1
|
Akbari SI, Prismantoro D, Permadi N, Rossiana N, Miranti M, Mispan MS, Mohamed Z, Doni F. Bioprospecting the roles of Trichoderma in alleviating plants' drought tolerance: Principles, mechanisms of action, and prospects. Microbiol Res 2024; 283:127665. [PMID: 38452552 DOI: 10.1016/j.micres.2024.127665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2023] [Revised: 01/25/2024] [Accepted: 02/24/2024] [Indexed: 03/09/2024]
Abstract
Drought-induced stress represents a significant challenge to agricultural production, exerting adverse effects on both plant growth and overall productivity. Therefore, the exploration of innovative long-term approaches for addressing drought stress within agriculture constitutes a crucial objective, given its vital role in enhancing food security. This article explores the potential use of Trichoderma, a well-known genus of plant growth-promoting fungi, to enhance plant tolerance to drought stress. Trichoderma species have shown remarkable potential for enhancing plant growth, inducing systemic resistance, and ameliorating the adverse impacts of drought stress on plants through the modulation of morphological, physiological, biochemical, and molecular characteristics. In conclusion, the exploitation of Trichoderma's potential as a sustainable solution to enhance plant drought tolerance is a promising avenue for addressing the challenges posed by the changing climate. The manifold advantages of Trichoderma in promoting plant growth and alleviating the effects of drought stress underscore their pivotal role in fostering sustainable agricultural practices and enhancing food security.
Collapse
Affiliation(s)
- Sulistya Ika Akbari
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor, West Java 45363, Indonesia
| | - Dedat Prismantoro
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor, West Java 45363, Indonesia
| | - Nandang Permadi
- Doctorate Program in Biotechnology, Graduate School, Universitas Padjadjaran, Bandung, West Java 40132, Indonesia
| | - Nia Rossiana
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor, West Java 45363, Indonesia
| | - Mia Miranti
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor, West Java 45363, Indonesia
| | - Muhamad Shakirin Mispan
- Institute of Biological Sciences, Faculty of Science, Universiti Malaya, Kuala Lumpur 50603, Malaysia
| | - Zulqarnain Mohamed
- Institute of Biological Sciences, Faculty of Science, Universiti Malaya, Kuala Lumpur 50603, Malaysia
| | - Febri Doni
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor, West Java 45363, Indonesia.
| |
Collapse
|
2
|
Tombuloglu G, Tombuloglu H, Slimani Y, Almessiere MA, Baykal A, Bostancioglu SM, Kirat G, Ercan I. Effects of foliar iron oxide nanoparticles (Fe 3O 4) application on photosynthetic parameters, distribution of mineral elements, magnetic behaviour, and photosynthetic genes in tomato (Solanum lycopersicum var. cerasiforme) plants. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 210:108616. [PMID: 38615444 DOI: 10.1016/j.plaphy.2024.108616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2024] [Revised: 04/04/2024] [Accepted: 04/06/2024] [Indexed: 04/16/2024]
Abstract
This study aims to examine the effect of foliar magnetic iron oxide (Fe3O4) nanoparticles (IONP) application on the physiology, photosynthetic parameters, magnetic character, and mineral element distribution of cherry tomatoes (Solanum lycopersicum var. cerasiforme). The IONP suspension (500 mg L-1) was sprayed once (S1), twice (S2), thrice (S3), and four times (S4) a week on seedlings. Upon 21 days of the treatments, photosynthetic parameters (chlorophyll, carotenoids, photosynthetic yield, electron transport rate) were elucidated. Inductively-coupled plasma-optical emission spectrometer (ICP-OES) and vibrating sample magnetometer (VSM) were used to determine the mineral elements and abundance of magnetic power in the seedlings. In addition, the RT-qPCR method was performed to quantify the expressions of photosystem-related (PsaC, PsbP6, and PsbQ) and ferritin-coding (Fer-1 and Fer-2) genes. Results revealed that the physiological and photosynthetic indices were improved upon S1 treatment. The optimal dosage of IONP spraying enhances chlorophyll, carotenoid, electron transport rate (ETR), and effective photochemical quantum yield of photosystem II (Y(II)) but substantially diminishes non-photochemical quenching (NPQ). However, frequent IONP applications (S2, S3, and S4) caused growth retardation and suppressed the photosynthetic parameters, suggesting a toxic effect of IONP in recurrent treatments. Fer-1 and Fer-2 expressions were strikingly increased by IONP applications, suggesting an attempt to neutralize the excess amount of Fe ions by ferritin. Nevertheless, frequent IONP treatment fluctuated the mineral distribution and caused growth inhibition. Although low-repeat foliar applications of IONP (S1 in this study) may help improve plant growth, consecutive applications (S2, S3, and S4) should be avoided.
Collapse
Affiliation(s)
- Guzin Tombuloglu
- Department of Biophysics, Institute for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, P.O. Box 1982, 34221, Dammam, Saudi Arabia
| | - Huseyin Tombuloglu
- Department of Genetics Research, Institute for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, P.O. Box 1982, 34221, Dammam, Saudi Arabia.
| | - Yassine Slimani
- Department of Biophysics, Institute for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, P.O. Box 1982, 34221, Dammam, Saudi Arabia
| | - Munirah A Almessiere
- Department of Biophysics, Institute for Research and Medical Consultations (IRMC), Imam Abdulrahman Bin Faisal University, P.O. Box 1982, 34221, Dammam, Saudi Arabia
| | - Abdulhadi Baykal
- Food Engineering Department, Faculty of Engineering, Istanbul Aydin University, Istanbul, 34295, Turkey
| | - Safiye Merve Bostancioglu
- Department of Biology, Faculty of Arts and Sciences, Marmara University, Goztepe Campus, Goztepe, 34722, Istanbul, Turkey
| | - Gokhan Kirat
- Scientific and Technological Research Center, Inonu University, Malatya, 44280, Turkey
| | - Ismail Ercan
- Department of Electrical and Electronics Engineering, Faculty of Engineering, Duzce University, 81010, Duzce, Turkey
| |
Collapse
|
3
|
Lamelas L, López-Hidalgo C, Valledor L, Meijón M, Cañal MJ. Like mother like son: Transgenerational memory and cross-tolerance from drought to heat stress are identified in chloroplast proteome and seed provisioning in Pinus radiata. PLANT, CELL & ENVIRONMENT 2024; 47:1640-1655. [PMID: 38282466 DOI: 10.1111/pce.14836] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Revised: 01/09/2024] [Accepted: 01/13/2024] [Indexed: 01/30/2024]
Abstract
How different stressors impact plant health and memory when they are imposed in different generations in wild ecosystems is still scarce. Here, we address how different environments shape heritable memory for the next generation in seeds and seedlings of Pinus radiata, a long-lived species with economic interest. The performance of the seedlings belonging to two wild clonal subpopulations (optimal fertirrigation vs. slightly stressful conditions) was tested under heat stress through physiological profiling and comparative time-series chloroplast proteomics. In addition, we explored the seeds conducting a physiological characterization and targeted transcriptomic profiling in both subpopulations. Our results showed differential responses between them, evidencing a cross-stress transgenerational memory. Seedlings belonging to the stressed subpopulation retained key proteins related to Photosystem II, chloroplast-to-nucleus signalling and osmoprotection which helped to overcome the applied heat stress. The seeds also showed a differential gene expression profile for targeted genes and microRNAs, as well as an increased content of starch and secondary metabolites, molecules which showed potential interest as biomarkers for early selection of primed plants. Thus, these finds not only delve into transgenerational cross-stress memory in trees, but also provide a new biotechnological tool for forest design.
Collapse
Affiliation(s)
- Laura Lamelas
- Plant Physiology, Department of Organisms and Systems Biology, Biotechnology Institute of Asturias, University of Oviedo, Oviedo, Asturias, Spain
| | - Cristina López-Hidalgo
- Plant Physiology, Department of Organisms and Systems Biology, Biotechnology Institute of Asturias, University of Oviedo, Oviedo, Asturias, Spain
| | - Luis Valledor
- Plant Physiology, Department of Organisms and Systems Biology, Biotechnology Institute of Asturias, University of Oviedo, Oviedo, Asturias, Spain
| | - Mónica Meijón
- Plant Physiology, Department of Organisms and Systems Biology, Biotechnology Institute of Asturias, University of Oviedo, Oviedo, Asturias, Spain
| | - María Jesús Cañal
- Plant Physiology, Department of Organisms and Systems Biology, Biotechnology Institute of Asturias, University of Oviedo, Oviedo, Asturias, Spain
| |
Collapse
|
4
|
Smith AB, Ganguly DR, Moore M, Bowerman AF, Janapala Y, Shirokikh NE, Pogson BJ, Crisp PA. Dynamics of mRNA fate during light stress and recovery: from transcription to stability and translation. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 117:818-839. [PMID: 37947266 PMCID: PMC10952913 DOI: 10.1111/tpj.16531] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Revised: 09/20/2023] [Accepted: 10/23/2023] [Indexed: 11/12/2023]
Abstract
Transcript stability is an important determinant of its abundance and, consequently, translational output. Transcript destabilisation can be rapid and is well suited for modulating the cellular response. However, it is unclear the extent to which RNA stability is altered under changing environmental conditions in plants. We previously hypothesised that recovery-induced transcript destabilisation facilitated a phenomenon of rapid recovery gene downregulation (RRGD) in Arabidopsis thaliana (Arabidopsis) following light stress, based on mathematical calculations to account for ongoing transcription. Here, we test this hypothesis and investigate processes regulating transcript abundance and fate by quantifying changes in transcription, stability and translation before, during and after light stress. We adapt syringe infiltration to apply a transcriptional inhibitor to soil-grown plants in combination with stress treatments. Compared with measurements in juvenile plants and cell culture, we find reduced stability across a range of transcripts encoding proteins involved in RNA binding and processing. We also observe light-induced destabilisation of transcripts, followed by their stabilisation during recovery. We propose that this destabilisation facilitates RRGD, possibly in combination with transcriptional shut-off that was confirmed for HSP101, ROF1 and GOLS1. We also show that translation remains highly dynamic over the course of light stress and recovery, with a bias towards transcript-specific increases in ribosome association, independent of changes in total transcript abundance, after 30 min of light stress. Taken together, we provide evidence for the combinatorial regulation of transcription and stability that occurs to coordinate translation during light stress and recovery in Arabidopsis.
Collapse
Affiliation(s)
- Aaron B. Smith
- Research School of BiologyThe Australian National UniversityCanberraAustralian Capital Territory2601Australia
| | - Diep R. Ganguly
- CSIRO Synthetic Biology Future Science PlatformCanberraAustralian Capital Territory2601Australia
- Department of BiologyUniversity of PennsylvaniaPhiladelphiaPennsylvania19104USA
| | - Marten Moore
- Research School of BiologyThe Australian National UniversityCanberraAustralian Capital Territory2601Australia
| | - Andrew F. Bowerman
- Research School of BiologyThe Australian National UniversityCanberraAustralian Capital Territory2601Australia
| | - Yoshika Janapala
- Department of Biochemistry and Molecular Biology, Monash Biomedicine Discovery InstituteMonash UniversityClaytonVictoria3800Australia
| | - Nikolay E. Shirokikh
- The John Curtin School of Medical Research, The Shine‐Dalgarno Centre for RNA InnovationThe Australian National UniversityCanberraAustralian Capital Territory2601Australia
| | - Barry J. Pogson
- Research School of BiologyThe Australian National UniversityCanberraAustralian Capital Territory2601Australia
| | - Peter A. Crisp
- School of Agriculture and Food SciencesThe University of QueenslandBrisbaneQueensland4072Australia
| |
Collapse
|
5
|
Martins J, Neves M, Canhoto J. Drought-Stress-Induced Changes in Chloroplast Gene Expression in Two Contrasting Strawberry Tree ( Arbutus unedo L.) Genotypes. PLANTS (BASEL, SWITZERLAND) 2023; 12:4133. [PMID: 38140460 PMCID: PMC10747485 DOI: 10.3390/plants12244133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 12/04/2023] [Accepted: 12/08/2023] [Indexed: 12/24/2023]
Abstract
This study investigated the effect of drought stress on the expression of chloroplast genes in two different genotypes (A1 and A4) of strawberry tree plants with contrasting performances. Two-year-old plants were subjected to drought (20 days at 18% field capacity), and the photosynthetic activity, chlorophyll content, and expression levels of 16 chloroplast genes involved in photosynthesis and metabolism-related enzymes were analyzed. Genotype-specific responses were prominent, with A1 displaying wilting and leaf curling, contrasting with the mild symptoms observed in A4. Quantification of damage using the net CO2 assimilation rates and chlorophyll content unveiled a significant reduction in A1, while A4 maintained stability. Gene expression analysis revealed substantial downregulation of A1 (15 out of 16 genes) and upregulation of A4 (14 out of 16 genes). Notably, psbC was downregulated in A1, while it was prominently upregulated in A4. Principal Component Analysis (PCA) highlighted genotype-specific clusters, emphasizing distinct responses under stress, whereas a correlation analysis elucidated intricate relationships between gene expression, net CO2 assimilation, and chlorophyll content. Particularly, a positive correlation with psaB, whereas a negative correlation with psbC was found in genotype A1. Regression analysis identified potential predictors for net CO2 assimilation, in particular psaB. These findings contribute valuable insights for future strategies targeting crop enhancement and stress resilience, highlighting the central role of chloroplasts in orchestrating plant responses to environmental stressors, and may contribute to the development of drought-tolerant plant varieties, which are essential for sustaining agriculture in regions affected by water scarcity.
