1
|
Sampaio Filho JS, de Souza Campos M, de Oliveira EJ. Stability and genetic parameters for cassava yield attributes in the tropical humid region of Brazil. EUPHYTICA: NETHERLANDS JOURNAL OF PLANT BREEDING 2024; 220:127. [PMID: 39071946 PMCID: PMC11271428 DOI: 10.1007/s10681-024-03384-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Accepted: 07/10/2024] [Indexed: 07/30/2024]
Abstract
The performance differences in cassava genotypes arising from genotype vs. environment interactions (G × E) often lead to responses that are significantly lower than expected for selection. The objective of this study was to evaluate different stability methods, both parametric and non-parametric, such as additive main-effects and multiplicative interaction (AMMI), main effect of genotypes plus G × E (GGE), and weighted average of absolute scores (WAASB), in order to quantify the G × E in multi-environmental trials. A total of 12 genotypes were assessed across 12 environments using a completely randomized block design, with three replicates for traits such as fresh root yield (FRY) and dry matter content in the roots (DMC). The data were subjected to analysis of variance and the Scott Knott test (p < 0.05). The sum of squares (SQ) of genotypes, environment, and G × E effects were equally distributed for FRY, whereas for DMC, these effects accounted for 64.1%, 21.9%, and 13.8% of the SQ, respectively, indicating a lower environmental effect on this characteristic. Using the AMMI, GGE, and WAASB methods, genotypes with high agronomic performance and stability for FRY (BR11-34-41 and BR11-34-69) (> 32 t ha-1) and DMC (BRS Novo Horizonte, BR12-107-002, and BR11-24-156) (> 37%) were identified. The broad-sense heritability (h 2 ) for FRY and DMC was estimated to be 0.45 and 0.75, respectively. Approximately 72% of the methods identified BRS Novo Horizonte as the genotype with the highest stability and performance for DMC, while 47% identified genotypes BR11-34-41 and BR11-34-69 for FRY and intermediate DMC. Genotype BR11-24-156 exhibited high static stability according to 50% of the methods. Significant correlations were observed between stability and agronomic performance across the different methods, enabling the formation of groups based on stability concepts. Additionally, it was found that two mega-environments existed for FRY, whereas DMC displayed a single mega-environment with similar patterns, indicating an absence of G × E. We identified superior genotypes that could be promoted to national performance trials to develop stable cultivars with better yield attributes in cassava. Supplementary Information The online version contains supplementary material available at 10.1007/s10681-024-03384-5.
Collapse
Affiliation(s)
- Juraci Souza Sampaio Filho
- Centro de Ciências Agrárias, Ambientais e Biológicas, Universidade Federal do Recôncavo da Bahia, Cruz das Almas, BA 44380-000 Brazil
| | | | | |
Collapse
|
2
|
Demelash H. Genotype by environment interaction, AMMI, GGE biplot, and mega environment analysis of elite Sorghum bicolor (L.) Moench genotypes in humid lowland areas of Ethiopia. Heliyon 2024; 10:e26528. [PMID: 38434414 PMCID: PMC10907745 DOI: 10.1016/j.heliyon.2024.e26528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2023] [Revised: 01/22/2024] [Accepted: 02/15/2024] [Indexed: 03/05/2024] Open
Abstract
This study aimed to evaluate high-yielding, stable sorghum genotypes and determine the ideal (representative and discriminating) testing environments for genotypes in the humid lowlands of Ethiopia. A total of forty-two sorghum genotypes were used for a field trial conducted in six different environments using a randomized complete block design. Yield stability, Additive main effect, multiplicative interaction (AMMI), and genotype and genotype by environment interaction (GGE) were computed. The AMMI analysis explained 62.85% of the G×E variance. The AMMI1 biplot revealed that (G4; Mok079 and (G16; Ba066) genotypes had higher grain yields. AMMI2 biplot suggested that genotypes (G18; Y0470),(G23;100620), (G29; PML981475), and (G11; ETSC300373-4) show higher sensitivity to environmental changes because of their strong genotype-by-environment interactions. The GGE captured 79.46% of the GGE variance, and the GGE biplot identified genotypes (G4; Mok079), (G10; Sl081) and (G16; Ba066) were the most stable genotypes whereas(G39; ETSC120051-3) was the least stable genotypes. The GGE biplot identified Assosa (AS20) as a suitable environment, whereas PW20 and JM20 were the most discriminating and non-representative environments. The GGE biplot was found to identify three main mega-environments for sorghum growing in the humid lowlands of Ethiopia., both the AMMI and GGE biplots revealed (G4; Mok079) had the highest level of adaptability to all tested environments and was approved by the National Variety Release Committee for release in 2022.
