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Baguma JK, Mukasa SB, Nuwamanya E, Alicai T, Omongo CA, Ochwo-Ssemakula M, Ozimati A, Esuma W, Kanaabi M, Wembabazi E, Baguma Y, Kawuki RS. Identification of Genomic Regions for Traits Associated with Flowering in Cassava ( Manihot esculenta Crantz). PLANTS (BASEL, SWITZERLAND) 2024; 13:796. [PMID: 38592820 PMCID: PMC10974989 DOI: 10.3390/plants13060796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 01/25/2024] [Accepted: 01/26/2024] [Indexed: 04/11/2024]
Abstract
Flowering in cassava (Manihot esculenta Crantz) is crucial for the generation of botanical seed for breeding. However, genotypes preferred by most farmers are erect and poor at flowering or never flower. To elucidate the genetic basis of flowering, 293 diverse cassava accessions were evaluated for flowering-associated traits at two locations and seasons in Uganda. Genotyping using the Diversity Array Technology Pty Ltd. (DArTseq) platform identified 24,040 single-nucleotide polymorphisms (SNPs) distributed on the 18 cassava chromosomes. Population structure analysis using principal components (PCs) and kinships showed three clusters; the first five PCs accounted for 49.2% of the observed genetic variation. Linkage disequilibrium (LD) estimation averaged 0.32 at a distance of ~2850 kb (kilo base pairs). Polymorphism information content (PIC) and minor allele frequency (MAF) were 0.25 and 0.23, respectively. A genome-wide association study (GWAS) analysis uncovered 53 significant marker-trait associations (MTAs) with flowering-associated traits involving 27 loci. Two loci, SNPs S5_29309724 and S15_11747301, were associated with all the traits. Using five of the 27 SNPs with a Phenotype_Variance_Explained (PVE) ≥ 5%, 44 candidate genes were identified in the peak SNP sites located within 50 kb upstream or downstream, with most associated with branching traits. Eight of the genes, orthologous to Arabidopsis and other plant species, had known functional annotations related to flowering, e.g., eukaryotic translation initiation factor and myb family transcription factor. This study identified genomic regions associated with flowering-associated traits in cassava, and the identified SNPs can be useful in marker-assisted selection to overcome hybridization challenges, like unsynchronized flowering, and candidate gene validation.
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Affiliation(s)
- Julius K. Baguma
- School of Agricultural Sciences, Makerere University, Kampala P.O. Box 7062, Uganda; (S.B.M.); (E.N.); (M.O.-S.)
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
| | - Settumba B. Mukasa
- School of Agricultural Sciences, Makerere University, Kampala P.O. Box 7062, Uganda; (S.B.M.); (E.N.); (M.O.-S.)
| | - Ephraim Nuwamanya
- School of Agricultural Sciences, Makerere University, Kampala P.O. Box 7062, Uganda; (S.B.M.); (E.N.); (M.O.-S.)
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
| | - Titus Alicai
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
| | - Christopher Abu Omongo
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
- National Agricultural Research Organisation (NARO), Entebbe P.O. Box 295, Uganda;
| | - Mildred Ochwo-Ssemakula
- School of Agricultural Sciences, Makerere University, Kampala P.O. Box 7062, Uganda; (S.B.M.); (E.N.); (M.O.-S.)
| | - Alfred Ozimati
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
- School of Biological Sciences, Makerere University, Kampala P.O. Box 7062, Uganda
| | - Williams Esuma
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
- National Agricultural Research Organisation (NARO), Entebbe P.O. Box 295, Uganda;
| | - Michael Kanaabi
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
| | - Enoch Wembabazi
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
| | - Yona Baguma
- National Agricultural Research Organisation (NARO), Entebbe P.O. Box 295, Uganda;
| | - Robert S. Kawuki
- National Crops Resources Research Institute, Namulonge (NaCRRI), Kampala P.O. Box 7084, Uganda; (T.A.); (C.A.O.); (A.O.); (W.E.); (M.K.); (E.W.); (R.S.K.)
