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Çelik S. Gene expression analysis of potato drought-responsive genes under drought stress in potato ( Solanum tuberosum L.) cultivars. PeerJ 2024; 12:e17116. [PMID: 38525286 PMCID: PMC10960530 DOI: 10.7717/peerj.17116] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Accepted: 02/26/2024] [Indexed: 03/26/2024] Open
Abstract
The potato (Solanum tuberosum L.), an important field crop consumed extensively worldwide, is adversely affected by abiotic stress factors especially drought. Therefore, it is vital to understand the genetic mechanism under drought stress to decrease loose of yield and quality . This trial aimed to screen drought-responsive gene expressions of potato and determine the drought-tolerant potato cultivar. The trial pattern is a completely randomized block design (CRBD) with four replications under greenhouse conditions. Four cultivars (Brooke, Orwell, Vr808, Shc909) were irrigated with four different water regimes (control and three stress conditions), and the gene expression levels of 10 potato genes were investigated. The stress treatments as follows: Control = 100% field capacity; slight drought = 75% field capacity; moderate drought = 50% field capacity, and severe drought 25% field capacity. To understand the gene expression under drought stress in potato genotypes, RT-qPCR analysis was performed and results showed that the genes most associated with drought tolerance were the StRD22 gene, MYB domain transcription factor, StERD7, Sucrose Synthase (SuSy), ABC Transporter, and StDHN1. The StHSP100 gene had the lowest genetic expression in all cultivars. Among the cultivars, the Orwell exhibited the highest expression of the StRD22 gene under drought stress. Overall, the cultivar with the highest gene expression was the Vr808, closely followed by the Brooke cultivar. As a result, it was determined that potato cultivars Orwell, Vr808, and Brooke could be used as parents in breeding programs to develop drought tolerant potato cultivars.
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Affiliation(s)
- Sadettin Çelik
- Genç Vocational School, Forestry Department, Bingol University, Bingol, Turkey
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Wirojsirasak W, Songsri P, Jongrungklang N, Tangphatsornruang S, Klomsa-ard P, Ukoskit K. A Large-Scale Candidate-Gene Association Mapping for Drought Tolerance and Agronomic Traits in Sugarcane. Int J Mol Sci 2023; 24:12801. [PMID: 37628982 PMCID: PMC10454574 DOI: 10.3390/ijms241612801] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2023] [Revised: 08/09/2023] [Accepted: 08/12/2023] [Indexed: 08/27/2023] Open
Abstract
Dissection of the genetic loci controlling drought tolerance traits with a complex genetic inheritance is important for drought-tolerant sugarcane improvement. In this study, we conducted a large-scale candidate gene association study of 649 candidate genes in a sugarcane diversity panel to identify genetic variants underlying agronomic traits and drought tolerance indices evaluated in plant cane and ratoon cane under water-stressed (WS) and non-stressed (NS) environments. We identified 197 significant marker-trait associations (MTAs) in 141 candidate genes associated with 18 evaluated traits with the Bonferroni correction threshold (α = 0.05). Out of the total, 95 MTAs in 78 candidate genes and 62 MTAs in 58 candidate genes were detected under NS and WS conditions, respectively. Most MTAs were found only in specific water regimes and crop seasons. These MTAs explained 7.93-30.52% of phenotypic variation. Association mapping results revealed that 34, 59, and 104 MTAs involved physiological and molecular adaptation, phytohormone metabolism, and drought-inducible genes. They identified 19 pleiotropic genes associated with more than one trait and many genes related to drought tolerance indices. The genetic and genomic resources identified in this study will enable the combining of yield-related traits and sugar-related traits with agronomic value to optimize the yield of sugarcane cultivars grown under drought-stressed and non-stressed environments.
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Affiliation(s)
- Warodom Wirojsirasak
- Department of Biotechnology, Faculty of Science and Technology, Rangsit Campus, Thammasat University, Pathum Thani 12120, Thailand;
- Mitr Phol Innovation and Research Center, Chaiyaphum 36110, Thailand;
| | - Patcharin Songsri
- Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand; (P.S.); (N.J.)
- Northeast Thailand Cane and Sugar Research Center, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
| | - Nakorn Jongrungklang
- Department of Agronomy, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand; (P.S.); (N.J.)
- Northeast Thailand Cane and Sugar Research Center, Faculty of Agriculture, Khon Kaen University, Khon Kaen 40002, Thailand
| | - Sithichoke Tangphatsornruang
- National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, Pathum Thani 12120, Thailand;
| | | | - Kittipat Ukoskit
- Department of Biotechnology, Faculty of Science and Technology, Rangsit Campus, Thammasat University, Pathum Thani 12120, Thailand;
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Kumar R, Sagar V, Verma VC, Kumari M, Gujjar RS, Goswami SK, Kumar Jha S, Pandey H, Dubey AK, Srivastava S, Singh SP, Mall AK, Pathak AD, Singh H, Jha PK, Prasad PVV. Drought and salinity stresses induced physio-biochemical changes in sugarcane: an overview of tolerance mechanism and mitigating approaches. FRONTIERS IN PLANT SCIENCE 2023; 14:1225234. [PMID: 37645467 PMCID: PMC10461627 DOI: 10.3389/fpls.2023.1225234] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Accepted: 07/18/2023] [Indexed: 08/31/2023]
Abstract
Sugarcane productivity is being hampered globally under changing environmental scenarios like drought and salinity. The highly complex nature of the plant responses against these stresses is determined by a variety of factors such as genotype, developmental phase of the plant, progression rate and stress, intensity, and duration. These factors influence plant responses and can determine whether mitigation approaches associated with acclimation are implemented. In this review, we attempt to summarize the effects of drought and salinity on sugarcane growth, specifically on the plant's responses at various levels, viz., physiological, biochemical, and metabolic responses, to these stresses. Furthermore, mitigation strategies for dealing with these stresses have been discussed. Despite sugarcane's complex genomes, conventional breeding approaches can be utilized in conjunction with molecular breeding and omics technologies to develop drought- and salinity-tolerant cultivars. The significant role of plant growth-promoting bacteria in sustaining sugarcane productivity under drought and salinity cannot be overlooked.
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Affiliation(s)
- Rajeev Kumar
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Vidya Sagar
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Vegetable Research, Varanasi, India
| | | | - Mala Kumari
- Integral Institute of Agriculture Science and Technology, Integral University, Lucknow, India
| | - Ranjit Singh Gujjar
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Sanjay K. Goswami
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Sudhir Kumar Jha
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Pulses Research, Kanpur, India
| | - Himanshu Pandey
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Abhishek Kumar Dubey
- Indian Council of Agricultural Research (ICAR)-Research Complex for Eastern Region, Patna, India
| | - Sangeeta Srivastava
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - S. P. Singh
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Ashutosh K. Mall
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Ashwini Dutt Pathak
- Indian Council of Agricultural Research (ICAR)-Indian Institute of Sugarcane Research, Lucknow, India
| | - Hemlata Singh
- Department of Botany, Plant Physiology & Biochemistry, Dr. Rajendra Prasad Central Agricultural University, Pusa, Samastipur, India
| | - Prakash Kumar Jha
- Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification, Kansas State University, Manhattan, KS, United States
| | - P. V. Vara Prasad
- Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification, Kansas State University, Manhattan, KS, United States
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
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Dinesh Babu KS, Janakiraman V, Palaniswamy H, Kasirajan L, Gomathi R, Ramkumar TR. A short review on sugarcane: its domestication, molecular manipulations and future perspectives. GENETIC RESOURCES AND CROP EVOLUTION 2022; 69:2623-2643. [PMID: 36159774 PMCID: PMC9483297 DOI: 10.1007/s10722-022-01430-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/01/2022] [Accepted: 06/11/2022] [Indexed: 06/16/2023]
Abstract
Sugarcane (Saccharum spp.) is a special crop plant that underwent anthropogenic evolution from a wild grass species to an important food, fodder, and energy crop. Unlike any other grass species which were selected for their kernels, sugarcane was selected for its high stem sucrose accumulation. Flowering in sugarcane is not favored since flowering diverts the stored sugar resources for the reproductive and developmental energy needs. Cultivars are vegetatively propagated and sugarcane breeding is still essentially focused on conventional methods, since the knowledge of sugarcane genetics has lagged that of other major crops. Cultivar improvement has been extremely challenging due to its polyploidy and aneuploidy nature derived from a few interspecific hybridizations between Saccharum officinarum and Saccharum spontaneum, revealing the coexistence of two distinct genome organization modes in the modern variety. Alongside implementation of modern agricultural techniques, generation of hybrid clones, transgenics and genome edited events will help to meet the ever-growing bioenergy needs. Additionally, there are two common biotechnological approaches to improve plant stress tolerance, which includes marker-assisted selection (MAS) and genetic transformation. During the past two decades, the use of molecular approaches has contributed greatly to a better understanding of the genetic and biochemical basis of plant stress-tolerance and in some cases, it led to the development of plants with enhanced tolerance to abiotic stress. Hence, this review mainly intends on the events that shaped the sugarcane as what it is now and what challenges ahead and measures taken to further improve its yield, production and maximize utilization to beat the growing demands.
