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Sinare B, Desmae H, Nebié B, Konate D, John Eleblu, Miningou A, Traoré A, Ofori K, Zagre B. Diallel analysis, maternal effect and heritability in groundnut for yield components and oil content. Heliyon 2024; 10:e33379. [PMID: 39022008 PMCID: PMC11253538 DOI: 10.1016/j.heliyon.2024.e33379] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Revised: 06/19/2024] [Accepted: 06/20/2024] [Indexed: 07/20/2024] Open
Abstract
Background Groundnut is one of the world's major food and oil crops. Being sources of nutrition and vegetable oil, rich in affordable and digestible protein, it is a strategic crop in Burkina Faso for food security, nutrition, and cash income. Understanding the nature of gene effect and genetic variation affecting yield and yield component traits will contribute to designing appropriate breeding methods for groundnut improvement and increase selection efficiency in Burkina Faso. Methods In 2018, a total of 30 F2 progenies were generated through a 6 x 6 full diallel mating using six different and contrasting varieties. In 2019, parents and progenies were evaluated in a lattice square design in 3 replications at ICRISAT-Mali experimental field to assess the general combining ability (GCA) and specific combining ability (SCA) effects, the inheritance and the maternal and reciprocal effects for yield component traits (YCT) and oil content (OC). Results Significant variabilities were observed among the parental genotypes and their F2 progenies for DTH, PSR, HPW, PL, PWD, SL, SWD, and OAC. Mean performance of the six parents were HPW (117.05g), HSW (57.24 g), PYH (1914.76), SYH (1312.73), PL (2.52), PWD (1,19), SL (1.38), SWD (0.83), OC (49.43), OAC (50.43) and LAC (33.61). Parent QH243C presented the highest value for SWD (1.02 cm) and OAC (60.76) while the parent ICGV09195 had the highest value of OC (50.36). Chalimbana presented the highest value of HPW (169.61 g), PL (2.98 cm), PWD (1. 41 cm), and SL (1.57 cm) while CG7 presented the highest value for HSW (75. 14 g), and SYH (1639.28 kg). Both YCT and OC are controlled by additive and non-additive gene effects with a predominance of additive gene action for HSW, SL, and SWD, whereas HPW, PL, PWD, and OAC were found to be more controlled by non-additive gene effects. Maternal effects as well as nuclear and cytoplasmic interaction effects were observed for both YCT and OC indicating that YCT and OC are influenced by a combination of genetic factors from both the maternal parent and the nuclear genome, as well as cytoplasmic factors such as mitochondrial DNA. Broad sense heritability ranged from 3.76 % to 91.56 %, and higher broad sense heritability values were recorded for pod length (91.56 %), hundred pod weight (83.71 %) and pod width (80.95 %). Conclusion The study yields valuable insights into the inheritance of YCT and OC. The parents, Chalimbana and CG7, showed promise as good combiners for both yield component traits and oil content when used as male parents while TE3, Sh470P and QH243C can be used as female for the oil content and its components (oleic and linoleic content).
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Affiliation(s)
- Boubacar Sinare
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), BP 320, Bamako, Mali
- Institut National de l’Environnement et de Recherche Agricole (INERA), 04 BP 8645 04, Ouagadougou, Burkina Faso
| | - Haile Desmae
- International Maize and Wheat Improvement Center (CIMMYT-Senegal), Dakar, Senegal
| | - Baloua Nebié
- International Maize and Wheat Improvement Center (CIMMYT-Senegal), Dakar, Senegal
| | - Djeneba Konate
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), BP 320, Bamako, Mali
| | - John Eleblu
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Amos Miningou
- Institut National de l’Environnement et de Recherche Agricole (INERA), 04 BP 8645 04, Ouagadougou, Burkina Faso
| | - Appolinaire Traoré
- Institut National de l’Environnement et de Recherche Agricole (INERA), 04 BP 8645 04, Ouagadougou, Burkina Faso
| | - Kwadwo Ofori
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Bertin Zagre
- Institut National de l’Environnement et de Recherche Agricole (INERA), 04 BP 8645 04, Ouagadougou, Burkina Faso
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Ntsoli PG, Boat Bedine MA, Baleba CC, Tchatcho Ngalle SF, Djoko Kouam I, Titti RW, Etame Kossi GM, Yaouba A. Postharvest Practices, Perceptions, and Knowledge of Mycotoxins among Groundnut Farmers in the Adamawa, Centre, and North Regions of Cameroon. SCIENTIFICA 2024; 2024:5596036. [PMID: 38605977 PMCID: PMC11008978 DOI: 10.1155/2024/5596036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/02/2023] [Revised: 03/04/2024] [Accepted: 03/25/2024] [Indexed: 04/13/2024]
Abstract
In many parts of the world, including Cameroon, mycotoxin contamination of groundnuts remains a major constraint affecting their use as food. Understanding the contributing factors is an essential intervention to reduce contamination and people's exposure to these harmful toxins. The aim of this research was to identify the factors associated with the knowledge, perceptions, and postharvest practices of groundnut farmers in three production basins in Cameroon. Data were collected through surveys and analyzed using descriptive methods and logistic regression models. The results show that groundnut farmers are little aware of the existence of mycotoxins (12%) and totally unaware of the existence of aflatoxins (100%). Only 7.1% of these farmers are aware of the effects of mycotoxins on consumer health. After evaluation, the large majority of farmers scored poor marks for knowledge (86%) and practice (98.7%) in the management of mould and mycotoxins in groundnuts. Knowledge of mycotoxins was positively associated with the level of education [OR = 3.42; (95%-IC: 1.00-16.00); p < 0.05] and region [OR = 4.49; (95%-IC: 1.09-20.3); p < 0.05]. Farmers' good practices were linked to their production experience [OR = 6.06, (95% CI: 0.91-18.4), p = 0.035]. The use of mouldy groundnut for feed was associated with age [OR = 3.34, (95% CI: 1.14-10.2), p = 0.03], sex [OR = 0. 43, (IC-95%: 1.14-1.05), p = 0.026], marital status [OR = 0.35, (IC-95%: 0.14-0.79), p = 0.015], and production region [OR = 0.27, (IC-95%: 0.13-0.56)]. In conclusion, groundnut farmers had insufficient knowledge of mycotoxins, no knowledge of aflatoxins, and suboptimal handling and storage practices for this commodity. This contributes to increasing the risk of exposure for the population and requires mitigation measures, including awareness campaigns on mycotoxins, specifically aflatoxins, and capacity building for farmers in terms of storage and postharvest management of foodstuffs.