Collapse
Affiliation(s)
- Habtamu Demelash
- Ethiopian Institute of Agricultural Research, Assosa Agricultural Research Center, Assosa, Ethiopia
| |
Collapse
|
3
|
Iragaba P, Adinsi L, Delgado LF, Nanyonjo AR, Nuwamanya E, Wembabazi E, Kanaabi M, Honfozo L, Hotegni F, Djibril-Moussa I, Londoño LF, Bugaud C, Dufour D, Kawuki RS, Akissoé N, Tran T. Definition of sensory and instrumental thresholds of acceptability for selection of cassava genotypes with improved boiling properties. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2024. [PMID: 38319871 DOI: 10.1002/jsfa.13363] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 08/01/2023] [Accepted: 02/07/2024] [Indexed: 02/08/2024]
Abstract
BACKGROUND Consumers of boiled cassava in Africa, Latin America and Asia use specific preference criteria to evaluate its cooking quality, in terms of texture, colour and taste. To improve adoption rates of improved cassava varieties intended for consumption after boiling, these preference criteria need to be determined, quantified and integrated as post-harvest quality traits in the target product profile of boiled cassava, so that breeding programs may screen candidate varieties based on both agronomic traits and consumer preference traits. RESULTS Surveys of various end-user groups identified seven priority quality attributes of boiled cassava covering root preparation, visual aspect, taste and texture. Three populations of contrasted cassava genotypes, from good-cooking to bad-cooking, in three countries (Uganda, Benin, Colombia) were then characterized according to these quality attributes by sensory quantitative descriptive analysis (QDA) and by standard instrumental methods. Consumers' preferences of the texture attributes mealiness and hardness were also determined. By analysis of correlations, the consumers' preferences scores were translated into thresholds of acceptability in terms of QDA scores, then in terms of instrumental measurements (water absorption during boiling and texture analysis). The thresholds of acceptability were used to identify among the Colombian and Benin populations promising genotypes for boiled cassava quality. CONCLUSION This work demonstrates the steps of determining priority quality attributes for boiled cassava and establishing their corresponding quantitative thresholds of acceptability. The information can then be included in boiled cassava target product profiles used by cassava breeders, for better selection and adoption rates of new varieties. © 2024 The Authors. Journal of The Science of Food and Agriculture published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
Collapse
Affiliation(s)
- Paula Iragaba
- National Crops Resources Research Institute (NaCRRI), Kampala, Uganda
| | - Laurent Adinsi
- Faculté des Sciences Agronomiques, Université d'Abomey-Calavi, Cotonou, Benin
- Ecole des Sciences et Techniques de Conservation et de Transformation des Produits Agricoles, Université Nationale d'Agriculture, Sakété, Benin
| | | | | | - Ephraim Nuwamanya
- National Crops Resources Research Institute (NaCRRI), Kampala, Uganda
| | - Enoch Wembabazi
- National Crops Resources Research Institute (NaCRRI), Kampala, Uganda
| | - Michael Kanaabi
- National Crops Resources Research Institute (NaCRRI), Kampala, Uganda
| | - Laurenda Honfozo
- Faculté des Sciences Agronomiques, Université d'Abomey-Calavi, Cotonou, Benin
| | - Francis Hotegni
- Faculté des Sciences Agronomiques, Université d'Abomey-Calavi, Cotonou, Benin
| | | | | | - Christophe Bugaud
- CIRAD, UMR Qualisud, Montpellier, France
- QualiSud, University of Montpellier, CIRAD, Institut Agro, University of Avignon, University of La Réunion, Montpellier, France
| | - Dominique Dufour
- CIRAD, UMR Qualisud, Montpellier, France
- QualiSud, University of Montpellier, CIRAD, Institut Agro, University of Avignon, University of La Réunion, Montpellier, France
| | | | - Noël Akissoé
- Faculté des Sciences Agronomiques, Université d'Abomey-Calavi, Cotonou, Benin
| | - Thierry Tran
- Alliance Bioversity - CIAT, Cali, Colombia
- QualiSud, University of Montpellier, CIRAD, Institut Agro, University of Avignon, University of La Réunion, Montpellier, France
- CIRAD, UMR Qualisud, Cali, Colombia
| |
Collapse
|
4
|
Hyde PT, Esan O, Diebiru-Ojo EM, Iluebbey P, Kulakow PA, Peteti P, Setter TL. Development of Methods for Improving Flowering and Seed Set of Diverse Germplasm in Cassava Breeding. PLANTS (BASEL, SWITZERLAND) 2024; 13:382. [PMID: 38337915 PMCID: PMC10857246 DOI: 10.3390/plants13030382] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2023] [Revised: 01/24/2024] [Accepted: 01/26/2024] [Indexed: 02/12/2024]
Abstract
Cassava breeding faces obstacles due to late flowering and poor flower and seed set. The acceleration of breeding processes and the reduction in each cycle's duration hinge upon efficiently conducting crosses to yield ample progeny for subsequent cycles. Our primary objective was to identify methods that provide tools for cassava breeding programs, enabling them to consistently and rapidly generate offspring from a wide array of genotypes. In greenhouse trials, we examined the effects of the anti-ethylene silver thiosulfate (STS) and the cytokinin benzyladenine (BA). STS, administered via petiole infusion, and BA, applied as an apical spray, combined with the pruning of young branches, significantly augmented the number of flowers. Controls produced no flowers, whereas treatments with pruning plus either BA or STS alone produced an average maximum of 86 flowers per plant, and the combination of pruning, BA and STS yielded 168 flowers per plant. While STS had its primary effect on flower numbers, BA increased the fraction of female flowers from less than 20% to ≥87%, thus increasing the number of progeny from desired parents. Through field studies, we devised an optimal protocol that maintained acceptable levels of phytodamage ratings while substantially increasing seed production per plant compared to untreated plants. This protocol involves adjusting the dosage and timing of treatments to accommodate genotypic variations. As a result, cassava breeding programs can effectively leverage a diverse range of germplasm to develop cultivars with the desired traits.