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Affiliation(s)
| | - Vardhana Janakiraman
- Department of Biotechnology, Vels Institute of Science, Technology & Advanced studies (VISTAS), Chennai, TN 600117 India
| | - Harunipriya Palaniswamy
- Tissue Culture Laboratory, Division of Crop Improvement, ICAR‐Sugarcane Breeding Institute, Coimbatore, TN 641007 India
| | - Lakshmi Kasirajan
- Genomics Laboratory, Division of Crop Improvement, ICAR‐Sugarcane Breeding Institute, Coimbatore, TN 641007 India
| | - Raju Gomathi
- Plant Physiology Laboratory, Division of Crop Production, ICAR‐Sugarcane Breeding Institute, Coimbatore, TN 641007 India
| | - Thakku R. Ramkumar
- Agronomy Department, IFAS, University of Florida, Gainesville, FL 32611 USA
- Department of Biological Sciences, Delaware State University, Dover, DE 19001 USA
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Kumar D, Malik N, Sengar RS, Yadav B, Singh AK, Yadav CL, Yadav MK. Transcriptional Regulation in Sugarcane under Water Deficit during Formative Growth Stage. CYTOL GENET+ 2021. [DOI: 10.3103/s0095452721060062] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Ramasamy M, Damaj MB, Vargas-Bautista C, Mora V, Liu J, Padilla CS, Irigoyen S, Saini T, Sahoo N, DaSilva JA, Mandadi KK. A Sugarcane G-Protein-Coupled Receptor, ShGPCR1, Confers Tolerance to Multiple Abiotic Stresses. FRONTIERS IN PLANT SCIENCE 2021; 12:745891. [PMID: 35295863 PMCID: PMC8919185 DOI: 10.3389/fpls.2021.745891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/22/2021] [Accepted: 10/14/2021] [Indexed: 06/14/2023]
Abstract
Sugarcane (Saccharum spp.) is a prominent source of sugar and serves as bioenergy/biomass feedstock globally. Multiple biotic and abiotic stresses, including drought, salinity, and cold, adversely affect sugarcane yield. G-protein-coupled receptors (GPCRs) are components of G-protein-mediated signaling affecting plant growth, development, and stress responses. Here, we identified a GPCR-like protein (ShGPCR1) from sugarcane and energy cane (Saccharum spp. hybrids) and characterized its function in conferring tolerance to multiple abiotic stresses. ShGPCR1 protein sequence contained nine predicted transmembrane (TM) domains connected by four extracellular and four intracellular loops, which could interact with various ligands and heterotrimeric G proteins in the cells. ShGPCR1 sequence displayed other signature features of a GPCR, such as a putative guanidine triphosphate (GTP)-binding domain, as well as multiple myristoylation and protein phosphorylation sites, presumably important for its biochemical function. Expression of ShGPCR1 was upregulated by drought, salinity, and cold stresses. Subcellular imaging and calcium (Ca2+) measurements revealed that ShGPCR1 predominantly localized to the plasma membrane and enhanced intracellular Ca2+ levels in response to GTP, respectively. Furthermore, constitutive overexpression of ShGPCR1 in sugarcane conferred tolerance to the three stressors. The stress-tolerance phenotype of the transgenic lines corresponded with activation of multiple drought-, salinity-, and cold-stress marker genes, such as Saccharum spp. LATE EMBRYOGENESIS ABUNDANT, DEHYDRIN, DROUGHT RESPONSIVE 4, GALACTINOL SYNTHASE, ETHYLENE RESPONSIVE FACTOR 3, SALT OVERLY SENSITIVE 1, VACUOLAR Na+/H+ ANTIPORTER 1, NAM/ATAF1/2/CUC2, COLD RESPONSIVE FACTOR 2, and ALCOHOL DEHYDROGENASE 3. We suggest that ShGPCR1 plays a key role in conferring tolerance to multiple abiotic stresses, and the engineered lines may be useful to enhance sugarcane production in marginal environments with fewer resources.
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Affiliation(s)
- Manikandan Ramasamy
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | - Mona B. Damaj
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | | | - Victoria Mora
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | - Jiaxing Liu
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | - Carmen S. Padilla
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | - Sonia Irigoyen
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
| | - Tripti Saini
- Department of Biology, University of Texas Rio Grande Valley, Edinburg, TX, United States
| | - Nirakar Sahoo
- Department of Biology, University of Texas Rio Grande Valley, Edinburg, TX, United States
| | - Jorge A. DaSilva
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
- Department of Soil and Crop Sciences, Texas A&M University, College Station, TX, United States
| | - Kranthi K. Mandadi
- Texas A&M AgriLife Research and Extension Center, Weslaco, TX, United States
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, United States
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7
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Boaretto LF, Labate MTV, Franceschini LM, Cataldi TR, Budzinski IGF, de Moraes FE, Labate CA. Proteomics Reveals an Increase in the Abundance of Glycolytic and Ethanolic Fermentation Enzymes in Developing Sugarcane Culms During Sucrose Accumulation. FRONTIERS IN PLANT SCIENCE 2021; 12:716964. [PMID: 34659289 PMCID: PMC8515036 DOI: 10.3389/fpls.2021.716964] [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: 05/29/2021] [Accepted: 08/25/2021] [Indexed: 06/13/2023]
Abstract
Sugarcane is an economically important crop contributing to the sugar and ethanol production of the world with 80 and 40%, respectively. Despite its importance as the main crop for sugar production, the mechanisms involved in the regulation of sucrose accumulation in sugarcane culms are still poorly understood. The aim of this work was to compare the quantitative changes of proteins in juvenile and maturing internodes at three stages of plant development. Label-free shotgun proteomics was used for protein profiling and quantification in internodes 5 (I5) and 9 (I9) of 4-, 7-, and 10-month-old-plants (4M, 7M, and 10M, respectively). The I9/I5 ratio was used to assess the differences in the abundance of common proteins at each stage of internode development. I9 of 4M plants showed statistically significant increases in the abundance of several enzymes of the glycolytic pathway and proteoforms of alcohol dehydrogenase (ADH) and pyruvate decarboxylase (PDC). The changes in content of the enzymes were followed by major increases of proteins related to O2 transport like hemoglobin 2, ROS scavenging enzymes, and enzymes involved in the ascorbate/glutatione system. Besides, intermediates from tricarboxylic acid cycle (TCA) were reduced in I9-4M, indicating that the increase in abundance of several enzymes involved in glycolysis, pentose phosphate cycle, and TCA, might be responsible for higher metabolic flux, reducing its metabolites content. The results observed in I9-4M indicate that hypoxia might be the main cause of the increased flux of glycolysis and ethanolic fermentation to supply ATP and reducing power for plant growth, mitigating the reduction in mitochondrial respiration due to the low oxygen availability inside the culm. As the plant matured and sucrose accumulated to high levels in the culms, the proteins involved in glycolysis, ethanolic fermentation, and primary carbon metabolism were significantly reduced.
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Selvi A, Devi K, Manimekalai R, Prathima PT. Comparative analysis of drought-responsive transcriptomes of sugarcane genotypes with differential tolerance to drought. 3 Biotech 2020; 10:236. [PMID: 32399386 PMCID: PMC7203378 DOI: 10.1007/s13205-020-02226-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 04/24/2020] [Indexed: 01/05/2023] Open
Abstract
Water stress causes considerable yield losses in sugarcane. To investigate differentially expressed genes under water stress, two sugarcane genotypes were subjected to three water-deficit levels (mild, moderate, and severe) and subsequent recovery and leaf transcriptome was generated using Illumina NextSeq sequencing. Among the differentially expressed genes, the tolerant genotype Co 06022 generated 2970 unigenes (p ≤ 0.05, functionally known, non-redundant DEGs) at 2-day stress, and there was a progressive decrease in the expressed genes as the stress period increased with 2109 unigenes at 6-day stress and 2307 unigenes at 10-day stress. There was considerable reduction at recovery with 1334 unigenes expressed at 10 days after recovery. However, in the susceptible genotype Co 8021, the number of unigenes expressed at 2 days was lower (2025) than the tolerant genotype and a further reduction was seen at 6-day stress (1552). During recovery, more differentially expressed genes were observed in the susceptible cultivar indicating that the cultivar has to activate more functions/processes to recover from the damage caused by stress. Comparison of DEGs between all stages of stress and recovery in both genotypes revealed that, the commonly up- and down-regulated genes across different stages were approximately double in the tolerant genotype. The most enriched gene ontology classes were heme binding, peroxidase activity and metal ion binding in the biological process and response to oxidative stress, hydrogen peroxide catabolic process and response to stress in the molecular function category. The cellular component was enriched with DEGs involved in extracellular region followed by integral component of membrane. The KEGG pathway analysis revealed important metabolic activities and functionally important genes involved in mitigating water-deficit stress in both the varieties. In addition, several unannotated genes in important pathways were detected and together may provide novel insights into water-deficit tolerance mechanisms in sugarcane. The reliability of the observed expression patterns was confirmed by qRT-PCR. The results of this study will help to identify useful genes for improving drought tolerance in sugarcane.