Collapse
Affiliation(s)
- João Martins
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martim de Freitas, 3000-456 Coimbra, Portugal; (M.N.); (J.C.)
| | | | | |
Collapse
|
6
|
Liu M, Zhao G, Huang X, Pan T, Chen W, Qu M, Ouyang B, Yu M, Shabala S. Candidate regulators of drought stress in tomato revealed by comparative transcriptomic and proteomic analyses. FRONTIERS IN PLANT SCIENCE 2023; 14:1282718. [PMID: 37936934 PMCID: PMC10627169 DOI: 10.3389/fpls.2023.1282718] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Accepted: 10/09/2023] [Indexed: 11/09/2023]
Abstract
Drought is among the most common abiotic constraints of crop growth, development, and productivity. Integrating different omics approaches offers a possibility for deciphering the metabolic pathways and fundamental mechanisms involved in abiotic stress tolerance. Here, we explored the transcriptional and post-transcriptional changes in drought-stressed tomato plants using transcriptomic and proteomic profiles to determine the molecular dynamics of tomato drought stress responses. We identified 22467 genes and 5507 proteins, among which the expression of 3765 genes and 294 proteins was significantly changed under drought stress. Furthermore, the differentially expressed genes (DEGs) and differentially abundant proteins (DAPs) showed a good correlation (0.743). The results indicated that integrating different omics approaches is promising in exploring the multilayered regulatory mechanisms of plant drought resistance. Gene ontology (GO) and pathway analysis identified several GO terms and pathways related to stress resistance, including response to stress, abiotic stimulus, and oxidative stress. The plant hormone abscisic acid (ABA) plays pivotal roles in response to drought stress, ABA-response element binding factor (AREB) is a key positive regulator of ABA signaling. Moreover, our analysis indicated that drought stress increased the abscisic acid (ABA) content, which activated AREB1 expression to regulate the expression of TAS14, GSH-Px-1, and Hsp, ultimately improving tomato drought resistance. In addition, the yeast one-hybrid assay demonstrated that the AREB1 could bind the Hsp promoter to activate Hsp expression. Thus, this study involved a full-scale analysis of gene and protein expression in drought-stressed tomato, deepening the understanding of the regulatory mechanisms of the essential drought-tolerance genes in tomato.
Collapse
Affiliation(s)
- Minmin Liu
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Gangjun Zhao
- Guangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Xin Huang
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Ting Pan
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Wenjie Chen
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Mei Qu
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Bo Ouyang
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, China
| | - Min Yu
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
| | - Sergey Shabala
- International Research Centre for Environmental Membrane Biology and Department of Horticulture, Foshan University, Foshan, China
- School of Biological Science, University of Western Australia, Crawley, WA, Australia
| |
Collapse
|
7
|
Bhattacharya O, Ortiz I, Hendricks N, Walling LL. The tomato chloroplast stromal proteome compendium elucidated by leveraging a plastid protein-localization prediction Atlas. FRONTIERS IN PLANT SCIENCE 2023; 14:1020275. [PMID: 37701797 PMCID: PMC10493611 DOI: 10.3389/fpls.2023.1020275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Accepted: 06/22/2023] [Indexed: 09/14/2023]
Abstract
Tomato (Solanum lycopersicum) is a model species for studying fruit development, wounding, herbivory, and pathogen attack. Despite tomato's world-wide economic importance and the role of chloroplasts as metabolic hubs and integrators of environmental cues, little is known about the stromal proteome of tomato. Using a high-yielding protocol for chloroplast and stromal protein isolation, MudPIT nano-LC-MS/MS analyses, a robust in-house protein database (the Atlas) for predicting the plastid localization of tomato proteins, and rigorous selection criteria for inclusion/exclusion in the stromal proteome, we identified 1,278 proteins of the tomato stromal proteome. We provide one of the most robust stromal proteomes available to date with empirical evidence for 545 and 92 proteins not previously described for tomato plastids and the Arabidopsis stroma, respectively. The relative abundance of tomato stromal proteins was determined using the exponentially modified protein abundance index (emPAI). Comparison of the abundance of tomato and Arabidopsis stromal proteomes provided evidence for the species-specific nature of stromal protein homeostasis. The manual curation of the tomato stromal proteome classified proteins into ten functional categories resulting in an accessible compendium of tomato chloroplast proteins. After curation, only 91 proteins remained as unknown, uncharacterized or as enzymes with unknown functions. The curation of the tomato stromal proteins also indicated that tomato has a number of paralogous proteins, not present in Arabidopsis, which accumulated to different levels in chloroplasts. As some of these proteins function in key metabolic pathways or in perceiving or transmitting signals critical for plant adaptation to biotic and abiotic stress, these data suggest that tomato may modulate the bidirectional communication between chloroplasts and nuclei in a novel manner. The stromal proteome provides a fertile ground for future mechanistic studies in the field of tomato chloroplast-nuclear signaling and are foundational for our goal of elucidating the dynamics of the stromal proteome controlled by the solanaceous-specific, stromal, and wound-inducible leucine aminopeptidase A of tomato.
Collapse
Affiliation(s)
- Oindrila Bhattacharya
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
| | - Irma Ortiz
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
| | - Nathan Hendricks
- Institute of Integrative Genome Biology, University of California, Riverside, Riverside, CA, United States
| | - Linda L. Walling
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
- Institute of Integrative Genome Biology, University of California, Riverside, Riverside, CA, United States
| |
Collapse
|
8
|
Szlachtowska Z, Rurek M. Plant dehydrins and dehydrin-like proteins: characterization and participation in abiotic stress response. FRONTIERS IN PLANT SCIENCE 2023; 14:1213188. [PMID: 37484455 PMCID: PMC10358736 DOI: 10.3389/fpls.2023.1213188] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Accepted: 06/12/2023] [Indexed: 07/25/2023]
Abstract
Abiotic stress has a significant impact on plant growth and development. It causes changes in the subcellular organelles, which, due to their stress sensitivity, can be affected. Cellular components involved in the abiotic stress response include dehydrins, widely distributed proteins forming a class II of late embryogenesis abundant protein family with characteristic properties including the presence of evolutionarily conserved sequence motifs (including lysine-rich K-segment, N-terminal Y-segment, and often phosphorylated S motif) and high hydrophilicity and disordered structure in the unbound state. Selected dehydrins and few poorly characterized dehydrin-like proteins participate in cellular stress acclimation and are also shown to interact with organelles. Through their functioning in stabilizing biological membranes and binding reactive oxygen species, dehydrins and dehydrin-like proteins contribute to the protection of fragile organellar structures under adverse conditions. Our review characterizes the participation of plant dehydrins and dehydrin-like proteins (including some organellar proteins) in plant acclimation to diverse abiotic stress conditions and summarizes recent updates on their structure (the identification of dehydrin less conserved motifs), classification (new proposed subclasses), tissue- and developmentally specific accumulation, and key cellular activities (including organellar protection under stress acclimation). Recent findings on the subcellular localization (with emphasis on the mitochondria and plastids) and prospective applications of dehydrins and dehydrin-like proteins in functional studies to alleviate the harmful stress consequences by means of plant genetic engineering and a genome editing strategy are also discussed.
Collapse
|
9
|
Conti V, Parrotta L, Romi M, Del Duca S, Cai G. Tomato Biodiversity and Drought Tolerance: A Multilevel Review. Int J Mol Sci 2023; 24:10044. [PMID: 37373193 DOI: 10.3390/ijms241210044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Revised: 06/07/2023] [Accepted: 06/10/2023] [Indexed: 06/29/2023] Open
Abstract
Ongoing global climate change suggests that crops will be exposed to environmental stresses that may affect their productivity, leading to possible global food shortages. Among these stresses, drought is the most important contributor to yield loss in global agriculture. Drought stress negatively affects various physiological, genetic, biochemical, and morphological characteristics of plants. Drought also causes pollen sterility and affects flower development, resulting in reduced seed production and fruit quality. Tomato (Solanum lycopersicum L.) is one of the most economically important crops in different parts of the world, including the Mediterranean region, and it is known that drought limits crop productivity, with economic consequences. Many different tomato cultivars are currently cultivated, and they differ in terms of genetic, biochemical, and physiological traits; as such, they represent a reservoir of potential candidates for coping with drought stress. This review aims to summarize the contribution of specific physio-molecular traits to drought tolerance and how they vary among tomato cultivars. At the genetic and proteomic level, genes encoding osmotins, dehydrins, aquaporins, and MAP kinases seem to improve the drought tolerance of tomato varieties. Genes encoding ROS-scavenging enzymes and chaperone proteins are also critical. In addition, proteins involved in sucrose and CO2 metabolism may increase tolerance. At the physiological level, plants improve drought tolerance by adjusting photosynthesis, modulating ABA, and pigment levels, and altering sugar metabolism. As a result, we underline that drought tolerance depends on the interaction of several mechanisms operating at different levels. Therefore, the selection of drought-tolerant cultivars must consider all these characteristics. In addition, we underline that cultivars may exhibit distinct, albeit overlapping, multilevel responses that allow differentiation of individual cultivars. Consequently, this review highlights the importance of tomato biodiversity for an efficient response to drought and for preserving fruit quality levels.
Collapse
Affiliation(s)
- Veronica Conti
- Department of Biological, Geological and Environmental Sciences, University of Bologna, 40126 Bologna, Italy
| | - Luigi Parrotta
- Department of Biological, Geological and Environmental Sciences, University of Bologna, 40126 Bologna, Italy
| | - Marco Romi
- Department of Life Sciences, University of Siena, 53100 Siena, Italy
| | - Stefano Del Duca
- Department of Biological, Geological and Environmental Sciences, University of Bologna, 40126 Bologna, Italy
- Interdepartmental Center for Agri-Food Industrial Research, University of Bologna, 40126 Bologna, Italy
| | - Giampiero Cai
- Department of Life Sciences, University of Siena, 53100 Siena, Italy
| |
Collapse
|
10
|
Oliveira APDS, Melo YL, de Alencar RS, Viégas PRA, Dias GF, Ferraz RLDS, Sá FVDS, Dantas Neto J, Magalhães ID, Gheyi HR, de Lacerda CF, de Melo AS. Osmoregulatory and Antioxidants Modulation by Salicylic Acid and Methionine in Cowpea Plants under the Water Restriction. PLANTS (BASEL, SWITZERLAND) 2023; 12:1341. [PMID: 36987027 PMCID: PMC10054143 DOI: 10.3390/plants12061341] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 03/08/2023] [Accepted: 03/11/2023] [Indexed: 06/19/2023]
Abstract
Global climate changes have intensified water stress in arid and semi-arid regions, reducing plant growth and yield. In this scenario, the present study aimed to evaluate the mitigating action of salicylic acid and methionine in cowpea cultivars under water restriction conditions. An experiment was conducted in a completely randomized design with treatments set up in a 2 × 5 factorial arrangement corresponding to two cowpea cultivars (BRS Novaera and BRS Pajeú) and five treatments of water replenishment, salicylic acid, and methionine. After eight days, water stress decreased the Ψw, leaf area, and fresh mass and increased the total soluble sugars and catalase activity in the two cultivars. After sixteen days, water stress increased the activity of the superoxide dismutase and ascorbate peroxidase enzymes and decreased the total soluble sugars content and catalase activity of BRS Pajeú plants. This stress response was intensified in the BRS Pajeú plants sprayed with salicylic acid and the BRS Novaera plants with salicylic acid or methionine. BRS Pajeú is more tolerant to water stress than BRS Novaera; therefore, the regulations induced by the isolated application of salicylic acid and methionine were more intense in BRS Novaera, stimulating the tolerance mechanism of this cultivar to water stress.
Collapse
Affiliation(s)
- Auta Paulina da Silva Oliveira
- Center of Biological and Health Sciences, Universidade Estadual da Paraíba, Campus I, Campina Grande 58429-500, PB, Brazil
| | - Yuri Lima Melo
- Center of Biological and Health Sciences, Universidade Estadual da Paraíba, Campus I, Campina Grande 58429-500, PB, Brazil
| | - Rayanne Silva de Alencar
- Center of Biological and Health Sciences, Universidade Estadual da Paraíba, Campus I, Campina Grande 58429-500, PB, Brazil
| | | | - Guilherme Felix Dias
- Center of Biological and Health Sciences, Universidade Estadual da Paraíba, Campus I, Campina Grande 58429-500, PB, Brazil
| | | | - Francisco Vanies da Silva Sá
- Department of Agronomic and Forest Science, Federal Rural University of the Semi-Arid, Mossoró 59625-900, RN, Brazil
| | - José Dantas Neto
- Center of Tecnologia and Natural Resources, Universidade Federal de Campina Grande, Campina Grande 58429-900, PB, Brazil
| | | | - Hans Raj Gheyi
- Center of Tecnologia and Natural Resources, Universidade Federal de Campina Grande, Campina Grande 58429-900, PB, Brazil
| | | | - Alberto Soares de Melo
- Center of Biological and Health Sciences, Universidade Estadual da Paraíba, Campus I, Campina Grande 58429-500, PB, Brazil
| |
Collapse
|
11
|
Machado J, Vasconcelos MW, Soares C, Fidalgo F, Heuvelink E, Carvalho SMP. Young Tomato Plants Respond Differently under Single or Combined Mild Nitrogen and Water Deficit: An Insight into Morphophysiological Responses and Primary Metabolism. PLANTS (BASEL, SWITZERLAND) 2023; 12:1181. [PMID: 36904041 PMCID: PMC10005627 DOI: 10.3390/plants12051181] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/26/2023] [Revised: 02/21/2023] [Accepted: 02/27/2023] [Indexed: 06/18/2023]
Abstract
This study aimed to understand the morphophysiological responses and primary metabolism of tomato seedlings subjected to mild levels of nitrogen and/or water deficit (50% N and/or 50% W). After 16 days of exposure, plants grown under the combined deficit showed similar behavior to the one found upon exposure to single N deficit. Both N deficit treatments resulted in a significantly lower dry weight, leaf area, chlorophyll content, and N accumulation but in a higher N use efficiency when compared to control (CTR) plants. Moreover, concerning plant metabolism, at the shoot level, these two treatments also responded in a similar way, inducing higher C/N ratio, nitrate reductase (NR) and glutamine synthetase (GS) activity, expression of RuBisCO encoding genes as well as a downregulation of GS2.1 and GS2.2 transcripts. Interestingly, plant metabolic responses at the root level did not follow the same pattern, with plants under combined deficit behaving similarly to W deficit plants, resulting in enhanced nitrate and proline concentrations, NR activity, and an upregulation of GS1 and NR genes than in CTR plants. Overall, our data suggest that the N remobilization and osmoregulation strategies play a relevant role in plant acclimation to these abiotic stresses and highlight the complexity of plant responses under a combined N+W deficit.
