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Ongom PO, Fatokun C, Togola A, Dieng I, Salvo S, Gardunia B, Mohammed SB, Boukar O. Genetic progress in cowpea [Vigna unguiculata (L.) Walp.] stemming from breeding modernization efforts at the International Institute of Tropical Agriculture. Plant Genome 2024:e20462. [PMID: 38778513 DOI: 10.1002/tpg2.20462] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Revised: 03/26/2024] [Accepted: 04/06/2024] [Indexed: 05/25/2024]
Abstract
Genetic gain has been proposed as a quantifiable key performance indicator that can be used to monitor breeding programs' effectiveness. The cowpea breeding program at the International Institute of Tropical Agriculture (IITA) has developed and released improved varieties in 70 countries globally. To quantify the genetic changes to grain yield and related traits, we exploited IITA cowpea historical multi-environment trials (METs) advanced yield trial (AYT) data from 2010 to 2022. The genetic gain assessment targeted short duration (SD), medium duration (MD), and late duration (LD) breeding pipelines. A linear mixed model was used to calculate the best linear unbiased estimates (BLUE). Regressed BLUE of grain yield by year of genotype origin depicted realized genetic gain of 22.75 kg/ha/year (2.65%), 7.91 kg/ha/year (0.85%), and 22.82 kg/ha/year (2.51%) for SD, MD, and LD, respectively. No significant gain was realized in 100-seed weight (Hsdwt). We predicted, based on 2022 MET data, that recycling the best genotypes at AYT stage would result in grain yield gain of 37.28 kg/ha/year (SD), 28.00 kg/ha/year (MD), and 34.85 kg/ha/year (LD), and Hsdwt gain of 0.48 g/year (SD), 0.68 g/year (MD), and 0.55 g/year (LD). These results demonstrated a positive genetic gain trend for cowpea, indicating that a yield plateau has not yet been reached and that accelerated gain is expected with the recent integration of genomics in the breeding program. Advances in genomics include the development of the reference genome, genotyping platforms, quantitative trait loci mapping of key traits, and active implementation of molecular breeding.
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Affiliation(s)
| | - Christian Fatokun
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Abou Togola
- International Maize and Wheat Improvement Center (CIMMYT), Nairobi, Kenya
| | - Ibnou Dieng
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | | | | | - Ousmane Boukar
- International Institute of Tropical Agriculture (IITA), Kano, Nigeria
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Menkir A, Dieng I, Gedil M, Mengesha W, Oyekunle M, Riberio PF, Adu GB, Yacoubou AM, Coulibaly M, Bankole FA, Derera J, Bossey B, Unachukwu N, Ilesanmi Y, Meseka S. Approaches and progress in breeding drought-tolerant maize hybrids for tropical lowlands in west and central Africa. Plant Genome 2024:e20437. [PMID: 38379199 DOI: 10.1002/tpg2.20437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Revised: 12/12/2023] [Accepted: 01/18/2024] [Indexed: 02/22/2024]
Abstract
Drought represents a significant production challenge to maize farmers in West and Central Africa, causing substantial economic losses. Breeders at the International Institute of Tropical Agriculture have therefore been developing drought-tolerant maize varieties to attain high grain yields in rainfed maize production zones. The present review provides a historical overview of the approaches used and progress made in developing drought-tolerant hybrids over the years. Breeders made a shift from a wide area testing approach, to the use of managed screening sites, to precisely control the intensity, and timing of drought stress for developing drought-tolerant maize varieties. These sites coupled with the use of molecular markers allowed choosing suitable donors with drought-adaptive alleles for integration into existing elite maize lines to generate new drought-tolerant inbred lines. These elite maize inbred lines have then been used to develop hybrids with enhanced tolerance to drought. Genetic gains estimates were made using performance data of drought-tolerant maize hybrids evaluated in regional trials for 11 years under managed drought stress, well-watered conditions, and across diverse rainfed environments. The results found significant linear annual yield gains of 32.72 kg ha-1 under managed drought stress, 38.29 kg ha-1 under well-watered conditions, and 66.57 kg ha-1 across multiple rainfed field environments. Promising hybrids that deliver high grain yields were also identified for areas affected by drought and variable rainfed growing conditions. The significant genetic correlations found among the three growing conditions highlight the potential to exploit the available genetic resources and modern tools to further enhance tolerance to drought in hybrids.