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Affiliation(s)
- A. Selvi
- Biotechnology Section, Division of Crop Improvement, Indian Council of Agricultural Research- Sugarcane Breeding Institute, Coimbatore, Tamil Nadu 641 007 India
| | - K. Devi
- Biotechnology Section, Division of Crop Improvement, Indian Council of Agricultural Research- Sugarcane Breeding Institute, Coimbatore, Tamil Nadu 641 007 India
| | - R. Manimekalai
- Biotechnology Section, Division of Crop Improvement, Indian Council of Agricultural Research- Sugarcane Breeding Institute, Coimbatore, Tamil Nadu 641 007 India
| | - P. T. Prathima
- Biotechnology Section, Division of Crop Improvement, Indian Council of Agricultural Research- Sugarcane Breeding Institute, Coimbatore, Tamil Nadu 641 007 India
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Salvato F, Loziuk P, Kiyota E, Daneluzzi GS, Araújo P, Muddiman DC, Mazzafera P. Label-Free Quantitative Proteomics of Enriched Nuclei from Sugarcane (Saccharum ssp) Stems in Response to Drought Stress. Proteomics 2019; 19:e1900004. [PMID: 31172662 DOI: 10.1002/pmic.201900004] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2019] [Revised: 05/31/2019] [Indexed: 11/09/2022]
Abstract
Drought is considered the major abiotic stress limiting crop productivity. This study seeks to identify proteins involved in the drought response in sugarcane stems submitted to drought stress. The integration of nuclei enrichment sample preparation with the shotgun proteomic approach results in great coverage of the sugarcane stem proteome with 5381 protein groups identified. A total of 1204 differentially accumulated proteins are detected in response to drought, among which 586 and 618 are increased and reduced in abundance, respectively. A total of 115 exclusive proteins are detected, being 41 exclusives of drought-stressed plants and 74 exclusives of control plants. In the control plants, most of these proteins are related to cell wall metabolism, indicating that drought affects negatively the cell wall metabolism. Also, 37 transcription factors (TFs) are identified, which are low abundant nuclear proteins and are differentially accumulated in response to drought stress. These TFs are associated to protein domains such as leucine-rich (bZIP), C2H2, NAC, C3H, LIM, Myb-related, heat shock factor (HSF) and auxin response factor (ARF). Increased abundance of chromatin remodeling and RNA processing proteins are also observed. It is suggested that these variations result from an imbalance of protein synthesis and degradation processes induced by drought.
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Affiliation(s)
- Fernanda Salvato
- Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP, 13081, Brazil
| | - Philip Loziuk
- W.M. Keck FTMS Laboratory, Department of Chemistry, North Carolina State University, Raleigh, NC, 27695, USA
| | - Eduardo Kiyota
- Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP, 13081, Brazil
| | - Gabriel Silva Daneluzzi
- Escola Superior de Agricultura "Luiz de Queiroz", Universidade de São Paulo, Piracicaba, SP, 13418, Brazil
| | - Pedro Araújo
- Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP, 13081, Brazil
| | - David C Muddiman
- W.M. Keck FTMS Laboratory, Department of Chemistry, North Carolina State University, Raleigh, NC, 27695, USA
| | - Paulo Mazzafera
- Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP, 13081, Brazil.,Escola Superior de Agricultura "Luiz de Queiroz", Universidade de São Paulo, Piracicaba, SP, 13418, Brazil
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Chen Z, Qin C, Wang M, Liao F, Liao Q, Liu X, Li Y, Lakshmanan P, Long M, Huang D. Ethylene-mediated improvement in sucrose accumulation in ripening sugarcane involves increased sink strength. BMC PLANT BIOLOGY 2019; 19:285. [PMID: 31253103 PMCID: PMC6599285 DOI: 10.1186/s12870-019-1882-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Accepted: 06/11/2019] [Indexed: 05/23/2023]
Abstract
BACKGROUND Sugarcane is a major crop producing about 80% of sugar globally. Increasing sugar content is a top priority for sugarcane breeding programs worldwide, however, the progress is extremely slow. Owing to its commercial significance, the physiology of sucrose accumulation has been studied extensively but it did not lead to any significant practical outcomes. Recent molecular studies are beginning to recognize genes and gene networks associated with this phenomenon. To further advance our molecular understanding of sucrose accumulation, we altered sucrose content of sugarcane genotypes with inherently large variation for sucrose accumulation using a sugarcane ripener, ethylene, and studied their transcriptomes to identify genes associated with the phenomenon. RESULTS Sucrose content variation in the experimental genotypes was substantial, with the top-performing clone producing almost 60% more sucrose than the poorest performer. Ethylene treatment increased stem sucrose content but that occurred only in low-sugar genotype. Transcriptomic analyses have identified about 160,000 unigenes of which 86,000 annotated genes were classified into functional groups associated with carbohydrate metabolism, signaling, localization, transport, hydrolysis, growth, catalytic activity, membrane and storage, suggesting the structural and functional specification, including sucrose accumulation, occurring in maturing internodes. About 25,000 genes were differentially expressed between all genotypes and treatments combined. Genotype had a dominant effect on differential gene expression than ethylene treatment. Sucrose and starch metabolism genes were more responsive to ethylene treatment in low-sugar genotype. Ethylene caused differential gene expression of many stress-related transcription factors, carbohydrate metabolism, hormone metabolism and epigenetic modification. Ethylene-induced expression of ethylene-responsive transcription factors, cytosolic acid- and cell wall-bound invertases, and ATPase was more pronounced in low- than in high-sugar genotype, suggesting an ethylene-stimulated sink activity and consequent increased sucrose accumulation in low-sugar genotype. CONCLUSION Ethylene-induced sucrose accumulation is more pronounced in low-sugar sugarcane genotype, and this is possibly achieved by the preferential activation of genes such as invertases that increase sink strength in the stem. The relatively high enrichment of differentially expressed genes associated with hormone metabolism and signaling and stress suggests a strong hormonal regulation of source-sink activity, growth and sucrose accumulation in sugarcane.
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Affiliation(s)
- Zhongliang Chen
- College of Agriculture, Guangxi University, Nanning, 530004 China
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Cuixian Qin
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Miao Wang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Fen Liao
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Qing Liao
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Xihui Liu
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Yangrui Li
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Prakash Lakshmanan
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, QLD, St Lucia, 4072 Australia
| | - Minghua Long
- College of Agriculture, Guangxi University, Nanning, 530004 China
| | - Dongliang Huang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture and Rural Affairs /Guangxi Key Laboratory of Sugarcane Genetic Improvement /Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
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Cacefo V, Ribas AF, Zilliani RR, Neris DM, Domingues DS, Moro AL, Vieira LGE. Decarboxylation mechanisms of C4 photosynthesis in Saccharum spp.: increased PEPCK activity under water-limiting conditions. BMC PLANT BIOLOGY 2019; 19:144. [PMID: 30991938 PMCID: PMC6469216 DOI: 10.1186/s12870-019-1745-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Accepted: 03/28/2019] [Indexed: 05/22/2023]
Abstract
BACKGROUND C4 plants have been classified into three subtypes based on the enzymes used to decarboxylate C4 acids in the bundle sheath cells (NADP-ME, NAD-ME and PEPCK pathways). Evidences indicate that, depending on environmental factors, C4 plants may exhibit a certain degree of flexibility in the use of the decarboxylation mechanisms. In this context, the objective was to extend the knowledge on the degree of flexibility between the pathways of decarboxylation in sugarcane, a NADP-ME species, at different levels of water deficit. RESULTS An experiment was carried out with two cultivars - RB92579 (tolerant to water deficit) and SP80-3280 (susceptible to water deficit) subjected to moderate level (- 1.5 to - 1.8 MPa), severe level (below - 2.0 MPa) and recovery (48 h after rehydration) and changes in the activities of the enzymes involved in the three C4 mechanisms and in gene expression were investigated. Our results showed that sugarcane uses the PEPCK pathway as a decarboxylation mechanism in addition to the NADP-ME, which was more evident under water deficit conditions for both cultivars. CONCLUSIONS The results obtained here, show that sugarcane increases the use of the PEPCK pathway as a decarboxylation mechanism, in addition to the NADP-ME pathway, under conditions of water deficit, particularly in the tolerant cultivar.
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Affiliation(s)
- Viviane Cacefo
- Centro de Estudos em Ecofisiologia Vegetal do Oeste Paulista (CEVOP), Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
| | - Alessandra Ferreira Ribas
- Agronomy Graduate Program, Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
| | - Rafael Rebes Zilliani
- Centro de Estudos em Ecofisiologia Vegetal do Oeste Paulista (CEVOP), Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
| | - Daniel Moreira Neris
- Centro de Estudos em Ecofisiologia Vegetal do Oeste Paulista (CEVOP), Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
| | - Douglas Silva Domingues
- Departamento de Botânica, Instituto de Biociências de Rio Claro, Universidade Estadual Paulista (UNESP), Avenida 24-A, 1515, CEP, Rio Claro, SP 13506-900 Brazil
| | - Adriana Lima Moro
- Centro de Estudos em Ecofisiologia Vegetal do Oeste Paulista (CEVOP), Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
| | - Luiz Gonzaga Esteves Vieira
- Agronomy Graduate Program, Universidade do Oeste Paulista (UNOESTE), Rodovia Raposo Tavares, Km 572, CEP, Presidente Prudente, SP 19067-175 Brazil
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Singh P, Singh SN, Tiwari AK, Pathak SK, Singh AK, Srivastava S, Mohan N. Integration of sugarcane production technologies for enhanced cane and sugar productivity targeting to increase farmers' income: strategies and prospects. 3 Biotech 2019; 9:48. [PMID: 30729072 DOI: 10.1007/s13205-019-1568-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2017] [Accepted: 01/03/2019] [Indexed: 10/27/2022] Open
Abstract
The idea of doubling the farmers' income in next 5 years has been slated by the Government of India. The specific target of increasing sugarcane farmers' income could be achieved by developing cost-effective technologies, transferring them from laboratory to land, educating the farmers and creating a linkage between all stakeholders. Consistent efforts shall be required to harness all possible sources for increasing farmer's income in and outside the agriculture sector with respect to improvement in sugarcane and sugar productivity, enhancement in resource use efficiency and adopting various other ways and means including intercropping, management of pests and diseases, use of biotechnological tools and minimizing post-harvest deterioration. The advances in sugarcane biotechnology could become remarkable in the coming years, both in terms of improving productivity as well as increasing the value and utility of this crop substantially. In future, genetically modified sugarcane varieties with increased resistance to different biotic and abiotic stresses would serve more towards sugarcane crop improvement. Any possibility of enhancement in the income of sugarcane farmers shall also be dependent upon the profitability and sustainability of the sugar industry. Integration of sugarcane production technologies for improvement in farm productivity, diversified sugarcane production system, reduced cost of cultivation along with increased processing plant efficiency and diversification to produce value added products shall ensure smooth and higher payment to the farmers. Development of low-cost technologies to convert "waste to resource" on a smaller scale shall also help the farmers to increase their income further. This paper focuses on possible measures to be taken up in each aspects of sugarcane cultivation including biotechnological approaches to achieve the goal of enhancing the income of sugarcane farmers substantially, particularly in the sub-tropical region of India.