- National Agricultural Research Organisation (NARO), Entebbe P.O. Box 295, Uganda;
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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.
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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
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Rodrmguez EPB, Morante N, Salazar S, Hyde PT, Setter TL, Kulakow P, Aparicio JS, Zhang X. Flower-inducing technology facilitates speed breeding in cassava. FRONTIERS IN PLANT SCIENCE 2023; 14:1172056. [PMID: 37284728 PMCID: PMC10239864 DOI: 10.3389/fpls.2023.1172056] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Accepted: 04/13/2023] [Indexed: 06/08/2023]
Abstract
Cassava is a tropical crop that provides daily carbohydrates to more than 800 million people. New cassava cultivars with improved yield, disease resistance, and food quality are critical to end hunger and reduce poverty in the tropics. However, the progress of new cultivar development has been dragged down by difficulties obtaining flowers from desired parental plants to enable designed crosses. Inducing early flowering and increasing seed production are crucial to improving the efficiency of developing farmer-preferred cultivars. In the present study, we used breeding progenitors to evaluate the effectiveness of flower-inducing technology, including photoperiod extension, pruning, and plant growth regulators. Photoperiod extension significantly reduced the time to flowering in all 150 breeding progenitors, especially late-flowering progenitors which were reduced from 6-7 months to 3-4 months. Seed production was increased by using the combination of pruning and plant growth regulators. Combining photoperiod extension with pruning and the PGR 6-benzyladenine (synthetic cytokinin) produced significantly more fruits and seeds than only photoperiod extension and pruning. Another growth regulator, silver thiosulfate, commonly used to block the action of ethylene, did not show a significant effect on fruit or seed production when combined with pruning. The present study validated a protocol for flower induction in cassava breeding programs and discussed factors to consider in implementing the technology. By inducing early flowering and increasing seed production, the protocol helped move one step further for speed breeding in cassava.
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Affiliation(s)
| | - Nelson Morante
- Cassava Program, International Center for Tropical Agriculture (CIAT), Cali, Colombia
| | - Sandra Salazar
- Cassava Program, International Center for Tropical Agriculture (CIAT), Cali, Colombia
| | - Peter T. Hyde
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Tim L. Setter
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Peter Kulakow
- Cassava Program, International Institute for Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Xiaofei Zhang
- Cassava Program, International Center for Tropical Agriculture (CIAT), Cali, Colombia
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Ye LJ, Möller M, Luo YH, Zou JY, Zheng W, Liu J, Li DZ, Gao LM. Variation in gene expression along an elevation gradient of Rhododendron sanguineum var. haemaleum assessed in a comparative transcriptomic analysis. FRONTIERS IN PLANT SCIENCE 2023; 14:1133065. [PMID: 37025136 PMCID: PMC10070981 DOI: 10.3389/fpls.2023.1133065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Accepted: 03/06/2023] [Indexed: 06/19/2023]
Abstract
Selection along environmental gradients may play a vital role in driving adaptive evolution. Nevertheless, genomic variation and genetic adaptation along environmental clines remains largely unknown in plants in alpine ecosystems. To close this knowledge gap, we assayed transcriptomic profiles of late flower bud and early leaf bud of Rhododendron sanguineum var. haemaleum from four different elevational belts between 3,000 m and 3,800 m in the Gaoligong Mountains. By comparing differences in gene expression of these samples, a gene co-expression network (WGCNA) was constructed to identify candidate genes related to elevation. We found that the overall gene expression patterns are organ-specific for the flower and leaf. Differentially expressed unigenes were identified in these organs. In flowers, these were mainly related to terpenoid metabolism (RsHMGR, RsTPS), while in leaves mainly related to anthocyanin biosynthesis (RsCHS, RsF3'5'H). Terpenoids are the main components of flower scent (fragrance) likely attracting insects for pollination. In response to fewer pollinators at higher elevation zone, it seems relatively less scent is produced in flower organs to reduce energy consumption. Secondary metabolites in leaves such as anthocyanins determine the plants' alternative adaptive strategy to extreme environments, such as selective pressures of insect herbivory from environmental changes and substrate competition in biosynthesis pathways at high elevations. Our findings indicated that the gene expression profiles generated from flower and leaf organs showed parallel expression shifts but with different functionality, suggesting the existence of flexibility in response strategies of plants exposed to heterogeneous environments across elevational gradients. The genes identified here are likely to be involved in the adaptation of the plants to these varying mountainous environments. This study thus contributes to our understanding of the molecular mechanisms of adaptation in response to environmental change.