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Affiliation(s)
- Pierre Germain Ntsoli
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Marie Ampères Boat Bedine
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Cynthia Claire Baleba
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
- Institute of Agricultural Research for Development, Agricultural Research Center (ARC), Wakwa, P.O. Box 65, Ngaoundere, Cameroon
| | - Steve Freddy Tchatcho Ngalle
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Idriss Djoko Kouam
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Roland Wilfried Titti
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Georges Marius Etame Kossi
- Genetics, Biotechnology, Agriculture and Plant Production Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
| | - Aoudou Yaouba
- Phytopathology and Agricultural Zoology Research Unit, Department of Agriculture, Faculty of Agronomy and Agricultural Sciences, University of Dschang, P.O. Box 222, Dschang, Cameroon
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Hossain MS, Frith C, Bhattacharyya SS, DeLaune PB, Gentry TJ. Isolation and Characterization of Bacterial Endophytes from Small Nodules of Field-Grown Peanut. Microorganisms 2023; 11:1941. [PMID: 37630501 PMCID: PMC10458822 DOI: 10.3390/microorganisms11081941] [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: 07/05/2023] [Revised: 07/25/2023] [Accepted: 07/26/2023] [Indexed: 08/27/2023] Open
Abstract
It is evident that legume root nodules can accommodate rhizobial and non-rhizobial bacterial endophytes. Our recent nodule microbiome study in peanuts described that small nodules can harbor diverse bacterial endophytes. To understand their functional role, we isolated 87 indigenous endophytes from small nodules of field-grown peanut roots and characterized them at molecular, biochemical, and physiological levels. The amplified 16S rRNA genes and phylogenetic analysis of these isolates revealed a wide variety of microorganisms related to the genera Bacillus, Burkholderia, Enterobacter, Herbaspirillum, Mistsuaria, Pantoea, Pseudomonas, and Rhizobia. It was observed that 37% (100% identity) and 56% (>99% identity) of the isolates matched with the amplified sequence variants (ASVs) from our previous microbiome study. All of these isolates were tested for stress tolerance (high temperature, salinity, acidic pH) and phosphate (P) solubilization along with ammonia (NH3), indole-3-acetic acid (IAA), 1-aminocyclopropane-1-carboxylate deaminase (ACCD), and siderophore production. The majority (78%) of the isolates were found to be halotolerant, thermotolerant, and acidophilic, and a few of them showed a significant positive response to the production of IAA, NH3, siderophore, ACCD, and P-solubilization. To evaluate the plant growth promotion (PGP) activity, plant and nodulation assays were performed in the growth chamber conditions for the selected isolates from both the non-rhizobial and rhizobial groups. However, these isolates appeared to be non-nodulating in the tested conditions. Nonetheless, the isolates 2 (Pantoea), 17 (Burkholderia), 21 (Herbaspirillum), 33o (Pseudomonas), and 77 (Rhizobium sp.) showed significant PGP activity in terms of biomass production. Our findings indicate that these isolates have potential for future biotechnological applications through the development of biologicals for sustainable crop improvement.
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Affiliation(s)
- Md Shakhawat Hossain
- Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843, USA
- Texas A&M AgriLife Research, College Station, TX 77843, USA
| | - Christine Frith
- Department of Geosciences, Texas A&M University, College Station, TX 77843, USA
| | - Siddhartha Shankar Bhattacharyya
- Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843, USA
- Texas A&M AgriLife Research, College Station, TX 77843, USA
| | | | - Terry J. Gentry
- Department of Soil and Crop Sciences, Texas A&M University, College Station, TX 77843, USA
- Texas A&M AgriLife Research, College Station, TX 77843, USA
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Kassie FC, Nguepjop JR, Ngalle HB, Assaha DVM, Gessese MK, Abtew WG, Tossim HA, Sambou A, Seye M, Rami JF, Fonceka D, Bell JM. An Overview of Mapping Quantitative Trait Loci in Peanut ( Arachis hypogaea L.). Genes (Basel) 2023; 14:1176. [PMID: 37372356 DOI: 10.3390/genes14061176] [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: 04/17/2023] [Revised: 05/24/2023] [Accepted: 05/25/2023] [Indexed: 06/29/2023] Open
Abstract
Quantitative Trait Loci (QTL) mapping has been thoroughly used in peanut genetics and breeding in spite of the narrow genetic diversity and the segmental tetraploid nature of the cultivated species. QTL mapping is helpful for identifying the genomic regions that contribute to traits, for estimating the extent of variation and the genetic action (i.e., additive, dominant, or epistatic) underlying this variation, and for pinpointing genetic correlations between traits. The aim of this paper is to review the recently published studies on QTL mapping with a particular emphasis on mapping populations used as well as traits related to kernel quality. We found that several populations have been used for QTL mapping including interspecific populations developed from crosses between synthetic tetraploids and elite varieties. Those populations allowed the broadening of the genetic base of cultivated peanut and helped with the mapping of QTL and identifying beneficial wild alleles for economically important traits. Furthermore, only a few studies reported QTL related to kernel quality. The main quality traits for which QTL have been mapped include oil and protein content as well as fatty acid compositions. QTL for other agronomic traits have also been reported. Among the 1261 QTL reported in this review, and extracted from the most relevant studies on QTL mapping in peanut, 413 (~33%) were related to kernel quality showing the importance of quality in peanut genetics and breeding. Exploiting the QTL information could accelerate breeding to develop highly nutritious superior cultivars in the face of climate change.