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Tripathi P, Chandra A, Prakash J. Physio-biochemical assessment and expression analysis of genes associated with drought tolerance in sugarcane (Saccharum spp. hybrids) exposed to GA 3 at grand growth stage. PLANT BIOLOGY (STUTTGART, GERMANY) 2019; 21:45-53. [PMID: 30255565 DOI: 10.1111/plb.12919] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Accepted: 09/19/2018] [Indexed: 05/07/2023]
Abstract
Drought is one of the most serious environmental factors limiting production of sugarcane worldwide. In order to assess the influence of gibberellins (GA3 ) on drought and plant growth, along with associated physio-biochemical attributes, expression of eight drought-responsive genes were quantified and analysed. At grand growth stage (120 DAP) two sugarcane varieties (CoLk94184, CoPK05191) were exposed to drought by withholding irrigation. GA3 (35 ppm) was applied using battery-operated uniform controlled dispensing sprayer twice at 1-week intervals on 2-week drought-stressed plants. Physio-biochemical attributes including antioxidant enzyme activities were estimated following standard protocols. RT-PCR was performed to visualise the drought-associated gene expression patterns. Drought triggered a reduction in RWC and chlorophyll content but these recovered when droughted plants were exposed to GA3 . Proline content increased many fold in both varieties under stress, but decreased under the influence of GA3 . There was a mixed response of antioxidant enzyme activity, which distinctly declined after GA3 exposure, together with a lesser reduction in dry matter content over that of control plants. With increasing stress, expression of pyrroline-5-carboxylase synthetase (P5CS) and betaine-aldehyde dehydrogenase genes was observed, selectively up-regulated in CoPK05191. Expression of proline oxidase/transporter was high in CoPK05191 but diminished along with proline content after exposure to GA3. CoLk94184 showed no significant difference in P5CS gene expression under stress condition, whereas expression of betaine-aldehyde dehydrogenase gene was unchanged in response to stress. Results demonstrated that exposure of droughted plants to GA3 not only led to recovery of activity of drought-associated physio-biochemical attributes, but also minimised impact on cane dry weight and quality. Further, GA3 application caused differential gene expression that possibly triggers increased responsiveness towards drought tolerance in sugarcane.
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Affiliation(s)
- P Tripathi
- Division of Plant Physiology and Biochemistry, ICAR-Indian Institute of Sugarcane Research, Lucknow, India
- Amity Institute of Biotechnology, Amity University, Lucknow, India
| | - A Chandra
- Division of Plant Physiology and Biochemistry, ICAR-Indian Institute of Sugarcane Research, Lucknow, India
| | - J Prakash
- Amity Institute of Biotechnology, Amity University, Lucknow, India
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Liu X, Zhang R, Ou H, Gui Y, Wei J, Zhou H, Tan H, Li Y. Comprehensive transcriptome analysis reveals genes in response to water deficit in the leaves of Saccharum narenga (Nees ex Steud.) hack. BMC PLANT BIOLOGY 2018; 18:250. [PMID: 30342477 PMCID: PMC6195978 DOI: 10.1186/s12870-018-1428-9] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2018] [Accepted: 09/16/2018] [Indexed: 05/18/2023]
Abstract
BACKGROUND Sugarcane is an important sugar and energy crop that is widely planted in the world. Among the environmental stresses, the water-deficit stress is the most limiting to plant productivity. Some groups have used PCR-based and microarray technologies to investigate the gene expression changes of multiple sugarcane cultivars under water stress. Our knowledge about sugarcane genes in response to water deficit is still poor. RESULTS A wild sugarcane type, Saccharum narenga, was selected and treated with drought stress for 22 days. Leaves from drought treated (DTS) and control (CK) plants were obtained for deep sequencing. Paired-end sequencing enabled us to assemble 104,644 genes (N50 = 1605 bp), of which 38,721 were aligned to other databases, such as UniProt, NR, GO, KEGG and Pfam. Single-end and paired-end sequencing identified 30,297 genes (> 5 TPM) in all samples. Compared to CK, 3389 differentially expressed genes (DEGs) were identified in DTS samples, comprising 1772 up-regulated and 1617 down-regulated genes. Functional analysis showed that the DEGs were involved in biological pathways like response to blue light, metabolic pathways and plant hormone signal transduction. We further observed the expression patterns of several important gene families, including aquaporins, late embryogenesis abundant proteins, auxin related proteins, transcription factors (TFs), heat shock proteins, light harvesting chlorophyll a-b binding proteins, disease resistance proteins, and ribosomal proteins. Interestingly, the regulation of genes varied among different subfamilies of aquaporin and ribosomal proteins. In addition, DIVARICATA and heat stress TFs were first reported in sugarcane leaves in response to water deficit. Further, we showed potential miRNAs that might be involved in the regulation of gene changes in sugarcane leaves under the water-deficit stress. CONCLUSIONS This is the first transcriptome study of Saccharum narenga and the assembled genes are a valuable resource for future research. Our findings will improve the understanding of the mechanism of gene regulation in sugarcane leaves under the water-deficit stress. The output of this study will also contribute to the sugarcane breeding program.
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Affiliation(s)
- Xihui Liu
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Agricultural College, Guangxi University, Nanning, 530005 China
| | - Ronghua Zhang
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Huiping Ou
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Yiyun Gui
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Jinju Wei
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Hui Zhou
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Hongwei Tan
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
| | - Yangrui Li
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007 China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Agricultural College, Guangxi University, Nanning, 530005 China
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Sankar Narayan K, Esack ER, Radhapriya P, Gopal VB, Muthu S, Perumal P. Impact of geography on adaptation of Phyllanthus amarus seeds. 3 Biotech 2018; 8:217. [PMID: 29651382 DOI: 10.1007/s13205-018-1236-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2017] [Accepted: 04/02/2018] [Indexed: 11/26/2022] Open
Abstract
The present study was aimed to evaluate adaptive mechanism in terms of seed characters of Phyllanthus amarus collected from ten different locations of Tamil Nadu, India. The adaptive variations among the collected populations were assessed based on the sink and float percentages of the seeds in water, the percentage of seed germination, total protein, carbohydrates and their seedling's growth ability such as shoot and root lengths. From this, we observed that the population had a significantly higher germination percentage of sinking seeds that were attributed to its relatively higher carbohydrate and protein contents than the floating seeds. A comparison of the seed population by cluster analysis and principal coordinate analysis showed that the Chennai population constituted a single clade that was very distinct from the other nine populations, which were further grouped into two sub-clusters. They exhibited a trend consistent with their geographical proximity. Standardised Mantel's t tests had revealed that the adaptive diversity of the P. amarus population was significantly affected by the geographic distance (r = 0.78, t = 2.68, P > 0.001), altitude (r = 0.35, t = 21.53, P > 0.05), minimum temperature (r = 0.43, t = 1.49, P > 0.01) and maximum temperature (r = 0.49, t = 1.67, P > 0.001). Seed's characteristics and geographical conditions were correlated along with 19 bioclimatic variables. In dry season, the seedling's rooting ability showed positive correlation, while its protein content exhibited a negative correlation. It is clearly evident from this study that the geographical variables significantly influence the adaptive ability of the P. amarus.
