 of clpP, were identified as potential DNA barcodes. Phylogenetic analyses clearly separated all the D. alata accessions into four distinct clades corresponding to the four haplotypes, and strongly supported that D. alata was more closely related to D. brevipetiolata and D. glabra than D. cirrhosa, D. japonica, and D. polystachya. Overall, these results not only revealed the genetic variations among Chinese D. alata accessions, but also provided the necessary groundwork for molecular-assisted breeding and industrial utilization of this species.
Collapse
Affiliation(s)
- Rui-Sen Lu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
| | - Ke Hu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
| | - Feng-Jiao Zhang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
| | - Xiao-Qin Sun
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
| | - Min Chen
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
| | - Yan-Mei Zhang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Nanjing 210014, China
- Correspondence:
| |
Collapse
|
14
|
Lebot V, Lawac F, Legendre L. The greater yam (Dioscorea alata L.): A review of its phytochemical content and potential for processed products and biofortification. J Food Compost Anal 2023. [DOI: 10.1016/j.jfca.2022.104987] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
|
15
|
Matsumoto R, Asfaw A, Ishikawa H, Takada K, Shiwachi H, Asiedu R. Biomass production and nutrient use efficiency in white Guinea yam ( Dioscorea rotundata Poir.) genotypes grown under contrasting soil mineral nutrient availability. FRONTIERS IN PLANT SCIENCE 2022; 13:973388. [PMID: 36311074 PMCID: PMC9597467 DOI: 10.3389/fpls.2022.973388] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/20/2022] [Accepted: 09/14/2022] [Indexed: 06/16/2023]
Abstract
Yam (Dioscorea spp.) is of great importance to food security, especially in West Africa. However, the loss of soil fertility due to dwindling fallow lands with indigenous nutrient supply poses a challenge for yam cultivation. This study aimed to determine shoot and tuber biomass and nutrient use efficiency of white Guinea yam (Dioscorea rotundata) grown under low- and high-NPK conditions. Six white Guinea yam genotypes were used in field experiments conducted at Ibadan, Nigeria. Experiments were conducted with low soil NPK conditions with zero fertilizer input and high soil NPK conditions with mineral fertilizer input. Differences in response to soil NPK conditions, nutrient uptake, and nutrient use efficiency (apparent nutrient recovery efficiency) were observed among the tested genotypes. The genotypes TDr1499 and TDr1649, with high soil fertility susceptibility index (SFSI>1) and an increase in shoot and tuber biomass with fertilizer input, were recognized as susceptible to soil NPK conditions. There was a marked difference in apparent nutrient recovery efficiency; however, there was no varietal difference in physiological efficiency. Differences in apparent nutrient recovery efficiency among genotypes affected the fertilizer response (or susceptibility to soil NPK conditions) and the nutrient uptake. In contrast, the genotype TDr2029, with SFSI<1 and low reduction in shoot and tuber production between non-F and +F conditions, was recognized as a less susceptible genotype to soil NPK status. It was revealed that NPK fertilization did not reduce tuber dry matter content, regardless of genotype differences in susceptibility to soil NPK conditions. Hence, this could be helpful to farmers because it implies that yield can be increased without reducing tuber quality through a balanced application of soil nutrients. Our results highlight genotypic variation in sensitivity to the soil NPK availability, nutrient uptake, and nutrient use efficiency white Guinea yam. Differences in susceptibility to soil NPK conditions could be due to the genotypic variations in nutrient recovery efficiency white Guinea yam. Our findings could contribute to breeding programs for the development of improved white Guinea yam varieties that enhance productivity in low soil fertility conditions with low and high-input farming systems.
Collapse
Affiliation(s)
- Ryo Matsumoto
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | - Asrat Asfaw
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | - Haruki Ishikawa
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | | | | | - Robert Asiedu
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| |
Collapse
|
16
|
Diouf MB, Festus R, Silva G, Guyader S, Umber M, Seal S, Teycheney PY. Viruses of Yams (Dioscorea spp.): Current Gaps in Knowledge and Future Research Directions to Improve Disease Management. Viruses 2022; 14:v14091884. [PMID: 36146691 PMCID: PMC9501508 DOI: 10.3390/v14091884] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 08/19/2022] [Accepted: 08/22/2022] [Indexed: 12/24/2022] Open
Abstract
Viruses are a major constraint for yam production worldwide. They hamper the conservation, movement, and exchange of yam germplasm and are a threat to food security in tropical and subtropical areas of Africa and the Pacific where yam is a staple food and a source of income. However, the biology and impact of yam viruses remains largely unknown. This review summarizes current knowledge on yam viruses and emphasizes gaps that exist in the knowledge of the biology of these viruses, their diagnosis, and their impact on production. It provides essential information to inform the implementation of more effective virus control strategies.
Collapse
Affiliation(s)
- Mame Boucar Diouf
- INRAE, UR ASTRO, F-97170 Petit-Bourg, France
- CIRAD, UMR AGAP Institut, F-97130 Capesterre-Belle-Eau, France
- UMR AGAP Institut, University Montpellier, CIRAD, INRAE, Institut Agro, F-97130 Capesterre-Belle-Eau, France
| | - Ruth Festus
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Gonçalo Silva
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | | | - Marie Umber
- INRAE, UR ASTRO, F-97170 Petit-Bourg, France
| | - Susan Seal
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK
| | - Pierre Yves Teycheney
- CIRAD, UMR PVBMT, F-97410 Saint Pierre, France
- UMR PVBMT, Université de la Réunion, F-97410 Saint-Pierre, France
- Correspondence: ; Tel.: +33-262-492-819
| |
Collapse
|
17
|
Optimum time for hand pollination in yam (Dioscorea spp.). PLoS One 2022; 17:e0269670. [PMID: 35980958 PMCID: PMC9387836 DOI: 10.1371/journal.pone.0269670] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 08/05/2022] [Indexed: 11/26/2022] Open
Abstract
Hand pollination success rate is low in yam (Dioscorea spp.), due partly to suboptimal weather conditions. Thus, determining the most suitable time for pollination could improve the pollination success in yam breeding programs. We performed continuous hand pollination within flowering windows of D. rotundata and D. alata for two consecutive years to determine the most appropriate month, week, and hours of the day allowing maximum pollination success. In D. alata crossing block, we observed significant differences among crossing hours for pollination success (p = 0.003); morning hours (8–12 a.m.) being more conducive than afternoons (12–5 p.m.). No significant differences existed between crossing hours in D. rotundata, though the mid-day seemed optimal. For both species, the time interval 11–12 a.m. was more appropriate for crossing while 4–5 p.m. was the poorest. However, in vitro pollen germination tests showed that mid-day pollen collection (12 noon–2 p.m.) had better results than both extremes, though there were strong genotypic effects on outcomes. Pollination success rates differed significantly among months for D. alata (p < 0.001) but not for D. rotundata (p > 0.05). Differences in pollination success existed across weeks within flowering windows of both D. alata (p < 0.001) and D. rotundata (p = 0.004). The seed production efficiency (SPE) had a similar trend as the pollination success rate. No clear pattern existed between the pollination time and the seed setting rate (SSR) or seed viability (SV), though their dynamics varied with weeks and months. This study provided an insight on the dynamics of pollination outcomes under the influence of pollination times and allows detecting months, weeks, and hours of the day when hybridization activities should be focused for better results.
Collapse
|
18
|
Asfaw A, Mondo JM, Agre PA, Asiedu R, Akoroda MO. Association mapping of plant sex and cross-compatibility related traits in white Guinea yam (Dioscorea rotundata Poir.) clones. BMC PLANT BIOLOGY 2022; 22:294. [PMID: 35705900 PMCID: PMC9199169 DOI: 10.1186/s12870-022-03673-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Accepted: 06/01/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND White Guinea yam (Dioscorea rotundata) is primarily a dioecious species with distinct male and female plants. Its breeding is constrained by sexual reproduction abnormalities, resulting in low success rates in cross-pollination. An accurate method for early detection of this plant's sex and compatible fertile parents at the seedling stage would improve levels of cross-pollination success in breeding. We used the genome-wide association studies (GWAS) to dissect the molecular basis of plant sex and cross-compatibility-related traits in a panel of 112 parental clones used in D. rotundata crossing blocks from 2010 to 2020. RESULTS Population structure and phylogeny analyses using 8326 single nucleotide polymorphism (SNP) markers grouped the 112 white yam clones into three subpopulations. Using Multi-locus random-SNP-effect Mixed Linear Model, we identified three, one, and three SNP markers that were significantly associated with the average crossability rate (ACR), the percentage of high crossability (PHC), and the plant sex, respectively. In addition, five genes considered to be directly linked to sexual reproduction or regulating the balance of sex hormones were annotated from chromosomal regions controlling the assessed traits. This study confirmed the female heterogametic sex determination (ZZ/ZW) system proposed for D. rotundata. CONCLUSIONS This study provides valuable insights on the genomic control of sex identity and cross-pollination success in D. rotundata. It, therefore, opens an avenue for developing molecular markers for predicting plant sex and cross-pollination success at the early growth stage before field sex expression in this crop.