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Affiliation(s)
- Fentanesh C Kassie
- Department of Plant Biology and Physiology, Faculty of Sciences, University of Yaounde I, Yaounde P.O. Box 337, Cameroon
- Department of Plant Science, College of Agriculture, Wolaita Sodo University, Sodo P.O. Box 138, Ethiopia
| | - Joël R Nguepjop
- UMR AGAP, CIRAD, F-34398 Montpellier, France
- AGAP Institute, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France
- Centre d'Etudes Régional Pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS/ISRA), Route de Khombole, Thiès BP 3320, Senegal
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Hermine B Ngalle
- Department of Plant Biology and Physiology, Faculty of Sciences, University of Yaounde I, Yaounde P.O. Box 337, Cameroon
| | - Dekoum V M Assaha
- Department of Agriculture, Higher Technical Teachers Training College, University of Buea, Kumba P.O. Box 249, Cameroon
| | - Mesfin K Gessese
- Department of Plant Science, College of Agriculture, Wolaita Sodo University, Sodo P.O. Box 138, Ethiopia
| | - Wosene G Abtew
- Department of Horticulture and Plant Science, College of Agriculture and Veterinary Medicine, Jimma University, Jimma P.O. Box 378, Ethiopia
| | - Hodo-Abalo Tossim
- Centre d'Etudes Régional Pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS/ISRA), Route de Khombole, Thiès BP 3320, Senegal
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Aissatou Sambou
- Centre d'Etudes Régional Pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS/ISRA), Route de Khombole, Thiès BP 3320, Senegal
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Maguette Seye
- Centre d'Etudes Régional Pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS/ISRA), Route de Khombole, Thiès BP 3320, Senegal
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Jean-François Rami
- UMR AGAP, CIRAD, F-34398 Montpellier, France
- AGAP Institute, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Daniel Fonceka
- UMR AGAP, CIRAD, F-34398 Montpellier, France
- AGAP Institute, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France
- Centre d'Etudes Régional Pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS/ISRA), Route de Khombole, Thiès BP 3320, Senegal
- Dispositif de Recherche et de Formation en Partenariat, Innovation et Amélioration Variétale en Afrique de l'Ouest (IAVAO), CERAAS, Route de Khombole, Thiès BP 3320, Senegal
| | - Joseph M Bell
- Department of Plant Biology and Physiology, Faculty of Sciences, University of Yaounde I, Yaounde P.O. Box 337, Cameroon
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Achola E, Wasswa P, Fonceka D, Clevenger JP, Bajaj P, Ozias-Akins P, Rami JF, Deom CM, Hoisington DA, Edema R, Odeny DA, Okello DK. Genome-wide association studies reveal novel loci for resistance to groundnut rosette disease in the African core groundnut collection. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:35. [PMID: 36897398 PMCID: PMC10006280 DOI: 10.1007/s00122-023-04259-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Accepted: 11/21/2022] [Indexed: 06/18/2023]
Abstract
We identified markers associated with GRD resistance after screening an Africa-wide core collection across three seasons in Uganda Groundnut is cultivated in several African countries where it is a major source of food, feed and income. One of the major constraints to groundnut production in Africa is groundnut rosette disease (GRD), which is caused by a complex of three agents: groundnut rosette assistor luteovirus, groundnut rosette umbravirus and its satellite RNA. Despite several years of breeding for GRD resistance, the genetics of the disease is not fully understood. The objective of the current study was to use the African core collection to establish the level of genetic variation in their response to GRD, and to map genomic regions responsible for the observed resistance. The African groundnut core genotypes were screened across two GRD hotspot locations in Uganda (Nakabango and Serere) for 3 seasons. The Area Under Disease Progress Curve combined with 7523 high quality SNPs were analyzed to establish marker-trait associations (MTAs). Genome-Wide Association Studies based on Enriched Compressed Mixed Linear Model detected 32 MTAs at Nakabango: 21 on chromosome A04, 10 on B04 and 1 on B08. Two of the significant markers were localised on the exons of a putative TIR-NBS-LRR disease resistance gene on chromosome A04. Our results suggest the likely involvement of major genes in the resistance to GRD but will need to be further validated with more comprehensive phenotypic and genotypic datasets. The markers identified in the current study will be developed into routine assays and validated for future genomics-assisted selection for GRD resistance in groundnut.
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Affiliation(s)
- Esther Achola
- Department of Agricultural Production, College of Agricultural and Environmental Sciences, Makerere University, P.O. Box 7062, Kampala, Uganda
| | - Peter Wasswa
- Department of Agricultural Production, College of Agricultural and Environmental Sciences, Makerere University, P.O. Box 7062, Kampala, Uganda
| | - Daniel Fonceka
- Regional Study Center for the Improvement of Drought Adaptation, Senegalese Institute for Agricultural Research, BP 3320, Thiès, Senegal
- UMR AGAP, CIRAD, 34398, Montpellier, France
- UMR AGAP, CIRAD, BP 3320, Thies, Senegal
| | | | - Prasad Bajaj
- International Crops Research Institute for the Semi-Arid Tropics, Patancheru, Telangana, 502324, India
| | - Peggy Ozias-Akins
- Center for Applied Genetic Technologies, University of Georgia, Tifton, GA, 31793, USA
| | - Jean-François Rami
- UMR AGAP, CIRAD, 34398, Montpellier, France
- UMR AGAP, CIRAD, BP 3320, Thies, Senegal
- CIRAD, INRAE, AGAP, Univ Montpellier, Institut Agro, 34398, Montpellier, France
| | - Carl Michael Deom
- Department of Pathology, The University of Georgia, Athens, GA, 30602, USA
| | - David A Hoisington
- Feed the Future Innovation Lab for Peanut, University of Georgia, Athens, GA, 30602, USA
| | - Richard Edema
- Makerere University Regional Center for Crop Improvement Kampala, P.O. Box 7062, Kampala, Uganda
| | - Damaris Achieng Odeny
- International Crops Research Institute for the Semi-Arid Tropics, PO Box, Nairobi, 39063-00623, Kenya.
| | - David Kalule Okello
- National Semi-Arid Resources Research Institute-Serere, P.O. Box 56, Kampala, Uganda.
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Zhang X, Zhong J, Cao L, Ren C, Yu G, Gu Y, Ruan J, Zhao S, Wang L, Ru H, Cheng L, Wang Q, Zhang Y. Genome-wide characterization of aldehyde dehydrogenase gene family members in groundnut ( Arachis hypogaea) and the analysis under saline-alkali stress. FRONTIERS IN PLANT SCIENCE 2023; 14:1097001. [PMID: 36875623 PMCID: PMC9978533 DOI: 10.3389/fpls.2023.1097001] [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: 11/13/2022] [Accepted: 02/02/2023] [Indexed: 06/18/2023]
Abstract
Groundnut or peanut (Arachis hypogaea) is a legume crop. Its seeds are rich in protein and oil. Aldehyde dehydrogenase (ALDH, EC: 1.2.1.3) is an important enzyme involved in detoxification of aldehyde and cellular reactive oxygen species, as well as in attenuation of lipid peroxidation-meditated cellular toxicity under stress conditions. However, few studies have been identified and analyzed about ALDH members in Arachis hypogaea. In the present study, 71 members of the ALDH superfamily (AhALDH) were identified using the reference genome obtained from the Phytozome database. A systematic analysis of the evolutionary relationship, motif, gene structure, cis-acting elements, collinearity, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment, and expression patterns was conducted to understand the structure and function of AhALDHs. AhALDHs exhibited tissue-specific expression, and quantitative real-time PCR identified significant differences in the expression levels of AhALDH members under saline-alkali stress. The results revealed that some AhALDHs members could be involved in response to abiotic stress. Our findings on AhALDHs provide insights for further study.