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Affiliation(s)
- Karthik Sankar Narayan
- 1Centre for Advanced Studies in Botany, University of Madras, Guindy Campus, Chennai, Tamil Nadu 600025 India
| | - Edwin Raj Esack
- 2Plant Physiology and Biotechnology Division, UPASI Tea Research Foundation, Tea Research Institute, Valparai, Coimbatore, Tamil Nadu 642127 India
| | - Parthasarathy Radhapriya
- 1Centre for Advanced Studies in Botany, University of Madras, Guindy Campus, Chennai, Tamil Nadu 600025 India
| | - Venkatesh Babu Gopal
- 1Centre for Advanced Studies in Botany, University of Madras, Guindy Campus, Chennai, Tamil Nadu 600025 India
| | - Sakthivel Muthu
- 1Centre for Advanced Studies in Botany, University of Madras, Guindy Campus, Chennai, Tamil Nadu 600025 India
| | - Palani Perumal
- 1Centre for Advanced Studies in Botany, University of Madras, Guindy Campus, Chennai, Tamil Nadu 600025 India
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Hajar-Azhari S, Wan-Mohtar WAAQI, Ab Kadir S, Rahim MHA, Saari N. Evaluation of a Malaysian soy sauce koji strain Aspergillus oryzae NSK for γ-aminobutyric acid (GABA) production using different native sugars. Food Sci Biotechnol 2018; 27:479-488. [PMID: 30263772 DOI: 10.1007/s10068-017-0289-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2017] [Revised: 09/20/2017] [Accepted: 12/02/2017] [Indexed: 11/26/2022] Open
Abstract
In this study, a selected γ-aminobutyric acid (GABA)-rich Malaysian strain Aspergillus oryzae NSK was collected from soy sauce koji. The strain was used to explore the effect of using renewable native sugar syrup, sugarcane, nipa, and molasses as fermentable substrates for developing a novel functional GABA soy sauce. We evaluated the strain using the chosen native sugars for 7 days using shake flask fermentation at 30 °C. The results showed optimum GABA concentration was achieved using cane molasses as the fermentable substrate (354.08 mg/L), followed by sugarcane syrup (320.7 mg/L) and nipa syrup (232.07 mg/L). Cane molasses was subsequently utilized as a substrate to determine the most suitable concentration for A. oryzae NSK to enhance GABA production and was determined as 50% g/L of glucose standard cane molasses. Our findings indicate that cane molasses can be used as a GABA-rich ingredient to develop a new starter culture for A. oryzae NSK soy sauce production.
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Affiliation(s)
- Siti Hajar-Azhari
- 1Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), 43400 Serdang, Selangor Malaysia
| | - Wan Abd Al Qadr Imad Wan-Mohtar
- 2Biotechnology Program, Institute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Safuan Ab Kadir
- 1Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), 43400 Serdang, Selangor Malaysia
| | - Muhamad Hafiz Abd Rahim
- 1Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), 43400 Serdang, Selangor Malaysia
| | - Nazamid Saari
- 1Department of Food Science, Faculty of Food Science and Technology, Universiti Putra Malaysia (UPM), 43400 Serdang, Selangor Malaysia
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Pereira-Santana A, Alvarado-Robledo EJ, Zamora-Briseño JA, Ayala-Sumuano JT, Gonzalez-Mendoza VM, Espadas-Gil F, Alcaraz LD, Castaño E, Keb-Llanes MA, Sanchez-Teyer F, Rodriguez-Zapata LC. Transcriptional profiling of sugarcane leaves and roots under progressive osmotic stress reveals a regulated coordination of gene expression in a spatiotemporal manner. PLoS One 2017; 12:e0189271. [PMID: 29228055 PMCID: PMC5724895 DOI: 10.1371/journal.pone.0189271] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2017] [Accepted: 11/22/2017] [Indexed: 11/24/2022] Open
Abstract
Sugarcane is one of the most important crops worldwide and is a key plant for the global production of sucrose. Sugarcane cultivation is severely affected by drought stress and it is considered as the major limiting factor for their productivity. In recent years, this plant has been subjected to intensive research focused on improving its resilience against water scarcity; particularly the molecular mechanisms in response to drought stress have become an underlying issue for its improvement. To better understand water stress and the molecular mechanisms we performed a de novo transcriptomic assembly of sugarcane (var. Mex 69-290). A total of 16 libraries were sequenced in a 2x100 bp configuration on a HiSeq-Illumina platform. A total of 536 and 750 genes were differentially up-regulated along with the stress treatments for leave and root tissues respectively, while 1093 and 531 genes were differentially down-regulated in leaves and roots respectively. Gene Ontology functional analysis showed that genes related to response of water deprivation, heat, abscisic acid, and flavonoid biosynthesis were enriched during stress treatment in our study. The reliability of the observed expression patterns was confirmed by RT-qPCR. Additionally, several physiological parameters of sugarcane were significantly affected due to stress imposition. The results of this study may help identify useful target genes and provide tissue-specific data set of genes that are differentially expressed in response to osmotic stress, as well as a complete analysis of the main groups is significantly enriched under this condition. This study provides a useful benchmark for improving drought tolerance in sugarcane and other economically important grass species.
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Affiliation(s)
| | | | - Jesus A. Zamora-Briseño
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
| | - Jorge T. Ayala-Sumuano
- Departamento de Neurobiología del Desarrollo y Neurofisiología, Instituto de Neurobiología, Universidad Nacional Autónoma de México, Campus Juriquilla, Querétaro, México
| | - Victor M. Gonzalez-Mendoza
- Unidad de Bioquímica y Biología Molecular de Plantas, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
| | - Francisco Espadas-Gil
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
| | - Luis D. Alcaraz
- Laboratorio Nacional de Ciencias de la Sostenibilidad (LANCIS), Instituto de Ecología, Universidad Nacional Autónoma de México, Cd. Mx, México
| | - Enrique Castaño
- Unidad de Bioquímica y Biología Molecular de Plantas, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
| | - Miguel A. Keb-Llanes
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
| | - Felipe Sanchez-Teyer
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Mérida, Yucatán, México
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Thirugnanasambandam PP, Hoang NV, Furtado A, Botha FC, Henry RJ. Association of variation in the sugarcane transcriptome with sugar content. BMC Genomics 2017; 18:909. [PMID: 29178834 PMCID: PMC5702190 DOI: 10.1186/s12864-017-4302-5] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2017] [Accepted: 11/14/2017] [Indexed: 01/01/2023] Open
Abstract
Background Sugarcane is a major crop of the tropics cultivated mainly for its high sucrose content. The crop is genetically less explored due to its complex polyploid genome. Sucrose synthesis and accumulation are complex processes influenced by physiological, biochemical and genetic factors, and the growth environment. The recent focus on the crop for fibre and biofuel has led to a renewed interest on understanding the molecular basis of sucrose and biomass traits. This transcriptome study aimed to identify genes that are associated with and differentially regulated during sucrose synthesis and accumulation in the mature stage of sugarcane. Patterns of gene expression in high and low sugar genotypes as well as mature and immature culm tissues were studied using RNA-Seq of culm transcriptomes. Results In this study, 28 RNA-Seq libraries from 14 genotypes of sugarcane differing in their sucrose content were used for studying the transcriptional basis of sucrose accumulation. Differential gene expression studies were performed using SoGI (Saccharum officinarum Gene Index, 3.0), SAS (sugarcane assembled sequences) of sugarcane EST database (SUCEST) and SUGIT, a sugarcane Iso-Seq transcriptome database. In total, about 34,476 genes were found to be differentially expressed between high and low sugar genotypes with the SoGI database, 20,487 genes with the SAS database and 18,543 genes with the SUGIT database at FDR < 0.01, using the Baggerley’s test. Further, differential gene expression analyses were conducted between immature (top) and mature (bottom) tissues of the culm. The DEGs were functionally annotated using GO classification and the genes consistently associated with sucrose accumulation were identified. Conclusions The large number of DEGs may be due to the large number of genes that influence sucrose content or are regulated by sucrose content. These results indicate that apart from being a primary metabolite and storage and transport sugar, sucrose may serve as a signalling molecule that regulates many aspects of growth and development in sugarcane. Further studies are needed to confirm if sucrose regulates the expression of the identified DEGs or vice versa. The DEGs identified in this study may lead to identification of genes/pathways regulating sucrose accumulation and/or regulated by sucrose levels in sugarcane. We propose identifying the master regulators of sucrose if any in the future. Electronic supplementary material The online version of this article (10.1186/s12864-017-4302-5) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Prathima P Thirugnanasambandam
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia.,ICAR - Sugarcane Breeding Institute, Coimbatore, Tamil Nadu, India
| | - Nam V Hoang
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia.,College of Agriculture and Forestry, Hue University, Hue, Vietnam
| | - Agnelo Furtado
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia
| | | | - Robert J Henry
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia. .,The University of Queensland, Room 2.245, Level 2, The John Hay Building, Queensland Biosciences Precinct [#80], 306 Carmody Road, St Lucia, QLD, 4072, Australia.
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19
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Vital CE, Giordano A, de Almeida Soares E, Rhys Williams TC, Mesquita RO, Vidigal PMP, de Santana Lopes A, Pacheco TG, Rogalski M, de Oliveira Ramos HJ, Loureiro ME. An integrative overview of the molecular and physiological responses of sugarcane under drought conditions. PLANT MOLECULAR BIOLOGY 2017; 94:577-594. [PMID: 28409321 DOI: 10.1007/s11103-017-0611-y] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2016] [Accepted: 03/26/2017] [Indexed: 06/07/2023]
Abstract
Drought is the main abiotic stress constraining sugarcane production. However, our limited understanding of the molecular mechanisms involved in the drought stress responses of sugarcane impairs the development of new technologies to increase sugarcane drought tolerance. Here, an integrated approach was performed to reveal the molecular and physiological changes in two closely related sugarcane cultivars, including the most extensively planted cultivar in Brazil (cv. RB867515), in response to moderate (-0.5 MPa) and severe (-1 MPa) drought stress at the transcriptional, translational, and posttranslational levels. The results show common and cultivar exclusive changes in specific genes related to photosynthesis, carbohydrate, amino acid, and phytohormone metabolism. The novel phosphoproteomics and redox proteomic analysis revealed the importance of posttranslational regulation mechanisms during sugarcane drought stress. The shift to soluble sugar, secondary metabolite production, and activation of ROS eliminating processes in response to drought tolerance were mechanisms exclusive to cv. RB867515, helping to explain the better performance and higher production of this cultivar under these stress conditions.