Collapse
Affiliation(s)
- Joana Machado
- GreenUPorto—Sustainable Agrifood Production Research Centre/Inov4Agro, DGAOT, Faculty of Sciences, University of Porto, Campus de Vairão, Rua da Agrária 747, 4485-646 Vairão, Portugal;
- CBQF—Centro de Biotecnologia e Química Fina—Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa, Rua Diogo Botelho 1327, 4169-005 Porto, Portugal
- Horticulture and Product Physiology Group, Department of Plant Sciences, Wageningen University, P.O. Box 16, 6700 AA Wageningen, The Netherlands
| | - Marta W. Vasconcelos
- CBQF—Centro de Biotecnologia e Química Fina—Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa, Rua Diogo Botelho 1327, 4169-005 Porto, Portugal
| | - Cristiano Soares
- GreenUPorto—Sustainable Agrifood Production Research Centre/Inov4Agro, Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Fernanda Fidalgo
- GreenUPorto—Sustainable Agrifood Production Research Centre/Inov4Agro, Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Ep Heuvelink
- Horticulture and Product Physiology Group, Department of Plant Sciences, Wageningen University, P.O. Box 16, 6700 AA Wageningen, The Netherlands
| | - Susana M. P. Carvalho
- GreenUPorto—Sustainable Agrifood Production Research Centre/Inov4Agro, DGAOT, Faculty of Sciences, University of Porto, Campus de Vairão, Rua da Agrária 747, 4485-646 Vairão, Portugal;
| |
Collapse
|
12
|
Momo J, Rawoof A, Kumar A, Islam K, Ahmad I, Ramchiary N. Proteomics of Reproductive Development, Fruit Ripening, and Stress Responses in Tomato. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:65-95. [PMID: 36584279 DOI: 10.1021/acs.jafc.2c06564] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
The fruits of the tomato crop (Solanum lycopersicum L.) are increasingly consumed by humans worldwide. Due to their rich nutritional quality, pharmaceutical properties, and flavor, tomato crops have gained a salient role as standout crops among other plants. Traditional breeding and applied functional research have made progress in varying tomato germplasms to subdue biotic and abiotic stresses. Proteomic investigations within a span of few decades have assisted in consolidating the functional genomics and transcriptomic research. However, due to the volatility and dynamicity of proteins in the regulation of various biosynthetic pathways, there is a need for continuing research in the field of proteomics to establish a network that could enable a more comprehensive understanding of tomato growth and development. With this view, we provide a comprehensive review of proteomic studies conducted on the tomato plant in past years, which will be useful for future breeders and researchers working to improve the tomato crop.
Collapse
Affiliation(s)
- John Momo
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Abdul Rawoof
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Ajay Kumar
- Department of Plant Sciences, School of Biological Sciences, Central University of Kerala, Kasaragod, Kerala 671316, India
| | - Khushbu Islam
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Ilyas Ahmad
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Nirala Ramchiary
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| |
Collapse
|
13
|
Tejada-Alvarado JJ, Meléndez-Mori JB, Vilca-Valqui NC, Neri JC, Ayala-Tocto RY, Huaman-Huaman E, Gill ERA, Oliva M, Goñas M. Impact of wild solanaceae rootstocks on morphological and physiological response, yield, and fruit quality of tomato (S olanum lycopersicum L.) grown under deficit irrigation conditions. Heliyon 2022; 9:e12755. [PMID: 36685469 PMCID: PMC9849928 DOI: 10.1016/j.heliyon.2022.e12755] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 12/22/2022] [Accepted: 12/28/2022] [Indexed: 01/01/2023] Open
Abstract
It has been established that climate change has a direct impact on water availability, an essential resource for agricultural development. As a result, controlling, mitigating, and adapting to water deficit requires the advancement of research on promising wild flora species. As recent studies have shown, wild relatives of certain cultivars are tolerant to adverse factors, enabling the development of sustainable and resilient agriculture. The present study evaluated the morpho-physiology and productivity of tomato scions grafted on wild Solanaceae (Datura stramonium, Solanum sisymbriifolium, Solanum quitoense, and Cyphomandra betacea) grown under water deficit conditions (100% ETc - high level, 75% ETc - moderate level, 50% ETc - medium level, and 25% ETc - low level). The results showed that tomato plants grafted on Datura stramonium rootstocks performed better morpho-physiologically under deficit irrigation. The improved osmoregulation caused by a higher relative water content (98.49%) allowed the scion to be more tolerant to water stress. In addition, these scions showed high water potential during their phenological stages (vegetative -0.47 MPa, flowering -0.59 MPa, and production -0.64 MPa), as well as improved photosynthetic efficiency. The overall tolerance of the scion resulted in better yield (8.14 kg/plant) with higher number of commercially valuable fruits. The D. stramonium rootstock allowed better management and use of irrigation water, increasing productivity (54.95 kg/m3); that is, it is presented as a species with potential for establishing tomato production areas in scenarios of water scarcity or cultivation under deficit irrigation.
Collapse
Affiliation(s)
- José Jesús Tejada-Alvarado
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Jegnes Benjamín Meléndez-Mori
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru,Corresponding author.
| | - Nuri Carito Vilca-Valqui
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Juan C. Neri
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Rosmery Y. Ayala-Tocto
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Eyner Huaman-Huaman
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Elizabeth Renee Ambler Gill
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru,College of Life Sciences and Agriculture COLSA, University of New Hampshire, Durham, NH, United States
| | - Manuel Oliva
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| | - Malluri Goñas
- Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas 01001, Peru
| |
Collapse
|
14
|
Comparative Metabolomic Studies of Siberian Wildrye ( Elymus sibiricus L.): A New Look at the Mechanism of Plant Drought Resistance. Int J Mol Sci 2022; 24:ijms24010452. [PMID: 36613896 PMCID: PMC9820681 DOI: 10.3390/ijms24010452] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Revised: 12/15/2022] [Accepted: 12/22/2022] [Indexed: 12/29/2022] Open
Abstract
Drought is one of the most important factors affecting plant growth and production due to ongoing global climate change. Elymus sibiricus has been widely applied for ecological restoration and reseeding of degraded grassland in the Qinghai-Tibetan Plateau (QTP) because of its strong adaptability to barren, salted, and drought soils. To explore the mechanism of drought resistance in E. sibiricus, drought-tolerant and drought-sensitive genotypes of E. sibiricus were used in metabolomic studies under simulated long-term and short-term drought stress. A total of 1091 metabolites were detected, among which, 27 DMs were considered to be the key metabolites for drought resistance of E. sibiricus in weighted gene co-expression network analysis (WGCNA). Ten metabolites, including 3-amino-2-methylpropanoic acid, coniferin, R-aminobutyrate, and so on, and 12 metabolites, including L-Proline, L-histidine, N-acetylglycine, and so on, showed differential accumulation patterns under short-term and long-term drought stress, respectively, and thus, could be used as biomarkers for drought-tolerant and drought-sensitive E. sibiricus. In addition, different metabolic accumulation patterns and different drought response mechanisms were also found in drought-tolerant and drought-sensitive genotypes of E. sibiricus. Finally, we constructed metabolic pathways and metabolic patterns for the two genotypes. This metabolomic study on the drought stress response of E. sibiricus can provide resources and a reference for the breeding of new drought-tolerant cultivars of E. sibiricus.
Collapse
|
15
|
Abiotic and Herbivory Combined Stress in Tomato: Additive, Synergic and Antagonistic Effects and Within-Plant Phenotypic Plasticity. Life (Basel) 2022; 12:life12111804. [DOI: 10.3390/life12111804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2022] [Revised: 11/03/2022] [Accepted: 11/04/2022] [Indexed: 11/09/2022] Open
Abstract
Background: Drought, N deficiency and herbivory are considered the most important stressors caused by climate change in the agro- and eco-systems and varied in space and time shaping highly dynamic and heterogeneous stressful environments. This study aims to evaluate the tomato morpho-physiological and metabolic responses to combined abiotic and herbivory at different within-plant spatial levels and temporal scales. Methods: Leaf-level morphological, gas exchange traits and volatile organic compounds (VOCs) profiles were measured in tomato plants exposed to N deficiency and drought, Tuta absoluta larvae and their combination. Additive, synergistic or antagonistic effects of the single stress when combined were also evaluated. Morpho-physiological traits and VOCs profile were also measured on leaves located at three different positions along the shoot axes. Results: The combination of the abiotic and biotic stress has been more harmful than single stress with antagonistic and synergistic but non-additive effects for the morpho-physiological and VOCs tomato responses, respectively. Combined stress also determined a high within-plant phenotypic plasticity of the morpho-physiological responses. Conclusions: These results suggested that the combined stress in tomato determined a “new stress state” and a higher within-plant phenotypic plasticity which could permit an efficient use of the growth and defense resources in the heterogeneous and multiple stressful environmental conditions.
Collapse
|
16
|
Balfagón D, Zandalinas SI, dos Reis de Oliveira T, Santa‐Catarina C, Gómez‐Cadenas A. Reduction of heat stress pressure and activation of photosystem II repairing system are crucial for citrus tolerance to multiple abiotic stress combination. PHYSIOLOGIA PLANTARUM 2022; 174:e13809. [PMID: 36309819 PMCID: PMC9828536 DOI: 10.1111/ppl.13809] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2022] [Revised: 10/14/2022] [Accepted: 10/21/2022] [Indexed: 05/24/2023]
Abstract
Drought, heat and high irradiance are abiotic stresses that negatively affect plant development and reduce crop productivity. The confluence of these three factors is common in nature, causing extreme situations for plants that compromise their viability. Drought and heat stresses increase the saturation of the photosystem reaction centers, increasing sensitivity to high irradiance. In addition, these stress conditions affect photosystem II (PSII) integrity, alter redox balance of the electron transport chain and decrease the photosynthetic rate. Here, we studied the effect of the stress combinations on the photosynthetic apparatus of two citrus genotypes, Carrizo citrange (Citrus sinensis × Poncirus trifoliata) and Cleopatra mandarin (Citrus reshni). Results obtained showed that physiological responses, such as modulation of stomatal aperture and transpiration rate, aimed to reduce leaf temperature, are key to diminishing heat impact on photosynthetic apparatus and increasing tolerance to double and triple combinations of drought, high irradiance and high temperatures. By using transcriptomic and proteomic analyses, we have demonstrated that under these abiotic stress combinations, Carrizo plants were able to increase expression of genes and proteins related to the photosystem repairing machinery (which better maintained the integrity of PSII) and other components of the photosynthetic apparatus. Our findings reveal crucial physiological and genetic responses in citrus to increase tolerance to the combination of multiple abiotic stresses that could be the basis for breeding programs that ensure a sustainable citrus production.
Collapse
Affiliation(s)
- Damián Balfagón
- Departamento de Biología, Bioquímica y Ciencias NaturalesUniversitat Jaume ICastelló de la PlanaSpain
| | - Sara I. Zandalinas
- Departamento de Biología, Bioquímica y Ciencias NaturalesUniversitat Jaume ICastelló de la PlanaSpain
| | - Tadeu dos Reis de Oliveira
- Laboratório de Biologia Celular e Tecidual (LBCT)Centro de Biociências e Biotecnologia (CBB), Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF)Campos Dos GoytacazesBrazil
| | - Claudete Santa‐Catarina
- Laboratório de Biologia Celular e Tecidual (LBCT)Centro de Biociências e Biotecnologia (CBB), Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF)Campos Dos GoytacazesBrazil
| | - Aurelio Gómez‐Cadenas
- Departamento de Biología, Bioquímica y Ciencias NaturalesUniversitat Jaume ICastelló de la PlanaSpain
| |
Collapse
|
17
|
Prusty S, Sahoo RK, Nayak S, Poosapati S, Swain DM. Proteomic and Genomic Studies of Micronutrient Deficiency and Toxicity in Plants. PLANTS 2022; 11:plants11182424. [PMID: 36145825 PMCID: PMC9501179 DOI: 10.3390/plants11182424] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/23/2022] [Revised: 09/02/2022] [Accepted: 09/04/2022] [Indexed: 11/21/2022]
Abstract
Micronutrients are essential for plants. Their growth, productivity and reproduction are directly influenced by the supply of micronutrients. Currently, there are eight trace elements considered to be essential for higher plants: Fe, Zn, Mn, Cu, Ni, B, Mo, and Cl. Possibly, other essential elements could be discovered because of recent advances in nutrient solution culture techniques and in the commercial availability of highly sensitive analytical instrumentation for elemental analysis. Much remains to be learned about the physiology of micronutrient absorption, translocation and deposition in plants, and about the functions they perform in plant growth and development. With the recent advancements in the proteomic and molecular biology tools, researchers have attempted to explore and address some of these questions. In this review, we summarize the current knowledge of micronutrients in plants and the proteomic/genomic approaches used to study plant nutrient deficiency and toxicity.