Collapse
Affiliation(s)
- Peter T. Hyde
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| | - Olayemisi Esan
- Cassava Breeding Unit, International Institute of Tropical Agriculture, Ibadan 200001, Nigeria
| | | | - Peter Iluebbey
- Cassava Breeding Unit, International Institute of Tropical Agriculture, Ibadan 200001, Nigeria
| | - Peter A. Kulakow
- Cassava Breeding Unit, International Institute of Tropical Agriculture, Ibadan 200001, Nigeria
| | - Prasad Peteti
- Cassava Breeding Unit, International Institute of Tropical Agriculture, Ibadan 200001, Nigeria
| | - Tim L. Setter
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA
| |
Collapse
|
5
|
Sampaio Filho JS, Olivoto T, Campos MDS, de Oliveira EJ. Multi-trait selection in multi-environments for performance and stability in cassava genotypes. FRONTIERS IN PLANT SCIENCE 2023; 14:1282221. [PMID: 37965017 PMCID: PMC10642803 DOI: 10.3389/fpls.2023.1282221] [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: 08/23/2023] [Accepted: 10/16/2023] [Indexed: 11/16/2023]
Abstract
Genotype-environment interaction (GEI) presents challenges when aiming to select optimal cassava genotypes, often due to biased genetic estimates. Various strategies have been proposed to address the need for simultaneous improvements in multiple traits, while accounting for performance and yield stability. Among these methods are mean performance and stability (MPS) and the multi-trait mean performance and stability index (MTMPS), both utilizing linear mixed models. This study's objective was to assess genetic variation and GEI effects on fresh root yield (FRY), along with three primary and three secondary traits. A comprehensive evaluation of 22 genotypes was conducted using a randomized complete block design with three replicates across 47 distinct environments (year x location) in Brazil. The broad-sense heritability (H 2 ) averaged 0.37 for primary traits and 0.44 for secondary traits, with plot-based heritability (h m ɡ 2 ) consistently exceeding 0.90 for all traits. The high extent of GEI variance (σ ɡ x e 2 ) demonstrates the GEI effect on the expression of these traits. The dominant analytic factor ( F A 3 ) accounted for over 85% of the total variance, and the communality (ɧ) surpassed 87% for all traits. These values collectively suggest a substantial capacity for genetic variance explanation. In Cluster 1, composed of remarkably productive and stable genotypes for primary traits, genotypes BRS Novo Horizonte and BR11-34-69 emerged as prime candidates for FRY enhancement, while BRS Novo Horizonte and BR12-107-002 were indicated for optimizing dry matter content. Moreover, MTMPS, employing a selection intensity of 30%, identified seven genotypes distinguished by heightened stability. This selection encompassed innovative genotypes chosen based on regression variance index (S d i 2 , R 2 , and RMSE) considerations for multiple traits. In essence, incorporating methodologies that account for stability and productive performance can significantly bolster the credibility of recommendations for novel cassava cultivars.
Collapse
Affiliation(s)
| | - Tiago Olivoto
- Department of Crop Science, Federal University of Santa Catarina, Florianópolis, Brazil
| | | | | |
Collapse
|
6
|
da Conceicão LV, Cortes DFM, Klauser D, Robinson M, de Oliveira EJ. New protocol for rapid cassava multiplication in field conditions: a perspective on speed breeding. FRONTIERS IN PLANT SCIENCE 2023; 14:1258101. [PMID: 37753503 PMCID: PMC10518405 DOI: 10.3389/fpls.2023.1258101] [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: 07/13/2023] [Accepted: 08/23/2023] [Indexed: 09/28/2023]
Abstract
Despite the economic and social importance, high-yielding cassava cultivars are only released after extensive research, mainly due to the low multiplication rate. This study aimed to assess the impact of using smaller-sized seed cuttings treated with agrochemicals (8MP) compared to the conventional planting size (16 cm) on genetic parameters, agronomic performance, and the ranking of cassava clones based on yield and growth attributes. The evaluation was carried out in clonal evaluation trial (CET), preliminary yield trial (PYT), and uniform yield trials (UYT). Additionally, a new selection scheme for cassava breeding programs was proposed. A total of 169 clones were evaluated, including 154 improved clones at different stages of selection and 15 local varieties used as checks. Field trials were conducted using both sizes of propagative material (8MP and 16 cm) in each phase of the breeding program. The data were analyzed using mixed models, considering the random effects of genotype and genotype-environment interaction (G×E) to determine variances and heritabilities. Bland-Altman concordance and correlation analysis of selection indices were employed to examine the consistency in the ranking of cassava clones using different seed cutting sizes. The distribution of variance components, heritabilities, means, and range of the 8MP and 16 cm trials in different phases of the cassava breeding program exhibited remarkable similarity, thereby enabling a comparative assessment of similar genetic effects. With a selection intensity of 30%, the concordance in clone ranking was 0.41, 0.57, and 0.85 in CET, PYT, and UYT trials, respectively, when comparing the selection based on 8MP and 16 cm trials. It is worth noting that the ranking of the top 15% remained largely unchanged. Based on the findings, proposed changes in the cassava selection scheme involve increasing the number of trials starting from the CET phase, early incorporation of G×E interaction, elimination of the PYT trial, reduction of the breeding cycle from 5 to 3 years, and a decrease in the time required for variety development from 11 to 9 years. These modifications are expected to lead to cost reduction and enhance the effectiveness of cassava breeding programs.