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Affiliation(s)
- Camilo Elber Vital
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil.
| | - Andrea Giordano
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | | | - Thomas Christopher Rhys Williams
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
- Departamento de Botânica, Universidade de Brasília, Brasília, Distrito Federal, Brazil
| | - Rosilene Oliveira Mesquita
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
- Departamento de Fitotecnia, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Pedro Marcus Pereira Vidigal
- Núcleo de Análise de Biomoléculas (NuBioMol), Centro de Ciências Biológicas, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Amanda de Santana Lopes
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Túlio Gomes Pacheco
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Marcelo Rogalski
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | | | - Marcelo Ehlers Loureiro
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
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Ferreira THS, Tsunada MS, Bassi D, Araújo P, Mattiello L, Guidelli GV, Righetto GL, Gonçalves VR, Lakshmanan P, Menossi M. Sugarcane Water Stress Tolerance Mechanisms and Its Implications on Developing Biotechnology Solutions. FRONTIERS IN PLANT SCIENCE 2017; 8:1077. [PMID: 28690620 PMCID: PMC5481406 DOI: 10.3389/fpls.2017.01077] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2017] [Accepted: 06/06/2017] [Indexed: 05/20/2023]
Abstract
Sugarcane is a unique crop with the ability to accumulate high levels of sugar and is a commercially viable source of biomass for bioelectricity and second-generation bioethanol. Water deficit is the single largest abiotic stress affecting sugarcane productivity and the development of water use efficient and drought tolerant cultivars is an imperative for all major sugarcane producing countries. This review summarizes the physiological and molecular studies on water deficit stress in sugarcane, with the aim to help formulate more effective research strategies for advancing our knowledge on genes and mechanisms underpinning plant response to water stress. We also overview transgenic studies in sugarcane, with an emphasis on the potential strategies to develop superior sugarcane varieties that improve crop productivity in drought-prone environments.
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Affiliation(s)
- Thais H. S. Ferreira
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Max S. Tsunada
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Denis Bassi
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Pedro Araújo
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Lucia Mattiello
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Giovanna V. Guidelli
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Germanna L. Righetto
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Vanessa R. Gonçalves
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | | | - Marcelo Menossi
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
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Ferreira THS, Tsunada MS, Bassi D, Araújo P, Mattiello L, Guidelli GV, Righetto GL, Gonçalves VR, Lakshmanan P, Menossi M. Sugarcane Water Stress Tolerance Mechanisms and Its Implications on Developing Biotechnology Solutions. FRONTIERS IN PLANT SCIENCE 2017; 8:1077. [PMID: 28690620 PMCID: PMC5481406 DOI: 10.3389/fpls.2017.01077/full 10.3389/fpls.2017.01077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Sugarcane is a unique crop with the ability to accumulate high levels of sugar and is a commercially viable source of biomass for bioelectricity and second-generation bioethanol. Water deficit is the single largest abiotic stress affecting sugarcane productivity and the development of water use efficient and drought tolerant cultivars is an imperative for all major sugarcane producing countries. This review summarizes the physiological and molecular studies on water deficit stress in sugarcane, with the aim to help formulate more effective research strategies for advancing our knowledge on genes and mechanisms underpinning plant response to water stress. We also overview transgenic studies in sugarcane, with an emphasis on the potential strategies to develop superior sugarcane varieties that improve crop productivity in drought-prone environments.
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Affiliation(s)
- Thais H. S. Ferreira
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Max S. Tsunada
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Denis Bassi
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Pedro Araújo
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Lucia Mattiello
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Giovanna V. Guidelli
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Germanna L. Righetto
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | - Vanessa R. Gonçalves
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
| | | | - Marcelo Menossi
- Functional Genome Laboratory, Department of Genetics, Evolution and Bioagents, Institute of Biology, State University of CampinasCampinas, Brazil
- *Correspondence: Marcelo Menossi
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Casu RE, Rae AL, Nielsen JM, Perroux JM, Bonnett GD, Manners JM. Tissue-specific transcriptome analysis within the maturing sugarcane stalk reveals spatial regulation in the expression of cellulose synthase and sucrose transporter gene families. PLANT MOLECULAR BIOLOGY 2015; 89:607-28. [PMID: 26456093 DOI: 10.1007/s11103-015-0388-9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2015] [Accepted: 09/29/2015] [Indexed: 05/23/2023]
Abstract
Sugarcane (Saccharum spp. hybrids) accumulates high concentrations of sucrose in its mature stalk and a considerable portion of carbohydrate metabolism is also devoted to cell wall synthesis and fibre production. We examined tissue-specific expression patterns to explore the spatial deployment of pathways responsible for sucrose accumulation and fibre synthesis within the stalk. We performed expression profiling of storage parenchyma, vascular bundles and rind dissected from a maturing stalk internode of sugarcane, identifying ten cellulose synthase subunit genes and examining significant differences in the expression of their corresponding transcripts and those of several sugar transporters. These were correlated with differential expression patterns for transcripts of genes encoding COBRA-like proteins and other cell wall metabolism-related proteins. The sugar transporters genes ShPST2a, ShPST2b and ShSUT4 were significantly up-regulated in storage parenchyma while ShSUT1 was up-regulated in vascular bundles. Two co-ordinately expressed groups of cell wall related transcripts were also identified. One group, associated with primary cell wall synthesis (ShCesA1, ShCesA7, ShCesA9 and Shbk2l3), was up-regulated in parenchyma. The other group, associated with secondary cell wall synthesis (ShCesA10, ShCesA11, ShCesA12 and Shbk-2), was up-regulated in rind. In transformed sugarcane plants, the ShCesA7 promoter conferred stable expression of green fluorescent protein preferentially in the storage parenchyma of the maturing stalk internode. Our results indicate that there is spatial separation for elevated expression of these important targets in both sucrose accumulation and cell wall synthesis, allowing for increased clarity in our understanding of sucrose transport and fibre synthesis in sugarcane.
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Affiliation(s)
- Rosanne E Casu
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia.
| | - Anne L Rae
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
| | - Janine M Nielsen
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
| | - Jai M Perroux
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
| | - Graham D Bonnett
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
| | - John M Manners
- CSIRO Agriculture, Queensland Bioscience Precinct, 306 Carmody Rd, St Lucia, QLD, 4067, Australia
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23
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Global Reprogramming of Transcription in Chinese Fir (Cunninghamia lanceolata) during Progressive Drought Stress and after Rewatering. Int J Mol Sci 2015; 16:15194-219. [PMID: 26154763 PMCID: PMC4519895 DOI: 10.3390/ijms160715194] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2015] [Revised: 06/21/2015] [Accepted: 06/30/2015] [Indexed: 12/02/2022] Open
Abstract
Chinese fir (Cunninghamia lanceolata), an evergreen conifer, is the most commonly grown afforestation species in southeast China due to its rapid growth and good wood qualities. To gain a better understanding of the drought-signalling pathway and the molecular metabolic reactions involved in the drought response, we performed a genome-wide transcription analysis using RNA sequence data. In this study, Chinese fir plantlets were subjected to progressively prolonged drought stress, up to 15 d, followed by rewatering under controlled environmental conditions. Based on observed morphological changes, plantlets experienced mild, moderate, or severe water stress before rehydration. Transcriptome analysis of plantlets, representing control and mild, moderate, and severe drought-stress treatments, and the rewatered plantlets, identified several thousand genes whose expression was altered in response to drought stress. Many genes whose expression was tightly coupled to the levels of drought stress were identified, suggesting involvement in Chinese fir drought adaptation responses. These genes were associated with transcription factors, signal transport, stress kinases, phytohormone signalling, and defence/stress response. The present study provides the most comprehensive transcriptome resource and the first dynamic transcriptome profiles of Chinese fir under drought stress. The drought-responsive genes identified in this study could provide further information for understanding the mechanisms of drought tolerance in Chinese fir.
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dos Santos AB, Bottcher A, Kiyota E, Mayer JLS, Vicentini R, Brito MDS, Creste S, Landell MGA, Mazzafera P. Water stress alters lignin content and related gene expression in two sugarcane genotypes. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2015; 63:4708-4720. [PMID: 25936563 DOI: 10.1021/jf5061858] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The lignin deposition in the stem of two sugarcane genotypes was assessed on exposure to water stress. The lignin content and the morphoanatomical characterization of the stem indicated that IACSP94-2094 plants are more lignified than those of IACSP95-5000 genotype, under normal water supply conditions, which was especially associated with higher lignin contents in the rind of mature internodes. Water deficit had negative impact on the biomass production, mostly with IACSP94-2094 plants, possibly due to stress severity or higher susceptibility of that genotype during the stem-lengthening phase. Water deficit led to significant alterations in the expression levels of lignin biosynthesis genes and led to an approximate 60% increase of lignin content in the rind of young internodes in both genotypes. It is concluded that the young rind region was more directly affected by water stress and, depending on the genotype, a higher lignin accumulation may occur in the stem, thus implying lower quality biomass for bioethanol production.