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Affiliation(s)
- Lin-Jiang Ye
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
- Key Laboratory of Plant Resources and Biodiversity of Jiangxi Province, Jingdezhen University, Jingdezhen, Jiangxi, China
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Michael Möller
- Royal Botanic Garden Edinburgh, Edinburgh, Scotland, United Kingdom
| | - Ya-Huang Luo
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
- Lijiang Forest Biodiversity National Observation and Research Station, Kunming Institute of Botany, Chinese Academy of Sciences, Lijiang, Yunnan, China
| | - Jia-Yun Zou
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Wei Zheng
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jie Liu
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - De-Zhu Li
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
- Lijiang Forest Biodiversity National Observation and Research Station, Kunming Institute of Botany, Chinese Academy of Sciences, Lijiang, Yunnan, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Lian-Ming Gao
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
- Lijiang Forest Biodiversity National Observation and Research Station, Kunming Institute of Botany, Chinese Academy of Sciences, Lijiang, Yunnan, China
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Susila H, Purwestri YA. PEBP Signaling Network in Tubers and Tuberous Root Crops. PLANTS (BASEL, SWITZERLAND) 2023; 12:264. [PMID: 36678976 PMCID: PMC9865765 DOI: 10.3390/plants12020264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 12/28/2022] [Accepted: 01/04/2023] [Indexed: 06/17/2023]
Abstract
Tubers and tuberous root crops are essential carbohydrate sources and staple foods for humans, second only to cereals. The developmental phase transition, including floral initiation and underground storage organ formation, is controlled by complex signaling processes involving the integration of environmental and endogenous cues. FLOWERING LOCUS T (FT) and TERMINAL FLOWER 1/CENTRORADIALIS (TFL1/CEN), members of the phosphatidylethanolamine-binding protein (PEBP) gene family, play a central role in this developmental phase transition process. FT and FT-like proteins have a function to promote developmental phase transition, while TFL1/CEN act oppositely. The balance between FT and TFL1/CEN is critical to ensure a successful plant life cycle. Here, we present a summarized review of the role and signaling network of PEBP in floral initiation and underground storage organ formation, specifically in tubers and tuberous root crops. Lastly, we point out several questions that need to be answered in order to have a more complete understanding of the PEBP signaling network, which is crucial for the agronomical improvement of tubers and tuberous crops.
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Affiliation(s)
- Hendry Susila
- Department of Life Sciences, Korea University, Seoul 02841, Republic of Korea
- Research Center for Biotechnology, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Yekti Asih Purwestri
- Research Center for Biotechnology, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
- Department of Tropical Biology, Faculty of Biology, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
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Feng X, Zhou L, Sheng A, Lin L, Liu H. Comparative transcriptome analysis on drought stress-induced floral formation of Curcuma kwangsiensis. PLANT SIGNALING & BEHAVIOR 2022; 17:2114642. [PMID: 36189888 PMCID: PMC9542783 DOI: 10.1080/15592324.2022.2114642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/06/2022] [Revised: 08/09/2022] [Accepted: 08/11/2022] [Indexed: 06/16/2023]
Abstract
The rhizomes and tubers of Curcuma kwangsiensis have extensive medicinal value in China. However, the inflorescences of C. kwangsiensis are rarely known in horticulture, because of its low field flowering rate. In order to improve the flowering rate of C. kwangsiensis, we conducted drought stress treatment on the rhizome of C. kwangsiensis. The flowering rate of rhizome was the highest after 4d of drought stress treatment, and the buds on the rhizome could be obviously swell on the 4th day of rehydration culture. In order to identify the genes regulating the flowering time of Curcuma kwangsiensis, comparative transcriptome analysis was performed on the buds on rhizomes before drought stress treatment, 4 d after drought stress treatment and 4 d after rehydration culture. During this process, a total of 20 DEGs controlling flowering time and 23 DEGs involved in ABA synthesis and signal transduction were identified, which might regulate the flowering of C. kwangsiensis under drought stress. Some floral integration factors, such as SOC1 and FTIP, were up-regulated under drought stress for 4 d, indicating that C. kwangsiensis had flowering trend under drought stress. The results of the present study will provide theoretical support for the application of Curcuma kwangsiensis in gardening.