Collapse
Affiliation(s)
- Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan, 5320, Nigeria
| | - Jean M Mondo
- International Institute of Tropical Agriculture (IITA), Ibadan, 5320, Nigeria
- Institute of Life and Earth Sciences, Pan African University, University of Ibadan, Ibadan, 200284, Nigeria
- Department of Crop Production, Université Evangélique en Afrique (UEA), Bukavu, 3323, Democratic Republic of Congo
| | - Paterne A Agre
- International Institute of Tropical Agriculture (IITA), Ibadan, 5320, Nigeria.
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan, 5320, Nigeria
| | - Malachy O Akoroda
- Department of Agronomy, University of Ibadan, Ibadan, 200284, Nigeria
| |
Collapse
|
19
|
Iseki K, Matsumoto R, Olaleye O, Shimizu M, Asfaw A. Variability of Flowering Sex and Its Effect on Agronomic Trait Expression in White Guinea Yam. FRONTIERS IN PLANT SCIENCE 2022; 13:837951. [PMID: 35548274 PMCID: PMC9083005 DOI: 10.3389/fpls.2022.837951] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Accepted: 03/31/2022] [Indexed: 06/15/2023]
Abstract
White Guinea yam (Dioscorea rotundata) is mainly a dioecious tuberous crop that produces flowers of varying sex phenotypes. Agronomic traits in Guinea yam differ according to the sex phenotype, but the precise interaction between the traits and sex phenotype is not clearly understood. This might be due to the high heterozygosity of yam where cultivars with different flowering sex have different genetic backgrounds, which mask the sole effect of sex phenotype on the agronomic traits. This study used F1-derived clonal progenies from a bi-parental cross to minimize the impact of different genetic backgrounds among the plants with different sex phenotypes. The impact of plant sex on agronomic traits, specifically tuber yield, was evaluated through field trials conducted for four years. The results showed that only plants with a female genotype exhibited varying sex phenotypes even within the clones of same accession grown in the same experimental field. The significant effects of sex genotype and phenotype on agronomic traits were detected. Our results revealed that the flowering date was delayed in the plants with female genotypes compared to male genotypes, even when compared only among the plants with male phenotypes. The flowering date is the most important reason for the sexual differences in tuber yield. A high tuber yield was obtained when plants with the female phenotype flowered before tuber enlargement. This result can be attributed to the fact that the low flowering intensity in female plants increases the availability of carbon resources for leaf development. Female plants also showed a large negative effect of late flowering on tuber yield owing to resource competition between flowering and tuber enlargement. These findings demonstrate the feasibility of yield improvement by controlling the flowering time, with a higher effectiveness achieved in female than in male plants.
Collapse
Affiliation(s)
- Kohtaro Iseki
- Japan International Research Center for Agricultural Sciences (JIRCAS), Tsukuba, Japan
| | - Ryo Matsumoto
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Olajumoke Olaleye
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Motoki Shimizu
- Iwate Biotechnology Research Center (IBRC), Kitakami, Japan
| | - Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| |
Collapse
|
20
|
Mondo JM, Agre PA, Edemodu A, Asiedu R, Akoroda MO, Asfaw A. Cross compatibility in intraspecific and interspecific hybridization in yam (Dioscorea spp.). Sci Rep 2022; 12:3432. [PMID: 35236890 PMCID: PMC8891288 DOI: 10.1038/s41598-022-07484-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Accepted: 02/21/2022] [Indexed: 11/29/2022] Open
Abstract
Yam (Dioscorea spp.) is a staple crop for millions of people in the tropics and subtropics. Its genetic improvement through breeding is being challenged by pre-zygotic and post-zygotic cross-compatibility barriers within and among species. Studies dissecting hybridization barriers on yam for improving the crossability rates are limited. This study aimed to assess the cross-compatibility, which yielded fruit set, viable seeds and progeny plants in an extensive intraspecific and interspecific crossing combinations in a yam genetic improvement effort to understand the internal and exogenous factors influencing pollination success. Cross-compatability was analyzed at the individual genotype or family level using historical data from crossing blocks and seedling nurseries from 2010 to 2020 at the International Institute of Tropical Agriculture (IITA). The average crossability rate (ACR) was lower in interspecific crossing combinations (6.1%) than intraspecific ones (27.6%). The seed production efficiency (SPE) values were 1.1 and 9.3% for interspecific and intraspecific crosses, respectively. Weather conditions and pollinator's skills are the main contributors to the low success rate in the intraspecific cross combinations in yam breeding. At the same time, genetic distance and heterozygosity played little role. Interspecific cross barriers were both pre-zygotic and post-zygotic, resulting from the evolutionary divergence among the yam species. Dioscorea rotundata had higher interspecific cross-compatibility indices than D. alata. Distant parents produced intraspecific crossbred seeds with higher germination rates compared to closest parents (r = 0.21, p = 0.033). This work provided important insights into interspecific and intraspecific cross-compatibility in yam and suggested actions for improving hybridization practices in yam breeding programs.
Collapse
Affiliation(s)
- Jean M Mondo
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria.,Institute of Life and Earth Sciences, Pan African University, University of Ibadan, Ibadan, Nigeria.,Department of Crop Production, Université Evangélique en Afrique (UEA), Bukavu, Democratic Republic of the Congo
| | - Paterne A Agre
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Alex Edemodu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria.
| |
Collapse
|
21
|
Agre PA, Darkwa K, Olasanmi B, Kolade O, Mournet P, Bhattacharjee R, Lopez-Montes A, De Koeyer D, Adebola P, Kumar L, Asiedu R, Asfaw A. Identification of QTLs Controlling Resistance to Anthracnose Disease in Water Yam (Dioscorea alata). Genes (Basel) 2022; 13:genes13020347. [PMID: 35205389 PMCID: PMC8872494 DOI: 10.3390/genes13020347] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 02/08/2022] [Accepted: 02/11/2022] [Indexed: 02/04/2023] Open
Abstract
Anthracnose disease caused by a fungus Colletotrichum gloeosporioides is the primary cause of yield loss in water yam (Dioscorea alata), the widely cultivated species of yam. Resistance to yam anthracnose disease (YAD) is a prime target in breeding initiatives to develop durable-resistant cultivars for sustainable management of the disease in water yam cultivation. This study aimed at tagging quantitative trait loci (QTL) for anthracnose disease resistance in a bi-parental mapping population of D. alata. Parent genotypes and their recombinant progenies were genotyped using the Genotyping by Sequencing (GBS) platform and phenotyped in two crop cycles for two years. A high-density genetic linkage map was built with 3184 polymorphic Single Nucleotide Polymorphism (NSP) markers well distributed across the genome, covering 1460.94 cM total length. On average, 163 SNP markers were mapped per chromosome with 0.58 genetic distances between SNPs. Four QTL regions related to yam anthracnose disease resistance were identified on three chromosomes. The proportion of phenotypic variance explained by these QTLs ranged from 29.54 to 39.40%. The QTL regions identified showed genes that code for known plant defense responses such as GDSL-like Lipase/Acylhydrolase, Protein kinase domain, and F-box protein. The results from the present study provide valuable insight into the genetic architecture of anthracnose resistance in water yam. The candidate markers identified herewith form a relevant resource to apply marker-assisted selection as an alternative to a conventional labor-intensive screening for anthracnose resistance in water yam.
Collapse
Affiliation(s)
- Paterne Angelot Agre
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Kwabena Darkwa
- Savanna Agricultural Research Institute, Tamale P.O. Box TL 52, Ghana;
| | - Bunmi Olasanmi
- Department of Agronomy, University of Ibadan, Ibadan 200284, Nigeria;
| | - Olufisayo Kolade
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Pierre Mournet
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement, 34398 Montpellier, France;
- Amelioration Génétic et Adoption des Plants Méditerranéennes et Tropical AGAP, Universisté de Montpellier, 34398 Montpellier, France
| | - Ranjana Bhattacharjee
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Antonio Lopez-Montes
- International Trade Centre (ITC), Addison House International Trade Fair Center, FAGE, Accra GA145, Ghana;
| | - David De Koeyer
- Agriculture and Agri-Food Canada, Fredericton, NB 20280, Canada;
| | - Patrick Adebola
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Lava Kumar
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
| | - Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (P.A.A.); (O.K.); (R.B.); (P.A.); (L.K.); (R.A.)