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Affiliation(s)
- Adriana Brombini dos Santos
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
- ‡Embrapa Soja, Rodovia Carlos João Strass, s/n°, Acesso Orlando Amaral, Distrito de Warta, CP 231, CEP 86001-970 Londrina, PR, Brazil
| | - Alexandra Bottcher
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
- §Centro de Tecnologia Canavieira (CTC), Rua Santo Antônio, Centro, CEP 13400-160 Piracicaba, SP, Brazil
| | - Eduardo Kiyota
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
| | - Juliana Lischka Sampaio Mayer
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
| | - Renato Vicentini
- ∥Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, CEP 13083-875 Campinas, SP, Brazil
| | - Michael dos Santos Brito
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
- ⊥Centro de Cana, Instituto Agronômico de Campinas, CEP 14001-970 Ribeirão Preto, SP, Brazil
| | - Silvana Creste
- ⊥Centro de Cana, Instituto Agronômico de Campinas, CEP 14001-970 Ribeirão Preto, SP, Brazil
| | - Marcos G A Landell
- ⊥Centro de Cana, Instituto Agronômico de Campinas, CEP 14001-970 Ribeirão Preto, SP, Brazil
| | - Paulo Mazzafera
- †Departamento de Biologia Vegetal, Instituto de Biologia, CP 6109, Universidade Estadual de Campinas, CEP 13083-970 Campinas, SP, Brazil
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Qazi HA, Srinivasa Rao P, Kashikar A, Suprasanna P, Bhargava S. Alterations in stem sugar content and metabolism in sorghum genotypes subjected to drought stress. FUNCTIONAL PLANT BIOLOGY : FPB 2014; 41:954-962. [PMID: 32481048 DOI: 10.1071/fp13299] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2013] [Accepted: 04/06/2014] [Indexed: 06/11/2023]
Abstract
Changes in stem sugar concentrations due to drought stress at the early reproductive stage were studied in seven sorghum (Sorghum bicolor (L.) Moench) genotypes that differ in their stem sugar storage ability. Total sap sugar concentration increased in most genotypes. ANOVA showed a significant contribution of genotype and treatment to the variation in sugar levels. Two genotypes showed little variation in total sugar levels at the fifth internode from the peduncle and five genotypes showed significant increases in total sugar levels under drought; these groups were used to compare sugar metabolism. Drought led to a decrease in catabolic sucrose synthase activity in both groups. Invertase activities increased significantly in two genotypes and correlated with the increase in reducing sugar concentrations under drought. Stem sugar hydrolysis probably had a role in osmotic adjustment under drought and correlated with retention of sap volume. However, the activities of sugar-metabolising enzymes did not correlate with their gene expression levels. After resuming irrigation, grain yields, stalk yields and juice volume at physiological maturity were lower in plants recovering from drought stress compared with the controls. In some genotypes, there were similar losses in grain yields and stem sugars due to drought, indicating photoassimilate source limitation; in other genotypes, grain yield losses were less than stem sugar losses in drought-exposed plants compared with the controls, suggesting mobilisation of sugars from the storage internodes to the developing panicle. Accumulation of stem sugars appears to be an adaptive strategy against drought stress in some sorghum genotypes.
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Affiliation(s)
- Hilal A Qazi
- Department of Botany, University of Pune, Pune 411007, India
| | - Pinnamaneni Srinivasa Rao
- Research program on Dryland Cereals, International Crops Research Institute for Semiarid Tropics, Patancheru 502324, India
| | | | - Penna Suprasanna
- Functional Plant Biology Section, Bhabha Atomic Research Centre, Mumbai 400085, India
| | - Sujata Bhargava
- Department of Botany, University of Pune, Pune 411007, India
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Reis RR, da Cunha BADB, Martins PK, Martins MTB, Alekcevetch JC, Chalfun A, Andrade AC, Ribeiro AP, Qin F, Mizoi J, Yamaguchi-Shinozaki K, Nakashima K, Carvalho JDFC, de Sousa CAF, Nepomuceno AL, Kobayashi AK, Molinari HBC. Induced over-expression of AtDREB2A CA improves drought tolerance in sugarcane. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2014; 221-222:59-68. [PMID: 24656336 DOI: 10.1016/j.plantsci.2014.02.003] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/26/2013] [Revised: 02/04/2014] [Accepted: 02/06/2014] [Indexed: 05/19/2023]
Abstract
Drought is one of the most challenging agricultural issues limiting sustainable sugarcane production and, in some cases, yield losses caused by drought are nearly 50%. DREB proteins play vital regulatory roles in abiotic stress responses in plants. The transcription factor DREB2A interacts with a cis-acting DRE sequence to activate the expression of downstream genes that are involved in drought-, salt- and heat-stress response in Arabidopsis thaliana. In the present study, we evaluated the effects of stress-inducible over-expression of AtDREB2A CA on gene expression, leaf water potential (ΨL), relative water content (RWC), sucrose content and gas exchanges of sugarcane plants submitted to a four-days water deficit treatment in a rhizotron-grown root system. The plants were also phenotyped by scanning the roots and measuring morphological parameters of the shoot. The stress-inducible expression of AtDREB2A CA in transgenic sugarcane led to the up-regulation of genes involved in plant response to drought stress. The transgenic plants maintained higher RWC and ΨL over 4 days after withholding water and had higher photosynthetic rates until the 3rd day of water-deficit. Induced expression of AtDREB2A CA in sugarcane increased sucrose levels and improved bud sprouting of the transgenic plants. Our results indicate that induced expression of AtDREB2A CA in sugarcane enhanced its drought tolerance without biomass penalty.
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Affiliation(s)
- Rafaela Ribeiro Reis
- Genetics and Biotechnology Laboratory, Embrapa Agroenergy (CNPAE), Brasília, DF, Brazil; Federal University of Lavras (UFLA), Lavras, MG, Brazil
| | | | - Polyana Kelly Martins
- Genetics and Biotechnology Laboratory, Embrapa Agroenergy (CNPAE), Brasília, DF, Brazil
| | | | | | | | - Alan Carvalho Andrade
- Molecular Genetics Laboratory, Embrapa Genetic Resources and Biotechnology (CENARGEN), Brasilia, DF, Brazil
| | - Ana Paula Ribeiro
- Genetics and Biotechnology Laboratory, Embrapa Agroenergy (CNPAE), Brasília, DF, Brazil; Federal University of Lavras (UFLA), Lavras, MG, Brazil
| | - Feng Qin
- Biological Resources and Post-harvest Division, Japan International Research Center for Agricultural Sciences (JIRCAS), Tsukuba, Japan
| | - Junya Mizoi
- Laboratory of Plant Molecular Physiology, The University of Tokyo, Tokyo, Japan
| | | | - Kazuo Nakashima
- Biological Resources and Post-harvest Division, Japan International Research Center for Agricultural Sciences (JIRCAS), Tsukuba, Japan
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Cloning and Expression Analysis of ATP-Citrate Lyase Genes from Sugarcane. ACTA AGRONOMICA SINICA 2013. [DOI: 10.3724/sp.j.1006.2012.02024] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Purdy SJ, Maddison AL, Jones LE, Webster RJ, Andralojc J, Donnison I, Clifton-Brown J. Characterization of chilling-shock responses in four genotypes of Miscanthus reveals the superior tolerance of M. x giganteus compared with M. sinensis and M. sacchariflorus. ANNALS OF BOTANY 2013; 111:999-1013. [PMID: 23519835 PMCID: PMC3631343 DOI: 10.1093/aob/mct059] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2012] [Accepted: 01/29/2013] [Indexed: 05/08/2023]
Abstract
BACKGROUND AND AIMS The bioenergy grass Miscanthus is native to eastern Asia. As Miscanthus uses C4 photosynthesis, the cooler temperatures experienced in much of northern Europe are expected to limit productivity. Identification of genetic diversity in chilling tolerance will enable breeders to generate more productive varieties for these cooler regions. Characterizing the temporal relationships between photosynthesis, carbohydrate and molecular expression of relevant genes is key to understanding genotypic differences in tolerance or sensitivity. METHODS To characterize chilling responses in four Miscanthus genotypes, plants were exposed to a sudden reduction in temperature. The genotypes studied comprised of two M. sinensis, one M. sacchariflorus and one inter-species hybrid, M. × giganteus. Changes in photosynthesis (Asat), carbohydrate composition and the expression of target transcripts were observed following chilling-shock. After 4 d the decline in leaf elongation rate (LER) in the different genotypes was measured. RESULTS Following chilling-shock the greatest decline in Asat was observed in M. sacchariflorus and one M. sinensis genotype. Carbohydrate concentrations increased in all genotypes following chilling but to a lesser extent in M. sacchariflorus. Two stress inducible genes were most highly expressed in the genotypes that experienced the greatest declines in Asat and LER. Miscanthus × giganteus retained the highest Asat and was unique in exhibiting no decline in LER following transfer to 12 °C. CONCLUSIONS Miscanthus × giganteus exhibits a superior tolerance to chilling shock than other genotypes of Miscanthus. The absence of sucrose accumulation in M. sacchariflorus during chilling-shock suggests an impairment in enzyme function. A candidate transcription factor, MsCBF3, is most highly expressed in the most sensitive genotypes and may be a suitable molecular marker for predicting chilling sensitivity.