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Affiliation(s)
- Abebe Menkir
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Ibnou Dieng
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Melaku Gedil
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Wende Mengesha
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Muhyideen Oyekunle
- Institute for Agricultural Research/Ahmadu Bello University, Zaria, Nigeria
| | | | | | | | | | | | - John Derera
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Bunmi Bossey
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Nnanna Unachukwu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Yinka Ilesanmi
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Silvestro Meseka
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
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Mboup M, Aduramigba-Modupe A, Maazou ARS, Olasanmi B, Mengesha W, Meseka S, Dieng I, Bandyopadhyay R, Menkir A, Ortega-Beltran A. Performance of testers with contrasting provitamin A content to evaluate provitamin A maize for resistance to Aspergillus flavus infection and aflatoxin production. Front Plant Sci 2023; 14:1167628. [PMID: 37235022 PMCID: PMC10206313 DOI: 10.3389/fpls.2023.1167628] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 04/13/2023] [Indexed: 05/28/2023]
Abstract
In sub-Saharan Africa (SSA), millions of people depend on maize as a primary staple. However, maize consumers in SSA may be exposed to malnutrition due to vitamin A deficiency (VAD) and unsafe aflatoxin levels, which can lead to serious economic and public health problems. Provitamin A (PVA) biofortified maize has been developed to alleviate VAD and may have additional benefits such as reduced aflatoxin contamination. In this study, maize inbred testers with contrasting PVA content in grain were used to identify inbred lines with desirable combining ability for breeding to enhance their level of resistance to aflatoxin. Kernels of 120 PVA hybrids generated by crossing 60 PVA inbreds with varying levels of PVA (5.4 to 51.7 µg/g) and two testers (low and high PVA, 14.4 and 25.0 µg/g, respectively) were inoculated with a highly toxigenic strain of Aspergillus flavus. Aflatoxin had a negative genetic correlation with β-carotene (r = -0.29, p < 0.0001) and PVA (r = -0.23, p < 0.0001), indicating that hybrids with high PVA content accumulated less aflatoxin than those with low to medium PVA. Both general combining ability (GCA) and specific combining ability (SCA) effects of lines and testers were significant for aflatoxin accumulation, number of spores, PVA, and other carotenoids, with additive gene actions playing a prominent role in regulating the mode of inheritance (GCA/SCA ratio >0.5). Eight inbreds had combined significant negative GCA effects for aflatoxin accumulation and spore count with significant positive GCA effects for PVA. Five testcrosses had combined significant negative SCA effects for aflatoxin with significant positive SCA effects for PVA. The high PVA tester had significant negative GCA effects for aflatoxin, lutein, β-carotene, and PVA. The study identified lines that can be used as parents to develop superior hybrids with high PVA and reduced aflatoxin accumulation. Overall, the results point out the importance of testers in maize breeding programs to develop materials that can contribute to controlling aflatoxin contamination and reducing VAD.
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Affiliation(s)
- M. Mboup
- Pan African University Life and Earth Sciences Institute (including Health and Agriculture), University of Ibadan, Ibadan, Nigeria
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - A.O. Aduramigba-Modupe
- Department of Crop Protection and Environmental Biology, Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - A.-R. S. Maazou
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - B. Olasanmi
- Department of Crop and Horticultural Sciences, Faculty of Agriculture, University of Ibadan, Ibadan, Nigeria
| | - W. Mengesha
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - S. Meseka
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - I. Dieng
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - R. Bandyopadhyay
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - A. Menkir
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - A. Ortega-Beltran
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
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Menkir A, Dieng I, Meseka S, Bossey B, Mengesha W, Muhyideen O, Riberio PF, Coulibaly M, Yacoubou AM, Bankole FA, Adu GB, Ojo T. Estimating genetic gains for tolerance to stress combinations in tropical maize hybrids. Front Genet 2022; 13:1023318. [PMID: 36568398 PMCID: PMC9779929 DOI: 10.3389/fgene.2022.1023318] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Accepted: 11/17/2022] [Indexed: 12/13/2022] Open
Abstract
Maize is a strategic food crop in sub-Saharan Africa. However, most maize growing tropical savannas particularly in West and Central African experience the occurrence of frequent droughts and Striga infestation, resulting in 30-100% yield losses. This production zones need maize cultivars that combine tolerance to the two stresses. IITA in collaboration with national partners has thus employed a sequential selection scheme to incorporate both drought tolerance and Striga resistance in topical maize hybrids using reliable screening protocols. The main objective of the present study was therefore to use grain yield and other agronomic traits recorded in regional collaborative hybrid trials conducted for 8 years under manged stressful and non-stressful conditions and across rainfed field environments to estimate genetic gains in grain yields using mixed model analyses. The results showed significant (p < 0.05) annual yield gains of 11.89 kg ha-1 under manged drought stress (MDS) and 86.60 kg ha-1 under Striga infestation (STRIN) with concomitant yield increases of 62.65 kg ha-1 under full irrigation (WW), 102.44 kg ha-1 under Striga non-infested (STRNO) conditions and 53.11 kg ha-1 across rainfed field environments. Grain yield displayed significant but not strong genetic correlation of 0.41 ± 0.07 between MDS and STRIN, indicating that gene expression was not consistent across the two stress conditions. Furthermore, grain yield recorded in MET had significant moderate genetic correlations of 0.58 ± 0.06 and 0.44 ± 0.07It with MDS and STRIN, respectively. These results emphasize the need to screen inbred linens under both stress conditions to further enhance the rate of genetic gain in grain yield in hybrids for areas where the two stresses co-occur. Nonetheless, this study demonstrated that the sequential selection scheme has been successful in generating hybrids with dependable yields that can reduce chronic food deficits in rural communities experiencing simultaneous presence of drought and S. hermonthica infestation in their production fields.