- Correspondence: ; Tel.: +234-8039-784-287
| |
Collapse
|
22
|
Diversity, trait preferences, management and utilization of yams landraces (Dioscorea species): an orphan crop in DR Congo. Sci Rep 2022; 12:2252. [PMID: 35145169 PMCID: PMC8831613 DOI: 10.1038/s41598-022-06265-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 01/25/2022] [Indexed: 11/24/2022] Open
Abstract
Yam (Dioscorea spp.) is cultivated in many villages of DR Congo as a means to sustain food security and alleviate poverty. However, the extent of the existing diversity has not been studied in details thus, considered as an orphan. A survey covering 540 farmers in 54 villages was conducted in six major yam growing territories covering three provinces in DR Congo to investigate the diversity, management and utilization of yam landraces using pre-elaborate questionnaires. Subject to synonymy, a total of 67 landraces from five different species were recorded. Farmers’ challenges limiting yam production were poor tuber qualities (69%), harvest pest attack (7%), difficulty in harvesting (6%), poor soil status (6%). The overall diversity was moderate among the recorded yam germplasm maintained at the household level (1.32) and variability exist in diversity amongst the territories and provinces. Farmers’ in territories of Tshopo and Mongala provinces maintained higher level of germplasm diversity (2.79 and 2.77) compared to the farmers in territories of Bas-Uélé (1.67). Some yam landraces had limited abundance and distribution due to loss of production interest in many villages attributable to poisons contained hence, resulting in possible extinction. Farmers’ most preferred seed source for cultivation were backyard (43%) and exchange with neighboring farmers (31%) with the objective of meeting food security and generating income. In villages where yam production is expanding, farmers are relying on landraces with good tuber qualities and high yield even though they are late maturing. This study revealed the knowledge of yam landrace diversity, constraints to production and farmers’ preferences criteria as a guide for collection and conservation of yam germplasm for yam improvement intervention.
Collapse
|
23
|
Drought, Low Nitrogen Stress, and Ultraviolet-B Radiation Effects on Growth, Development, and Physiology of Sweetpotato Cultivars during Early Season. Genes (Basel) 2022; 13:genes13010156. [PMID: 35052496 PMCID: PMC8775168 DOI: 10.3390/genes13010156] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 01/05/2022] [Accepted: 01/11/2022] [Indexed: 02/01/2023] Open
Abstract
Drought, ultraviolet-B (UV-B), and nitrogen stress are significant constraints for sweetpotato productivity. Their impact on plant growth and development can be acute, resulting in low productivity. Identifying phenotypes that govern stress tolerance in sweetpotatoes is highly desirable to develop elite cultivars with better yield. Ten sweetpotato cultivars were grown under nonstress (100% replacement of evapotranspiration (ET)), drought-stress (50% replacement of ET), UV-B (10 kJ), and low-nitrogen (20% LN) conditions. Various shoot and root morphological, physiological, and gas-exchange traits were measured at the early stage of the crop growth to assess its performance and association with the storage root number. All three stress factors caused significant changes in the physiological and root- and shoot-related traits. Drought stress reduced most shoot developmental traits (29%) to maintain root growth. UV-B stress increased the accumulation of plant pigments and decreased the photosynthetic rate. Low-nitrogen treatment decreased shoot growth (11%) and increased the root traits (18%). The highly stable and productive cultivars under all four treatments were identified using multitrait stability index analysis and weighted average of absolute scores (WAASB) analyses. Further, based on the total stress response indices, ‘Evangeline’, ‘O’Henry’, and ‘Beauregard B-14’ were identified as vigorous under drought; ‘Evangeline’, ‘Orleans’, and ‘Covington’ under UV-B; and ‘Bonita’, ‘Orleans’, and ‘Beauregard B-14’ cultivars showed greater tolerance to low nitrogen. The cultivars ‘Vardaman’ and ‘NC05-198’ recorded a low tolerance index across stress treatments. This information could help determine which plant phenotypes are desirable under stress treatment for better productivity. The cultivars identified as tolerant, sensitive, and well-adapted within and across stress treatments can be used as source materials for abiotic stress tolerance breeding programs.
Collapse
|
24
|
Kihara S, Yamamoto K, Hisatomi A, Shiwa Y, Chu CC, Takada K, Ouyabe M, Pachakkil B, Kikuno H, Tanaka N, Shiwachi H. Bacterial Community of Water Yam (<i>Dioscorea alata</i> L.) cv. A-19. Microbes Environ 2022; 37. [PMID: 35527002 PMCID: PMC9530735 DOI: 10.1264/jsme2.me21062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The bacterial community of water yam (Dioscorea alata L.) cv. A-19 is vital because it may promote plant growth without the need for fertilization. However, the influence of fertilization practices on the composition and proportion of the bacterial community of water yam cv. A-19 has not yet been extensively examined. Therefore, we herein investigated the diversity and composition of the bacterial community of water yam cv. A-19 cultivated with and without chemical fertilization using amplicon community profiling based on 16S rRNA gene sequences. No significant difference was detected in the growth of plants cultivated with or without chemical fertilization. Alpha diversity indices were significantly dependent on each compartment, and a decrease was observed in indices from the belowground (rhizosphere and root) to aboveground compartments (stem and leaf). The bacterial composition of each compartment was clustered into three groups: bulk soil, rhizosphere and root, and stem and leaf. Chemical fertilization did not significantly influence the diversity or composition of the water yam cv. A-19 bacterial community. It remained robust in plants cultivated with chemical fertilization. The amplicon community profiling of bacterial communities also revealed the dominance of two bacterial clades, the Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium clade and Burkholderia-Caballeronia-Paraburkholderia clade, with and without chemical fertilization. This is the first study to characterize the bacterial community of water yam cv. A-19 cultivated with and without chemical fertilization.
Collapse
Affiliation(s)
- Shunta Kihara
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| | - Kosuke Yamamoto
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture
| | - Atsushi Hisatomi
- Department of Ecological Symbiotic Science, Graduate school of Agriculture, Tokyo University of Agriculture
| | - Yuh Shiwa
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture
| | - Chia-Cheng Chu
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| | - Kanako Takada
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| | - Michel Ouyabe
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| | - Babil Pachakkil
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| | - Hidehiko Kikuno
- Miyako Subtropical Training and Research Farm, Tokyo University of Agriculture
| | - Naoto Tanaka
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture
| | - Hironobu Shiwachi
- Department of International Agricultural Development, Graduate School of International Food and Agricultural Studies, Tokyo University of Agriculture
| |
Collapse
|
25
|
Discovery of an effective processing method for edible rhizome to enhance the gamma-aminobutyric acid content. Food Chem 2021; 375:131862. [PMID: 34936970 DOI: 10.1016/j.foodchem.2021.131862] [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: 05/26/2021] [Revised: 12/07/2021] [Accepted: 12/11/2021] [Indexed: 11/20/2022]
Abstract
This study aimed to discover a simple, rapid, effective, inexpensive, and natural method to enhance the GABA content in edible rhizomes. To achieve this aim, edible rhizome samples were treated with different processing methods. Drying with hot air increased the GABA content in Chinese yam (CY) eight-fold compared with untreated CY. Drying with sunshine or hot air increased it 13- and 28-fold in taro root, respectively. These processing methods also produced an apparent increase in the GABA contents in other edible rhizome, such as lotus rhizomes, potatoes, and sweet potatoes. However, lyophilization did not affect the GABA content. Further, HPLC data showed that while GABA levels increased, glutamate levels decreased, indicating that GABA is produced by the catalytic action of glutamate decarboxylase on glutamate under drought conditions. Drying with hot air or sunshine to enhance the GABA content was not indicated in the literature.
Collapse
|
26
|
Agre PA, Norman PE, Asiedu R, Asfaw A. Identification of quantitative trait nucleotides and candidate genes for tuber yield and mosaic virus tolerance in an elite population of white guinea yam (Dioscorea rotundata) using genome-wide association scan. BMC PLANT BIOLOGY 2021; 21:552. [PMID: 34809560 PMCID: PMC8607609 DOI: 10.1186/s12870-021-03314-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Accepted: 11/02/2021] [Indexed: 05/12/2023]
Abstract
BACKGROUND Improvement of tuber yield and tolerance to viruses are priority objectives in white Guinea yam breeding programs. However, phenotypic selection for these traits is quite challenging due to phenotypic plasticity and cumbersome screening of phenotypic-induced variations. This study assessed quantitative trait nucleotides (QTNs) and the underlying candidate genes related to tuber yield per plant (TYP) and yam mosaic virus (YMV) tolerance in a panel of 406 white Guinea yam (Dioscorea rotundata) breeding lines using a genome-wide association study (GWAS). RESULTS Population structure analysis using 5,581 SNPs differentiated the 406 genotypes into seven distinct sub-groups based delta K. Marker-trait association (MTA) analysis using the multi-locus linear model (mrMLM) identified seventeen QTN regions significant for TYP and five for YMV with various effects. The seveteen QTNs were detected on nine chromosomes, while the five QTNs were identified on five chromosomes. We identified variants responsible for predicting higher yield and low virus severity scores in the breeding panel through the marker-effect prediction. Gene annotation for the significant SNP loci identified several essential putative genes associated with the growth and development of tuber yield and those that code for tolerance to mosaic virus. CONCLUSION Application of different multi-locus models of GWAS identified 22 QTNs. Our results provide valuable insight for marker validation and deployment for tuber yield and mosaic virus tolerance in white yam breeding. The information on SNP variants and genes from the present study would fast-track the application of genomics-informed selection decisions in breeding white Guinea yam for rapid introgression of the targeted traits through markers validation.