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Affiliation(s)
- Sarah Jane Purdy
- Institute of Biological, Environmental and Rural Sciences IBERS, Aberystwyth University, Gogerddan, Aberystwyth, Ceredigion SY23 3EE, UK.
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Jackson MA, Anderson DJ, Birch RG. Comparison of Agrobacterium and particle bombardment using whole plasmid or minimal cassette for production of high-expressing, low-copy transgenic plants. Transgenic Res 2012; 22:143-51. [PMID: 22869288 DOI: 10.1007/s11248-012-9639-6] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2012] [Accepted: 07/20/2012] [Indexed: 11/28/2022]
Abstract
Transgene integration complexity in the recipient genome can be an important determinant of transgene expression and field performance in transgenic crops. We provide the first direct comparison of Agrobacterium-mediated transformation (AMT) and particle bombardment using whole plasmid (WP) and excised minimal cassettes (MC), for transformation efficiency, transgene integration complexity and transgene expression in plants. To enable direct comparison, a selectable marker and a luciferase reporter gene were linked in identical configurations in plasmids suitable for AMT or direct gene transfer into sugarcane. Transformation efficiencies were similar between WP and MC when equal molar DNA quantities were delivered. When the MC concentration was reduced from 66 to 6.6 ng per shot, transformation efficiency dropped fourfold, to a level equivalent with AMT in amenable genotype Q117. The highest proportion of transformants combining low copy number (estimated below two integrated copies by qPCR) with expression of the non-selected reporter gene was obtained using AMT (55 %) or MC at low DNA concentration (30 %). In sugarcane, both of these methods yielded high-expressing, single-copy transgenic plant lines at a workable efficiency for practical plant improvement; but AMT is currently limited to a few amenable genotypes. These methods are best coupled with rapid early screens for desired molecular characteristics of transformants, e.g. PCR screens for low copy number and/or transcription of the gene of practical interest.
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Affiliation(s)
- Mark A Jackson
- The University of Queensland, Hines Plant Science Building, Mansfield Place, Brisbane, QLD, 4072, Australia
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Kido ÉA, Ferreira Neto JRC, Silva RLDO, Pandolfi V, Guimarães ACR, Veiga DT, Chabregas SM, Crovella S, Benko-Iseppon AM. New insights in the sugarcane transcriptome responding to drought stress as revealed by superSAGE. ScientificWorldJournal 2012; 2012:821062. [PMID: 22629208 PMCID: PMC3353566 DOI: 10.1100/2012/821062] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2011] [Accepted: 12/02/2011] [Indexed: 12/30/2022] Open
Abstract
In the scope of the present work, four SuperSAGE libraries have been generated, using bulked root tissues from four drought-tolerant accessions as compared with four bulked sensitive genotypes, aiming to generate a panel of differentially expressed stress-responsive genes. Both groups were submitted to 24 hours of water deficit stress. The SuperSAGE libraries produced 8,787,315 tags (26 bp) that, after exclusion of singlets, allowed the identification of 205,975 unitags. Most relevant BlastN matches comprised 567,420 tags, regarding 75,404 unitags with 164,860 different ESTs. To optimize the annotation efficiency, the Gene Ontology (GO) categorization was carried out for 186,191 ESTs (BlastN against Uniprot-SwissProt), permitting the categorization of 118,208 ESTs (63.5%). In an attempt to elect a group of the best tags to be validated by RTqPCR, the GO categorization of the tag-related ESTs allowed the in silico identification of 213 upregulated unitags responding basically to abiotic stresses, from which 145 presented no hits after BlastN analysis, probably concerning new genes still uncovered in previous studies. The present report analyzes the sugarcane transcriptome under drought stress, using a combination of high-throughput transcriptome profiling by SuperSAGE with the Solexa sequencing technology, allowing the identification of potential target genes during the stress response.
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Affiliation(s)
- Éderson Akio Kido
- Department of Genetics, Federal University of Pernambuco, 50670-901 Recife, PE, Brazil.
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Qazi HA, Paranjpe S, Bhargava S. Stem sugar accumulation in sweet sorghum - activity and expression of sucrose metabolizing enzymes and sucrose transporters. JOURNAL OF PLANT PHYSIOLOGY 2012; 169:605-13. [PMID: 22325624 DOI: 10.1016/j.jplph.2012.01.005] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2011] [Revised: 01/16/2012] [Accepted: 01/16/2012] [Indexed: 05/06/2023]
Abstract
Sugar metabolism was studied in sweet sorghum (SSV74) that is known to store sugars in the mature internodes and which is reported to give grain yields twice that of a grain sorghum variety (SPV1616). Comparison of sugar accumulation in these two varieties was carried out at three stages of growth and in the upper and lower internodes. In spite of large differences in the level of sugar accumulation, osmolarity of the sap did not vary as significantly in the two varieties. Significant contribution of variety, stage and internode position was seen for the variation observed in sugar content. Though the activities of sugar metabolizing enzymes namely sucrose synthase (in the synthesis and cleavage directions), sucrose phosphate synthase and invertase (cytoplasmic and vacuolar) also varied in a stage- and internode-specific manner in the two varieties, these enzymes did not contribute significantly to the variation observed in sugar content. Transcriptional expression of one sucrose synthase (SUC1), two sucrose phosphate synthase (SPS2 and SPS3) and a vacuolar invertase (INV3) gene were lower in sweet sorghum as compared to grain sorghum. Sweet sorghum also showed lower expression of two sucrose transporters (SUT1 and SUT4), which correlated to higher sugar accumulation in this variety. Differential expression of the sugar metabolizing enzymes and sucrose transporters in sweet and grain sorghum suggest a role for signaling molecules and transcription factors in regulating sugar accumulation observed in the mature internodes of sweet sorghum, which needs to be investigated.
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Thalor SK, Berberich T, Lee SS, Yang SH, Zhu X, Imai R, Takahashi Y, Kusano T. Deregulation of sucrose-controlled translation of a bZIP-type transcription factor results in sucrose accumulation in leaves. PLoS One 2012; 7:e33111. [PMID: 22457737 PMCID: PMC3310857 DOI: 10.1371/journal.pone.0033111] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2011] [Accepted: 02/09/2012] [Indexed: 12/22/2022] Open
Abstract
Sucrose is known to repress the translation of Arabidopsis thaliana AtbZIP11 transcript which encodes a protein belonging to the group of S (S - stands for small) basic region-leucine zipper (bZIP)-type transcription factor. This repression is called sucrose-induced repression of translation (SIRT). It is mediated through the sucrose-controlled upstream open reading frame (SC-uORF) found in the AtbZIP11 transcript. The SIRT is reported for 4 other genes belonging to the group of S bZIP in Arabidopsis. Tobacco tbz17 is phylogenetically closely related to AtbZIP11 and carries a putative SC-uORF in its 5′-leader region. Here we demonstrate that tbz17 exhibits SIRT mediated by its SC-uORF in a manner similar to genes belonging to the S bZIP group of the Arabidopsis genus. Furthermore, constitutive transgenic expression of tbz17 lacking its 5′-leader region containing the SC-uORF leads to production of tobacco plants with thicker leaves composed of enlarged cells with 3–4 times higher sucrose content compared to wild type plants. Our finding provides a novel strategy to generate plants with high sucrose content.
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Affiliation(s)
- Sunil Kumar Thalor
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
| | - Thomas Berberich
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
- Biodiversity and Climate Research Center (BiK-F), BioCampus-Westend, Frankfurt, Germany
| | - Sung Shin Lee
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
| | - Seung Hwan Yang
- Division of Bioscience and Bioinformatics, College of Natural Science, Myongji University Science Campus, Namdong, Cheoin-Gu, Yongin, Gyeonggi, Korea
| | - XuJun Zhu
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
| | - Ryozo Imai
- Crop Cold Research Team, National Agricultural Research Center for Hokkaido Region, Toyohira-ku, Sapporo, Japan
| | - Yoshihiro Takahashi
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
| | - Tomonobu Kusano
- Graduate School of Life Sciences, Tohoku University, Aoba, Sendai, Miyagi, Japan
- * E-mail:
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Arruda P. Genetically modified sugarcane for bioenergy generation. Curr Opin Biotechnol 2011; 23:315-22. [PMID: 22093808 DOI: 10.1016/j.copbio.2011.10.012] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2011] [Revised: 10/14/2011] [Accepted: 10/28/2011] [Indexed: 12/16/2022]
Abstract
Sugarcane breeding has significantly progressed over the past 30 years, but attempts to further increase crop yield have been limited due to the complexity of the sugarcane genome. An alternative to boost the crop yield is the introduction of genes encoding desirable traits in the elite sugarcane cultivars. Genetically modified sugarcane with increased yield and pest and disease resistance has already proven its value not only by the increased sugar content but also for the improvement of the crop performance. However, transgene stability is still a challenge since transgene silencing seems to occur in a large proportion of genetically modified sugarcane plants. In addition, regulatory issues associated with the crop propagation model will also be a challenge to the commercial approval of genetically modified sugarcane.
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Affiliation(s)
- Paulo Arruda
- Centro de Biologia Molecular e Engenharia Genética, Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas (UNICAMP), 13083-862 Campinas, SP, Brazil.
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