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Affiliation(s)
- Xiaoming Zhang
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
- Agricultural College, Northeast Agricultural University, Harbin, China
- National Coarse Cereals Engineering Research Center, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Jingwen Zhong
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
| | - Liang Cao
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
- National Coarse Cereals Engineering Research Center, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Chunyuan Ren
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
- National Coarse Cereals Engineering Research Center, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Gaobo Yu
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
- National Coarse Cereals Engineering Research Center, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Yanhua Gu
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
| | - Jingwen Ruan
- Agricultural College, Northeast Agricultural University, Harbin, China
| | - Siqi Zhao
- Agricultural College, Northeast Agricultural University, Harbin, China
| | - Lei Wang
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
| | - Haishun Ru
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
| | - Lili Cheng
- Institute of Industrial Crops, Heilongjiang Academy of Agricultural Sciences, Harbin, China
| | - Qi Wang
- Institute of Crop Cultivation and Tillage, Heilongjiang Academy of Agricultural Sciences, Harbin, China
| | - Yuxian Zhang
- Heilongjiang Bayi Agricultural University, Key Laboratory of Soybean Mechanized Production, Ministry of Agriculture and Rural Affairs, Daqing, China
- National Coarse Cereals Engineering Research Center, Heilongjiang Bayi Agricultural University, Daqing, China
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Hsu YM, Wang SS, Tseng YC, Lee SR, Fang H, Hung WC, Kuo HI, Dai HY. Assessment of genetic diversity and SNP marker development within peanut germplasm in Taiwan by RAD-seq. Sci Rep 2022; 12:14495. [PMID: 36008445 PMCID: PMC9411510 DOI: 10.1038/s41598-022-18737-0] [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: 03/17/2022] [Accepted: 08/18/2022] [Indexed: 11/09/2022] Open
Abstract
The cultivated peanut (Arachis hypogaea L.) is an important oil crop but has a narrow genetic diversity. Molecular markers can be used to probe the genetic diversity of various germplasm. In this study, the restriction site associated DNA (RAD) approach was utilized to sequence 31 accessions of Taiwanese peanut germplasm, leading to the identification of a total of 17,610 single nucleotide polymorphisms (SNPs). When we grouped these 31 accessions into two subsets according to origin, we found that the "global" subset (n = 17) was more genetically diverse than the "local" subset (n = 14). Concerning botanical varieties, the var. fastigiata subset had greater genetic diversity than the other two subsets of var. vulgaris and var. hypogaea, suggesting that novel genetic resources should be introduced into breeding programs to enhance genetic diversity. Principal component analysis (PCA) of genotyping data separated the 31 accessions into three clusters largely according to the botanical varieties, consistent with the PCA result for 282 accessions genotyped by 14 kompetitive allele-specific PCR (KASP) markers developed in this study. The SNP markers identified in this work not only revealed the genetic relationship and population structure of current germplasm in Taiwan, but also offer an efficient tool for breeding and further genetic applications.
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Affiliation(s)
- Yu-Ming Hsu
- Université Paris-Saclay, CNRS, INRAE, Univ Evry, Institute of Plant Sciences Paris-Saclay (IPS2), 91405, Orsay, France.,Université Paris Cité, CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), 91405, Orsay, France.,Crop Science Division, Taiwan Agricultural Research Institute, Taichung, 413008, Taiwan, ROC
| | - Sheng-Shan Wang
- Crop Improvement Division, Tainan District Agricultural Research and Extension Station, Tainan, 71246, Taiwan, ROC
| | - Yu-Chien Tseng
- Agronomy Department, National Chiayi University, Chiayi, 60004, Taiwan, ROC
| | - Shin-Ruei Lee
- Crop Science Division, Taiwan Agricultural Research Institute, Taichung, 413008, Taiwan, ROC
| | - Hsiang Fang
- Crop Science Division, Taiwan Agricultural Research Institute, Taichung, 413008, Taiwan, ROC
| | - Wei-Chia Hung
- Crop Science Division, Taiwan Agricultural Research Institute, Taichung, 413008, Taiwan, ROC
| | - Hsin-I Kuo
- Agronomy Department, National Chiayi University, Chiayi, 60004, Taiwan, ROC
| | - Hung-Yu Dai
- Crop Science Division, Taiwan Agricultural Research Institute, Taichung, 413008, Taiwan, ROC.
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8
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Han S, Zhou X, Shi L, Zhang H, Geng Y, Fang Y, Xia H, Liu H, Li P, Zhao S, Miao L, Hou L, Zhang Z, Xu J, Ma C, Wang Z, Li H, Zheng Z, Huang B, Dong W, Zhang J, Tang F, Li S, Gao M, Zhang X, Zhao C, Wang X. AhNPR3 regulates the expression of WRKY and PR genes, and mediates the immune response of the peanut (Arachis hypogaea L.). THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 110:735-747. [PMID: 35124871 DOI: 10.1111/tpj.15700] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Revised: 01/27/2022] [Accepted: 01/31/2022] [Indexed: 06/14/2023]
Abstract
Systemic acquired resistance is an essential immune response that triggers a broad-spectrum disease resistance throughout the plant. In the present study, we identified a peanut lesion mimic mutant m14 derived from an ethyl methane sulfonate-mutagenized mutant pool of peanut cultivar "Yuanza9102." Brown lesions were observed in the leaves of an m14 mutant from seedling stage to maturity. Using MutMap together with bulked segregation RNA analysis approaches, a G-to-A point mutation was identified in the exon region of candidate gene Arahy.R60CUW, which is the homolog of AtNPR3 (Nonexpresser of PR genes) in Arabidopsis. This point mutation caused a transition from Gly to Arg within the C-terminal transactivation domain of AhNPR3A. The mutation of AhNPR3A showed no effect in the induction of PR genes when treated with salicylic acid. Instead, the mutation resulted in upregulation of WRKY genes and several PR genes, including pathogenesis-related thaumatin- and chitinase-encoding genes, which is consistent with the resistant phenotype of m14 to leaf spot disease. Further study on the AhNPR3A gene will provide valuable insights into understanding the molecular mechanism of systemic acquired resistance in peanut. Moreover, our results indicated that a combination of MutMap and bulked segregation RNA analysis is an effective method for identifying genes from peanut mutants.