Collapse
Affiliation(s)
- Paterne A Agre
- International Institute of Tropical Agriculture, PMB 5320, Oyo Road, Ibadan, Oyo State, 200001, Nigeria.
| | - Prince E Norman
- Sierra Leone Agricultural Research Institute, PMB 1313, Tower Hill, Freetown, Sierra Leone
| | - Robert Asiedu
- International Institute of Tropical Agriculture, PMB 5320, Oyo Road, Ibadan, Oyo State, 200001, Nigeria
| | - Asrat Asfaw
- International Institute of Tropical Agriculture, PMB 5320, Oyo Road, Ibadan, Oyo State, 200001, Nigeria
| |
Collapse
|
27
|
Guo S, Ma Y, Wang Y, Zhao W, Zheng Y, Wang P, Wang D, Zhao X. Effects of storage temperature on bisdemethoxycurcumin formation in fresh-cut yam (Dioscorea opposita). J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2021.104106] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
28
|
Fel B, Baudouin A, Fache F, Czarnes S, Lebot V, Legendre L. Caryatin and 3’-O-methylcaryatin contents in edible yams (Dioscorea spp.). J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2021.104010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
|
29
|
Cao T, Sun J, Shan N, Chen X, Wang P, Zhu Q, Xiao Y, Zhang H, Zhou Q, Huang Y. Uncovering the genetic diversity of yams ( Dioscorea spp.) in China by combining phenotypic trait and molecular marker analyses. Ecol Evol 2021; 11:9970-9986. [PMID: 34367553 PMCID: PMC8328405 DOI: 10.1002/ece3.7727] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2020] [Revised: 05/12/2021] [Accepted: 05/14/2021] [Indexed: 11/12/2022] Open
Abstract
Yam is an important edible tuber and root plant worldwide; China as one of the native places of yams has many diverse local resources. The goal of this study was to clarify the genetic diversity of the commonly cultivated yam landraces and the genetic relationship between the main yam species in China. In this study, 26 phenotypic traits of 112 yam accessions from 21 provinces in China were evaluated, and 24 simple sequence repeat (SSR) and 29 sequence-related amplified polymorphism (SRAP) markers were used for the genetic diversity analysis. Phenotypic traits revealed that Dioscorea opposita had the highest genetic diversity, followed by D. alata, D. persimilis, D. fordii, and D. esculenta. Among the 26 phenotypic traits, the Shannon diversity indexes of leaf shape, petiole color, and stem color were high, and the range in the variation of tuber-related traits in the underground part was higher than that in the aboveground part. All accessions were divided into six groups by phenotypic trait clustering, which was also supported by principal component analysis (PCA). Molecular marker analysis showed that SSR and SRAP markers had good amplification effects and could effectively and accurately evaluate the genetic variation of yam. The unweighted pair-group method with arithmetic means analysis based on SSR-SRAP marker data showed that the 112 accessions were also divided into six groups, similar to the phenotypic trait results. The results of PCA and population structure analysis based on SSR-SRAP data also produced similar results. In addition, the analysis of the origin and genetic relationship of yam indicated that the species D. opposita may have originated from China. These results demonstrate the genetic diversity and distinctness among the widely cultivated species of Chinese yam and provide a theoretical reference for the classification, breeding, germplasm innovation, utilization, and variety protection of Chinese yam resources.
Collapse
Affiliation(s)
- Tianxu Cao
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
- School of Advanced Agriculture and BioengineeringYangtze Normal UniversityChongqingChina
- Key Laboratory of Crop Physiology, Ecology and Genetic BreedingJiangxi Agricultural UniversityMinistry of Education of ChinaNanchangChina
| | - Jingyu Sun
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Nan Shan
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Xin Chen
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Putao Wang
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Qianglong Zhu
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Yao Xiao
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Hongyu Zhang
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Qinghong Zhou
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
| | - Yingjin Huang
- Agronomy CollegeJiangxi Agricultural UniversityNanchangChina
- Key Laboratory of Crop Physiology, Ecology and Genetic BreedingJiangxi Agricultural UniversityMinistry of Education of ChinaNanchangChina
| |
Collapse
|
30
|
Mondo JM, Agre PA, Asiedu R, Akoroda MO, Asfaw A. Genome-Wide Association Studies for Sex Determination and Cross-Compatibility in Water Yam ( Dioscorea alata L.). PLANTS (BASEL, SWITZERLAND) 2021; 10:1412. [PMID: 34371615 PMCID: PMC8309230 DOI: 10.3390/plants10071412] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Revised: 07/06/2021] [Accepted: 07/08/2021] [Indexed: 11/17/2022]
Abstract
Yam (Dioscorea spp.) species are predominantly dioecious, with male and female flowers borne on separate individuals. Cross-pollination is, therefore, essential for gene flow among and within yam species to achieve breeding objectives. Understanding genetic mechanisms underlying sex determination and cross-compatibility is crucial for planning a successful hybridization program. This study used the genome-wide association study (GWAS) approach for identifying genomic regions linked to sex and cross-compatibility in water yam (Dioscorea alata L.). We identified 54 markers linked to flower sex determination, among which 53 markers were on chromosome 6 and one on chromosome 11. Our result ascertained that D. alata is characterized by the male heterogametic sex determination system (XX/XY). The cross-compatibility indices, average crossability rate (ACR) and percentage high crossability (PHC), were controlled by loci on chromosomes 1, 6 and 17. Of the significant loci, SNPs located on chromosomes 1 and 17 were the most promising for ACR and PHC, respectively, and should be validated for use in D. alata hybridization activities to predict cross-compatibility success. A total of 61 putative gene/protein families with direct or indirect influence on plant reproduction were annotated in chromosomic regions controlling the target traits. This study provides valuable insights into the genetic control of D. alata sexual reproduction. It opens an avenue for developing genomic tools for predicting hybridization success in water yam breeding programs.
Collapse
Affiliation(s)
- Jean M. Mondo
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (J.M.M.); (R.A.); (A.A.)
- Institute of Life and Earth Sciences, Pan African University, University of Ibadan, Ibadan 200284, Nigeria
- Department of Crop Production, Université Evangélique en Afrique (UEA), Bukavu 3323, Democratic Republic of the Congo
| | - Paterne A. Agre
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (J.M.M.); (R.A.); (A.A.)
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (J.M.M.); (R.A.); (A.A.)
| | | | - Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan 5320, Nigeria; (J.M.M.); (R.A.); (A.A.)
| |
Collapse
|
31
|
Semwal P, Painuli S, Cruz-Martins N. Dioscorea deltoidea wall. Ex Griseb: A review of traditional uses, bioactive compounds and biological activities. FOOD BIOSCI 2021. [DOI: 10.1016/j.fbio.2021.100969] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
|
32
|
1H NMR-based metabolic profiling approach to identify the geo-authentic Chinese yam (Dioscorea polystachya Turczaninow cv. Tiegun). J Food Compost Anal 2021. [DOI: 10.1016/j.jfca.2021.103805] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
33
|
Asfaw A, Aderonmu DS, Darkwa K, De Koeyer D, Agre P, Abe A, Olasanmi B, Adebola P, Asiedu R. Genetic parameters, prediction, and selection in a white Guinea yam early-generation breeding population using pedigree information. CROP SCIENCE 2021; 61:1038-1051. [PMID: 33883753 PMCID: PMC8048640 DOI: 10.1002/csc2.20382] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 10/12/2020] [Indexed: 06/12/2023]
Abstract
Better understanding of the genetic control of traits in breeding populations is crucial for the selection of superior varieties and parents. This study aimed to assess genetic parameters and breeding values for six essential traits in a white Guinea yam (Dioscorea rotundata Poir.) breeding population. For this, pedigree-based best linear unbiased prediction (P-BLUP) was used. The results revealed significant nonadditive genetic variances and medium to high (.45-.79) broad-sense heritability estimates for the traits studied. The pattern of associations among the genetic values of the traits suggests that selection based on a multiple-trait selection index has potential for identifying superior breeding lines. Parental breeding values predicted using progeny performance identified 13 clones with high genetic potential for simultaneous improvement of the measured traits in the yam breeding program. Subsets of progeny were identified for intermating or further variety testing based on additive genetic and total genetic values. Selection of the top 5% progenies based on the multi-trait index revealed positive genetic gains for fresh tuber yield (t ha-1), tuber yield (kg plant-1), and average tuber weight (kg). However, genetic gain was negative for tuber dry matter content and Yam mosaic virus resistance in comparison with standard varieties. Our results show the relevance of P-BLUP for the selection of superior parental clones and progenies with higher breeding values for interbreeding and higher genotypic value for variety development in yam.