Collapse
Affiliation(s)
- Suchismita Prusty
- Department of Biotechnology, Centurion University of Technology and Management, Bhubaneswar 752050, Odisha, India
| | - Ranjan Kumar Sahoo
- Department of Biotechnology, Centurion University of Technology and Management, Bhubaneswar 752050, Odisha, India
| | - Subhendu Nayak
- Division of Health Sciences, The Clorox Company, 210W Pettigrew Street, Durham, NC 27701, USA
| | - Sowmya Poosapati
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, CA 92093, USA
- Correspondence: (S.P.); (D.M.S.)
| | - Durga Madhab Swain
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, CA 92093, USA
- Correspondence: (S.P.); (D.M.S.)
| |
Collapse
|
18
|
Complete Chloroplast Genome of Gladiolus gandavensis (Gladiolus) and Genetic Evolutionary Analysis. Genes (Basel) 2022; 13:genes13091599. [PMID: 36140767 PMCID: PMC9498597 DOI: 10.3390/genes13091599] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Revised: 08/26/2022] [Accepted: 09/04/2022] [Indexed: 11/25/2022] Open
Abstract
Gladiolus is an important ornamental plant that is one of the world’s four most-grown cut flowers. Gladiolus gandavensis has only been found in the Cangnan County (Zhejiang Province) of China, which is recorded in the “Botanical”. To explore the origin of G. gandavensis, chloroplast genome sequencing was conducted. The results indicated that a total of 151,654 bp of circular DNA was obtained. The chloroplast genome of G. gandavensis has a quadripartite structure (contains a large single-copy (LSC) region (81,547 bp), a small single-copy region (SSC) (17,895 bp), and two inverted repeats (IRs) (IRa and IRb, 52,212 bp)), similar to that of other species. In addition, a total of 84 protein-coding genes, 8 rRNA-encoding genes, and 38 tRNA-encoding genes were present in the chloroplast genome. To further study the structural characteristics of the chloroplast genome in G. gandavensis, a comparative analysis of eight species of the Iridaceae family was conducted, and the results revealed higher similarity in the IR regions than in the LSC and SSC regions. In addition, 265 simple sequence repeats (SSRs) were detected in this study. The results of the phylogenetic analysis indicated that the chloroplast genome of G. gandavensis has high homology with the Crocus cartwrightianus and Crocus sativus chloroplast genomes. Genetic analysis based on the rbcl sequence among 49 Gladiolus species showed that samples 42, 49, 50, and 54 had high homology with the three samples from China (64, 65, and 66), which might be caused by chance similarity in genotypes. These results suggest that G. gandavensis may have originated from South Africa.
Collapse
|
19
|
Alhajhoj MR, Munir M, Sudhakar B, Ali-Dinar HM, Iqbal Z. Common and novel metabolic pathways related ESTs were upregulated in three date palm cultivars to ameliorate drought stress. Sci Rep 2022; 12:15027. [PMID: 36056140 PMCID: PMC9440037 DOI: 10.1038/s41598-022-19399-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 08/29/2022] [Indexed: 11/16/2022] Open
Abstract
Date palm is an important staple crop in Saudi Arabia, and about 400 different date palm cultivars grown here, only 50-60 of them are used commercially. The most popular and commercially consumed cultivars of these are Khalas, Reziz, and Sheshi, which are also widely cultivated across the country. Date palm is high water-demanding crop in oasis agriculture, with an inherent ability to tolerate drought stress. However, the mechanisms by which it tolerates drought stress, especially at the transcriptomic level, are still elusive. This study appraised the physiological and molecular response of three commercial date palm cultivars Khalas, Reziz, and Sheshi at two different field capacities (FC; 100% and 25%) levels. At 25% FC (drought stress), leaf relative water content, chlorophyll, photosynthesis, stomatal conductance, and transpiration were significantly reduced. However, leaf intercellular CO2 concentration and water use efficiency increased under drought stress. In comparison to cvs. Khalas and Reziz, date palm cv. Sheshi showed less tolerance to drought stress. A total of 1118 drought-responsive expressed sequence tags (ESTs) were sequenced, 345 from Khalas, 391 from Reziz, and 382 from Sheshi and subjected to functional characterization, gene ontology classification, KEGG pathways elucidation, and enzyme codes dissemination. Three date palm cultivars deployed a multivariate approach to ameliorate drought stress by leveraging common and indigenous molecular, cellular, biological, structural, transcriptional and reproductive mechanisms. Approximately 50% of the annotated ESTs were related to photosynthesis regulation, photosynthetic structure, signal transduction, auxin biosynthesis, osmoregulation, stomatal conductance, protein synthesis/turnover, active transport of solutes, and cell structure modulation. Along with the annotated ESTs, ca. 45% of ESTs were novel. Conclusively, the study provides novel clues and opens the myriads of genetic resources to understand the fine-tuned drought amelioration mechanisms in date palm.
Collapse
Affiliation(s)
- Mohammed Refdan Alhajhoj
- Department of Arid Land Agriculture, College of Agriculture and Food Sciences, King Faisal University, PO Box 31982, Al-Ahsa, Saudi Arabia
| | - Muhammad Munir
- Date Palm Research Center of Excellence, King Faisal University, PO Box 31982, Al-Ahsa, Saudi Arabia
| | - Balakrishnan Sudhakar
- Date Palm Research Center of Excellence, King Faisal University, PO Box 31982, Al-Ahsa, Saudi Arabia
| | - Hassan Muzzamil Ali-Dinar
- Date Palm Research Center of Excellence, King Faisal University, PO Box 31982, Al-Ahsa, Saudi Arabia
| | - Zafar Iqbal
- Central Laboratories, King Faisal University, PO Box 31982, Al-Ahsa, Saudi Arabia.
| |
Collapse
|
20
|
The Eucalyptus grandis chloroplast proteome: Seasonal variations in leaf development. PLoS One 2022; 17:e0265134. [PMID: 36048873 PMCID: PMC9436043 DOI: 10.1371/journal.pone.0265134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Accepted: 08/18/2022] [Indexed: 11/26/2022] Open
Abstract
Chloroplast metabolism is very sensitive to environmental fluctuations and is intimately related to plant leaf development. Characterization of the chloroplast proteome dynamics can contribute to a better understanding on plant adaptation to different climate scenarios and leaf development processes. Herein, we carried out a discovery-driven analysis of the Eucalyptus grandis chloroplast proteome during leaf maturation and throughout different seasons of the year. The chloroplast proteome from young leaves differed the most from all assessed samples. Most upregulated proteins identified in mature and young leaves were those related to catabolic-redox signaling and biogenesis processes, respectively. Seasonal dynamics revealed unique proteome features in the fall and spring periods. The most abundant chloroplast protein in humid (wet) seasons (spring and summer) was a small subunit of RuBisCO, while in the dry periods (fall and winter) the proteins that showed the most pronounced accumulation were associated with photo-oxidative damage, Calvin cycle, shikimate pathway, and detoxification. Our investigation of the chloroplast proteome dynamics during leaf development revealed significant alterations in relation to the maturation event. Our findings also suggest that transition seasons induced the most pronounced chloroplast proteome changes over the year. This study contributes to a more comprehensive understanding on the subcellular mechanisms that lead to plant leaf adaptation and ultimately gives more insights into Eucalyptus grandis phenology.
Collapse
|
21
|
Dissecting the Chloroplast Proteome of the Potato (Solanum Tuberosum L.) and Its Comparison with the Tuber Amyloplast Proteome. PLANTS 2022; 11:plants11151915. [PMID: 35893618 PMCID: PMC9332351 DOI: 10.3390/plants11151915] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Revised: 07/02/2022] [Accepted: 07/20/2022] [Indexed: 11/17/2022]
Abstract
The chloroplast, the energy organelle unique to plants and green algae, performs many functions, including photosynthesis and biosynthesis of metabolites. However, as the most critical tuber crop worldwide, the chloroplast proteome of potato (Solanum tuberosum) has not been explored. Here, we use Percoll density gradient centrifugation to isolate intact chloroplasts from leaves of potato cultivar E3 and establish a reference proteome map of potato chloroplast by bottom-up proteomics. A total of 1834 non-redundant proteins were identified in the chloroplast proteome, including 51 proteins encoded by the chloroplast genome. Extensive sequence-based localization prediction revealed over 62% of proteins to be chloroplast resident by at least one algorithm. Sixteen proteins were selected to evaluate the prediction result by transient fluorescence assay, which confirmed that 14 were distributed in distinct internal compartments of the chloroplast. In addition, we identified 136 phosphorylation sites in 61 proteins encoded by chloroplast proteome. Furthermore, we reconstruct the snapshots along starch metabolic pathways in the two different types of plastids by a comparative analysis between chloroplast and previously reported amyloplast proteomes. Altogether, our results establish a comprehensive proteome map with post-translationally modified sites of potato chloroplast, which would provide the theoretical principle for the research of the photosynthesis pathway and starch metabolism.
Collapse
|
22
|
Drought tolerance improvement in Solanum lycopersicum: an insight into "OMICS" approaches and genome editing. 3 Biotech 2022; 12:63. [PMID: 35186660 PMCID: PMC8825918 DOI: 10.1007/s13205-022-03132-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Accepted: 01/24/2022] [Indexed: 12/16/2022] Open
Abstract
Solanum lycopersicum (tomato) is an internationally acclaimed vegetable crop that is grown worldwide. However, drought stress is one of the most critical challenges for tomato production, and it is a crucial task for agricultural biotechnology to produce drought-resistant cultivars. Although breeders have done a lot of work on the tomato to boost quality and quantity of production and enhance resistance to biotic and abiotic stresses, conventional tomato breeding approaches have been limited to improving drought tolerance because of the intricacy of drought traits. Many efforts have been made to better understand the mechanisms involved in adaptation and tolerance to drought stress in tomatoes throughout the years. "Omics" techniques, such as genomics, transcriptomics, proteomics, and metabolomics in combination with modern sequencing technologies, have tremendously aided the discovery of drought-responsive genes. In addition, the availability of biotechnological tools, such as plant transformation and the recently developed genome editing system for tomatoes, has opened up wider opportunities for validating the function of drought-responsive genes and the generation of drought-tolerant varieties. This review highlighted the recent progresses for tomatoes improvement against drought stress through "omics" and "multi-omics" technologies including genetic engineering. We have also discussed the roles of non-coding RNAs and genome editing techniques for drought stress tolerance improvement in tomatoes.
Collapse
|
23
|
Xu Y, Freund DM, Hegeman AD, Cohen JD. Metabolic signatures of Arabidopsis thaliana abiotic stress responses elucidate patterns in stress priming, acclimation, and recovery. STRESS BIOLOGY 2022; 2:11. [PMID: 37676384 PMCID: PMC10441859 DOI: 10.1007/s44154-022-00034-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2021] [Accepted: 01/10/2022] [Indexed: 09/08/2023]
Abstract
Temperature, water, and light are three abiotic stress factors that have major influences on plant growth, development, and reproduction. Plants can be primed by a prior mild stress to enhance their resistance to future stress. We used an untargeted metabolomics approach to examine Arabidopsis thaliana 11-day-old seedling's abiotic stress responses including heat (with and without priming), cold (with and without priming), water-deficit and high-light before and after a 2-day-recovery period. Analysis of the physiological phenotypes showed that seedlings with stress treatment resulted in a reduction in fresh weight, hypocotyl and root length but remained viable. Several stress responsive metabolites were identified, confirmed with reference standards, quantified, and clustered. We identified shared and specific stress signatures for cold, heat, water-deficit, and high-light treatments. Central metabolism including amino acid metabolism, sugar metabolism, glycolysis, TCA cycle, GABA shunt, glutathione metabolism, purine metabolism, and urea cycle were found to undergo changes that are fundamentally different, although some shared commonalities in response to different treatments. Large increases in cysteine abundance and decreases in reduced glutathione were observed following multiple stress treatments highlighting the importance of oxidative stress as a general phenomenon in abiotic stress. Large fold increases in low-turnover amino acids and maltose demonstrate the critical role of protein and starch autolysis in early abiotic stress responses.
Collapse
Affiliation(s)
- Yuan Xu
- Department of Horticultural Science and the Microbial and Plant Genomics Institute, University of Minnesota, MN, Saint Paul, USA
| | - Dana M Freund
- Department of Horticultural Science and the Microbial and Plant Genomics Institute, University of Minnesota, MN, Saint Paul, USA
| | - Adrian D Hegeman
- Department of Horticultural Science and the Microbial and Plant Genomics Institute, University of Minnesota, MN, Saint Paul, USA.
- Department of Plant and Microbial Biology, University of Minnesota, MN, Saint Paul, USA.
| | - Jerry D Cohen
- Department of Horticultural Science and the Microbial and Plant Genomics Institute, University of Minnesota, MN, Saint Paul, USA
| |
Collapse
|
24
|
Ahmad S, Wang GY, Muhammad I, Chi YX, Zeeshan M, Nasar J, Zhou XB. Interactive Effects of Melatonin and Nitrogen Improve Drought Tolerance of Maize Seedlings by Regulating Growth and Physiochemical Attributes. Antioxidants (Basel) 2022; 11:antiox11020359. [PMID: 35204247 PMCID: PMC8869313 DOI: 10.3390/antiox11020359] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2022] [Revised: 02/07/2022] [Accepted: 02/08/2022] [Indexed: 02/07/2023] Open
Abstract
Melatonin plays an important role in numerous vital life processes of animals and has recently captured the interests of plant biologists because of its potent role in plants. As well as its possible contribution to photoperiodic processes, melatonin is believed to act as a growth regulator and/or as a direct free radical scavenger/indirect antioxidant. However, identifying a precise concentration of melatonin with an optimum nitrogen level for a particular application method to improve plant growth requires identification and clarification. This work establishes inimitable findings by optimizing the application of melatonin with an optimum level of nitrogen, alleviating the detrimental effects of drought stress in maize seedlings. Maize seedlings were subjected to drought stress of 40–45% field capacity (FC) at the five-leaf stage, followed by a soil drenching of melatonin 100 µM and three nitrogen levels (200, 250, and 300 kg ha−1) to consider the changes in maize seedling growth. Our results showed that drought stress significantly inhibited the physiological and biochemical parameters of maize seedlings. However, the application of melatonin with nitrogen remarkably improved the plant growth attributes, chlorophyll pigments, fluorescence, and gas exchange parameters. Moreover, melatonin and nitrogen application profoundly reduced the reactive oxygen species (ROS) accumulation by increasing maize antioxidant and nitrogen metabolism enzyme activities under drought-stress conditions. It was concluded that the mitigating potential of 100 µM melatonin with an optimum level of nitrogen (250 kg N ha−1) improves the plant growth, photosynthetic efficiency, and enzymatic activity of maize seedling under drought-stress conditions.