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Affiliation(s)
- Abebe Menkir
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria,*Correspondence: Abebe Menkir,
| | - Ibnou Dieng
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Silvestro Meseka
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Bunmi Bossey
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Wende Mengesha
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Oyekunle Muhyideen
- Institute for Agricultural Research, Ahmadu Bello University, Zaria, Nigeria
| | | | | | | | | | | | - Tayo Ojo
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
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Ige AD, Olasanmi B, Bauchet GJ, Kayondo IS, Mbanjo EGN, Uwugiaren R, Motomura-Wages S, Norton J, Egesi C, Parkes EY, Kulakow P, Ceballos H, Dieng I, Rabbi IY. Validation of KASP-SNP markers in cassava germplasm for marker-assisted selection of increased carotenoid content and dry matter content. Front Plant Sci 2022; 13:1016170. [PMID: 36311140 PMCID: PMC9597466 DOI: 10.3389/fpls.2022.1016170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/10/2022] [Accepted: 09/15/2022] [Indexed: 06/16/2023]
Abstract
Provitamin A biofortification and increased dry matter content are important breeding targets in cassava improvement programs worldwide. Biofortified varieties contribute to the alleviation of provitamin A deficiency, a leading cause of preventable blindness common among pre-school children and pregnant women in developing countries particularly Africa. Dry matter content is a major component of dry yield and thus underlies overall variety performance and acceptability by growers, processors, and consumers. Single nucleotide polymorphism (SNP) markers linked to these traits have recently been discovered through several genome-wide association studies but have not been deployed for routine marker-assisted selection (MAS). This is due to the lack of useful information on markers' performances in diverse genetic backgrounds. To overcome this bottleneck, technical and biological validation of the loci associated with increased carotenoid content and dry matter content were carried out using populations independent of the marker discovery population. In the present study, seven previously identified markers for these traits were converted to a robust set of uniplex allele-specific polymerase chain reaction (PCR) assays and validated in two independent pre-breeding and breeding populations. These assays were efficient in discriminating marker genotypic classes and had an average call rate greater than 98%. A high correlation was observed between the predicted and observed carotenoid content as inferred by root yellowness intensity in the breeding (r = 0.92) and pre-breeding (r = 0.95) populations. On the other hand, dry matter content-markers had moderately low predictive accuracy in both populations (r< 0.40) due to the more quantitative nature of the trait. This work confirmed the markers' effectiveness in multiple backgrounds, therefore, further strengthening their value in cassava biofortification to ensure nutritional security as well as dry matter content productivity. Our study provides a framework to guide future marker validation, thus leading to the more routine use of markers in MAS in cassava improvement programs.
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Affiliation(s)
- Adenike D. Ige
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
- Pan African University Life and Earth Sciences Institute (including Health and Agriculture), University of Ibadan, Ibadan, Nigeria
| | - Bunmi Olasanmi
- Department of Crop and Horticultural Sciences, University of Ibadan, Ibadan, Nigeria
| | | | - Ismail S. Kayondo
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | | | - Ruth Uwugiaren
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
- Molecular Plant Sciences program, Washington State University, Pullman, WA, United States
| | - Sharon Motomura-Wages
- College of Tropical Agriculture and Human Resources, University of Hawaii at Manoa, Hilo, HI, United States
| | - Joanna Norton
- College of Tropical Agriculture and Human Resources, University of Hawaii at Manoa, Hilo, HI, United States
| | - Chiedozie Egesi
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
- Cornell University, Ithaca, NY, United States
| | - Elizabeth Y. Parkes
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | - Peter Kulakow
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | - Hernán Ceballos
- The Alliance of Bioversity International and the International Center for Tropical Agriculture (CIAT), Cali, Colombia
| | - Ibnou Dieng
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | - Ismail Y. Rabbi