Collapse
Affiliation(s)
- Asrat Asfaw
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
| | - Dotun Samuel Aderonmu
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
- International Potato Center (CIP)AbujaNigeria
- Dep. of AgronomyUniv. of IbadanIbadanNigeria
| | - Kwabena Darkwa
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
- Pan African Univ., Institute of Life and Earth SciencesUniv. of IbadanIbadanNigeria
| | - David De Koeyer
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
- Agriculture and Agri‐Food Canada850 Lincoln Road, PO Box 20280FrederictonNBE3B4Z7Canada
| | - Paterne Agre
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
| | - Ayodeji Abe
- Dep. of AgronomyUniv. of IbadanIbadanNigeria
| | | | - Patrick Adebola
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA)IbadanNigeria
| |
Collapse
|
34
|
Otegbayo B, Madu T, Oroniran O, Chijioke U, Fawehinmi O, Okoye B, Tanimola A, Adebola P, Obidiegwu J. End-user preferences for pounded yam and implications for food product profile development. Int J Food Sci Technol 2021; 56:1458-1472. [PMID: 33776246 PMCID: PMC7984093 DOI: 10.1111/ijfs.14770] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Revised: 08/03/2020] [Accepted: 08/05/2020] [Indexed: 11/29/2022]
Abstract
Pounded yam is a popular food in Nigeria. This study reports end-user preferences for pounded yam and implications for trait evaluation by breeding programme. The study was carried out in two pounded yam-consuming regions in Nigeria: south-east and south-west. Multistage sampling technique was used to collect information from users along food chain. This involved market, individual, key informant interviews and focus group discussions. Responses of participants were used to develop product profile of pounded yam from raw material (yam) to final product. Key user-preferred quality traits for pounded yam in both regions were colour and textural quality followed by taste and aroma which are lesser attributes. There were regional differences in ranking of these quality attributes but no gender difference. This information will be useful in determining food quality indicators that can be used to select breeding lines for preferred quality traits in pounded yam.
Collapse
Affiliation(s)
- Bolanle Otegbayo
- Department of Food Science and TechnologyBowen UniversityIwo232101Nigeria
| | - Tessy Madu
- National Root Crop Research InstituteUmudike440110Nigeria
| | - Oluyinka Oroniran
- Department of Food Science and TechnologyBowen UniversityIwo232101Nigeria
| | - Ugo Chijioke
- National Root Crop Research InstituteUmudike440110Nigeria
| | - Olabisi Fawehinmi
- Department of Food Science and TechnologyBowen UniversityIwo232101Nigeria
| | - Benjamin Okoye
- National Root Crop Research InstituteUmudike440110Nigeria
| | - Abiola Tanimola
- Department of Food Science and TechnologyBowen UniversityIwo232101Nigeria
| | - Patrick Adebola
- International institute of Tropical AgricultureIbadan200132Nigeria
| | - Jude Obidiegwu
- National Root Crop Research InstituteUmudike440110Nigeria
| |
Collapse
|
35
|
Matsumoto R, Ishikawa H, Asfaw A, Asiedu R. Low Soil Nutrient Tolerance and Mineral Fertilizer Response in White Guinea Yam ( Dioscorea rotundata) Genotypes. FRONTIERS IN PLANT SCIENCE 2021; 12:629762. [PMID: 33679844 PMCID: PMC7934620 DOI: 10.3389/fpls.2021.629762] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2020] [Accepted: 01/28/2021] [Indexed: 06/12/2023]
Abstract
Yam (Dioscorea spp.) is a major food security crop for millions of resource-poor farmers, particularly in West Africa. Soil mineral deficiency is the main challenge in yam production, especially with the dwindling of fallow lands for the indigenous nutrient supply. Cultivars tolerant to available low soil nutrients and responsive to added nutrient supply are viable components of an integrated soil fertility management strategy for sustainable and productive yam farming systems in West Africa. This study's objective was to identify white Guinea yam (D. rotundata) genotypes adapted to available low soil nutrients and responsive to externally added nutrient supply. Twenty advanced breeding lines and a local variety (Amula) were evaluated under contrasting soil fertility, low to expose the crop to available low soil nutrient supply and high to assess the crop response to added mineral fertilizer (NPK) input at Ibadan, Nigeria. The genotypes expressed differential yield response to low soil fertility (LF) stress and added fertilizer input. Soil fertility susceptibility index (SFSI) ranged from 0.64 to 1.34 for tuber yield and 0.60 to 1.30 for shoot dry weight. The genotypes R034, R041, R050, R052, R060, R100, and R125 combined lower SFSI with a low rate of reduction in tuber yield were identified as tolerant to LF stress related to the soil mineral deficiency. Likewise, the genotypes R109, R119, and R131 showed high susceptibility to soil fertility level and/or fertilizer response. Genotypes R025 and R034 had the tuber yielding potential twice of that the local variety under low soil nutrient conditions. Shoot dry weight and tuber yield showed a positive correlation both under low and high soil fertility conditions (r = 0.69 and 0.75, respectively), indicating the vigor biomass may be a morphological marker for selecting genotypes of white Guinea yam for higher tuber yield. Our results highlight genotypic variation in the tolerance to low soil nutrients and mineral fertilizer response in white Guinea yam to exploit through breeding and genetic studies to develop improved genotypes for low and high input production systems in West Africa.
Collapse
Affiliation(s)
- Ryo Matsumoto
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | | | | | | |
Collapse
|
36
|
Physicochemical characterization and immunomodulatory activity of sulfated Chinese yam polysaccharide. Int J Biol Macromol 2020; 165:635-644. [DOI: 10.1016/j.ijbiomac.2020.09.213] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Revised: 09/11/2020] [Accepted: 09/24/2020] [Indexed: 01/03/2023]
|
37
|
Scott GJ. A review of root, tuber and banana crops in developing countries: past, present and future. Int J Food Sci Technol 2020; 56:1093-1114. [PMID: 33776223 PMCID: PMC7983897 DOI: 10.1111/ijfs.14778] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2020] [Accepted: 09/06/2020] [Indexed: 11/28/2022]
Abstract
For many of the developing world's poorest farmers and food‐insecure people, roots, tubers, bananas and plantain crops (RTBs) serve as a critical source of food, nutrition and cash income. RTBs have been particularly important in areas where local agri‐food systems are under stress. Under such circumstances, growers, processors and traders often see opportunities to improve food security or increase their incomes with those crops due to shifting tastes and preferences for food and non‐food products. Since the early 1990s, cassava output surged in sub‐Saharan Africa, while potato production expanded rapidly in Asia. RTBs are consumed by over three billion people in developing countries with a market value of US$ 339 billion. This paper analyses the major changes in production, utilisation and trade of RTBs over the last six decades, assesses estimates of their future trajectory and offers recommendations so that they might achieve their full potential.
Collapse
Affiliation(s)
- Gregory J Scott
- CENTRUM-PUCP Graduate Business School Jirón Daniel Alomía Robles 125, Santiago de Surco 15023 Lima 33 Perú.,Pontificia Universidad Católica del Perú Av. Universitaria 1801, San Miguel 15088 Lima 32 Perú
| |
Collapse
|
38
|
Epping J, Laibach N. An underutilized orphan tuber crop-Chinese yam : a review. PLANTA 2020; 252:58. [PMID: 32959173 PMCID: PMC7505826 DOI: 10.1007/s00425-020-03458-3] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2020] [Accepted: 09/11/2020] [Indexed: 05/09/2023]
Abstract
MAIN CONCLUSION The diversification of food crops can improve our diets and address the effects of climate change, and in this context the orphan crop Chinese yam shows significant potential as a functional food. As the effects of climate change become increasingly visible even in temperate regions, there is an urgent need to diversify our crops in order to address hunger and malnutrition. This has led to the re-evaluation of neglected species such as Chinese yam (Dioscorea polystachya Turcz.), which has been cultivated for centuries in East Asia as a food crop and as a widely-used ingredient in traditional Chinese medicine. The tubers are rich in nutrients, but also contain bioactive metabolites such as resistant starches, steroidal sapogenins (like diosgenin), the storage protein dioscorin, and mucilage polysaccharides. These health-promoting products can help to prevent cardiovascular disease, diabetes, and disorders of the gut microbiome. Whereas most edible yams are tropical species, Chinese yam could be cultivated widely in Europe and other temperate regions to take advantage of its nutritional and bioactive properties. However, this is a laborious process and agronomic knowledge is fragmented. The underground tubers contain most of the starch, but are vulnerable to breaking and thus difficult to harvest. Breeding to improve tuber shape is complex given the dioecious nature of the species, the mostly vegetative reproduction via bulbils, and the presence of more than 100 chromosomes. Protocols have yet to be established for in vitro cultivation and genetic transformation, which limits the scope of research. This article summarizes the sparse research landscape and evaluates the nutritional and medical applications of Chinese yam. By highlighting the potential of Chinese yam tubers, we aim to encourage the adoption of this orphan crop as a novel functional food.