Collapse
|
25
|
Teixeira A, Noronha H, Sebastiana M, Fortes AM, Gerós H. A proteomic analysis shows the stimulation of light reactions and inhibition of the Calvin cycle in the skin chloroplasts of ripe red grape berries. FRONTIERS IN PLANT SCIENCE 2022; 13:1014532. [PMID: 36388544 PMCID: PMC9641181 DOI: 10.3389/fpls.2022.1014532] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 09/21/2022] [Indexed: 05/10/2023]
Abstract
The role of photosynthesis in fruits still challenges scientists. This is especially true in the case of mature grape berries of red varieties lined by an anthocyanin-enriched exocarp (skin) almost impermeable to gases. Although chlorophylls are degraded and replaced by carotenoids in several fruits, available evidence suggests that they may persist in red grapes at maturity. In the present study, chloroplasts were isolated from the skin of red grape berries (cv. Vinhão) to measure chlorophyll levels and the organelle proteome. The results showed that chloroplasts (and chlorophylls) are maintained in ripe berries masked by anthocyanin accumulation and that the proteome of chloroplasts from green and mature berries is distinct. Several proteins of the light reactions significantly accumulated in chloroplasts at the mature stage including those of light-harvesting complexes of photosystems I (PSI) and II (PSII), redox chain, and ATP synthase, while chloroplasts at the green stage accumulated more proteins involved in the Calvin cycle and the biosynthesis of amino acids, including precursors of secondary metabolism. Taken together, results suggest that although chloroplasts are more involved in biosynthetic reactions in green berries, at the mature stage, they may provide ATP for cell maintenance and metabolism or even O2 to feed the respiratory demand of inner tissues.
Collapse
Affiliation(s)
- António Teixeira
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
- *Correspondence: António Teixeira, ; Henrique Noronha,
| | - Henrique Noronha
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
- *Correspondence: António Teixeira, ; Henrique Noronha,
| | - Mónica Sebastiana
- BioISI – Instituto de Biosistemas e Ciências Integrativas, Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal
| | - Ana Margarida Fortes
- BioISI – Instituto de Biosistemas e Ciências Integrativas, Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal
| | - Hernâni Gerós
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
| |
Collapse
|
26
|
Transcriptome analysis of Kentucky bluegrass subject to drought and ethephon treatment. PLoS One 2021; 16:e0261472. [PMID: 34914788 PMCID: PMC8675742 DOI: 10.1371/journal.pone.0261472] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 12/03/2021] [Indexed: 11/19/2022] Open
Abstract
Kentucky bluegrass (Poa pratensis L.) is an excellent cool-season turfgrass utilized widely in Northern China. However, turf quality of Kentucky bluegrass declines significantly due to drought. Ethephon seeds-soaking treatment has been proved to effectively improve the drought tolerance of Kentucky bluegrass seedlings. In order to investigate the effect of ethephon leaf-spraying method on drought tolerance of Kentucky bluegrass and understand the underlying mechanism, Kentucky bluegrass plants sprayed with and without ethephon are subjected to either drought or well watered treatments. The relative water content and malondialdehyde conent were measured. Meanwhile, samples were sequenced through Illumina. Results showed that ethephon could improve the drought tolerance of Kentucky bluegrass by elevating relative water content and decreasing malondialdehyde content under drought. Transcriptome analysis showed that 58.43% transcripts (254,331 out of 435,250) were detected as unigenes. A total of 9.69% (24,643 out of 254,331) unigenes were identified as differentially expressed genes in one or more of the pairwise comparisons. Differentially expressed genes due to drought stress with or without ethephon pre-treatment showed that ethephon application affected genes associated with plant hormone, signal transduction pathway and plant defense, protein degradation and stabilization, transportation and osmosis, antioxidant system and the glyoxalase pathway, cell wall and cuticular wax, fatty acid unsaturation and photosynthesis. This study provides a theoretical basis for revealing the mechanism for how ethephon regulates drought response and improves drought tolerance of Kentucky bluegrass.
Collapse
|
27
|
Mustafa G, Komatsu S. Plant proteomic research for improvement of food crops under stresses: a review. Mol Omics 2021; 17:860-880. [PMID: 34870299 DOI: 10.1039/d1mo00151e] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Crop improvement approaches have been changed due to technological advancements in traditional plant-breeding methods. Abiotic and biotic stresses limit plant growth and development, which ultimately lead to reduced crop yield. Proteins encoded by genomes have a considerable role in the endurance and adaptation of plants to different environmental conditions. Biotechnological applications in plant breeding depend upon the information generated from proteomic studies. Proteomics has a specific advantage to contemplate post-translational modifications, which indicate the functional effects of protein modifications on crop production. Subcellular proteomics helps in exploring the precise cellular responses and investigating the networking among subcellular compartments during plant development and biotic/abiotic stress responses. Large-scale mass spectrometry-based plant proteomic studies with a more comprehensive overview are now possible due to dramatic improvements in mass spectrometry, sample preparation procedures, analytical software, and strengthened availability of genomes for numerous plant species. Development of stress-tolerant or resilient crops is essential to improve crop productivity and growth. Use of high throughput techniques with advanced instrumentation giving efficient results made this possible. In this review, the role of proteomic studies in identifying the stress-response processes in different crops is summarized. Advanced techniques and their possible utilization on plants are discussed in detail. Proteomic studies accelerate marker-assisted genetic augmentation studies on crops for developing high yielding stress-tolerant lines or varieties under stresses.
Collapse
Affiliation(s)
- Ghazala Mustafa
- Department of Plant Sciences, Quaid-i-Azam University, Islamabad 45320, Pakistan
| | - Setsuko Komatsu
- Faculty of Environment and Information Sciences, Fukui University of Technology, Fukui 910-8505, Japan.
| |
Collapse
|
28
|
Živanović B, Milić Komić S, Nikolić N, Mutavdžić D, Srećković T, Veljović Jovanović S, Prokić L. Differential Response of Two Tomato Genotypes, Wild Type cv. Ailsa Craig and Its ABA-Deficient Mutant flacca to Short-Termed Drought Cycles. PLANTS 2021; 10:plants10112308. [PMID: 34834671 PMCID: PMC8617711 DOI: 10.3390/plants10112308] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 10/20/2021] [Accepted: 10/20/2021] [Indexed: 01/14/2023]
Abstract
Two tomato genotypes with constitutively different ABA level, flacca mutant and wild type of Ailsa Craig cv. (WT), were subjected to three repeated drought cycles, with the aim to reveal the role of the abscisic acid (ABA) threshold in developing drought tolerance. Differential responses to drought of two genotypes were obtained: more pronounced stomatal closure, ABA biosynthesis and proline accumulation in WT compared to the mutant were compensated by dry weight accumulation accompanied by transient redox disbalance in flacca. Fourier-transform infrared (FTIR) spectra analysis of isolated cell wall material and morphological parameter measurements on tomato leaves indicated changes in dry weight accumulation and carbon re-allocation to cell wall constituents in flacca, but not in WT. A higher proportion of cellulose, pectin and lignin in isolated cell walls from flacca leaves further increased with repeated drought cycles. Different ABA-dependent stomatal closure between drought cycles implies that acquisition of stomatal sensitivity may be a part of stress memory mechanism developed under given conditions. The regulatory role of ABA in the cell wall restructuring and growth regulation under low leaf potential was discussed with emphasis on the beneficial effects of drought priming in developing differential defense strategies against drought.
Collapse
Affiliation(s)
- Bojana Živanović
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
| | - Sonja Milić Komić
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
| | - Nenad Nikolić
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
| | - Dragosav Mutavdžić
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
- Center for Green Technologies, Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia
| | - Tatjana Srećković
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
- Center for Green Technologies, Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia
| | - Sonja Veljović Jovanović
- Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia; (B.Ž.); (S.M.K.); (N.N.); (D.M.); (T.S.)
- Center for Green Technologies, Institute for Multidisciplinary Research, University of Belgrade, Kneza Višeslava 1, 11030 Belgrade, Serbia
- Correspondence: (S.V.J.); (L.P.)
| | - Ljiljana Prokić
- Faculty of Agriculture, University of Belgrade, Nemanjina 6, 11080 Belgrade, Serbia
- Correspondence: (S.V.J.); (L.P.)
| |
Collapse
|
29
|
Unravelling the Role of Piriformospora indica in Combating Water Deficiency by Modulating Physiological Performance and Chlorophyll Metabolism-Related Genes in Cucumis sativus. HORTICULTURAE 2021. [DOI: 10.3390/horticulturae7100399] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Water stress is the most critical aspect restricting the development of agriculture in regions with scarce water resources, which requires enhancing irrigation water-saving strategies. The current work discusses the potential application of the plant-strengthening root endophyte Piriformospora indica against moderate (25% less irrigation water) and severe (50% less irrigation water) water stress in comparison to the optimum irrigation conditions of greenhouse cucumbers. P. indica improved growth, nutrient content, and photosynthesis apparatus under normal or water-stress conditions. On the other hand, moderate and severe water stress reduced yield up to 47% and 83%, respectively, in non-colonized cucumber plants, while up to 28 and 78%, respectively, in P. indica-colonized plants. In terms of water-use efficiency (WUE), P. indica improved the WUE of colonized cucumber plants grown under moderate (26 L/kg) or severe stress (73 L/kg) by supporting colonized plants in producing higher yield per unit volume of water consumed by the crop in comparison to non-colonized plants under the same level of moderate (43 L/kg) or severe (81 L/kg) water stress. Furthermore, P. indica increased the indole-3-acetic acid (IAA) content, activity levels of catalase (CAT) and peroxidase (POD) with an apparent clear reduction in the abscisic acid (ABA), ethylene, malondialdehyde (MDA), proline contents and stomatal closure compared to non-stressed plants under both water-stress levels. In addition, chlorophyll a, b, a + b contents were increased in the leaves of the colonized plants under water-stress conditions. This improvement in chlorophyll content could be correlated with a significant increment in the transcripts of chlorophyll biosynthesis genes (protochlorophyllide oxidoreductase [POR], chlorophyll a oxygenase [CAO]) and a reduction in the chlorophyll degradation genes (PPH, pheophorbide a oxygenase [PAO], and red chlorophyll catabolite reductase [RCCR]). In conclusion, P. indica has the potential to enhance the cucumber yield grown under moderate water stress rather than severe water stress by improving WUE and altering the activity levels of antioxidant enzymes and chlorophyll metabolism-related genes.
Collapse
|
30
|
Safavi‐Rizi V, Uellendahl K, Öhrlein B, Safavi‐Rizi H, Stöhr C. Cross-stress tolerance: Mild nitrogen (N) deficiency effects on drought stress response of tomato ( Solanum lycopersicum L.). PLANT-ENVIRONMENT INTERACTIONS (HOBOKEN, N.J.) 2021; 2:217-228. [PMID: 37284511 PMCID: PMC10168089 DOI: 10.1002/pei3.10060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/01/2021] [Revised: 08/24/2021] [Accepted: 08/31/2021] [Indexed: 06/08/2023]
Abstract
Climate change will lead to more frequent and severe drought periods which massively reduce crop production worldwide. Besides drought, nitrogen (N)-deficiency is another critical threat to crop yield production. Drought and N-deficiency both decrease photosynthesis and induce similar adaptive strategies such as longer roots, reduction of biomass, induction of reactive oxygen species (ROS), and antioxidative enzymes. Due to the overlapping response to N-deficiency and drought, understanding the physiological and molecular mechanisms involved in cross-stresses tolerance is crucial for breeding strategies and achieving multiple stress resistance and eventually more sustainable agriculture. The objective of this study was to investigate the effect of a mild N-deficiency on drought stress tolerance of tomato plants (Solanum lycopersicum L., cv. Moneymaker). Various morphological and physiological parameters such as dry biomass, root length, water potential, SPAD values, stomatal conductance, and compatible solutes accumulation (proline and sugar) were analyzed. Moreover, the expression of ROS scavenging marker genes, cytosolic ASCORBATE PEROXIDASES (cAPX1, cAPX2, and cAPX3), were investigated. Our results showed that a former mild N-deficiency (2 mM NO3 -) enhances plant adaptive response to drought stress (4 days) when compared to the plants treated with adequate N (5 mM NO3 -). The improved adaptive response was reflected in higher aboveground biomass, longer root, increased specific leaf weight, enhanced stomatal conductance (without reducing water content), and higher leaf sugar content. Moreover, the APX1 gene showed a higher expression level compared to control under N-deficiency and in combination with drought in the leaf, after a one-week recovery period. Our finding highlights a potentially positive link between a former mild N-deficiency and subsequent drought stress response in tomato. Combining the morphological and physiological response with underlying gene regulatory networks under consecutive stress, provide a powerful tool for improving multiple stress resistance in tomato which can be further transferred to other economically important crops.