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Affiliation(s)
- Suoyi Han
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Ximeng Zhou
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Lei Shi
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Huayang Zhang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Yun Geng
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
| | - Yuanjin Fang
- Kaifeng Academy of Agriculture and Forestry, Kaifeng, 475000, China
| | - Han Xia
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Hua Liu
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Pengcheng Li
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Shuzhen Zhao
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Lijuan Miao
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Lei Hou
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Zhongxin Zhang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Jing Xu
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Changle Ma
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Zhenyu Wang
- Institute of Plant Protection, Henan Academy of Agricultural Sciences, Zhengzhou, 450000, China
| | - Hongyan Li
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Zheng Zheng
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Bingyan Huang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Wenzhao Dong
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Jun Zhang
- Industrial Crops Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou, 450000, China
| | - Fengshou Tang
- Industrial Crops Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou, 450000, China
| | - Shaojian Li
- Institute of Plant Protection, Henan Academy of Agricultural Sciences, Zhengzhou, 450000, China
| | - Meng Gao
- Institute of Plant Protection, Henan Academy of Agricultural Sciences, Zhengzhou, 450000, China
| | - Xinyou Zhang
- Henan Academy of Crop Molecular Breeding, Henan Academy of Agricultural Sciences/Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, China
| | - Chuanzhi Zhao
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
| | - Xingjun Wang
- Institute of Crop Germplasm Resources (Institute of Biotechnology), Shandong Academy of Agricultural Sciences; Shandong Provincial Key Laboratory of Crop Genetic Improvement, Ecology and Physiology, Jinan, 250100, China
- College of Life Sciences, Shandong Normal University, Jinan, 250014, China
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9
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Welfare impacts of improved groundnut varieties adoption and food security implications in the semi-arid areas of West Africa. Food Secur 2022. [DOI: 10.1007/s12571-022-01255-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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10
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Jannat S, ul Hassan M, Kausar Nawaz Shah M, Hussain Shah A, Fariq A, Mehmood S, Qayyum A, Gharib AF, El Askary A. Genetic Improvement of Peanut (Arachis hypogea L.) Genotypes by Developing Short Duration Hybrids. Saudi J Biol Sci 2022; 29:3033-3039. [PMID: 35531144 PMCID: PMC9073110 DOI: 10.1016/j.sjbs.2022.01.032] [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: 10/23/2021] [Revised: 12/18/2021] [Accepted: 01/13/2022] [Indexed: 11/22/2022] Open
Abstract
Peanut, the only cash crop of rainfed areas of Pakistan, is facing immense challenges due to global warming. Climatic factors particularly the temperature fluctuations and rain pattern shift significantly impact the production and yield of peanut and unavailability of resilient varieties exacerbate this impact. To deal with the cropping pattern change and yield losses, due to climate vagaries, a study was conducted to develop early maturing hybrids using line into tester mating design. The F1 hybrids from the parental lines were produced in the year 2018 using Line × Tester mating design and then grown in the field in the year 2019 for further evaluation. The hybrids were evaluated based on the early maturity and yield-related attributes in comparison with the parental lines. Based on the general combining ability estimate, line V-3 (Golden), was found as best parent with highly significant values for plant height, days to peg formation, days to maturity, number of pegs per plant, number of pods per plants, number of seeds per plant, 100 pod weight 100 seed weight. Similarly, tester V-7 (PI 635006 01 SD) showed highly significant results of GCA for days to germination, day to 50% flowering, plant height, days to peg formation, days to maturity, number of pegs per plant, number of pods per plants, number of seeds per plant, 100 kernel weight, shelling percentage. All the combinations were evaluated for specific combining ability and significant results were observed for V-3 × V-4 (Golden × PI 619175 01 SD) and V-1 × V-6 (BARI-2000 × PI 564846 01 SD) by developing or maturity and yield-related attributes. The hybrid combinations V-3 × V-5 (Golden × PI 635006 01 SD) followed by V-3 × V-6 showed highly significant results for mid parent heterosis and better parent heterosis for days to 50% flowering, plant height, days to peg formation, number of pegs, days to maturity, number of mature seeds per plant, shelling ratio, 100 pod weight and 100 kernel weight. These parents and hybrid combinations with early maturity genes and high yield attributes can further be used for the development of short duration variety.
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11
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Zenda T, Liu S, Dong A, Li J, Wang Y, Liu X, Wang N, Duan H. Omics-Facilitated Crop Improvement for Climate Resilience and Superior Nutritive Value. FRONTIERS IN PLANT SCIENCE 2021; 12:774994. [PMID: 34925418 PMCID: PMC8672198 DOI: 10.3389/fpls.2021.774994] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2021] [Accepted: 11/08/2021] [Indexed: 05/17/2023]
Abstract
Novel crop improvement approaches, including those that facilitate for the exploitation of crop wild relatives and underutilized species harboring the much-needed natural allelic variation are indispensable if we are to develop climate-smart crops with enhanced abiotic and biotic stress tolerance, higher nutritive value, and superior traits of agronomic importance. Top among these approaches are the "omics" technologies, including genomics, transcriptomics, proteomics, metabolomics, phenomics, and their integration, whose deployment has been vital in revealing several key genes, proteins and metabolic pathways underlying numerous traits of agronomic importance, and aiding marker-assisted breeding in major crop species. Here, citing several relevant examples, we appraise our understanding on the recent developments in omics technologies and how they are driving our quest to breed climate resilient crops. Large-scale genome resequencing, pan-genomes and genome-wide association studies are aiding the identification and analysis of species-level genome variations, whilst RNA-sequencing driven transcriptomics has provided unprecedented opportunities for conducting crop abiotic and biotic stress response studies. Meanwhile, single cell transcriptomics is slowly becoming an indispensable tool for decoding cell-specific stress responses, although several technical and experimental design challenges still need to be resolved. Additionally, the refinement of the conventional techniques and advent of modern, high-resolution proteomics technologies necessitated a gradual shift from the general descriptive studies of plant protein abundances to large scale analysis of protein-metabolite interactions. Especially, metabolomics is currently receiving special attention, owing to the role metabolites play as metabolic intermediates and close links to the phenotypic expression. Further, high throughput phenomics applications are driving the targeting of new research domains such as root system architecture analysis, and exploration of plant root-associated microbes for improved crop health and climate resilience. Overall, coupling these multi-omics technologies to modern plant breeding and genetic engineering methods ensures an all-encompassing approach to developing nutritionally-rich and climate-smart crops whose productivity can sustainably and sufficiently meet the current and future food, nutrition and energy demands.