- International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
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Menkir A, Dieng I, Mengesha W, Meseka S, Maziya-Dixon B, Alamu OE, Bossey B, Muhyideen O, Ewool M, Coulibaly MM. Unravelling the Effect of Provitamin A Enrichment on Agronomic Performance of Tropical Maize Hybrids. Plants (Basel) 2021; 10:plants10081580. [PMID: 34451625 PMCID: PMC8398423 DOI: 10.3390/plants10081580] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 06/28/2021] [Accepted: 07/29/2021] [Indexed: 01/15/2023]
Abstract
Maize is consumed in different traditional diets as a source of macro- and micro-nutrients across Africa. Significant investment has thus been made to develop maize with high provitamin A content to complement other interventions for alleviating vitamin A deficiencies. The current breeding focus on increasing β-carotene levels to develop biofortified maize may affect the synthesis of other beneficial carotenoids. The changes in carotenoid profiles, which are commonly affected by environmental factors, may also lead to a trade-off with agronomic performance. The present study was therefore conducted to evaluate provitamin A biofortified maize hybrids across diverse field environments. The results showed that the difference in accumulating provitamin A and other beneficial carotenoids across variable growing environments was mainly regulated by the genetic backgrounds of the hybrids. Many hybrids, accumulating more than 10 µg/g of provitamin A, produced higher grain yields (>3600 kg/ha) than the orange commercial maize hybrid (3051 kg/ha). These hybrids were also competitive, compared to the orange commercial maize hybrid, in accumulating lutein and zeaxanthins. Our study showed that breeding for enhanced provitamin A content had no adverse effect on grain yield in the biofortified hybrids evaluated in the regional trials. Furthermore, the results highlighted the possibility of developing broadly adapted hybrids containing high levels of beneficial carotenoids for commercialization in areas with variable maize growing conditions in Africa.
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Affiliation(s)
- Abebe Menkir
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
- Correspondence:
| | - Ibnou Dieng
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Wende Mengesha
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Silvestro Meseka
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Bussie Maziya-Dixon
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Oladeji Emmanuel Alamu
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Bunmi Bossey
- International Institute of Tropical Agriculture, Oyo Road, Ibadan PMP 5320, Nigeria; (I.D.); (W.M.); (S.M.); (B.M.-D.); (O.E.A.); (B.B.)
| | - Oyekunle Muhyideen
- Institute for Agricultural Research, Ahmadu Bello University, Zaria PMB 1044, Nigeria;
| | - Manfred Ewool
- Crop Research Institute, Kumasi P.O. Box 3789, Ghana;
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Arnaud E, Laporte MA, Kim S, Aubert C, Leonelli S, Miro B, Cooper L, Jaiswal P, Kruseman G, Shrestha R, Buttigieg PL, Mungall CJ, Pietragalla J, Agbona A, Muliro J, Detras J, Hualla V, Rathore A, Das RR, Dieng I, Bauchet G, Menda N, Pommier C, Shaw F, Lyon D, Mwanzia L, Juarez H, Bonaiuti E, Chiputwa B, Obileye O, Auzoux S, Yeumo ED, Mueller LA, Silverstein K, Lafargue A, Antezana E, Devare M, King B. The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems. Patterns (N Y) 2020; 1:100105. [PMID: 33205138 PMCID: PMC7660444 DOI: 10.1016/j.patter.2020.100105] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/06/2020] [Revised: 05/28/2020] [Accepted: 08/24/2020] [Indexed: 12/15/2022]
Abstract
Heterogeneous and multidisciplinary data generated by research on sustainable global agriculture and agrifood systems requires quality data labeling or annotation in order to be interoperable. As recommended by the FAIR principles, data, labels, and metadata must use controlled vocabularies and ontologies that are popular in the knowledge domain and commonly used by the community. Despite the existence of robust ontologies in the Life Sciences, there is currently no comprehensive full set of ontologies recommended for data annotation across agricultural research disciplines. In this paper, we discuss the added value of the Ontologies Community of Practice (CoP) of the CGIAR Platform for Big Data in Agriculture for harnessing relevant expertise in ontology development and identifying innovative solutions that support quality data annotation. The Ontologies CoP stimulates knowledge sharing among stakeholders, such as researchers, data managers, domain experts, experts in ontology design, and platform development teams.