Collapse
Affiliation(s)
- Vajiheh Safavi‐Rizi
- Department of Plant physiologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| | - Kora Uellendahl
- Department of Plant physiologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| | - Britta Öhrlein
- Department of Plant physiologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| | - Hamid Safavi‐Rizi
- Department of Information Technology EngineeringInstitute of Information Technology and Computer EngineeringUniversity of Payame noorIsfahanIran
| | - Christine Stöhr
- Department of Plant physiologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| |
Collapse
|
31
|
Kou E, Li W, Zhang H, Yang X, Kang Y, Zheng M, Qu S, Lei B. Nitrogen and Sulfur Co-doped Carbon Dots Enhance Drought Resistance in Tomato and Mung Beans. ACS APPLIED BIO MATERIALS 2021; 4:6093-6102. [PMID: 35006883 DOI: 10.1021/acsabm.1c00427] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Drought stress is widespread worldwide, which severely restricts world food production. The antioxidant property of carbon dots (CDs) is promising for inflammation and disease treatment. However, little is known about the functions of CDs in the abiotic stress of plants, especially in drought-resistant fields. In this study, CDs were synthesized using cysteine and glucose by the hydrothermal method. The in vitro antioxidant capacity of CDs and the reactive oxygen species (ROS) scavenging capacity were evaluated. We speculate on the antioxidant mechanism of CDs by comparing size distribution, fluorescence spectra, elements, and surface functional groups of CDs before and after oxidation. Besides, we evaluated the effects of CDs on seed germination and seedling physiology under drought stress. Also, the responses of antioxidant CDs to long-term drought stress and subsequent recovery metabolism in tomato plants were evaluated. The results show that CDs accelerated the germination rate and the germination drought resistance index by promoting the water absorption of seeds. CDs enhanced the drought resistance of seedlings by improving the activity of peroxidase (POD) and superoxide dismutase (SOD). Moreover, CDs can activate the antioxidant metabolism activity and upregulate the expression of aquaporin (AQP) genes SlPIP2;7, SlPIP2;12, and SlPIP1;7. All of these results render tomato plants distinguished resilience once rewatering after drought stress. These results facilitate us to design and fabricate CDs to meet the challenge of abiotic stress in food production.
Collapse
Affiliation(s)
- Erfeng Kou
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou 510642, P. R. China.,College of Horticulture, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Wei Li
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Haoran Zhang
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Xian Yang
- College of Horticulture, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Yunyan Kang
- College of Horticulture, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Mingtao Zheng
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou 510642, P. R. China.,Maoming Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Maoming 525100, Guangdong, P. R. China
| | - Songnan Qu
- Institute of Applied Physics and Materials Engineering, University of Macau, Taipa 999078, Macau, P. R. China
| | - Bingfu Lei
- Key Laboratory for Biobased Materials and Energy of Ministry of Education, College of Materials and Energy, South China Agricultural University, Guangzhou 510642, P. R. China.,College of Horticulture, South China Agricultural University, Guangzhou 510642, P. R. China.,Maoming Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Maoming 525100, Guangdong, P. R. China
| |
Collapse
|
32
|
Mishra LS, Mishra S, Caddell DF, Coleman-Derr D, Funk C. The Plastid-Localized AtFtsHi3 Pseudo-Protease of Arabidopsis thaliana Has an Impact on Plant Growth and Drought Tolerance. FRONTIERS IN PLANT SCIENCE 2021; 12:694727. [PMID: 34249066 PMCID: PMC8261292 DOI: 10.3389/fpls.2021.694727] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 05/28/2021] [Indexed: 05/22/2023]
Abstract
While drought severely affects plant growth and crop production, the molecular mechanisms of the drought response of plants remain unclear. In this study, we demonstrated for the first time the effect of the pseudo-protease AtFtsHi3 of Arabidopsis thaliana on overall plant growth and in drought tolerance. An AtFTSHi3 knock-down mutant [ftshi3-1(kd)] displayed a pale-green phenotype with lower photosynthetic efficiency and Darwinian fitness compared to wild type (Wt). An observed delay in seed germination of ftshi3-1(kd) was attributed to overaccumulation of abscisic acid (ABA); ftshi3-1(kd) seedlings showed partial sensitivity to exogenous ABA. Being exposed to similar severity of soil drying, ftshi3-1(kd) was drought-tolerant up to 20 days after the last irrigation, while wild type plants wilted after 12 days. Leaves of ftshi3-1(kd) contained reduced stomata size, density, and a smaller stomatic aperture. During drought stress, ftshi3-1(kd) showed lowered stomatal conductance, increased intrinsic water-use efficiency (WUEi), and slower stress acclimation. Expression levels of ABA-responsive genes were higher in leaves of ftshi3-1(kd) than Wt; DREB1A, but not DREB2A, was significantly upregulated during drought. However, although ftshi3-1(kd) displayed a drought-tolerant phenotype in aboveground tissue, the root-associated bacterial community responded to drought.
Collapse
Affiliation(s)
| | - Sanatkumar Mishra
- Umeå Plant Science Center, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Daniel F. Caddell
- Plant Gene Expression Center, US Department of Agriculture-Agricultural Research Service, Albany, CA, United States
| | - Devin Coleman-Derr
- Plant Gene Expression Center, US Department of Agriculture-Agricultural Research Service, Albany, CA, United States
- Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, United States
| | | |
Collapse
|
33
|
Combined Proteomic and Physiological Analysis of Chloroplasts Reveals Drought and Recovery Response Mechanisms in Nicotiana benthamiana. PLANTS 2021; 10:plants10061127. [PMID: 34199332 PMCID: PMC8228571 DOI: 10.3390/plants10061127] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Revised: 05/08/2021] [Accepted: 05/11/2021] [Indexed: 11/17/2022]
Abstract
Chloroplasts play essential roles in plant metabolic processes and stress responses by functioning as environmental sensors. Understanding chloroplast responses to drought stress and subsequent recovery will help the ability to improve stress tolerance in plants. Here, a combined proteomic and physiological approach was used to investigate the response mechanisms of Nicotiana benthamiana chloroplasts to drought stress and subsequent recovery. Early in the stress response, changes in stomatal movement were accompanied by immediate changes in protein synthesis to sustain the photosynthetic process. Thereafter, increasing drought stress seriously affected photosynthetic efficiency and led to altered expression of photosynthesis- and carbon-fixation-related proteins to protect the plants against photo-oxidative damage. Additional repair mechanisms were activated at the early stage of recovery to restore physiological functions and repair drought-induced damages, even while the negative effects of drought stress were still ongoing. Prolonging the re-watering period led to the gradual recovery of photosynthesis at both physiological and protein levels, indicating that a long repair process is required to restore plant function. Our findings provide a precise view of drought and recovery response mechanisms in N. benthamiana and serve as a reference for further investigation into the physiological and molecular mechanisms underlying plant drought tolerance.
Collapse
|
34
|
Araújo GDS, Lopes LDS, Paula-Marinho SDO, Mesquita RO, Nagano CS, Vasconcelos FR, de Carvalho HH, Moura ADAAN, Marques EC, Gomes-Filho E. H 2O 2 priming induces proteomic responses to defense against salt stress in maize. PLANT MOLECULAR BIOLOGY 2021; 106:33-48. [PMID: 33594577 DOI: 10.1007/s11103-021-01127-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2020] [Accepted: 02/01/2021] [Indexed: 06/12/2023]
Abstract
KEY MESSAGE H2O2 priming reprograms essential proteins' expression to help plants survive, promoting responsive and unresponsive proteins adjustment to salt stress. ABSTACRT Priming is a powerful strategy to enhance abiotic stress tolerance in plants. Despite this, there is scarce information about the mechanisms induced by H2O2 priming for salt stress tolerance, particularly on proteome modulation. Improving maize cultivation in areas subjected to salinity is imperative for the local economy and food security. Thereby, this study aimed to investigate physiological changes linked with post-translational protein events induced by foliar H2O2 priming of Zea mays plants under salt stress. As expected, salt treatment promoted a considerable accumulation of Na+ ions, a 12-fold increase. It drastically affected growth parameters and relative water content, as well as promoted adverse alteration in the proteome profile, when compared to the absence of salt conditions. Conversely, H2O2 priming was beneficial via specific proteome reprogramming, which promoted better response to salinity by 16% reduction in Na+ content and shoots growth improvement, increasing 61% in dry mass. The identified proteins were associated with photosynthesis and redox homeostasis, critical metabolic pathways for helping plants survive in saline stress by the protection of chloroplasts organization and carbon fixation, as well as state redox. This research provides new proteomic data to improve understanding and forward identifying biotechnological strategies to promote salt stress tolerance.
Collapse
Affiliation(s)
- Gyedre Dos Santos Araújo
- Department of Biochemistry and Molecular Biology, Federal University of Ceará, Fortaleza, CE, Brazil
| | - Lineker de Sousa Lopes
- Department of Biochemistry and Molecular Biology, Federal University of Ceará, Fortaleza, CE, Brazil
| | | | | | - Celso Shiniti Nagano
- Department of Fishing Engineering, Federal University of Ceará, Fortaleza, CE, Brazil
| | - Fábio Roger Vasconcelos
- Federal Institute of Education, Science and Technology of Ceará (IFCE), Boa Viagem, CE, Brazil
| | | | | | - Elton Camelo Marques
- Department of Biochemistry and Molecular Biology, Federal University of Ceará, Fortaleza, CE, Brazil
| | - Enéas Gomes-Filho
- Department of Biochemistry and Molecular Biology, Federal University of Ceará, Fortaleza, CE, Brazil.
| |
Collapse
|
35
|
Modulation of photosynthesis and other proteins during water-stress. Mol Biol Rep 2021; 48:3681-3693. [PMID: 33856605 DOI: 10.1007/s11033-021-06329-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Accepted: 03/31/2021] [Indexed: 10/25/2022]
Abstract
Protein changes under drought or water stress conditions have been widely investigated. These investigations have given us enormous understanding of how drought is manifested in plants and how plants respond and adopt to such conditions. Chlorophyll fluoroescence, gas exchange, OMICS, biochemical and molecular analyses have shed light on regulation of physiology and photosynthesis of plants under drought. Use of proteomics has greatly increased the repertoire of drought-associated proteins which nevertheless, need to be investigated for their mechanistic and functional roles. Roles of such proteins have been succinctly discussed in various review articles, however more information on their functional role in countering drought is needed. In this review, recent developments in the field, alterations in the abundance of plant proteins in response to drought, monitored through numerous proteomic and immuno-blot analyses, and how these could affect plants growth and development, are discussed.
Collapse
|
36
|
Comparison of tolerance related proteomic profiles of two drought tolerant tomato mutants improved by gamma radiation. J Biotechnol 2021; 330:35-44. [PMID: 33652074 DOI: 10.1016/j.jbiotec.2021.02.012] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Revised: 01/30/2021] [Accepted: 02/23/2021] [Indexed: 11/23/2022]
Abstract
Lycopersicon esculentum L., also known as tomato, is an important industrial plant due to its products which worth billions of dollars annually, besides its nutritional value and health benefits. In this study, we investigated the two-dimensional protein expression profiles in drought tolerant mutant plants derived from industrial 5MX12956 tomato variety by Cs-137 gamma radiation source induced mutations. Drought tolerance of mutants were evaluated and confirmed by in vivo and in vitro methods. Eleven drought responsive protein spots were identified by two-dimensional electrophoresis and MALDI-TOF-MS. Identified proteins which presented differential expression under drought conditions were clustered under six distinct groups based on their cellular functions. These clusters are ATP and carbohydrate metabolism, mRNA processing and protein phosphorylation, oxidation reduction and stress response, signaling and supporting cytoskeleton. Our results contributed proteomic data to drought tolerance of our tomato mutants which were originated from drought susceptible 5MX12956 variety. They may also facilitate basis for future investigations into the genetic and physiological aspects of this tolerance.
Collapse
|
37
|
Çulha Erdal Ş, Eyidoğan F, Ekmekçi Y. Comparative physiological and proteomic analysis of cultivated and wild safflower response to drought stress and re-watering. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:281-295. [PMID: 33707869 PMCID: PMC7907392 DOI: 10.1007/s12298-021-00934-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Revised: 12/01/2020] [Accepted: 01/13/2021] [Indexed: 06/12/2023]
Abstract
UNLABELLED Drought is one of the major environmental stress that adversely affect the growth and development of oil seed plant, safflower. There is a limited knowledge on proteomic responses to support physiological, biochemical changes in how safflowers can regulate growth and metabolism under drought conditions and followed by re-watering. The changes in morphological, physiological, biochemical and proteomics of safflower genotypes (Carthamus tinctorius L.; Remzibey-05 and Linas, tolerant and sensitive cultivars, respectively, and C. oxyacantha M. Bieb., wild type) after exposure to drought and followed by re-watering have been examined. Drought negatively affected the shoot weight, water content, chlorophyll fluorescence, and biochemical parameters, including photosynthetic pigment, proline, MDA, and H2O2 contents and antioxidant enzyme activities in all genotypes, while the re-watering period allowed Remzibey-05 to recover, and it even provided the wild type completely recovered (approximately 100%). A total of 72 protein spots were observed as differently accumulated under treatments. The identified proteins were mainly involved in photosynthesis and carbohydrate, protein, defense, and energy metabolisms. Protein accumulation related to these metabolisms in Remzibey-05 were decreased under drought, while increased following re-watering. However, sensitive cultivar, Linas, could not exhibit an effective performance under drought and recovery when compared with other safflower genotypes. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at (10.1007/s12298-021-00934-2).
Collapse
Affiliation(s)
- Şeküre Çulha Erdal
- Faculty of Science, Department of Biology, Hacettepe University, 06800 Ankara, Turkey
| | - Füsun Eyidoğan
- Faculty of Education, Department of Elementary Education, Başkent University, 06810 Ankara, Turkey
| | - Yasemin Ekmekçi
- Faculty of Science, Department of Biology, Hacettepe University, 06800 Ankara, Turkey
| |
Collapse
|
38
|
Omics and CRISPR-Cas9 Approaches for Molecular Insight, Functional Gene Analysis, and Stress Tolerance Development in Crops. Int J Mol Sci 2021; 22:ijms22031292. [PMID: 33525517 PMCID: PMC7866018 DOI: 10.3390/ijms22031292] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Revised: 01/19/2021] [Accepted: 01/26/2021] [Indexed: 12/28/2022] Open
Abstract
Plants are regularly exposed to biotic and abiotic stresses that adversely affect agricultural production. Omics has gained momentum in the last two decades, fueled by statistical methodologies, computational capabilities, mass spectrometry, nucleic-acid sequencing, and peptide-sequencing platforms. Functional genomics—especially metabolomics, transcriptomics, and proteomics—have contributed substantially to plant molecular responses to stress. Recent progress in reverse and forward genetics approaches have mediated high-throughput techniques for identifying stress-related genes. Furthermore, web-based genetic databases have mediated bioinformatics techniques for detecting families of stress-tolerant genes. Gene ontology (GO) databases provide information on the gene product’s functional features and help with the computational estimation of gene function. Functional omics data from multiple platforms are useful for positional cloning. Stress-tolerant plants have been engineered using stress response genes, regulatory networks, and pathways. The genome-editing tool, CRISPR-Cas9, reveals the functional features of several parts of the plant genome. Current developments in CRISPR, such as de novo meristem induction genome-engineering in dicots and temperature-tolerant LbCas12a/CRISPR, enable greater DNA insertion precision. This review discusses functional omics for molecular insight and CRISPR-Cas9-based validation of gene function in crop plants. Omics and CRISPR-Cas9 are expected to garner knowledge on molecular systems and gene function and stress-tolerant crop production.