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Affiliation(s)
- Tinashe Zenda
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
- Department of Crop Science, Faculty of Agriculture and Environmental Science, Bindura University of Science Education, Bindura, Zimbabwe
| | - Songtao Liu
- Academy of Agriculture and Forestry Sciences, Hebei North University, Zhangjiakou, China
| | - Anyi Dong
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Jiao Li
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Yafei Wang
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Xinyue Liu
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Nan Wang
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Huijun Duan
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding, China
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12
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Martínez-Salgado SJ, Andrade-Hoyos P, Parraguirre Lezama C, Rivera-Tapia A, Luna-Cruz A, Romero-Arenas O. Biological Control of Charcoal Rot in Peanut Crop through Strains of Trichoderma spp., in Puebla, Mexico. PLANTS (BASEL, SWITZERLAND) 2021; 10:2630. [PMID: 34961101 PMCID: PMC8707606 DOI: 10.3390/plants10122630] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Revised: 11/09/2021] [Accepted: 11/15/2021] [Indexed: 05/30/2023]
Abstract
Charcoal rot is an emerging disease for peanut crops caused by the fungus Macrophomina phaseolina. In Mexico, peanut crop represents an important productive activity for various rural areas; however, charcoal rot affects producers economically. The objectives of this research were: (a) to identify and morphologically characterize the strain "PUE 4.0" associated with charcoal rot of peanut crops from Buenavista de Benito Juárez, belonging to the municipality of Chietla in Puebla, Mexico; (b) determine the in vitro and in vivo antagonist activity of five Trichoderma species on M. phaseolina, and (c) determine the effect of the incidence of the disease on peanut production in the field. Vegetable tissue samples were collected from peanut crops in Puebla, Mexico with the presence of symptoms of charcoal rot at the stem and root level. The "PUE 4.0" strain presented 100% identity with M. phaseolina, the cause of charcoal rot in peanut crops from Buenavista de Benito Juárez. T. koningiopsis (T-K11) showed the highest development rate, the best growth speed, and the highest percentage of radial growth inhibition (PIRG) over M. phaseolina (71.11%) under in vitro conditions, in addition, T. koningiopsis (T-K11) showed higher production (1.60 ± 0.01 t/ha-1) and lower incidence of charcoal rot under field conditions. The lowest production with the highest incidence of the disease occurred in plants inoculated only with M. phaseolina (0.67 ± 0.01 t/ha-1) where elongated reddish-brown lesions were observed that covered 40% of the total surface of the main root.
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Affiliation(s)
- Saira Jazmín Martínez-Salgado
- Facultad de Ciencias Biológicas, Programa Biotecnología, Benemérita Universidad Autónoma de Puebla, Ciudad Universidad Autónoma de Puebla, Ciudad Universitaria, Puebla 72570, Mexico;
| | - Petra Andrade-Hoyos
- Centro de Agroecología, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Edificio VAL 1, Km 1.7 Carretera a San Baltazar Tetela, San Pedro Zacachimalpa, Puebla 72960, Mexico; (P.A.-H.); (C.P.L.)
| | - Conrado Parraguirre Lezama
- Centro de Agroecología, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Edificio VAL 1, Km 1.7 Carretera a San Baltazar Tetela, San Pedro Zacachimalpa, Puebla 72960, Mexico; (P.A.-H.); (C.P.L.)
| | - Antonio Rivera-Tapia
- Centro de Investigaciones en Ciencias Microbiológicas, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Ciudad Universitaria, Puebla 72570, Mexico;
| | - Alfonso Luna-Cruz
- Instituto de Investigaciones Químico-Biológicas, Universidad Michoacana de San Nicolas de Hidalgo, Morelia 27852, Mexico;
| | - Omar Romero-Arenas
- Centro de Agroecología, Instituto de Ciencias, Benemérita Universidad Autónoma de Puebla, Edificio VAL 1, Km 1.7 Carretera a San Baltazar Tetela, San Pedro Zacachimalpa, Puebla 72960, Mexico; (P.A.-H.); (C.P.L.)
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13
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Abady S, Shimelis H, Janila P, Yaduru S, Shayanowako AIT, Deshmukh D, Chaudhari S, Manohar SS. Assessment of the genetic diversity and population structure of groundnut germplasm collections using phenotypic traits and SNP markers: Implications for drought tolerance breeding. PLoS One 2021; 16:e0259883. [PMID: 34788339 PMCID: PMC8598071 DOI: 10.1371/journal.pone.0259883] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Accepted: 10/28/2021] [Indexed: 01/15/2023] Open
Abstract
Profiling the genetic composition and relationships among groundnut germplasm collections is essential for the breeding of new cultivars. The objectives of this study were to assess the genetic diversity and population structure among 100 improved groundnut genotypes using agronomic traits and high-density single nucleotide polymorphism (SNP) markers. The genotypes were evaluated for agronomic traits and drought tolerance at the International Crop Research Institute for the Semi-Arid Tropics (ICRISAT)/India across two seasons. Ninety-nine of the test genotypes were profiled with 16363 SNP markers. Pod yield per plant (PY), seed yield per plant (SY), and harvest index (HI) were significantly (p < 0.05) affected by genotype × environment interaction effects. Genotypes ICGV 07222, ICGV 06040, ICGV 01260, ICGV 15083, ICGV 10143, ICGV 03042, ICGV 06039, ICGV 14001, ICGV 11380, and ICGV 13200 ranked top in terms of pod yield under both drought-stressed and optimum conditions. PY exhibited a significant (p ≤ 0.05) correlation with SY, HI, and total biomass (TBM) under both test conditions. Based on the principal component (PC) analysis, PY, SY, HSW, shelling percentage (SHP), and HI were allocated in PC 1 and contributed to the maximum variability for yield under the two water regimes. Hence, selecting these traits could be successful for screening groundnut genotypes under drought-stressed and optimum conditions. The model-based population structure analysis grouped the studied genotypes into three sub-populations. Dendrogram for phenotypic and genotypic also grouped the studied 99 genotypes into three heterogeneous clusters. Analysis of molecular variance revealed that 98% of the total genetic variation was attributed to individuals, while only 2% of the total variance was due to variation among the subspecies. The genetic distance between the Spanish bunch and Virginia bunch types ranged from 0.11 to 0.52. The genotypes ICGV 13189, ICGV 95111, ICGV 14421, and ICGV 171007 were selected for further breeding based on their wide genetic divergence. Data presented in this study will guide groundnut cultivar development emphasizing economic traits and adaptation to water-limited agro-ecologies, including in Ethiopia.