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Affiliation(s)
- Elizabeth Arnaud
- Digital Solutions Team, Digital Inclusion Lever, Bioversity International, Montpellier Office, Montpellier, France
| | - Marie-Angélique Laporte
- Digital Solutions Team, Digital Inclusion Lever, Bioversity International, Montpellier Office, Montpellier, France
| | - Soonho Kim
- Markets, Trade and Institutions Division (MTID), International Food Policy Research Institute (IFPRI), Washington, DC, USA
| | - Céline Aubert
- Environment and Production Technology Division (EPTD), International Food Policy Research Institute (IFPRI), Washington, DC, USA
| | - Sabina Leonelli
- Department of Sociology, Philosophy and Anthropology & Exeter Centre for the Study of the Life Sciences (Egenis), University of Exeter, Exeter, UK
| | - Berta Miro
- Agrifood Policy Platform, International Rice Research Institute (IRRI), Los Baños, Laguna, Philippines
| | - Laurel Cooper
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA
| | - Pankaj Jaiswal
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA
| | - Gideon Kruseman
- Socio-Economics Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, State of México, Mexico
| | - Rosemary Shrestha
- Genetic Resources Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, State of México, México
| | - Pier Luigi Buttigieg
- Helmholtz Metadata Collaboration, GEOMAR Helmholtz Centre for Ocean Research, Kiel, Germany
| | - Christopher J. Mungall
- Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | | | - Afolabi Agbona
- Cassava Breeding Program, International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Jeffrey Detras
- Bioinformatics Cluster, Strategic Innovation Platform, International Rice Research Institute (IRRI), Los Baños, Laguna, Philippines
| | - Vilma Hualla
- Research Informatics Unit (RIU), International Potato Center (CIP), Lima, Peru
| | - Abhishek Rathore
- Statistics, Bioinformatics & Data Management (SBDM) Theme, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, Telangana, India
| | - Roma Rani Das
- Statistics, Bioinformatics & Data Management (SBDM) Theme, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, Telangana, India
| | - Ibnou Dieng
- Biometrics Unit, International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | - Guillaume Bauchet
- Mueller Bioinformatics Laboratory, Boyce Thompson Institute for Plant Research, Ithaca, NY, USA
| | - Naama Menda
- Mueller Bioinformatics Laboratory, Boyce Thompson Institute for Plant Research, Ithaca, NY, USA
| | - Cyril Pommier
- BioinfOmics, Plant Bioinformatics Facility, Université Paris-Saclay, Institut National de la Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Versailles, France
| | - Felix Shaw
- Digital Biology, Earlham Institute, Norwich, Norfolk, UK
| | - David Lyon
- Mueller Bioinformatics Laboratory, Boyce Thompson Institute for Plant Research, Ithaca, NY, USA
| | - Leroy Mwanzia
- Performance, Innovation and Strategic Analysis, International Center for Tropical Agriculture (CIAT), Regional Office for Africa, Nairobi, Kenya
| | - Henry Juarez
- Research Informatics Unit (RIU), International Potato Center (CIP), Lima, Peru
| | - Enrico Bonaiuti
- Monitoring, Evaluation and Learning Team, International Center for Agricultural Research in the Dry Areas (ICARDA), Beirut, Lebanon
| | - Brian Chiputwa
- Research Methods Group (RMG), World Agroforestry (ICRAF), Nairobi, Kenya
| | - Olatunbosun Obileye
- Data Management Section, International Institute of Tropical Agriculture (IITA), Ibadan, Oyo State, Nigeria
| | - Sandrine Auzoux
- UPR AIDA, The French Agricultural Research Centre for International Development (CIRAD), Sainte-Clotilde, Réunion, France
- Université de Montpellier, Montpellier, France
| | - Esther Dzalé Yeumo
- Unité Délégation à l’Information Scientifique et Technique - DIST, Institut National de la Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Versailles, France
| | - Lukas A. Mueller
- Mueller Bioinformatics Laboratory, Boyce Thompson Institute for Plant Research, Ithaca, NY, USA
| | | | | | - Erick Antezana
- Bayer Crop Science SA-NV, Diegem, Belgium
- Department of Biology, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Medha Devare
- Environment and Production Technology Division (EPTD), International Food Policy Research Institute (IFPRI), Washington, DC, USA
| | - Brian King
- CGIAR Platform for Big Data in Agriculture, International Center for Tropical Agriculture (CIAT), Cali, Colombia
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8