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Affiliation(s)
- Xin Feng
- Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
| | - Liying Zhou
- Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
| | - Aiwu Sheng
- Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
| | - Ling Lin
- Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
| | - Huicheng Liu
- Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
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Hyde PT, Setter TL. Long-day photoperiod and cool temperature induce flowering in cassava: Expression of signaling genes. FRONTIERS IN PLANT SCIENCE 2022; 13:973206. [PMID: 36186068 PMCID: PMC9523484 DOI: 10.3389/fpls.2022.973206] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2022] [Accepted: 08/23/2022] [Indexed: 06/08/2023]
Abstract
Cassava is a staple food crop in the tropics, and is of particular importance in Africa. Recent development of genomic selection technology have improved the speed of cassava breeding; however, cassava flower initiation and development remains a bottleneck. The objectives of the current studies were to elucidate the effect of photoperiod, temperature and their interactions on the time of flowering and flower development in controlled environments, and to use RNA-sequencing to identify transcriptome expression underlying these environmental responses. Compared to a normal tropical day-length of 12 h, increasing the photoperiod by 4 h or decreasing the air temperature from 34/31 to 22°/19°C (day/night) substantially hastened the time to flowering. For both photoperiod and temperature, the environment most favorable for flowering was opposite the one for storage root harvest index. There was a pronounced treatment interaction: at warm day-time temperatures, percent flowering was low, and photoperiod had little effect. In contrast, at cooler temperatures, percent flowering increased, and long-day (LD) photoperiod had a strong effect in hastening flowering. In response to temperature, many differentially expressed genes in the sugar, phase-change, and flowering-time-integrator pathways had expression/flowering patterns in the same direction as in Arabidopsis (positive or negative) even though the effect of temperature on flowering operates in the reverse direction in cassava compared to Arabidopsis. Three trehalose-6-phosphate-synthase-1 (TPS1) genes and four members of the SPL gene family had significantly increased expression at cool temperature, suggesting sugar signaling roles in flower induction. In response to LD photoperiod, regulatory genes were expressed as in Arabidopsis and other LD flowering plants. Several hormone-related genes were expressed in response to both photoperiod and temperature. In summary, these findings provide insight on photoperiod and temperature responses and underlying gene expression that may assist breeding programs to manipulate flowering for more rapid crop improvement.