Collapse
Affiliation(s)
- Janina Epping
- Institute of Plant Biology and Biotechnology, University of Muenster, Schlossplatz 8, 48143, Muenster, Germany.
| | - Natalie Laibach
- Institute for Food and Resource Economics, University of Bonn, Meckenheimer Allee 174, 53115, Bonn, Germany
| |
Collapse
|
39
|
Mignouna DB, Akinola AA, Abdoulaye T, Alene AD, Manyong V, Maroya NG, Aighewi BA, Kumar LP, Balogun M, Lopez-Montes A, Rees D, Asiedu R. Potential returns to yam research investment in sub-Saharan Africa and beyond. OUTLOOK ON AGRICULTURE 2020; 49:215-224. [PMID: 32801396 PMCID: PMC7398382 DOI: 10.1177/0030727020918388] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Lack of good-quality planting materials has been identified as the most severe problem militating against increased agricultural productivity in sub-Saharan Africa (SSA) and beyond. However, investment of research efforts and resources in addressing this menace will only be feasible and worthwhile if attendant economic gains are considerable. As a way of investigating the economic viability of yam investment, this research has been initiated to address problems confronting yam productivity in eight countries of SSA and beyond: Nigeria, Ghana, Benin, Togo, Côte d'Ivoire, Papua New Guinea, Jamaica, and Columbia. Research options developed were to be deployed and disseminated. Key technologies include the adaptive yam minisett technique (AYMT), varieties adapted to low soil fertility and drought, nematode-resistant cultivars (NRC), and crop management and postharvest practices (CMPP). This article aims at estimating the potential economic returns, the expected number of beneficiaries, and poverty reduction consequent to the adoption of technology options. Estimates show that the new land area that will be covered by the technologies in the eight countries will range between 770,000 ha and 1,000,000 ha with the highest quota accounted for by AYMT. The net present value will range between US$584 and US$1392 million and was highest for the NRC. The CMPP had the lowest benefit-cost ratio of 7.74. About 1,049,000 people would be moved out of poverty by these technologies by 2037 in the region. These technologies are less responsive to changes in cost than that in adoption rate. Therefore, the realization of the potential economic gains depends on the rate and extent of adoption of these technologies. Giving the knowledge-intensive nature of some of these interventions, capacity building of potential adopters will be critical to increasing the sustainability of the yam sector, thereby enhancing food security and reducing poverty.
Collapse
Affiliation(s)
- Djana Babatima Mignouna
- International Institute of Tropical Agriculture (IITA), Godomey, Benin
- Djana Babatima Mignouna, International Institute of Tropical Agriculture (IITA) in Benin, 08 BP 0932 Tri Postal Cotonou, Benin.
| | - Adebayo Akinboye Akinola
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- Obafemi Awolowo University, Ilé-Ifẹ`, Nigeria
| | - Tahirou Abdoulaye
- International Institute of Tropical Agriculture (IITA), Bamako, Mali
| | - Arega D Alene
- International Institute of Tropical Agriculture (IITA), Lilongwe, Malawi
| | - Victor Manyong
- International Institute of Tropical Agriculture (IITA), Dar es Salaam, Tanzania
| | - Norbert G Maroya
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Lava P Kumar
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Morufat Balogun
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- University of Ibadan (UI), Ibadan, Nigeria
| | | | - Deborah Rees
- Natural Resources Institute (NRI), University of Greenwich, Greenwich, London, UK
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| |
Collapse
|
40
|
Ouyabe M, Tanaka N, Shiwa Y, Fujita N, Kikuno H, Babil P, Shiwachi H. Rhizobium dioscoreae sp. nov., a plant growth-promoting bacterium isolated from yam ( Dioscorea species). Int J Syst Evol Microbiol 2020; 70:5054-5062. [PMID: 32804605 PMCID: PMC7656272 DOI: 10.1099/ijsem.0.004381] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
This study investigated endophytic nitrogen-fixing bacteria isolated from two species of yam (water yam, Dioscorea alata L.; lesser yam, Dioscorea esculenta L.) grown in nutrient-poor alkaline soil conditions on Miyako Island, Okinawa, Japan. Two bacterial strains of the genus Rhizobium, S-93T and S-62, were isolated. The phylogenetic tree, based on the almost-complete 16S rRNA gene sequences (1476 bp for each strain), placed them in a distinct clade, with Rhizobium miluonense CCBAU 41251T, Rhizobium hainanense I66T, Rhizobium multihospitium HAMBI 2975T, Rhizobium freirei PRF 81T and Rhizobium tropici CIAT 899T being their closest species. Their bacterial fatty acid profile, with major components of C19 : 0 cyclo ω8c and summed feature 8, as well as other phenotypic characteristics and DNA G+C content (59.65 mol%) indicated that the novel strains belong to the genus Rhizobium. Pairwise average nucleotide identity analyses separated the novel strains from their most closely related species with similarity values of 90.5, 88.9, 88.5, 84.5 and 84.4 % for R. multihospitium HAMBI 2975T, R. tropici CIAT 899T, R. hainanense CCBAU 57015T, R. miluonense HAMBI 2971T and R. freirei PRF 81T, respectively; digital DNA–DNA hybridization values were in the range of 26–42 %. Considering the phenotypic characteristics as well as the genomic data, it is suggested that strains S-93T and S-62 represent a new species, for which the name Rhizobium dioscoreae is proposed. The type strain is S-93T (=NRIC 0988T=NBRC 114257T=DSM 110498T).
Collapse
Affiliation(s)
- Michel Ouyabe
- Laboratory of Tropical Crop Science, Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
- *Correspondence: Michel Ouyabe,
| | - Naoto Tanaka
- Laboratory of Bioinformatics, Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan
- *Correspondence: Naoto Tanaka,
| | - Yuh Shiwa
- Laboratory of Bioinformatics, Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan
| | - Nobuyuki Fujita
- Laboratory of Bioinformatics, Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan
| | - Hidehiko Kikuno
- Miyako Subtropical Training and Research Farm, Miyakojima-shi, Tokyo University of Agriculture, Okinawa, Japan
| | - Pachakkil Babil
- Laboratory of Tropical Crop Science, Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
| | - Hironobu Shiwachi
- Laboratory of Tropical Crop Science, Department of International Agricultural Development, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture, Tokyo, Japan
| |
Collapse
|
41
|
Osukoya OA, Kuku A. Physicochemical, enzymatic and molecular characterisation of the storage protein of aerial tuber, Dioscorea bulbifera Linn. J Genet Eng Biotechnol 2020; 18:29. [PMID: 32661737 PMCID: PMC7358276 DOI: 10.1186/s43141-020-00040-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2019] [Accepted: 06/05/2020] [Indexed: 11/13/2022]
Abstract
BACKGROUND The storage protein of the aerial tuber of Dioscorea bulbifera was purified and its physicochemical, enzymatic and molecular properties determined with a view to comparing its functionality and genetic relatedness with other storage proteins. RESULTS The purified protein had molecular weight of 21 kDa. The protein showed carbonic anhydrase, trypsin inhibitory, dehydroascorbate reductase and monodehydroascorbate reductase activities. Amplifications with polymerase chain reactions resulted in the detection of two genes encoding the storage protein. The deduced amino acid sequence of the shorter and larger genes had homologies with the storage proteins of members of the Dioscorea family. CONCLUSION The study concluded that the storage protein of the aerial tuber of D. bulbifera had similar properties with those of other Dioscorea species and may be suitable for development as functional food.
Collapse
Affiliation(s)
| | - Adenike Kuku
- Department of Biochemistry and Molecular Biology, Obafemi Awolowo University, Ile-Ife, Nigeria
| |
Collapse
|
42
|
A Transdisciplinary Approach for the Development of Sustainable Yam (Dioscorea sp.) Production in West Africa. SUSTAINABILITY 2020. [DOI: 10.3390/su12104016] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Yam (Dioscorea sp.) is an understudied tuber crop despite its importance for food security, income generation, culture, and health in West Africa. Traditional yam cropping practices in West Africa deliver low yields and lead to environmental degradation. In the context of a ‘research for development’ project, we developed and implemented a participatory and transdisciplinary research approach as a means to derive more sustainable yam production practices. We identified and studied different soil and plant management technologies adapted to varying biophysical and socio-economic contexts. For this purpose, we established innovation platforms (IPs) in four yam growing regions of West Africa, to validate the new technologies and to promote their adoption. These co-developed technologies were set up and tested first in researcher-managed plots before doing the same in farmer-managed plots. The new technologies resulted in a significant increase in yam productivity compared to conventional practices. The results discussed in the IPs gained interest from regional stakeholders and were shared through the media at local and national levels. Overall, this development-focused research approach showcases the relevance of purposeful stakeholder involvement to improve agricultural research outcomes.
Collapse
|
43
|
Tang MQ, Gao Q, Xu Y, Zhong L, Wang XW, Zhang JW, Peng X, Tanokura M, Xue YL. Solubility and emulsifying activity of yam soluble protein. JOURNAL OF FOOD SCIENCE AND TECHNOLOGY 2020; 57:1619-1627. [PMID: 32327772 DOI: 10.1007/s13197-019-04194-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 11/25/2019] [Indexed: 10/25/2022]
Abstract
Yam soluble protein (YSP) has been reported to have many physiological activities, such as scavenging free radicals, immune activation, and anti-hypertensive activities. Protein solubility and emulsifying activity are important protein-associated functional properties for the application of proteins in food systems. During this study, the factors of protein concentration, pH, temperature and salt concentration that influenced the solubility of YSP were investigated. As a result, the solubility was minimal near its isoelectric point (pH 3.5) and was highest at 45 °C in a temperature range of 40-60 °C. With an increase of protein concentration, the solubility decreased. According to the results of response surface methodology analysis, the interaction between pH and temperature on the solubility of YSP was significant, and the maximum solubility (87.5%) was obtained when the temperature was close to 40 °C, the pH was approximately 7 and the NaCl concentration approached 0.5 mol/L. As the protein concentration increased, the average particle size of the YSP emulsion decreased, and the particle size distribution gradually became balanced. Additionally, the microphotograph of the YSP emulsion reflected its distribution. The results of this study will provide data and a theoretical basis for the understanding of YSP's physicochemical properties and its application in the food industry.