Collapse
Affiliation(s)
- Leila Verena da Conceicão
- Universidade Federal do Recôncavo da Bahia, Centro de Ciências Agrárias, Ambientais e Biológicas, Cruz das Almas, Bahia, Brazil
| | | | - Dominik Klauser
- Syngenta Foundation for Sustainable Agriculture, Basel, Switzerland
| | - Michael Robinson
- Syngenta Foundation for Sustainable Agriculture, Basel, Switzerland
| | | |
Collapse
|
7
|
Ukwu UN, Agbo JU, Muller O, Schrey S, Nedbal L, Niu Y, Meier-Grüll M, Uguru M. Effect of organic photovoltaic and red-foil transmittance on yield, growth and photosynthesis of two spinach genotypes under field and greenhouse conditions. PHOTOSYNTHESIS RESEARCH 2023; 157:103-118. [PMID: 37314664 PMCID: PMC10485117 DOI: 10.1007/s11120-023-01028-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Accepted: 05/11/2023] [Indexed: 06/15/2023]
Abstract
The galloping rise in global population in recent years and the accompanying increase in food and energy demands has created land use crisis between food and energy production, and eventual loss of agricultural lands to the more lucrative photovoltaics (PV) energy production. This experiment was carried out to investigate the effect of organic photovoltaics (OPV) and red-foil (RF) transmittance on growth, yield, photosynthesis and SPAD value of spinach under greenhouse and field conditions. Three OPV levels (P0: control; P1: transmittance peak of 0.11 in blue light (BL) and 0.64 in red light (RL); P2: transmittance peak of 0.09 in BL and 0.11 in RL) and two spinach genotypes (bufflehead, eland) were combined in a 3 × 2 factorial arrangement in a completely randomized design with 4 replications in the greenhouse, while two RF levels (RF0: control; RF1: transmittance peak of 0.01 in BL and 0.89 in RL) and two spinach genotypes were combined in a 2 × 2 factorial in randomized complete block design with four replications in the field. Data were collected on growth, yield, photosynthesis and chlorophyll content. Analysis of variance (ANOVA) showed significant reduction in shoot weight and total biomass of spinach grown under very low light intensities as a function of the transmittance properties of the OPV cell used (P2). P1 competed comparably (p > 0.05) with control in most growth and yield traits measured. In addition, shoot to root distribution was higher in P1 than control. RF reduced shoot and total biomass production of spinach in the field due to its inability to transmit other spectra of light. OPV-RF transmittance did not affect plant height (PH), leaf number (LN), and SPAD value but leaf area (LA) was highest in P2. Photochemical energy conversion was higher in P1, P2 and RF1 in contrast to control due to lower levels of non-photochemical energy losses through the Y(NO) and Y(NPQ) pathways. Photo-irradiance curves showed that plants grown under reduced light (P2) did not efficiently manage excess light when exposed to high light intensities. Bufflehead genotype showed superior growth and yield traits than eland across OPV and RF levels. It is therefore recommended that OPV cells with transmittance properties greater than or equal to 11% in BL and 64% in RL be used in APV systems for improved photochemical and land use efficiency.
Collapse
Affiliation(s)
- Uchenna Noble Ukwu
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
- Department of Crop Science, Faculty of Agriculture, University of Nigeria, Nsukka, Nigeria
| | - Joy Udoka Agbo
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
- Department of Crop Science, Faculty of Agriculture, University of Nigeria, Nsukka, Nigeria
| | - Onno Muller
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
| | - Silvia Schrey
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
| | - Ladislav Nedbal
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
| | - Yuxi Niu
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
| | - Matthias Meier-Grüll
- Institute of Bio-and Geosciences, Plant Sciences, Forschungszentrum Julich GmbH, IBG-2, 52428 Julich, Germany
| | - Michael Uguru
- Department of Crop Science, Faculty of Agriculture, University of Nigeria, Nsukka, Nigeria
| |
Collapse
|
8
|
Amelework AB, Bairu MW, Marx R, Laing M, Venter SL. Genotype × Environment Interaction and Stability Analysis of Selected Cassava Cultivars in South Africa. PLANTS (BASEL, SWITZERLAND) 2023; 12:2490. [PMID: 37447051 DOI: 10.3390/plants12132490] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 06/19/2023] [Accepted: 06/22/2023] [Indexed: 07/15/2023]
Abstract
Cassava (Manihot esculenta Crantz) is an important root crop worldwide. It is adapted to a wide range of environmental conditions, exhibiting differential genotypic responses to varying environmental conditions. The objectives of this study were: (1) to examine the effect of genotype, environment and genotype × environment interaction (GEI) on fresh root yield (FRY) and dry matter content (DMC); and (2) to identify superior genotypes that exhibit high performance for the traits of interest using the genetic tools of additive main effects and multiplicative interaction (AMMI) and genotype stability index (GSI) analysis. Eleven cassava genotypes were evaluated in a randomized complete block design at six trial sites in South Africa. The combined analysis of variance based on AMMI revealed significant genotype, environment and GEI for the traits. The percentage variation due to GEI was higher than the percentage variation due to genotype for FRY, reflecting differential genotypic responses across the experimental sites. The proportion of variance due to genotype variation was larger for DMC. Genotype stability index (GSI) showed that UKF3 (G6), 98/0002 (G2) and P4/10 (G5) were the highest yielding and most stable genotypes for FRY, and 98/0002 (G1), UKF3 (G6) and UKF9 (G11) were the highest yielding and most stable genotypes for DMC. Cultivars 98/0002 and UKF3 were identified as providing high stability with superior fresh root yield and DMC. These genotypes could be recommended to farmers for food, feed and industrial applications without the need for further breeding. The AMMI-2 model clustered the testing environments into three mega-environments based on the winning genotypes for FRY and DMC. Mabuyeni (KwaZulu-Natal), Shatale (Mpumalanga) and Mandlakazi (Limpopo) would be the best testing sites in future cassava-genotype evaluation and breeding programs. This study provides a baseline for a future study on the GEI of cassava varieties, using a larger set of genotypes, factoring in seasonal variation.