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Uke A, Tokunaga H, Utsumi Y, Vu NA, Nhan PT, Srean P, Hy NH, Ham LH, Lopez-Lavalle LAB, Ishitani M, Hung N, Tuan LN, Van Hong N, Huy NQ, Hoat TX, Takasu K, Seki M, Ugaki M. Cassava mosaic disease and its management in Southeast Asia. PLANT MOLECULAR BIOLOGY 2022; 109:301-311. [PMID: 34240309 PMCID: PMC9162994 DOI: 10.1007/s11103-021-01168-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Accepted: 06/21/2021] [Indexed: 05/09/2023]
Abstract
Key message Status of the current outbreak of cassava mosaic disease (CMD) in Southeast Asia was reviewed. Healthy cassava seed production and dissemination systems have been established in Vietnam and Cambodia, along with integrated disease and pest management systems, to combat the outbreak. Abstract Cassava (Manihot esculenta Crantz) is one of the most important edible crops in tropical and subtropical regions. Recently, invasive insect pests and diseases have resulted in serious losses to cassava in Southeast Asia. In this review we discuss the current outbreak of cassava mosaic disease (CMD) caused by the Sri Lankan cassava mosaic virus (SLCMV) in Southeast Asia, and summarize similarities between SLCMV and other cassava mosaic begomoviruses. A SATREPS (Science and Technology Research Partnership for Sustainable Development) project “Development and dissemination of sustainable production systems based on invasive pest management of cassava in Vietnam, Cambodia and Thailand”, was launched in 2016, which has been funded by The Japan International Cooperation Agency (JICA) and The Japan Science and Technology Agency (JST), Japan. The objectives of SATREPS were to establish healthy seed production and dissemination systems for cassava in south Vietnam and Cambodia, and to develop management systems for plant diseases and insect pests of cassava. To achieve these goals, model systems of healthy seed production in Vietnam and Cambodia have been developed incorporating CMD-resistant planting materials through international networks with The International Center for Tropical Agriculture (CIAT) and The International Institute of Tropical Agriculture (IITA). Supplementary Information The online version contains supplementary material available at 10.1007/s11103-021-01168-2.
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Affiliation(s)
- Ayaka Uke
- Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba Japan
| | - Hiroki Tokunaga
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
| | - Yoshinori Utsumi
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
| | - Nguyen Anh Vu
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute (AGI), Hanoi, Vietnam
| | - Pham Thi Nhan
- Hung Loc Agricultural Research Center (HLARC), Dong Nai, Vietnam
| | - Pao Srean
- University of Battambang (UBB), Battambang, Cambodia
| | - Nguyen Huu Hy
- Hung Loc Agricultural Research Center (HLARC), Dong Nai, Vietnam
| | - Le Huy Ham
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute (AGI), Hanoi, Vietnam
| | | | - Manabu Ishitani
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- International Center for Tropical Agriculture (CIAT), Cali, Colombia
| | - Nguyen Hung
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute (AGI), Hanoi, Vietnam
| | - Le Ngoc Tuan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- National Key Laboratory for Plant Cell Technology, Agricultural Genetics Institute (AGI), Hanoi, Vietnam
| | - Nguyen Van Hong
- Sub-Department of Plantation and Plant Protection of Tay Ninh Province, Hanoi, Vietnam
| | - Ngo Quang Huy
- Plant Protection Research Institute (PPRI), Hanoi, Vietnam
| | | | - Keiji Takasu
- Faculty of Agriculture, Kyushu University, Fukuoka, Japan
| | - Motoaki Seki
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- RIKEN Cluster for Pioneering Research, Saitama, Japan
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Kanagawa Japan
| | - Masashi Ugaki
- Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba Japan
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Oluwasanya DN, Gisel A, Stavolone L, Setter TL. Environmental responsiveness of flowering time in cassava genotypes and associated transcriptome changes. PLoS One 2021; 16:e0253555. [PMID: 34288936 PMCID: PMC8294508 DOI: 10.1371/journal.pone.0253555] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Accepted: 06/08/2021] [Indexed: 11/18/2022] Open
Abstract
Cassava is an important food security crop in tropical regions of the world. Cassava improvement by breeding is limited by its delayed and poor production of flowers, such that cassava flowering under field conditions indirectly lengthens the breeding cycle. By studying genotype and environment interaction under two Nigerian field conditions (Ubiaja and Ibadan) and three controlled temperature conditions (22°C/18°C, 28/24°C and 34/30°C (day/night)), we found that while early flowering genotypes flowered at similar times and rates under all growing conditions (unfavorable and favorable field and controlled-temperature environments), late flowering genotypes were environmentally sensitive such that they were substantially delayed in unfavorable environments. On the basis of nodes-to-flower, flowering of late genotypes approached the flowering time of early flowering genotypes under relatively cool Ubiaja field conditions and in growth chambers at 22°C, whereas warmer temperatures elicited a delaying effect. Analysis of transcriptomes from leaves of field and controlled-temperature environments revealed that conditions which promote early flowering in cassava have low expression of the flowering repressor gene TEMPRANILLO 1 (TEM1), before and after flowering. Expression data of field plants showed that the balance between flower stimulatory and inhibitory signaling appeared to correlate with flowering time across the environments and genotypes.