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Rodenburg J, Johnson JM, Dieng I, Senthilkumar K, Vandamme E, Akakpo C, Allarangaye MD, Baggie I, Bakare SO, Bam RK, Bassoro I, Abera BB, Cisse M, Dogbe W, Gbakatchétché H, Jaiteh F, Kajiru GJ, Kalisa A, Kamissoko N, Sékou K, Kokou A, Mapiemfu-Lamare D, Lunze FM, Mghase J, Mossi Maïga I, Nanfumba D, Niang A, Rabeson R, Segda Z, Silas Sillo F, Tanaka A, Saito K. Status quo of chemical weed control in rice in sub-Saharan Africa. Food Secur 2019. [DOI: 10.1007/s12571-018-0878-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Graham‐Acquaah S, Saito K, Traore K, Dieng I, Alognon A, Bah S, Sow A, Manful JT. Variations in agronomic and grain quality traits of rice grown under irrigated lowland conditions in West Africa. Food Sci Nutr 2018; 6:970-982. [PMID: 29983960 PMCID: PMC6021719 DOI: 10.1002/fsn3.635] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Revised: 02/11/2018] [Accepted: 02/15/2018] [Indexed: 11/09/2022] Open
Abstract
Rice breeding in West Africa has been largely skewed toward yield enhancement and stress tolerance. This has led to the variable grain quality of locally produced rice in the region. This study sought to assess variations in the agronomic and grain quality traits of some rice varieties grown in this region, with a view to identifying sources of high grain yield and quality that could serve as potential donors in their breeding programs. Forty-five varieties were grown under irrigated conditions in Benin and Senegal with two trials in each country. There were wide variations in agronomic and grain quality traits among the varieties across the trials. Cluster analysis using paddy yield, head rice yield, and chalkiness revealed that 68% of the total variation could be explained by five varietal groupings. One group comprising seven varieties (Afrihikari, BG90-2, IR64, Sahel 108, WAT311-WAS-B-B-23-7-1, WAT339-TGR-5-2, and WITA 10) had high head rice yield and low chalkiness. Of the varieties in this group, Sahel 108 had the highest paddy yield in three of the four trials. IR64 and Afrihikari had intermediate and low amylose content, respectively, with the rest being high-amylose varieties. Another group of varieties consisting of B6144F-MR-6-0-0, C74, IR31851-96-2-3-2-1, ITA222, Jaya, Sahel 305, WITA 1, and WITA 2 had high paddy yield but poor head rice yield and chalkiness. The use of materials from these two groups of varieties could accelerate breeding for high yielding rice varieties with better grain quality for local production in West Africa.
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Affiliation(s)
- Seth Graham‐Acquaah
- Africa Rice Center (AfricaRice)CotonouBenin
- Present address:
Department of Food ScienceUniversity of ArkansasFayettevilleARUSA
| | - Kazuki Saito
- Africa Rice Center (AfricaRice)BouakéCôte d'Ivoire
| | - Karim Traore
- Africa Rice Center (AfricaRice)Saint‐LouisSenegal
| | - Ibnou Dieng
- Africa Rice Center (AfricaRice)BouakéCôte d'Ivoire
| | | | - Saidu Bah
- Africa Rice Center (AfricaRice)BouakéCôte d'Ivoire
| | | | - John T. Manful
- Africa Rice Center (AfricaRice)BouakéCôte d'Ivoire
- Present address:
Ministry of Food and AgricultureAccraGhana
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Rodenburg J, Cissoko M, Kayongo N, Dieng I, Bisikwa J, Irakiza R, Masoka I, Midega CAO, Scholes JD. Genetic variation and host-parasite specificity of Striga resistance and tolerance in rice: the need for predictive breeding. New Phytol 2017; 214:1267-1280. [PMID: 28191641 PMCID: PMC5412873 DOI: 10.1111/nph.14451] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Accepted: 12/15/2016] [Indexed: 05/04/2023]
Abstract
The parasitic weeds Striga asiatica and Striga hermonthica cause devastating yield losses to upland rice in Africa. Little is known about genetic variation in host resistance and tolerance across rice genotypes, in relation to virulence differences across Striga species and ecotypes. Diverse rice genotypes were phenotyped for the above traits in S. asiatica- (Tanzania) and S. hermonthica-infested fields (Kenya and Uganda) and under controlled conditions. New rice genotypes with either ecotype-specific or broad-spectrum resistance were identified. Resistance identified in the field was confirmed under controlled conditions, providing evidence that resistance was largely genetically determined. Striga-resistant genotypes contributed to yield security under Striga-infested conditions, although grain yield was also determined by the genotype-specific yield potential and tolerance. Tolerance, the physiological mechanism mitigating Striga effects on host growth and physiology, was unrelated to resistance, implying that any combination of high, medium or low levels of these traits can be found across rice genotypes. Striga virulence varies across species and ecotypes. The extent of Striga-induced host damage results from the interaction between parasite virulence and genetically determined levels of host-plant resistance and tolerance. These novel findings support the need for predictive breeding strategies based on knowledge of host resistance and parasite virulence.