Collapse
Affiliation(s)
- Assefa B Amelework
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants, Private Bag X293, Pretoria 0001, South Africa
| | - Michael W Bairu
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants, Private Bag X293, Pretoria 0001, South Africa
- African Centre for Crop Improvement, School of Agriculture, Earth and Environmental Sciences, University of KwaZulu-Natal, Private Bag X01, Scottsville, Pietermaritzburg 3209, South Africa
| | - Roelene Marx
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants, Private Bag X293, Pretoria 0001, South Africa
| | - Mark Laing
- School of Agricultural Sciences, Food Security and Safety Niche Area, Faculty of Natural & Agricultural Sciences, North-West University, Private Bag X2046, Mmabatho 2735, South Africa
| | - Sonja L Venter
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants, Private Bag X293, Pretoria 0001, South Africa
| |
Collapse
|
9
|
Zhang Y, Liu Y, Liang X, Wu C, Liu X, Wu M, Yao X, Qiao Y, Zhan X, Chen Q. Exogenous methyl jasmonate induced cassava defense response and enhanced resistance to Tetranychus urticae. EXPERIMENTAL & APPLIED ACAROLOGY 2023; 89:45-60. [PMID: 36635606 DOI: 10.1007/s10493-022-00773-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 12/30/2022] [Indexed: 05/21/2023]
Abstract
Exogenous application of methyl jasmonate (MeJA) could activate plant defense response against the two-spotted spider mite (TSSM), Tetranychus urticae Koch, in different plants. However, whether MeJA can also serve as an elicitor in cassava (Manihot esculenta Crantz) remains unknown. In this study, induced defense responses were investigated in TSSM-resistant cassava variety C1115 and TSSM-susceptible cassava variety KU50 when applied with MeJA. The performance of TSSM feeding on cassava plants that were pre-treated with various concentrations of MeJA was first evaluated. Subsequently, the activities of antioxidative enzymes (superoxide dismutase and catalase), detoxification enzymes (glutathione S-transferase, cytochrome P450 and carboxylesterase) and digestive enzymes (protease, amylase and invertase) in TSSM were analyzed at days 1, 2, 4 and 8 post-feeding. The results showed that MeJA treatment can induce cassava defense responses to TSSM in terms of reducing egg production and adult longevity as well as slowing development and prolonging the egg stage. Noticeably, C1115 exhibited stronger inhibition of TSSM development and reproduction than KU50. In addition, the activities of all the tested enzymes were induced in both C1115 and KU50, the most in C1115. We conclude that exogenous methyl jasmonate can induce cassava defense responses and enhance resistance to TSSM.
Collapse
Affiliation(s)
- Yao Zhang
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering / Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University, Guiyang, 550025, China
| | - Ying Liu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China.
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China.
| | - Xiao Liang
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China.
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China.
| | - Chunling Wu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China
| | - Xiaoqiang Liu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China
| | - Mufeng Wu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China
| | - Xiaowen Yao
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China
| | - Yang Qiao
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China
| | - Xue Zhan
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering / Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University, Guiyang, 550025, China
| | - Qing Chen
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences / Key Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Haikou, 571101, China.
- Sanya Research Academy, Chinese Academy of Tropical Agriculture Science / Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in Off-Season Reproduction Regions, Sanya, 572000, China.
| |
Collapse
|
10
|
Genotype-by-environment interaction and stability of root mealiness and other organoleptic properties of boiled cassava roots. Sci Rep 2022; 12:20909. [PMID: 36463268 PMCID: PMC9719563 DOI: 10.1038/s41598-022-25172-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Accepted: 11/25/2022] [Indexed: 12/05/2022] Open
Abstract
Genetic enhancement of cassava aimed at improving cooking and eating quality traits is a major goal for cassava breeders to address the demand for varieties that are desirable for the fresh consumption market segment. Adoption of such cassava genotypes by consumers will largely rely not only on their agronomic performance, but also on end-user culinary qualities such as root mealiness. The study aimed to examine genotype × environment interaction (GEI) effects for root mealiness and other culinary qualities in 150 cassava genotypes and detect genotypes combining stable performance with desirable mealiness values across environments using GGE biplot analysis. Experiments were conducted using an alpha-lattice design with three replications for two years in three locations in Nigeria. The analysis of variance revealed a significant influence of genotype, environment, and GEI on the performance of genotypes. Mealiness scores showed no significant relationship with firmness values of boiled roots assessed by a penetration test, implying that large-scale rapid and accurate phenotyping of mealiness of boiled cassava roots remains a major limitation for the effective development of varieties with adequate mealiness, a good quality trait for direct consumption (boil-and-eat) as well as for pounding into 'fufu'. The moderate broad-sense heritability estimate and relatively high genetic advance observed for root mealiness suggest that significant genetic gains can be achieved in a future hybridization program. The genotype main effects plus genotype × environment interaction (GGE) biplot analysis showed that the different test environments discriminated among the genotypes. Genotypes G80 (NR100265) and G120 (NR110512) emerged as the best performers for root mealiness in Umudike, whereas G13 (B1-50) and the check, G128 (TMEB693) performed best in Igbariam and Otobi. Based on the results of this study, five genotypes, G13 (B1-50), G34 (COB6-4), G46 (NR010161), the check, G128 (TMEB693), and G112 (NR110376), which were found to combine stability with desirable mealiness values, were the most suitable candidates to recommend for use as parents to improve existing cassava germplasm for root mealiness.