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Affiliation(s)
- Seltene Abady
- African Centre for Crop Improvement (ACCI), School of Agricultural, Earth and Environmental Sciences, University of KwaZulu-Natal, Scottsville, South Africa
- School of Plant Sciences, Haramaya University, Dire Dawa, Ethiopia
| | - Hussein Shimelis
- African Centre for Crop Improvement (ACCI), School of Agricultural, Earth and Environmental Sciences, University of KwaZulu-Natal, Scottsville, South Africa
| | - Pasupuleti Janila
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Telangana, India
| | - Shasidhar Yaduru
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Telangana, India
| | - Admire I. T. Shayanowako
- African Centre for Crop Improvement (ACCI), School of Agricultural, Earth and Environmental Sciences, University of KwaZulu-Natal, Scottsville, South Africa
| | - Dnyaneshwar Deshmukh
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Telangana, India
| | - Sunil Chaudhari
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Telangana, India
| | - Surendra S. Manohar
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Telangana, India
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14
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Hinsu AT, Panchal KJ, Pandit RJ, Koringa PG, Kothari RK. Characterizing rhizosphere microbiota of peanut (Arachis hypogaea L.) from pre-sowing to post-harvest of crop under field conditions. Sci Rep 2021; 11:17457. [PMID: 34465845 PMCID: PMC8408145 DOI: 10.1038/s41598-021-97071-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Accepted: 08/10/2021] [Indexed: 01/04/2023] Open
Abstract
The rhizosphere, a narrow zone of soil near plant roots, is a hot spot for microbial activity. Rhizosphere microbiota directly or indirectly benefit plants by supplementing nutrients, producing beneficial chemicals, or suppressing pathogens. Plants attract and modulate bacteria within the rhizosphere by releasing exudates. Plants also tend to select the rhizosphere microbiota based on their needs; a phenomenon termed as “rhizosphere effect”. In this study, we characterized the rhizosphere microbiota of peanut plants across the crop development cycle from pre-sowing of seeds to post-harvest of crop under field conditions. The rhizosphere and bulk soil samples from different crop developmental stages were also compared. The composition of bulk soil microbiota resembled microbiota of pre-sowing and post-harvest soil and was markedly different from rhizosphere soil samples. Rhizosphere samples were enriched with multiple organisms mostly from the Proteobacteria, Firmicutes and Bacteroidota phyla. Differences in diversity were observed among the rhizosphere samples but not in bulk soil across different crop development stages. Pseudomonas_M indica was highly enriched during the germination of seeds. Furthermore, Plant Growth Promoting (PGP) bacteria like Bacillus were enriched during the middle stages of crop development but there was a decline in PGP organisms in the matured crop stage. We also observed a significant association of pH and Electrical Conductivity (EC) with the profiles of microbial community. Overall, this study portrayed the changes in rhizosphere microbiota of peanut during different developmental stages of crop and may help to design stage specific bio-strategies such as bio-fertilizer to improve crop yield.
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Affiliation(s)
- Ankit T Hinsu
- Department of Biosciences, Saurashtra University, Rajkot, 360005, India.,Department of Animal Biotechnology, College of Veterinary Sciences & A.H., Anand Agricultural University, Anand, 388001, India
| | - Ketankumar J Panchal
- Department of Animal Biotechnology, College of Veterinary Sciences & A.H., Anand Agricultural University, Anand, 388001, India
| | - Ramesh J Pandit
- Department of Animal Biotechnology, College of Veterinary Sciences & A.H., Anand Agricultural University, Anand, 388001, India
| | - Prakash G Koringa
- Department of Animal Biotechnology, College of Veterinary Sciences & A.H., Anand Agricultural University, Anand, 388001, India
| | - Ramesh K Kothari
- Department of Biosciences, Saurashtra University, Rajkot, 360005, India.
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15
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Semba RD, Ramsing R, Rahman N, Kraemer K, Bloem MW. Legumes as a sustainable source of protein in human diets. GLOBAL FOOD SECURITY 2021. [DOI: 10.1016/j.gfs.2021.100520] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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16
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Banla EM, Dzidzienyo DK, Diangar MM, Melomey LD, Offei SK, Tongoona P, Desmae H. Molecular and phenotypic diversity of groundnut ( Arachis hypogaea L.) cultivars in Togo. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2020; 26:1489-1504. [PMID: 32647463 PMCID: PMC7326882 DOI: 10.1007/s12298-020-00837-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2020] [Revised: 04/22/2020] [Accepted: 06/07/2020] [Indexed: 06/11/2023]
Abstract
Diversity assessment of 94 groundnut accessions from Togo and Senegal, using agro-morphological and SNP markers, revealed high variability for many quantitative traits such as late leaf spot (LLS) incidence, number of pods per plant and yield per plant. For qualitative traits, the Simpson Index showed high diversity for primary seed colour (0.75), stem pigmentation (0.60), and Growth habit (0.59). Principal component analysis underscored quantitative traits such as hundred seed weight, days to maturity, and LLS incidence, as the main traits contributing to the divergence. Correlation and path coefficient analysis showed that the number of pods per plant was the main yield-related trait positively affecting yield (r = 0.95, PC = 0.84; p = 0.01). Overall, 990 SNP markers revealed moderate genetic variability in the genotypes and the percentage of heterozygous genotypes varied from 0 to 50% for all loci. Analysis of molecular variance revealed that only 1.1% of the total molecular variance accounted for geographical contribution to the diversity. Co-analysis of phenotypic and SNP data delineated three clusters harbouring useful alleles and interesting phenotypic features such as LLS resistance, large number of pods per plant and early maturity indicating that differences observed at the phenotypic level are underlined by genotypic differences. The phenotypic and genotypic diversity observed could be exploited for the identification of parents with preferred traits for use in the breeding program. However, the low population structure highlights the necessity to improve groundnut diversity in Togo through introduction from various sources.