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Affiliation(s)
- Jonne Rodenburg
- Africa Rice Center (AfricaRice)01 BP 4029Abidjan 01Côte d'Ivoire
| | - Mamadou Cissoko
- Africa Rice Center (AfricaRice)East and Southern AfricaPO Box 33581Dar es SalaamTanzania
- Department of Animal and Plant SciencesUniversity of SheffieldSheffieldS10 2TNUK
| | - Nicholas Kayongo
- School of Agricultural SciencesMakerere UniversityPO Box 7062KampalaUganda
| | - Ibnou Dieng
- Africa Rice Center (AfricaRice)01 BP 2551Bouaké 01Côte d'Ivoire
| | - Jenipher Bisikwa
- School of Agricultural SciencesMakerere UniversityPO Box 7062KampalaUganda
| | - Runyambo Irakiza
- Africa Rice Center (AfricaRice)East and Southern AfricaPO Box 33581Dar es SalaamTanzania
| | - Isaac Masoka
- Department of Plant SciencesKenyatta UniversityPO Box 43844‐00100NairobiKenya
| | - Charles A. O. Midega
- International Centre of Insect Physiology and Ecology (ICIPE)PO Box 30Mbita40305Kenya
| | - Julie D. Scholes
- Department of Animal and Plant SciencesUniversity of SheffieldSheffieldS10 2TNUK
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van Oort P, Saito K, Dieng I, Grassini P, Cassman K, van Ittersum M. Can yield gap analysis be used to inform R&D prioritisation? Global Food Security 2017. [DOI: 10.1016/j.gfs.2016.09.005] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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12
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Vandamme E, Wissuwa M, Rose T, Dieng I, Drame KN, Fofana M, Senthilkumar K, Venuprasad R, Jallow D, Segda Z, Suriyagoda L, Sirisena D, Kato Y, Saito K. Genotypic Variation in Grain P Loading across Diverse Rice Growing Environments and Implications for Field P Balances. Front Plant Sci 2016; 7:1435. [PMID: 27729916 PMCID: PMC5037189 DOI: 10.3389/fpls.2016.01435] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2016] [Accepted: 09/08/2016] [Indexed: 05/08/2023]
Abstract
More than 60% of phosphorus (P) taken up by rice (Oryza spp.) is accumulated in the grains at harvest and hence exported from fields, leading to a continuous removal of P. If P removed from fields is not replaced by P inputs then soil P stocks decline, with consequences for subsequent crops. Breeding rice genotypes with a low concentration of P in the grains could be a strategy to reduce maintenance fertilizer needs and slow soil P depletion in low input systems. This study aimed to assess variation in grain P concentrations among rice genotypes across diverse environments and evaluate the implications for field P balances at various grain yield levels. Multi-location screening experiments were conducted at different sites across Africa and Asia and yield components and grain P concentrations were determined at harvest. Genotypic variation in grain P concentration was evaluated while considering differences in P supply and grain yield using cluster analysis to group environments and boundary line analysis to determine minimum grain P concentrations at various yield levels. Average grain P concentrations across genotypes varied almost 3-fold among environments, from 1.4 to 3.9 mg g-1. Minimum grain P concentrations associated with grain yields of 150, 300, and 500 g m-2 varied between 1.2 and 1.7, 1.3 and 1.8, and 1.7 and 2.2 mg g-1 among genotypes respectively. Two genotypes, Santhi Sufaid and DJ123, were identified as potential donors for breeding for low grain P concentration. Improvements in P balances that could be achieved by exploiting this genotypic variation are in the range of less than 0.10 g P m-2 (1 kg P ha-1) in low yielding systems, and 0.15-0.50 g P m-2 (1.5-5.0 kg P ha-1) in higher yielding systems. Improved crop management and alternative breeding approaches may be required to achieve larger reductions in grain P concentrations in rice.
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Affiliation(s)
- Elke Vandamme
- Africa Rice CenterDar es Salaam, Tanzania
- *Correspondence: Elke Vandamme
| | - Matthias Wissuwa
- Crop Production and Environment Division, Japan International Research Centre for Agricultural ScienceTsukuba, Japan
| | - Terry Rose
- Southern Cross Plant Science, Southern Cross UniversityLismore, NSW, Australia
- Southern Cross GeoScience, Southern Cross UniversityLismore, NSW, Australia
| | | | | | | | | | | | - Demba Jallow
- National Agricultural Research InstituteBrikama, Gambia
| | - Zacharie Segda
- Programme Riz et Riziculture, CNRST/INERABobo Dioulasso, Burkina Faso
| | - Lalith Suriyagoda
- Department of Crop Science, Faculty of Agriculture, University of PeradeniyaPeradeniya, Sri Lanka
| | | | - Yoichiro Kato
- Crop and Environmental Sciences Division, International Rice Research InstituteMetro Manila, Philippines
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Saito K, Dieng I, Toure AA, Somado EA, Wopereis MC. Rice yield growth analysis for 24 African countries over 1960–2012. Global Food Security 2015. [DOI: 10.1016/j.gfs.2014.10.006] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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14