Collapse
Affiliation(s)
- Man-Qiu Tang
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Qi Gao
- Party School of Liaoning Provincial Party Committee (Liaoning Academy of Governance, Liaoning Provincial Institute of Socialism), Shenyang, 110161 People's Republic of China
| | - Yang Xu
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Ling Zhong
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Xiao-Wen Wang
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Jun-Wei Zhang
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Xue Peng
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| | - Masaru Tanokura
- 2Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, 113-8657 Japan
| | - You-Lin Xue
- 1College of Light Industry, Liaoning University, No. 66 Chongshan Middle Road, Huanggu District, Shenyang, 110036 Liaoning Province People's Republic of China
| |
Collapse
|
44
|
Wu ZG, Jiang W, Tao ZM, Pan XJ, Yu WH, Huang HL. Morphological and stage-specific transcriptome analyses reveal distinct regulatory programs underlying yam (Dioscorea alata L.) bulbil growth. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:1899-1914. [PMID: 31832647 PMCID: PMC7242083 DOI: 10.1093/jxb/erz552] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Accepted: 12/12/2019] [Indexed: 06/09/2023]
Abstract
In yam (Dioscorea spp) species, bulbils at leaf axils are the most striking species-specific axillary structure and exhibit important ecological niches. Genetic regulation underlying bulbil growth remains largely unclear so far. Here, we characterize yam (Dioscorea alata L.) bulbil development using histological analysis, and perform full transcriptional profiling on key developmental stages together with phytohormone analyses. Using the stage-specific scoring algorithm, we have identified 3451 stage-specifically expressed genes that exhibit a tight link between major transcriptional changes and stages. Co-expressed gene clusters revealed an obvious over-representation of genes associated with cell division and expansion at the initiation stage of bulbils (T1). Transcriptional changes of hormone-related genes highly coincided with hormone levels, indicating that bulbil initiation and growth are coordinately controlled by multiple phytohormones. In particular, localized auxin is transiently required to trigger bulbil initiation, and be further depleted or exported from bulbils to promote growth by up-regulation of genes involved in auxinconjugation and efflux. The sharp increase in supply of sucrose and an enhanced trehalose-6-phophate pathway at T1 were observed, suggesting that sucrose probably functions as a key signal and promotes bulbil initiation. Analysis of the expression of transcription factors (TFs) predicated 149 TFs as stage-specifically expressed; several T1-specific TFs (from Aux/IAA, E2F, MYB, and bHLH families) have been shown to play key roles in triggering bulbil formation. Together, our work provides a crucial angle for in-depth understanding of the molecular programs underlying yam's unique bulbil development processes. Stage-specific gene sets can be queried to obtain key candidates regulating bulbil growth, serving as valuable resources for further functional research.
Collapse
Affiliation(s)
- Zhi-Gang Wu
- Key Laboratory for Plant Genetic Improvement, Institute of Subtropical Crops, Zhejiang Academy of Agricultural Sciences, Wenzhou, China
| | - Wu Jiang
- Key Laboratory for Plant Genetic Improvement, Institute of Subtropical Crops, Zhejiang Academy of Agricultural Sciences, Wenzhou, China
| | - Zheng-Ming Tao
- Key Laboratory for Plant Genetic Improvement, Institute of Subtropical Crops, Zhejiang Academy of Agricultural Sciences, Wenzhou, China
| | - Xiao-Jun Pan
- School of Pharmacy, Wenzhou Medical University, Wenzhou, China
| | - Wen-Hui Yu
- Quzhou Academy of Agricultural Sciences, Quzhou, China
| | - Hui-Lian Huang
- Key Laboratory of Modern Preparation of Traditional Chinese Medicine, Jiangxi University of Traditional Chinese Medicine, Nanchang, China
| |
Collapse
|
45
|
Agre P, Asibe F, Darkwa K, Edemodu A, Bauchet G, Asiedu R, Adebola P, Asfaw A. Phenotypic and molecular assessment of genetic structure and diversity in a panel of winged yam (Dioscorea alata) clones and cultivars. Sci Rep 2019; 9:18221. [PMID: 31796820 PMCID: PMC6890776 DOI: 10.1038/s41598-019-54761-3] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Accepted: 11/18/2019] [Indexed: 11/23/2022] Open
Abstract
A better understanding of the structure and extent of genetic variability in a breeding population of a crop is essential for translating genetic diversity to genetic gain. We assessed the nature and pattern of genetic variability and differentiation in a panel of 100 winged-yam (Dioscorea alata) accessions using 24 phenotypic traits and 6,918 single nucleotide polymorphism (SNP) markers. Multivariate analysis for phenotypic variability indicated that all phenotypic traits assessed were useful in discriminating the yam clones and cultivars. Cluster analysis based on phenotypic data distinguished two significant groups, while a corresponding analysis with SNP markers indicated three genetic groups. However, joint analysis for the phenotypic and genotypic data provided three clusters that could be useful for the identification of heterotic groups in the D. alata breeding program. Our analysis for phenotypic and molecular level diversity provided valuable information about overall diversity and variation in economically important traits useful for establishing crossing panels with contrasting traits of interest. The selection and hybridization of parental lines from the different heterotic groups identified would facilitate maximizing diversity and exploiting population heterosis in the D. alata breeding program.
Collapse
Affiliation(s)
- Paterne Agre
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria.
| | - Flora Asibe
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria.,Department of Crop Protection, Federal University of Agriculture, Abeokuta, Nigeria
| | - Kwabena Darkwa
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria.,Pan African University, Institute of Life and Earth Sciences, University of Ibadan, Ibadan, Nigeria
| | - Alex Edemodu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Patrick Adebola
- International Institute of Tropical Agriculture (IITA), Abuja station, Nigeria
| | - Asrat Asfaw
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| |
Collapse
|
46
|
Huang R, Xie J, Yu Y, Shen M. Recent progress in the research of yam mucilage polysaccharides: Isolation, structure and bioactivities. Int J Biol Macromol 2019; 155:1262-1269. [PMID: 31730974 DOI: 10.1016/j.ijbiomac.2019.11.095] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2019] [Revised: 11/01/2019] [Accepted: 11/10/2019] [Indexed: 11/27/2022]
Abstract
Yam (Dioscorea spp.), known as an edible and medicinal tuber crop in China, has been used historically for the treatment of diabetes, diarrhea, asthma, and other ailments in traditional Chinese medicine. Moreover, it has been consumed as starchy food for thousands of years in China. Modern phytochemistry and pharmacological experiments have been proved that non-starch polysaccharide is one of the main bioactive substances of yam. Many studies have been focused on the isolation and identification of polysaccharides and their bioactivities of Chinese yam. However, due to the difference in the variety of raw materials and the method of polysaccharides extracting, the structure and biological activity of the obtained polysaccharides also differ. It has been demonstrated that Chinese yam polysaccharide has various important biological activities, such as hypoglycemia, immunomodulatory, antioxidant, and antitumor activities. This paper is aimed at summarizing previous and current references of the isolation processes, structural features and bioactivities of yam polysaccharides. The review will serve as a useful reference material for further investigation and application of yam polysaccharides in functional foods and medicine fields.
Collapse
Affiliation(s)
- Rong Huang
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang 330047, China
| | - Jianhua Xie
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang 330047, China
| | - Yue Yu
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang 330047, China
| | - Mingyue Shen
- State Key Laboratory of Food Science and Technology, Nanchang University, Nanchang 330047, China.
| |
Collapse
|
47
|
Silva G, Bömer M, Rathnayake AI, Sewe SO, Visendi P, Oyekanmi JO, Quain MD, Akomeah B, Kumar PL, Seal SE. Molecular Characterization of a New Virus Species Identified in Yam ( Dioscorea spp.) by High-Throughput Sequencing. PLANTS (BASEL, SWITZERLAND) 2019; 8:E167. [PMID: 31212654 PMCID: PMC6630666 DOI: 10.3390/plants8060167] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Revised: 06/06/2019] [Accepted: 06/09/2019] [Indexed: 01/28/2023]
Abstract
To date, several viruses of different genera have been reported to infect yam (Dioscorea spp.). The full diversity of viruses infecting yam, however, remains to be explored. High-throughput sequencing (HTS) methods are increasingly being used in the discovery of new plant viral genomes. In this study, we employed HTS on yam to determine whether any undiscovered viruses were present that would restrict the international distribution of yam germplasm. We discovered a new virus sequence present in 31 yam samples tested and have tentatively named this virus "yam virus Y" (YVY). Twenty-three of the samples in which YVY was detected showed mosaic and chlorotic leaf symptoms, but Yam mosaic virus was also detected in these samples. Complete genome sequences of two YVY viral isolates were assembled and found to contain five open reading frames (ORFs). ORF1 encodes a large replication-associated protein, ORF2, ORF3 and ORF4 constitute the putative triple gene block proteins, and ORF5 encodes a putative coat protein. Considering the species demarcation criteria of the family Betaflexiviridae, YVY should be considered as a novel virus species in the family Betaflexiviridae. Further work is needed to understand the association of this new virus with any symptoms and yield loss and its implication on virus-free seed yam production.