Collapse
|
11
|
Bakare MA, Kayondo SI, Aghogho CI, Wolfe MD, Parkes EY, Kulakow P, Egesi C, Rabbi IY, Jannink JL. Exploring genotype by environment interaction on cassava yield and yield related traits using classical statistical methods. PLoS One 2022; 17:e0268189. [PMID: 35849556 PMCID: PMC9292083 DOI: 10.1371/journal.pone.0268189] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Accepted: 04/23/2022] [Indexed: 11/19/2022] Open
Abstract
Variety advancement decisions for root quality and yield-related traits in cassava are complex due to the variable patterns of genotype-by-environment interactions (GEI). Therefore, studies focused on the dissection of the existing patterns of GEI using linear-bilinear models such as Finlay-Wilkinson (FW), additive main effect and multiplicative interaction (AMMI), and genotype and genotype-by-environment (GGE) interaction models are critical in defining the target population of environments (TPEs) for future testing, selection, and advancement. This study assessed 36 elite cassava clones in 11 locations over three cropping seasons in the cassava breeding program of IITA based in Nigeria to quantify the GEI effects for root quality and yield-related traits. Genetic correlation coefficients and heritability estimates among environments found mostly intermediate to high values indicating high correlations with the major TPE. There was a differential clonal ranking among the environments indicating the existence of GEI as also revealed by the likelihood ratio test (LRT), which further confirmed the statistical model with the heterogeneity of error variances across the environments fit better. For all fitted models, we found the main effects of environment, genotype, and interaction significant for all observed traits except for dry matter content whose GEI sensitivity was marginally significant as found using the FW model. We identified TMS14F1297P0019 and TMEB419 as two topmost stable clones with a sensitivity values of 0.63 and 0.66 respectively using the FW model. However, GGE and AMMI stability value in conjunction with genotype selection index revealed that IITA-TMS-IBA000070 and TMS14F1036P0007 were the top-ranking clones combining both stability and yield performance measures. The AMMI-2 model clustered the testing environments into 6 mega-environments based on winning genotypes for fresh root yield. Alternatively, we identified 3 clusters of testing environments based on genotypic BLUPs derived from the random GEI component.
Collapse
Affiliation(s)
- Moshood A. Bakare
- Plant Breeding and Genetics Section, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, United States of America
- * E-mail: (J-LJ); (MAB)
| | | | - Cynthia I. Aghogho
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- West Africa Centre for Crop Improvement, University of Ghana, Legon, Ghana
| | - Marnin D. Wolfe
- Plant Breeding and Genetics Section, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, United States of America
| | | | - Peter Kulakow
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Chiedozie Egesi
- Plant Breeding and Genetics Section, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, United States of America
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- National Root Crops Research Institute Umudike, Umuahia, Nigeria
| | | | - Jean-Luc Jannink
- Plant Breeding and Genetics Section, School of Integrative Plant Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, United States of America
- USDA-ARS Robert W. Holley Center for Agriculture and Health, Ithaca, NY, United States of America
- * E-mail: (J-LJ); (MAB)
| |
Collapse
|
12
|
Pan Y, Zhu J, Hong Y, Zhang M, Lv C, Guo B, Shen H, Xu X, Xu R. Screening of stable resistant accessions and identification of resistance loci to Barley yellow mosaic virus disease. PeerJ 2022; 10:e13128. [PMID: 35317071 PMCID: PMC8934529 DOI: 10.7717/peerj.13128] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 02/25/2022] [Indexed: 01/12/2023] Open
Abstract
Background The disease caused by Barley yellow mosaic virus (BaYMV) infection is a serious threat to autumn-sown barley (Hordeum vulgare L.) production in Europe, East Asia and Iran. Due to the rapid diversification of BaYMV strains, it is urgent to discover novel germplasm and genes to assist breeding new varieties with resistance to different BaYMV strains, thus minimizing the effect of BaYMV disease on barley cropping. Methods A natural population consisting of 181 barley accessions with different levels of resistance to BaYMV disease was selected for field resistance identification in two separate locations (Yangzhou and Yancheng, Jiangsu Province, China). Additive main effects and multiplicative interaction (AMMI) analysis was used to identify accessions with stable resistance. Genome-wide association study (GWAS) of BaYMV disease resistance was broadly performed by combining both single nucleotide polymorphisms (SNPs) and specific molecular markers associated with the reported BaYMV disease resistance genes. Furthermore, the viral protein genome linked (VPg) sequences of the virus were amplified and analyzed to assess the differences between the BaYMV strains sourced from the different experimental sites. Results Seven barley accessions with lower standardized Area Under the Disease Progress Steps (sAUDPS) index in every environment were identified and shown to have stable resistance to BaYMV disease in each assessed location. Apart from the reported BaYMV disease resistance genes rym4 and rym5, one novel resistance locus explaining 24.21% of the phenotypic variation was identified at the Yangzhou testing site, while two other novel resistance loci that contributed 19.23% and 19.79% of the phenotypic variation were identified at the Yancheng testing site, respectively. Further analysis regarding the difference in the VPg sequence of the predominant strain of BaYMV collected from these two testing sites may explain the difference of resistance loci differentially identified under geographically distinct regions. Our research provides novel genetic resources and resistance loci for breeding barley varieties for BaMYV disease resistance.