Collapse
|
39
|
Zhu D, Luo F, Zou R, Liu J, Yan Y. Integrated physiological and chloroplast proteome analysis of wheat seedling leaves under salt and osmotic stresses. J Proteomics 2021; 234:104097. [PMID: 33401000 DOI: 10.1016/j.jprot.2020.104097] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2020] [Revised: 11/10/2020] [Accepted: 12/21/2020] [Indexed: 01/20/2023]
Abstract
In this study, we performed an integrated physiological and chloroplast proteome analysis of wheat seedling leaves under salt and osmotic stresses by label-free based quantitative proteomic approach. Both salt and osmotic stresses significantly increased the levels of abscisic acid and methyl jasmonate and led to damages of chloroplast ultrastructure. Main parameters of chlorophyll fluorescence and gas exchange showed a significant decline under both stresses. Quantitative proteomic analysis identified 194 and 169 chloroplast-localized differentially accumulated proteins (DAPs) responsive to salt and osmotic stresses, respectively. The abundance of main DAPs involved in light-dependent reaction were increased under salt stress, but decreased in response to osmotic stress. On the contrary, salt stress induced a significant upregulation of the DAPs associated with Calvin cycle, transcription and translation, amino acid metabolism, carbon and nitrogen metabolism, and some of them exhibited a downregulation under osmotic stress. In particular, both treatments significantly upregulated the DAPs involved in plastoglobule development, protein folding and proteolysis, hormone and vitamin synthesis. Finally, we proposed a putative synergistic responsive network of wheat chloroplast proteome under salt and osmotic stresses, aiming to provide new insights into the underlying response and defense mechanisms of wheat chloroplast proteome in response to abiotic stresses. SIGNIFICANCE: Salt and osmotic stresses are the two most common abiotic stresses that severely affect crop growth and productivity. As the main site of photosynthesis of plant cells, the chloroplast also plays important role in plant tolerance to abiotic stress. However, the response of chloroplast proteome to salt and osmotic is still poorly understood by using the traditional two-dimensional electrophoresis (2-DE) method due to a poor resolution of chloroplast protein separation and low throughput identification of differentially accumulated proteins (DAPs). In this study, we employed label-free based quantitative proteomic approach to perform an integrated physiological and large-scale chloroplast proteome analysis of wheat seedling leaves under salt and osmotic stresses, which laid a solid foundation for future studies into the response and defense mechanisms of wheat chloroplast in response to abiotic stresses.
Collapse
Affiliation(s)
- Dong Zhu
- College of Life Science, Capital Normal University, Beijing, 100048, China
| | - Fei Luo
- College of Life Science, Capital Normal University, Beijing, 100048, China
| | - Rong Zou
- College of Life Science, Capital Normal University, Beijing, 100048, China
| | - Junxian Liu
- College of Life Science, Capital Normal University, Beijing, 100048, China
| | - Yueming Yan
- College of Life Science, Capital Normal University, Beijing, 100048, China.
| |
Collapse
|
40
|
Effect of exogenously-applied abscisic acid, putrescine and hydrogen peroxide on drought tolerance of barley. Biologia (Bratisl) 2020. [DOI: 10.2478/s11756-020-00644-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Abstract
The objective of this study was to identify the effect of abscisic acid (ABA), putrescine (Put) and hydrogen peroxide (H2O2) foliar pre-treatment on drought tolerance of barley. Despite water limitation, ABA-sprayed plants preserved increased water content, photosynthetic efficiency of PSII (ΦPSII) and CO2 assimilation rate (Pn) compared to untreated stressed plants. The ABA-treated plants presented also the lowest rate of lipid peroxidation (MDA), lowered the rate of PSII primary acceptor reduction (1 – qP) and increased the yield of regulated energy dissipation (NPQ) with higher accumulation of PGRL1 (PROTON GRADIENT REGULATION LIKE1) protein. These plants preserved a similar level of photochemical efficiency and the rate of electron transport of PSII (ETRII) to the well-watered samples. The significantly less pronounced response was observed in Put-sprayed samples under drought. Additionally, the combined effects of drought and H2O2 application increased the 1 – qP and quantum yield of non-regulated energy dissipation in PSII (ΦNO) and reduced the accumulation of Rubisco activase (RCA). In conclusion, ABA foliar application allowed to balance water retention and preserve antioxidant capacity resulting in efficient photosynthesis and the restricted risk of oxidative damage under drought. Neither hydrogen peroxide nor putrescine has been able to ameliorate drought stress as effectively as ABA.
Collapse
|
41
|
Borisova-Mubarakshina MM, Vetoshkina DV, Naydov IA, Rudenko NN, Zhurikova EM, Balashov NV, Ignatova LK, Fedorchuk TP, Ivanov BN. Regulation of the size of photosystem II light harvesting antenna represents a universal mechanism of higher plant acclimation to stress conditions. FUNCTIONAL PLANT BIOLOGY : FPB 2020; 47:959-969. [PMID: 32564779 DOI: 10.1071/fp19362] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Accepted: 04/25/2020] [Indexed: 06/11/2023]
Abstract
We investigated acclimatory responses of Arabidopsis plants to drought and salinity conditions before the appearance of obvious signs of damage caused by these factors. We detected changes indicating an increase in the reduction level of the chloroplast plastoquinone pool (PQ pool) 5-7 days after introduction of the stress factors. After 10-14 days, a decrease in the size of PSII light harvesting antenna was observed in plants under conditions of drought and salinity. This was confirmed by a decrease in content of PSII antenna proteins and by downregulation of gene expression levels of these proteins under the stress conditions. No changes in values of performance index and maximum quantum yield of PSII were detected. Under drought and salinity, the content of hydrogen peroxide in leaves was higher than in control leaves. Thus, we propose that reduction of the size of PSII antenna represents one of the universal mechanisms of acclimation of higher plants to stress factors and the downsizing already begins to manifest under mild stress conditions. Both the PQ pool reduction state and the hydrogen peroxide content are important factors needed for the observed rearrangement.
Collapse
Affiliation(s)
- Maria M Borisova-Mubarakshina
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation; and Corresponding author.
| | - Daria V Vetoshkina
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Ilya A Naydov
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Natalia N Rudenko
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Elena M Zhurikova
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Nikolai V Balashov
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation; and Lomonosov Moscow State University, GSP-1, Leninskie Gory, Moscow, 119991, Russian Federation
| | - Lyudmila K Ignatova
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Tatyana P Fedorchuk
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| | - Boris N Ivanov
- Institute of Basic Biological Problems RAS, Institutskaya st. 2, Pushchino, 142290, Moscow region, Russian Federation
| |
Collapse
|
42
|
Bhattacharya O, Ortiz I, Walling LL. Methodology: an optimized, high-yield tomato leaf chloroplast isolation and stroma extraction protocol for proteomics analyses and identification of chloroplast co-localizing proteins. PLANT METHODS 2020; 16:131. [PMID: 32983250 PMCID: PMC7513546 DOI: 10.1186/s13007-020-00667-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Accepted: 09/04/2020] [Indexed: 06/09/2023]
Abstract
BACKGROUND Chloroplasts are critical organelles that perceive and convey metabolic and stress signals to different cellular components, while remaining the seat of photosynthesis and a metabolic factory. The proteomes of intact leaves, chloroplasts, and suborganellar fractions of plastids have been evaluated in the model plant Arabidopsis, however fewer studies have characterized the proteomes of plastids in crops. Tomato (Solanum lycopersicum) is an important world-wide crop and a model system for the study of wounding, herbivory and fruit ripening. While significant advances have been made in understanding proteome and metabolome changes in fruit ripening, far less is known about the tomato chloroplast proteome or its subcompartments. RESULTS With the long-term goal of understanding chloroplast proteome dynamics in response to stress, we describe a high-yielding method to isolate intact tomato chloroplasts and stromal proteins for proteomic studies. The parameters that limit tomato chloroplast yields were identified and revised to increase yields. Compared to published data, our optimized method increased chloroplast yields by 6.7- and 4.3-fold relative to published spinach and Arabidopsis leaf protocols, respectively; furthermore, tomato stromal protein yields were up to 79-fold higher than Arabidopsis stromal proteins yields. We provide immunoblot evidence for the purity of the stromal proteome isolated using our enhanced methods. In addition, we leverage our nanoliquid chromatography tandem mass spectrometry (nanoLC-MS/MS) data to assess the quality of our stromal proteome. Using strict criteria, proteins detected by 1 peptide spectral match, by one peptide, or were sporadically detected were designated as low-level contaminating proteins. A set of 254 proteins that reproducibly co-isolated with the tomato chloroplast stroma were identified. The subcellular localization, frequency of detection, normalized spectral abundance, and functions of the co-isolating proteins are discussed. CONCLUSIONS Our optimized method for chloroplast isolation increased the yields of tomato chloroplasts eightfold enabling the proteomics analysis of the chloroplast stromal proteome. The set of 254 proteins that co-isolate with the chloroplast stroma provides opportunities for developing a better understanding of the extensive and dynamic interactions of chloroplasts with other organelles. These co-isolating proteins also have the potential for expanding our knowledge of proteins that are co-localized in multiple subcellular organelles.
Collapse
Affiliation(s)
- Oindrila Bhattacharya
- Department of Botany and Plant Sciences, Center for Plant Cell Biology, University of California, Riverside, CA 92521 USA
| | - Irma Ortiz
- Department of Botany and Plant Sciences, Center for Plant Cell Biology, University of California, Riverside, CA 92521 USA
| | - Linda L. Walling
- Department of Botany and Plant Sciences, Center for Plant Cell Biology, University of California, Riverside, CA 92521 USA
| |
Collapse
|
43
|
Marzec M, Daszkowska-Golec A, Collin A, Melzer M, Eggert K, Szarejko I. Barley strigolactone signalling mutant hvd14.d reveals the role of strigolactones in abscisic acid-dependent response to drought. PLANT, CELL & ENVIRONMENT 2020; 43:2239-2253. [PMID: 32501539 DOI: 10.1111/pce.13815] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2020] [Revised: 05/28/2020] [Accepted: 05/30/2020] [Indexed: 05/23/2023]
Abstract
Strigolactones (SLs) are a group of plant hormones involved in many aspects of plant development and stress adaptation. Here, we investigated the drought response of a barley (Hordeum vulgare L.) mutant carrying a missense mutation in the gene encoding the SL-specific receptor HvD14. Our results clearly showed that hvd14.d mutant is hyper-sensitive to drought stress. This was illustrated by a lower leaf relative water content (RWC), impaired photosynthesis, disorganization of chloroplast structure, altered stomatal density and slower closure of stomata in response to drought in the mutant compared to the wild type parent cultivar Sebastian. Although the content of abscisic acid (ABA) and its derivatives remained unchanged in the mutant, significant differences in expression of genes related to ABA biosynthesis were observed. Moreover, hvd14.d was insensitive to ABA during seed germination. Analysis of Arabidopsis thaliana mutant atd14-1 also demonstrated that mutation in the SL receptor resulted in increased sensitivity to drought. Our results indicate that the drought-sensitive phenotype of barley SL mutant might be caused by a disturbed ABA metabolism and/or signalling pathways. These results together uncovered a link between SL signalling and ABA-dependent drought stress response in barley.
Collapse
Affiliation(s)
- Marek Marzec
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia, Katowice, Poland
| | - Agata Daszkowska-Golec
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia, Katowice, Poland
| | - Anna Collin
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia, Katowice, Poland
| | - Michael Melzer
- Department of Physiology and Cell Biology, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - Kai Eggert
- Department of Physiology and Cell Biology, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - Iwona Szarejko
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia, Katowice, Poland
| |
Collapse
|
44
|
Wang Y, Li X, Liu N, Wei S, Wang J, Qin F, Suo B. The iTRAQ-based chloroplast proteomic analysis of Triticum aestivum L. leaves subjected to drought stress and 5-aminolevulinic acid alleviation reveals several proteins involved in the protection of photosynthesis. BMC PLANT BIOLOGY 2020; 20:96. [PMID: 32131734 PMCID: PMC7057492 DOI: 10.1186/s12870-020-2297-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/25/2018] [Accepted: 02/20/2020] [Indexed: 05/06/2023]
Abstract
BACKGROUNDS The perturbance of chloroplast proteins is a major cause of photosynthesis inhibition under drought stress. The exogenous application of 5-aminolevulinic acid (ALA) mitigates the damage caused by drought stress, protecting plant growth and development, but the regulatory mechanism behind this process remains obscure. RESULTS Wheat seedlings were drought treated, and the iTRAQ-based proteomic approach was employed to assess the difference in chloroplast protein content caused by exogenous ALA. A total of 9499 peptides, which could be classified into 2442 protein groups, were identified with ≤0.01 FDR. Moreover, the contents of 87 chloroplast proteins was changed by drought stress alone compared to that of the drought-free control, while the contents of 469 was changed by exogenous ALA application under drought stress compared to that of drought stress alone. The Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis results suggested that the ALA pretreatment adjusted some biological pathways, such as metabolic pathways and pathways involved in photosynthesis and ribosomes, to enhance the drought resistance of chloroplasts. Furthermore, the drought-promoted H2O2 accumulation and O2- production in chloroplasts were alleviated by the exogenous pretreatment of ALA, while peroxidase (POD) and glutathione peroxidase (GPX) activities were upregulated, which agreed with the chloroplast proteomic data. We suggested that ALA promoted reactive oxygen species (ROS) scavenging in chloroplasts by regulating enzymatic processes. CONCLUSIONS Our results from chloroplast proteomics extend the understanding of the mechanisms employed by exogenous ALA to defend against drought stress in wheat.