Collapse
Affiliation(s)
- Gonçalo Silva
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| | - Moritz Bömer
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| | - Ajith I Rathnayake
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| | - Steven O Sewe
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| | - Paul Visendi
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| | - Joshua O Oyekanmi
- International Institute of Tropical Agriculture (IITA), Oyo Road, PMB 5320, Ibadan, Nigeria.
| | - Marian D Quain
- Council for Scientific and Industrial Research-Crops Research Institute (CSIR-CRI), Fumesua, P. O. BOX 3785, Kumasi, Ghana.
| | - Belinda Akomeah
- Council for Scientific and Industrial Research-Crops Research Institute (CSIR-CRI), Fumesua, P. O. BOX 3785, Kumasi, Ghana.
| | - P Lava Kumar
- International Institute of Tropical Agriculture (IITA), Oyo Road, PMB 5320, Ibadan, Nigeria.
| | - Susan E Seal
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent ME4 4TB, UK.
| |
Collapse
|
48
|
Soto Gomez M, Pokorny L, Kantar MB, Forest F, Leitch IJ, Gravendeel B, Wilkin P, Graham SW, Viruel J. A customized nuclear target enrichment approach for developing a phylogenomic baseline for Dioscorea yams (Dioscoreaceae). APPLICATIONS IN PLANT SCIENCES 2019; 7:e11254. [PMID: 31236313 PMCID: PMC6580989 DOI: 10.1002/aps3.11254] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Accepted: 04/01/2019] [Indexed: 05/14/2023]
Abstract
PREMISE We developed a target enrichment panel for phylogenomic studies of Dioscorea, an economically important genus with incompletely resolved relationships. METHODS Our bait panel comprises 260 low- to single-copy nuclear genes targeted to work in Dioscorea, assessed here using a preliminary taxon sampling that includes both distantly and closely related taxa, including several yam crops and potential crop wild relatives. We applied coalescent-based and maximum likelihood phylogenomic inference approaches to the pilot taxon set, incorporating new and published transcriptome data from additional species. RESULTS The custom panel retrieved ~94% of targets and >80% of full gene length from 88% and 68% of samples, respectively. It has minimal gene overlap with existing panels designed for angiosperm-wide studies and generally recovers longer and more variable targets. Pilot phylogenomic analyses consistently resolve most deep and recent relationships with strong support across analyses and point to revised relationships between the crop species D. alata and candidate crop wild relatives. DISCUSSION Our customized panel reliably retrieves targeted loci from Dioscorea, is informative for resolving relationships in denser samplings, and is suitable for refining our understanding of the independent origins of cultivated yam species; the panel likely has broader promise for phylogenomic studies across Dioscoreales.
Collapse
Affiliation(s)
- Marybel Soto Gomez
- Department of BotanyUniversity of British Columbia6270 University BoulevardVancouverBritish ColumbiaV6T 1Z4Canada
- UBC Botanical Garden and Centre for Plant ResearchUniversity of British Columbia6804 Marine Drive SWVancouverBritish ColumbiaV6T 1Z4Canada
| | - Lisa Pokorny
- Royal Botanic GardensKew, RichmondSurreyTW9 3DSUnited Kingdom
| | - Michael B. Kantar
- Department of Tropical Plant and Soil SciencesUniversity of Hawai‘i at ManoaHonoluluHawai‘i96822USA
| | - Félix Forest
- Royal Botanic GardensKew, RichmondSurreyTW9 3DSUnited Kingdom
| | - Ilia J. Leitch
- Royal Botanic GardensKew, RichmondSurreyTW9 3DSUnited Kingdom
| | - Barbara Gravendeel
- Naturalis Biodiversity CenterEndless FormsSylviusweg 72Leiden2333 BEThe Netherlands
- Institute Biology LeidenLeiden UniversitySylviusweg 72Leiden2333 BEThe Netherlands
- Faculty of Science and TechnologyUniversity of Applied Sciences LeidenZernikedreef 11Leiden2333 CKThe Netherlands
| | - Paul Wilkin
- Royal Botanic GardensKew, RichmondSurreyTW9 3DSUnited Kingdom
| | - Sean W. Graham
- Department of BotanyUniversity of British Columbia6270 University BoulevardVancouverBritish ColumbiaV6T 1Z4Canada
- UBC Botanical Garden and Centre for Plant ResearchUniversity of British Columbia6804 Marine Drive SWVancouverBritish ColumbiaV6T 1Z4Canada
| | - Juan Viruel
- Royal Botanic GardensKew, RichmondSurreyTW9 3DSUnited Kingdom
| |
Collapse
|
49
|
Wumbei A, Houbraken M, Spanoghe P. Pesticides use and exposure among yam farmers in the Nanumba traditional area of Ghana. ENVIRONMENTAL MONITORING AND ASSESSMENT 2019; 191:307. [PMID: 31028501 DOI: 10.1007/s10661-019-7449-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Accepted: 04/04/2019] [Indexed: 06/09/2023]
Abstract
Over the years, pesticides have become a dominant feature of Ghana's agriculture. In the past, pesticides usage was restricted to the cocoa, cotton, vegetables, and fruits sectors. Today, there is a widespread use of pesticides in the cultivation of yam. Since the introduction of pesticides into yam production, farmers have expressed satisfaction about the relief it has brought them with regard to labor and productivity. However, there has been public concern about the human and environmental health impacts of pesticides. In this study, 100 farmers were interviewed through a structured questionnaire to determine their knowledge, awareness, and use practices of pesticides and to determine their level of exposure. The study revealed that the common pesticides currently being used for yam production are herbicides. Although the farmers are aware of the risks associated with the use of pesticides, they use more than the recommended doses and do not pay attention to the use of personal protective equipment (PPE) thereby predisposing themselves to the potential health effects of pesticides. A significant percentage (20 to 40%) of the farmers reported to have never used these PPEs and over 44% of them use glyphosate above the recommended dose (between 1.5 and 2 L/ha). This resulted in an average farmer exposure to glyphosate of 4.2 mg/kgBW/day, well above the acute reference dose (ARfD) of 0.5 mg/kgBW/day. The government should develop and implement programs to train pesticides dealers, educate farmers, enforce the laws on pesticides, and support farmers to uphold protective measures.
Collapse
Affiliation(s)
- Abukari Wumbei
- Faculty of Bioscience Engineering, Department of Crops and Plants, Ghent University, Coupure 653, 9000, Ghent, Belgium.
- Institute for Interdisciplinary Research and Consultancy, University for Development Studies, P. O. Box TL 1350, Tamale, Ghana.
| | - Michael Houbraken
- Faculty of Bioscience Engineering, Department of Crops and Plants, Ghent University, Coupure 653, 9000, Ghent, Belgium
| | - Pieter Spanoghe
- Faculty of Bioscience Engineering, Department of Crops and Plants, Ghent University, Coupure 653, 9000, Ghent, Belgium
| |
Collapse
|
50
|
Bömer M, Rathnayake AI, Visendi P, Sewe SO, Sicat JPA, Silva G, Kumar PL, Seal SE. Tissue culture and next-generation sequencing: A combined approach for detecting yam ( Dioscorea spp.) viruses. PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY 2019; 105:54-66. [PMID: 31007374 PMCID: PMC6472605 DOI: 10.1016/j.pmpp.2018.06.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/31/2018] [Revised: 05/04/2018] [Accepted: 06/16/2018] [Indexed: 06/09/2023]
Abstract
In vitro culture offers many advantages for yam germplasm conservation, propagation and international distribution. However, low virus titres in the generated tissues pose a challenge for reliable virus detection, which makes it difficult to ensure that planting material is virus-free. In this study, we evaluated next-generation sequencing (NGS) for virus detection following yam propagation using a robust tissue culture methodology. We detected and assembled the genomes of novel isolates of already characterised viral species of the genera Badnavirus and Potyvirus, confirming the utility of NGS in diagnosing yam viruses and contributing towards the safe distribution of germplasm.
Collapse
Affiliation(s)
- Moritz Bömer
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Ajith I. Rathnayake
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Paul Visendi
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Steven O. Sewe
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Juan Paolo A. Sicat
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - Gonçalo Silva
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| | - P. Lava Kumar
- International Institute of Tropical Agriculture (IITA), Oyo Road, PMB 5320, Ibadan, Nigeria
| | - Susan E. Seal
- Natural Resources Institute, University of Greenwich, Central Avenue, Chatham Maritime, Kent, ME4 4TB, UK
| |
Collapse
|