Collapse
Affiliation(s)
- Yuhan Pan
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Juan Zhu
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Yi Hong
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Mengna Zhang
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Chao Lv
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Baojian Guo
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| | - Huiquan Shen
- Jiangsu Institute for Seaside Agricultural Sciences and Yancheng Academy of Agricultural Science, Yancheng, Jiangsu, China
| | - Xiao Xu
- Jiangsu Institute for Seaside Agricultural Sciences and Yancheng Academy of Agricultural Science, Yancheng, Jiangsu, China
| | - Rugen Xu
- Yangzhou University, Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Institutes of Agricultural Science, Yangzhou, Jiangsu, China
| |
Collapse
|
13
|
Gong J, Kong D, Liu C, Li P, Liu P, Xiao X, Liu R, Lu Q, Shang H, Shi Y, Li J, Ge Q, Liu A, Deng X, Fan S, Pan J, Chen Q, Yuan Y, Gong W. Multi-environment Evaluations Across Ecological Regions Reveal That the Kernel Oil Content of Cottonseed Is Equally Determined by Genotype and Environment. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2022; 70:2529-2544. [PMID: 35170322 DOI: 10.1021/acs.jafc.1c07082] [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] [Indexed: 06/14/2023]
Abstract
Cotton is the fifth-largest oil crop in the world. A high kernel oil content (KOC) and high stability are important cottonseed attributes for food security. In this study, the phenotype of KOC and the genotype-by-environment interaction factors were collectively dissected using 250 recombinant inbred lines, their parental cultivars sGK156 and 901-001, and CCRI70 across multi-environments. ANOVA and correlation analysis showed that both genotype and environment contributed significantly to KOC accumulation. Analyses of additive main effect multiplicative interaction and genotype-by-environment interaction biplot models presented the effects of genotype, environment, and genotype by environment on KOC performance and the stability of the experimental materials. Interaction network analysis revealed that meteorological and geographical factors explained 38% of the total KOC variance, with average daily rainfall contributing the largest positive impact and cumulative rainfall having the largest negative impact on KOC accumulation. This study provides insight into KOC accumulation and could direct selection strategies for improved KOC and field management of cottonseed in the future.
Collapse
Affiliation(s)
- Juwu Gong
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Depei Kong
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Changwen Liu
- Agricultural Technology Popularization Center of Kashi, No. 418 Seman road, Kashi 844000, Xinjiang
| | - Pengtao Li
- College of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Ping Liu
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Xianghui Xiao
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Ruixian Liu
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Quanwei Lu
- College of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Haihong Shang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
- School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, Henan, China
| | - Yuzhen Shi
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Junwen Li
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Qun Ge
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Aiying Liu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Xiaoying Deng
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Senmiao Fan
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Jingtao Pan
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Quanjia Chen
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
| | - Youlu Yuan
- Engineering Research Centre of Cotton, Ministry of Education; College of Agriculture, Xinjiang Agricultural University, 311 Nongda East Road, Urumqi 830052, China
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
- School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, Henan, China
| | - Wankui Gong
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| |
Collapse
|
14
|
Uchendu K, Njoku DN, Paterne A, Rabbi IY, Dzidzienyo D, Tongoona P, Offei S, Egesi C. Genome-Wide Association Study of Root Mealiness and Other Texture-Associated Traits in Cassava. FRONTIERS IN PLANT SCIENCE 2021; 12:770434. [PMID: 34975953 PMCID: PMC8719520 DOI: 10.3389/fpls.2021.770434] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/03/2021] [Accepted: 11/25/2021] [Indexed: 06/14/2023]
Abstract
Cassava breeders have made significant progress in developing new genotypes with improved agronomic characteristics such as improved root yield and resistance against biotic and abiotic stresses. However, these new and improved cassava (Manihot esculenta Crantz) varieties in cultivation in Nigeria have undergone little or no improvement in their culinary qualities; hence, there is a paucity of genetic information regarding the texture of boiled cassava, particularly with respect to its mealiness, the principal sensory quality attribute of boiled cassava roots. The current study aimed at identifying genomic regions and polymorphisms associated with natural variation for root mealiness and other texture-related attributes of boiled cassava roots, which includes fibre, adhesiveness (ADH), taste, aroma, colour, and firmness. We performed a genome-wide association (GWAS) analysis using phenotypic data from a panel of 142 accessions obtained from the National Root Crops Research Institute (NRCRI), Umudike, Nigeria, and a set of 59,792 high-quality single nucleotide polymorphisms (SNPs) distributed across the cassava genome. Through genome-wide association mapping, we identified 80 SNPs that were significantly associated with root mealiness, fibre, adhesiveness, taste, aroma, colour and firmness on chromosomes 1, 4, 5, 6, 10, 13, 17 and 18. We also identified relevant candidate genes that are co-located with peak SNPs linked to these traits in M. esculenta. A survey of the cassava reference genome v6.1 positioned the SNPs on chromosome 13 in the vicinity of Manes.13G026900, a gene recognized as being responsible for cell adhesion and for the mealiness or crispness of vegetables and fruits, and also known to play an important role in cooked potato texture. This study provides the first insights into understanding the underlying genetic basis of boiled cassava root texture. After validation, the markers and candidate genes identified in this novel work could provide important genomic resources for use in marker-assisted selection (MAS) and genomic selection (GS) to accelerate genetic improvement of root mealiness and other culinary qualities in cassava breeding programmes in West Africa, especially in Nigeria, where the consumption of boiled and pounded cassava is low.