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Affiliation(s)
- Essohouna Modom Banla
- Institut Togolais de Recherche Agronomique (ITRA), Lomé, Togo
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
- International Crops Research Institute for the Semi-Arid Tropic (ICRISAT-WCA), BP320, Bamako, Mali
| | - Daniel Kwadjo Dzidzienyo
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Mouhamadou Moussa Diangar
- Institut Sénégalais de Recherches Agricoles (ISRA), ISRA CNRA de Bambey, ISRA/Center of Excellence of CERAAS), BP53, Diourbel, Senegal
| | - Leander Dede Melomey
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Samuel Kwame Offei
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Pangirayi Tongoona
- West Africa Centre for Crop Improvement (WACCI), University of Ghana (UG), PMB 30, Legon, Accra, Ghana
| | - Haile Desmae
- International Crops Research Institute for the Semi-Arid Tropic (ICRISAT-WCA), BP320, Bamako, Mali
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Ncube J, Maphosa M. Current state of knowledge on groundnut aflatoxins and their management from a plant breeding perspective: Lessons for Africa. SCIENTIFIC AFRICAN 2020. [DOI: 10.1016/j.sciaf.2020.e00264] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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18
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Ojiewo CO, Janila P, Bhatnagar-Mathur P, Pandey MK, Desmae H, Okori P, Mwololo J, Ajeigbe H, Njuguna-Mungai E, Muricho G, Akpo E, Gichohi-Wainaina WN, Variath MT, Radhakrishnan T, Dobariya KL, Bera SK, Rathnakumar AL, Manivannan N, Vasanthi RP, Kumar MVN, Varshney RK. Advances in Crop Improvement and Delivery Research for Nutritional Quality and Health Benefits of Groundnut ( Arachis hypogaea L.). FRONTIERS IN PLANT SCIENCE 2020; 11:29. [PMID: 32153601 PMCID: PMC7046547 DOI: 10.3389/fpls.2020.00029] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2019] [Accepted: 01/13/2020] [Indexed: 05/28/2023]
Abstract
Groundnut is an important global food and oil crop that underpins agriculture-dependent livelihood strategies meeting food, nutrition, and income security. Aflatoxins, pose a major challenge to increased competitiveness of groundnut limiting access to lucrative markets and affecting populations that consume it. Other drivers of low competitiveness include allergens and limited shelf life occasioned by low oleic acid profile in the oil. Thus grain off-takers such as consumers, domestic, and export markets as well as processors need solutions to increase profitability of the grain. There are some technological solutions to these challenges and this review paper highlights advances in crop improvement to enhance groundnut grain quality and nutrient profile for food, nutrition, and economic benefits. Significant advances have been made in setting the stage for marker-assisted allele pyramiding for different aflatoxin resistance mechanisms-in vitro seed colonization, pre-harvest aflatoxin contamination, and aflatoxin production-which, together with pre- and post-harvest management practices, will go a long way in mitigating the aflatoxin menace. A breakthrough in aflatoxin control is in sight with overexpression of antifungal plant defensins, and through host-induced gene silencing in the aflatoxin biosynthetic pathway. Similarly, genomic and biochemical approaches to allergen control are in good progress, with the identification of homologs of the allergen encoding genes and development of monoclonal antibody based ELISA protocol to screen for and quantify major allergens. Double mutation of the allotetraploid homeologous genes, FAD2A and FAD2B, has shown potential for achieving >75% oleic acid as demonstrated among introgression lines. Significant advances have been made in seed systems research to bridge the gap between trait discovery, deployment, and delivery through innovative partnerships and action learning.
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Affiliation(s)
- Chris O. Ojiewo
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya
| | - Pasupuleti Janila
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
| | - Pooja Bhatnagar-Mathur
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
| | - Manish K. Pandey
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
| | - Haile Desmae
- Research Program – West and Central Africa, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Bamako, Mali
| | - Patrick Okori
- Research Program – Eastern and Southern Africa, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Lilongwe, Malawi
| | - James Mwololo
- Research Program – Eastern and Southern Africa, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Lilongwe, Malawi
| | - Hakeem Ajeigbe
- Research Program – West and Central Africa, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Kano, Nigeria
| | - Esther Njuguna-Mungai
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya
| | - Geoffrey Muricho
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya
| | - Essegbemon Akpo
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya
| | - Wanjiku N. Gichohi-Wainaina
- Research Program – Eastern and Southern Africa, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Lilongwe, Malawi
| | - Murali T. Variath
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
| | - Thankappan Radhakrishnan
- Indian Council of Agricultural Research - Directorate of Groundnut Research (ICAR-DGR), Junagadh, India
| | - Kantilal L. Dobariya
- Main Oilseeds Research Station, Junagadh Agricultural University (JAU), Junagadh, India
| | - Sandip Kumar Bera
- Indian Council of Agricultural Research - Directorate of Groundnut Research (ICAR-DGR), Junagadh, India
| | | | - Narayana Manivannan
- National Pulses Research Center, Tamil Nadu Agricultural University (TNAU), Pudukkottai, India
| | - Ragur Pandu Vasanthi
- Regional Agricultural Research Station, Acharya NG Ranga Agricultural University (ANGRAU), Tirupati, India
| | - Mallela Venkata Nagesh Kumar
- Department of Genetics and Plant Breeding, Professor Jayashankar Telangana State Agricultural University (PJTSAU), Hyderabad, India
| | - Rajeev K. Varshney
- Research Program – Genetic Gains, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
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Varshney RK, Ojiewo C, Monyo E. A decade of Tropical Legumes projects: Development and adoption of improved varieties, creation of market-demand to benefit smallholder farmers and empowerment of national programmes in sub-Saharan Africa and South Asia. PLANT BREEDING = ZEITSCHRIFT FUR PFLANZENZUCHTUNG 2019; 138:379-388. [PMID: 31762525 PMCID: PMC6853253 DOI: 10.1111/pbr.12744] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2019] [Revised: 07/01/2019] [Accepted: 07/02/2019] [Indexed: 05/17/2023]
Abstract
This article highlights 12 years (2007-2019) of research, achievements, lessons learned, challenges and gaps in discovery-to-delivery research in legumes emanating from three projects, collectively called Tropical Legumes (TL) with a total investment of about US$ 67 million funded by the Bill & Melinda Gates Foundation. These projects were implemented by three CGIAR centres (ICRISAT, CIAT and IITA) together with 15 national agricultural research system partners in sub-Saharan Africa and South Asia. The TL projects together with some of their precursors and complementary projects from other agencies, facilitated the development of 266 improved legume varieties and the production of about 497,901 tons of certified seeds of the target legume crops in the focus countries. The certified seeds have been planted on about 5.0 million ha by more than 25 million smallholder farmers in the 15 countries and beyond, producing about 6.1 million tons of grain worth US$ 3.2 billion. Furthermore, the projects also trained 52 next generation scientists that included 10 women, by supporting 34 Masters degrees and 18 PhD degrees.
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Affiliation(s)
- Rajeev K. Varshney
- International Crops Research Institute for the Semi‐Arid Tropics (ICRISAT)PatancheruIndia
| | - Chris Ojiewo
- International Crops Research Institute for the Semi‐Arid Tropics (ICRISAT)NairobiKenya
| | - Emmanuel Monyo
- International Crops Research Institute for the Semi‐Arid Tropics (ICRISAT)NairobiKenya
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