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Rodenburg J, Cissoko M, Kayeke J, Dieng I, Khan ZR, Midega CA, Onyuka EA, Scholes JD. Do NERICA rice cultivars express resistance to Striga hermonthica (Del.) Benth. and Striga asiatica (L.) Kuntze under field conditions? Field Crops Res 2015; 170:83-94. [PMID: 26089591 PMCID: PMC4459690 DOI: 10.1016/j.fcr.2014.10.010] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2014] [Revised: 10/14/2014] [Accepted: 10/15/2014] [Indexed: 05/04/2023]
Abstract
The parasitic weeds Striga asiatica and Striga hermonthica cause high yield losses in rain-fed upland rice in Africa. Two resistance classes (pre- and post-attachment) and several resistant genotypes have been identified among NERICA (New Rice for Africa) cultivars under laboratory conditions (in vitro) previously. However, little is known about expression of this resistance under field conditions. Here we investigated (1) whether resistance exhibited under controlled conditions would express under representative Striga-infested field conditions, and (2) whether NERICA cultivars would achieve relatively good grain yields under Striga-infested conditions. Twenty-five rice cultivars, including all 18 upland NERICA cultivars, were screened in S. asiatica-infested (in Tanzania) and S. hermonthica-infested (in Kenya) fields during two seasons. Additionally, a selection of cultivars was tested in vitro, in mini-rhizotron systems. For the first time, resistance observed under controlled conditions was confirmed in the field for NERICA-2, -5, -10 and -17 (against S. asiatica) and NERICA-1 to -5, -10, -12, -13 and -17 (against S. hermonthica). Despite high Striga-infestation levels, yields of around 1.8 t ha-1 were obtained with NERICA-1, -9 and -10 (in the S. asiatica-infested field) and around 1.4 t ha-1 with NERICA-3, -4, -8, -12 and -13 (in the S. hermonthica-infested field). In addition, potential levels of tolerance were identified in vitro, in NERICA-1, -17 and -9 (S. asiatica) and in NERICA-1, -17 and -10 (S. hermonthica). These findings are highly relevant to rice agronomists and breeders and molecular geneticists working on Striga resistance. In addition, cultivars combining broad-spectrum resistance with good grain yields in Striga-infested fields can be recommended to rice farmers in Striga-prone areas.
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Affiliation(s)
- Jonne Rodenburg
- Africa Rice Center (AfricaRice), East and Southern Africa, P.O. Box 33581, Dar es Salaam, Tanzania
- Corresponding author. Tel.: +255 688425335.
| | - Mamadou Cissoko
- Africa Rice Center (AfricaRice), East and Southern Africa, P.O. Box 33581, Dar es Salaam, Tanzania
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield S10 2TN, UK
| | - Juma Kayeke
- Mikocheni Agricultural Research Institute (MARI), Dar es Salaam, Tanzania
| | - Ibnou Dieng
- Africa Rice Center (AfricaRice), 01 BP2031, Cotonou, Benin
| | - Zeyaur R. Khan
- International Centre of Insect Physiology and Ecology (ICIPE), P.O. Box 30772, Nairobi 00100, Kenya
| | - Charles A.O. Midega
- International Centre of Insect Physiology and Ecology (ICIPE), P.O. Box 30772, Nairobi 00100, Kenya
| | - Enos A. Onyuka
- Africa Rice Center (AfricaRice), East and Southern Africa, P.O. Box 33581, Dar es Salaam, Tanzania
- International Crops Research Institute of the Semi-Arid Tropics (ICRISAT), Eastern and Southern Africa, P.O. Box 39063, Nairobi, Kenya
| | - Julie D. Scholes
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield S10 2TN, UK
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Clouvel P, Bonvarlet L, Martinez A, Lagouarde P, Dieng I, Martin P. Wine contamination by ochratoxin A in relation to vine environment. Int J Food Microbiol 2008; 123:74-80. [DOI: 10.1016/j.ijfoodmicro.2007.12.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2007] [Revised: 11/20/2007] [Accepted: 12/08/2007] [Indexed: 10/22/2022]
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16
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Dieng I, Gozé E, Sabatier R. Linéarisation autour d'un témoin pour prédire la réponse de cultures. C R Biol 2006; 329:148-55. [PMID: 16545755 DOI: 10.1016/j.crvi.2006.01.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2005] [Revised: 10/28/2005] [Accepted: 01/17/2006] [Indexed: 10/25/2022]
Abstract
A new method for modelling genotype x environment interaction: APLAT. The yield predicted by a crop-simulation model is developed as a Taylor series in the neighbourhood of a parameter vector of a control genotype. With this local linearisation, these genotype parameters can be estimated by a linear regression of the observed yield on the derivatives of the crop-simulation model predictions with respect to its parameters.
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Affiliation(s)
- Ibnou Dieng
- Centre d'étude régional pour l'amélioration de l'adaptation à la sécheresse, BP 3320, Thiès-Escale, Thiès, Sénégal.
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Dieng I. Evolution of the nursing profession in Senegal. Int Nurs Rev 1974; 21:172-3. [PMID: 4615072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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