Collapse
Affiliation(s)
- Kelechi Uchendu
- West Africa Centre for Crop Improvement (WACCI), University of Ghana, Accra, Ghana
- National Root Crops Research Institute (NRCRI), Umudike, Nigeria
| | | | - Agre Paterne
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Daniel Dzidzienyo
- West Africa Centre for Crop Improvement (WACCI), University of Ghana, Accra, Ghana
| | - Pangirayi Tongoona
- West Africa Centre for Crop Improvement (WACCI), University of Ghana, Accra, Ghana
| | - Samuel Offei
- West Africa Centre for Crop Improvement (WACCI), University of Ghana, Accra, Ghana
| | - Chiedozie Egesi
- National Root Crops Research Institute (NRCRI), Umudike, Nigeria
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, United States
| |
Collapse
|
15
|
Tomar V, Dhillon GS, Singh D, Singh RP, Poland J, Chaudhary AA, Bhati PK, Joshi AK, Kumar U. Evaluations of Genomic Prediction and Identification of New Loci for Resistance to Stripe Rust Disease in Wheat ( Triticum aestivum L.). Front Genet 2021; 12:710485. [PMID: 34650592 PMCID: PMC8505882 DOI: 10.3389/fgene.2021.710485] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2021] [Accepted: 08/24/2021] [Indexed: 01/08/2023] Open
Abstract
Stripe rust is one of the most destructive diseases of wheat (Triticum aestivum L.), caused by Puccinia striiformis f. sp. tritici (Pst), and responsible for significant yield losses worldwide. Single-nucleotide polymorphism (SNP) diagnostic markers were used to identify new sources of resistance at adult plant stage to wheat stripe rust (YR) in 141 CIMMYT advanced bread wheat lines over 3 years in replicated trials at Borlaug Institute for South Asia (BISA), Ludhiana. We performed a genome-wide association study and genomic prediction to aid the genetic gain by accumulating disease resistance alleles. The responses to YR in 141 advanced wheat breeding lines at adult plant stage were used to generate G × E (genotype × environment)-dependent rust scores for prediction and genome-wide association study (GWAS), eliminating variation due to climate and disease pressure changes. The lowest mean prediction accuracies were 0.59 for genomic best linear unbiased prediction (GBLUP) and ridge-regression BLUP (RRBLUP), while the highest mean was 0.63 for extended GBLUP (EGBLUP) and random forest (RF), using 14,563 SNPs and the G × E rust score results. RF and EGBLUP predicted higher accuracies (∼3%) than did GBLUP and RRBLUP. Promising genomic prediction demonstrates the viability and efficacy of improving quantitative rust tolerance. The resistance to YR in these lines was attributed to eight quantitative trait loci (QTLs) using the FarmCPU algorithm. Four (Q.Yr.bisa-2A.1, Q.Yr.bisa-2D, Q.Yr.bisa-5B.2, and Q.Yr.bisa-7A) of eight QTLs linked to the diagnostic markers were mapped at unique loci (previously unidentified for Pst resistance) and possibly new loci. The statistical evidence of effectiveness and distribution of the new diagnostic markers for the resistance loci would help to develop new stripe rust resistance sources. These diagnostic markers along with previously established markers would be used to create novel DNA biosensor-based microarrays for rapid detection of the resistance loci on large panels upon functional validation of the candidate genes identified in the present study to aid in rapid genetic gain in the future breeding programs.
Collapse
Affiliation(s)
- Vipin Tomar
- Borlaug Institute for South Asia, Ludhiana, India.,International Maize and Wheat Improvement Center, New Delhi, India.,Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Guriqbal Singh Dhillon
- Department of Biotechnology, Thapar Institute of Engineering and Technology, Patiala, India
| | - Daljit Singh
- Department of Plant Pathology, Kansas State University, Manhattan, KS, United States
| | - Ravi Prakash Singh
- Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Jesse Poland
- Department of Plant Pathology, Kansas State University, Manhattan, KS, United States
| | - Anis Ahmad Chaudhary
- Department of Biology, College of Science, Imam Mohammad Ibn Saud Islamic University, Riyadh, Saudi Arabia
| | | | - Arun Kumar Joshi
- Borlaug Institute for South Asia, Ludhiana, India.,International Maize and Wheat Improvement Center, New Delhi, India.,Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Uttam Kumar
- Borlaug Institute for South Asia, Ludhiana, India.,International Maize and Wheat Improvement Center, New Delhi, India.,Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| |
Collapse
|
16
|
Smith CM. Conventional breeding of insect-resistant crop plants: still the best way to feed the world population. CURRENT OPINION IN INSECT SCIENCE 2021; 45:7-13. [PMID: 33271365 DOI: 10.1016/j.cois.2020.11.008] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Revised: 11/16/2020] [Accepted: 11/17/2020] [Indexed: 06/12/2023]
Abstract
Insect-resistant crops feed much of the world, using reduced carbon inputs and providing much greater economic returns on investment. Newer, more efficient efforts are urgently needed to speed development of insect-resistant plants before a projected 30% global population increase. Plant resistance researchers must employ genotyping by sequencing and high-throughput phenotyping to identify, map and track resistance genes. In contrast to maize, rice, vegetables and wheat, limited progress has occurred to develop meaningful levels of pest resistance in cassava, cowpea and pigeonpea - major sources of nutrition for nearly 1 billion people. A knowledge void exists about the effects of climate change (elevated CO2) on resistant plants, necessitating efforts to understand this stress. Collaborations with social scientists, extension specialists, economists, spatiotemporal modelers, ecologists, and virologists will be required to develop better ways to integrate insect resistant plants into integrated crop pest management programs.
Collapse
|