Collapse
Affiliation(s)
- Yuexia Wang
- College of Life Sciences, Henan Agricultural University, No. 63, Nongye Rd., Zhengzhou, 450002 Henan Province China
| | - Xiaoyan Li
- College of Life Sciences, Henan Agricultural University, No. 63, Nongye Rd., Zhengzhou, 450002 Henan Province China
| | - Nana Liu
- College of Science, China Agricultural University, Beijing, 100193 China
| | - Shimei Wei
- College of Life Sciences, Henan Agricultural University, No. 63, Nongye Rd., Zhengzhou, 450002 Henan Province China
| | - Jianan Wang
- College of Life Sciences, Henan Agricultural University, No. 63, Nongye Rd., Zhengzhou, 450002 Henan Province China
| | - Fujun Qin
- Department of Pathology, University of Virginia, Charlottesville, VA 22908 USA
| | - Biao Suo
- College of Food Science and Technology, Henan Agricultural University, No. 63, Nongye Rd., Zhengzhou, 450002 Henan Province China
| |
Collapse
|
45
|
Conesa MÀ, Fullana-Pericàs M, Granell A, Galmés J. Mediterranean Long Shelf-Life Landraces: An Untapped Genetic Resource for Tomato Improvement. FRONTIERS IN PLANT SCIENCE 2020; 10:1651. [PMID: 31998340 PMCID: PMC6965163 DOI: 10.3389/fpls.2019.01651] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2019] [Accepted: 11/22/2019] [Indexed: 05/31/2023]
Abstract
The Mediterranean long shelf-life (LSL) tomatoes are a group of landraces with a fruit remaining sound up to 6-12 months after harvest. Most have been selected under semi-arid Mediterranean summer conditions with poor irrigation or rain-fed and thus, are drought tolerant. Besides the convergence in the latter traits, local selection criteria have been very variable, leading to a wide variation in fruit morphology and quality traits. The different soil characteristics and agricultural management techniques across the Mediterranean denote also a wide range of plant adaptive traits to different conditions. Despite the notorious traits for fruit quality and environment adaptation, the LSL landraces have been poorly exploited in tomato breeding programs, which rely basically on wild tomato species. In this review, we describe most of the information currently available for Mediterranean LSL landraces in order to highlight the importance of this genetic resource. We focus on the origin and diversity, the main selective traits, and the determinants of the extended fruit shelf-life and the drought tolerance. Altogether, the Mediterranean LSL landraces are a very valuable heritage to be revalued, since constitutes an alternative source to improve fruit quality and shelf-life in tomato, and to breed for more resilient cultivars under the predicted climate change conditions.
Collapse
Affiliation(s)
- Miquel À. Conesa
- Department Biologia-INAGEA, Universitat de les Illes Balears, Balearic Islands, Spain
| | - Mateu Fullana-Pericàs
- Department Biologia-INAGEA, Universitat de les Illes Balears, Balearic Islands, Spain
| | - Antonio Granell
- Instituto de Biología Molecular y Celular de Plantas, CSIC-UPV, Valencia, Spain
| | - Jeroni Galmés
- Department Biologia-INAGEA, Universitat de les Illes Balears, Balearic Islands, Spain
| |
Collapse
|
46
|
Lande NV, Barua P, Gayen D, Kumar S, Varshney S, Sengupta S, Chakraborty S, Chakraborty N. Dehydration-induced alterations in chloroplast proteome and reprogramming of cellular metabolism in developing chickpea delineate interrelated adaptive responses. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 146:337-348. [PMID: 31785520 DOI: 10.1016/j.plaphy.2019.11.034] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2019] [Revised: 11/20/2019] [Accepted: 11/21/2019] [Indexed: 06/10/2023]
Abstract
Chloroplast, the energy organelle unique to photosynthetic eukaryotes, executes several crucial functions including photosynthesis. While chloroplast development and function are controlled by the nucleus, environmental stress modulated alterations perceived by the chloroplasts are communicated to the nucleus via retrograde signaling. Notably, coordination of chloroplast and nuclear gene expression is synchronized by anterograde and retrograde signaling. The chloroplast proteome holds significance for stress responses and adaptation. We unraveled dehydration-induced alterations in the chloroplast proteome of a grain legume, chickpea and identified an array of dehydration-responsive proteins (DRPs) primarily involved in photosynthesis, carbohydrate metabolism and stress response. Notably, 12 DRPs were encoded by chloroplast genome, while the rest were nuclear-encoded. We observed a coordinated expression of different multi-subunit protein complexes viz., RuBisCo, photosystem II and cytochrome b6f, encoded by both chloroplast and nuclear genome. Comparison with previously reported stress-responsive chloroplast proteomes showed unique and overlapping components. Transcript abundance of several previously reported markers of retrograde signaling revealed relay of dehydration-elicited signaling events between chloroplasts and nucleus. Additionally, dehydration-triggered metabolic adjustments demonstrated alterations in carbohydrate and amino acid metabolism. This study offers a panoramic catalogue of dehydration-responsive signatures of chloroplast proteome and associated retrograde signaling events, and cellular metabolic reprograming.
Collapse
Affiliation(s)
- Nilesh Vikam Lande
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Pragya Barua
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Dipak Gayen
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Sunil Kumar
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Swati Varshney
- CSIR-Institute of Genomics and Integrative Biology, South Campus, Mathura Road, New Delhi, 110 020, India
| | - Shantanu Sengupta
- CSIR-Institute of Genomics and Integrative Biology, South Campus, Mathura Road, New Delhi, 110 020, India
| | - Subhra Chakraborty
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Niranjan Chakraborty
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India.
| |
Collapse
|
47
|
Thairu MW, Hansen AK. It's a small, small world: unravelling the role and evolution of small RNAs in organelle and endosymbiont genomes. FEMS Microbiol Lett 2019; 366:5371121. [PMID: 30844054 DOI: 10.1093/femsle/fnz049] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2018] [Accepted: 03/05/2019] [Indexed: 12/19/2022] Open
Abstract
Organelles and host-restricted bacterial symbionts are characterized by having highly reduced genomes that lack many key regulatory genes and elements. Thus, it has been hypothesized that the eukaryotic nuclear genome is primarily responsible for regulating these symbioses. However, with the discovery of organelle- and symbiont-expressed small RNAs (sRNAs) there is emerging evidence that these sRNAs may play a role in gene regulation as well. Here, we compare the diversity of organelle and bacterial symbiont sRNAs recently identified using genome-enabled '-omic' technologies and discuss their potential role in gene regulation. We also discuss how the genome architecture of small genomes may influence the evolution of these sRNAs and their potential function. Additionally, these new studies suggest that some sRNAs are conserved within organelle and symbiont taxa and respond to changes in the environment and/or their hosts. In summary, these results suggest that organelle and symbiont sRNAs may play a role in gene regulation in addition to nuclear-encoded host mechanisms.
Collapse
Affiliation(s)
- Margaret W Thairu
- Department of Entomology, University of California, Riverside, Riverside, CA, USA
| | - Allison K Hansen
- Department of Entomology, University of California, Riverside, Riverside, CA, USA
| |
Collapse
|
48
|
Chaudhary J, Khatri P, Singla P, Kumawat S, Kumari A, R V, Vikram A, Jindal SK, Kardile H, Kumar R, Sonah H, Deshmukh R. Advances in Omics Approaches for Abiotic Stress Tolerance in Tomato. BIOLOGY 2019; 8:biology8040090. [PMID: 31775241 PMCID: PMC6956103 DOI: 10.3390/biology8040090] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/30/2019] [Revised: 11/11/2019] [Accepted: 11/19/2019] [Indexed: 12/21/2022]
Abstract
Tomato, one of the most important crops worldwide, has a high demand in the fresh fruit market and processed food industries. Despite having considerably high productivity, continuous supply as per the market demand is hard to achieve, mostly because of periodic losses occurring due to biotic as well as abiotic stresses. Although tomato is a temperate crop, it is grown in almost all the climatic zones because of widespread demand, which makes it challenge to adapt in diverse conditions. Development of tomato cultivars with enhanced abiotic stress tolerance is one of the most sustainable approaches for its successful production. In this regard, efforts are being made to understand the stress tolerance mechanism, gene discovery, and interaction of genetic and environmental factors. Several omics approaches, tools, and resources have already been developed for tomato growing. Modern sequencing technologies have greatly accelerated genomics and transcriptomics studies in tomato. These advancements facilitate Quantitative trait loci (QTL) mapping, genome-wide association studies (GWAS), and genomic selection (GS). However, limited efforts have been made in other omics branches like proteomics, metabolomics, and ionomics. Extensive cataloging of omics resources made here has highlighted the need for integration of omics approaches for efficient utilization of resources and a better understanding of the molecular mechanism. The information provided here will be helpful to understand the plant responses and the genetic regulatory networks involved in abiotic stress tolerance and efficient utilization of omics resources for tomato crop improvement.
Collapse
Affiliation(s)
- Juhi Chaudhary
- Department of Biology, Oberlin College, Oberlin, OH 44074, USA;
| | - Praveen Khatri
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Pankaj Singla
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Surbhi Kumawat
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Anu Kumari
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Vinaykumar R
- Department of Vegetable Science, Dr. Yashwant Singh Parmar University of Horticulture and Forestry, Solan, Himachal Pradesh 173230, India; (V.R.); (A.V.)
| | - Amit Vikram
- Department of Vegetable Science, Dr. Yashwant Singh Parmar University of Horticulture and Forestry, Solan, Himachal Pradesh 173230, India; (V.R.); (A.V.)
| | - Salesh Kumar Jindal
- Department of Vegetable Science, Punjab Agricultural University, Ludhiana, Punjab 141004, India;
| | - Hemant Kardile
- Division of Crop Improvement, ICAR-Central Potato Research Institute (CPRI), Shimla, Himachal Pradesh 171001, India;
| | - Rahul Kumar
- Department of Plant Science, University of Hyderabad, Hyderabad 500046, India;
| | - Humira Sonah
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
- Correspondence: (H.S.); (R.D.)
| | - Rupesh Deshmukh
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
- Correspondence: (H.S.); (R.D.)
| |
Collapse
|
49
|
Liu Y, Lu S, Liu K, Wang S, Huang L, Guo L. Proteomics: a powerful tool to study plant responses to biotic stress. PLANT METHODS 2019; 15:135. [PMID: 31832077 PMCID: PMC6859632 DOI: 10.1186/s13007-019-0515-8] [Citation(s) in RCA: 55] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Accepted: 10/29/2019] [Indexed: 05/08/2023]
Abstract
In recent years, mass spectrometry-based proteomics has provided scientists with the tremendous capability to study plants more precisely than previously possible. Currently, proteomics has been transformed from an isolated field into a comprehensive tool for biological research that can be used to explain biological functions. Several studies have successfully used the power of proteomics as a discovery tool to uncover plant resistance mechanisms. There is growing evidence that indicates that the spatial proteome and post-translational modifications (PTMs) of proteins directly participate in the plant immune response. Therefore, understanding the subcellular localization and PTMs of proteins is crucial for a comprehensive understanding of plant responses to biotic stress. In this review, we discuss current approaches to plant proteomics that use mass spectrometry, with particular emphasis on the application of spatial proteomics and PTMs. The purpose of this paper is to investigate the current status of the field, discuss recent research challenges, and encourage the application of proteomics techniques to further research.
Collapse
Affiliation(s)
- Yahui Liu
- National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
- National Institute of Metrology, Beijing, China
| | - Song Lu
- School of Life Science, Beijing Institute of Technology, Beijing, China
| | - Kefu Liu
- School of Life Science, Beijing Institute of Technology, Beijing, China
| | - Sheng Wang
- National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| | - Luqi Huang
- National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| | - Lanping Guo
- National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| |
Collapse
|
50
|
Lande NV, Barua P, Gayen D, Kumar S, Chakraborty S, Chakraborty N. Proteomic dissection of the chloroplast: Moving beyond photosynthesis. J Proteomics 2019; 212:103542. [PMID: 31704367 DOI: 10.1016/j.jprot.2019.103542] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2019] [Revised: 09/15/2019] [Accepted: 10/03/2019] [Indexed: 01/28/2023]
Abstract
Chloroplast, the photosynthetic machinery, converts photoenergy to ATP and NADPH, which powers the production of carbohydrates from atmospheric CO2 and H2O. It also serves as a major production site of multivariate pro-defense molecules, and coordinate with other organelles for cell defense. Chloroplast harbors 30-50% of total cellular proteins, out of which 80% are membrane residents and are difficult to solubilize. While proteome profiling has illuminated vast areas of biological protein space, a great deal of effort must be invested to understand the proteomic landscape of the chloroplast, which plays central role in photosynthesis, energy metabolism and stress-adaptation. Therefore, characterization of chloroplast proteome would not only provide the foundation for future investigation of expression and function of chloroplast proteins, but would open up new avenues for modulation of plant productivity through synchronizing chloroplastic key components. In this review, we summarize the progress that has been made to build new understanding of the chloroplast proteome and implications of chloroplast dynamicsing generate metabolic energy and modulating stress adaptation.
Collapse
Affiliation(s)
- Nilesh Vikram Lande
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Pragya Barua
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Dipak Gayen
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Sunil Kumar
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Subhra Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Niranjan Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India.
| |
Collapse
|