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Affiliation(s)
- Deborah N. Oluwasanya
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, New York, United States of America
- Bioscience Unit, International Institute of Tropical Agriculture, Ibadan, Oyo State, Nigeria
| | - Andreas Gisel
- Bioscience Unit, International Institute of Tropical Agriculture, Ibadan, Oyo State, Nigeria
- Institute for Biomedical Technologies, National Research Council (CNR), Bari, Italy
| | - Livia Stavolone
- Bioscience Unit, International Institute of Tropical Agriculture, Ibadan, Oyo State, Nigeria
- Institute for Sustainable Plant Protection, National Research Council (CNR), Bari, Italy
| | - Tim L. Setter
- Section of Soil and Crop Sciences, School of Integrative Plant Science, Cornell University, Ithaca, New York, United States of America
- * E-mail:
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Behnam B, Higo A, Yamaguchi K, Tokunaga H, Utsumi Y, Selvaraj MG, Seki M, Ishitani M, Ceballos H, Lopez-Lavalle LAB, Tsuji H. Field-transcriptome analyses reveal developmental transitions during flowering in cassava (Manihot esculenta Crantz). PLANT MOLECULAR BIOLOGY 2021; 106:285-296. [PMID: 33855676 DOI: 10.1007/s11103-021-01149-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2020] [Accepted: 03/29/2021] [Indexed: 06/12/2023]
Abstract
We characterized genes that function in the photoperiodic flowering pathway in cassava. Transcriptome analysis of field-grown plants revealed characteristic expression patterns of these genes, demonstrating that field-grown cassava experiences two distinct developmental transitions. Cassava is an important crop for both edible and industrial purposes. Cassava develops storage roots that accumulate starch, providing an important source of staple food in tropical regions. To facilitate cassava breeding, it is important to elucidate how flowering is controlled. Several important genes that control flowering time have been identified in model plants; however, comprehensive characterization of these genes in cassava is still lacking. In this study, we identified genes encoding central flowering time regulators and examined these sequences for the presence or absence of conserved motifs. We found that cassava shares conserved genes for the photoperiodic flowering pathway, including florigen, anti-florigen and its associated transcription factor (GIGANTEA, CONSTANS, FLOWERING LOCUS T, CENTRORADIALIS/TERMINAL FLOWER1 and FD) and florigen downstream genes (SUPRESSOR OF OVEREXPRESSION OF CONSTANS1 and APETALA1/FRUITFUL). We conducted RNA-seq analysis of field-grown cassava plants and characterized the expression of flowering control genes. Finally, from the transcriptome analysis we identified two distinct developmental transitions that occur in field-grown cassava.
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Affiliation(s)
- Babak Behnam
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Japan
| | - Asuka Higo
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Japan
| | - Kaho Yamaguchi
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Japan
| | - Hiroki Tokunaga
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa, Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
| | - Yoshinori Utsumi
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa, Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
| | | | - Motoaki Seki
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Japan
- Center for Sustainable Resource Science, RIKEN, Yokohama, Kanagawa, Japan
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- Cluster for Pioneering Research, RIKEN, Saitama, Japan
| | - Manabu Ishitani
- International Laboratory for Cassava Molecular Breeding (ILCMB), AGI, Hanoi, Vietnam
- International Center for Tropical Agriculture (CIAT), Valle del Cauca, Colombia
| | - Hernan Ceballos
- International Center for Tropical Agriculture (CIAT), Valle del Cauca, Colombia
| | | | - Hiroyuki Tsuji
- Kihara Institute for Biological Research, Yokohama City University, Yokohama, Japan.
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