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Rehman AU, Iso-Touru T, Junkers J, Rantanen M, Karhu S, Fischer D, Alsheikh M, Hjeltnes SH, Mezzetti B, Davik J, Schulman AH, Hytönen T, Haikonen T. Multi-model GWAS reveals key loci for horticultural traits in reconstructed garden strawberry. PHYSIOLOGIA PLANTARUM 2024; 176:e14440. [PMID: 39030778 DOI: 10.1111/ppl.14440] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Revised: 06/08/2024] [Accepted: 06/10/2024] [Indexed: 07/22/2024]
Abstract
The cultivated garden strawberry (Fragaria × ananassa) has a rich history, originating from the hybridization of two wild octoploid strawberry species in the 18th century. Two-step reconstruction of Fragaria × ananassa through controlled crossings between pre-improved selections of its parental species is a promising approach for enriching the breeding germplasm of strawberry for wider adaptability. We created a population of reconstructed strawberry by hybridizing elite selections of F. virginiana and F. chiloensis. A replicated field experiment was conducted to evaluate the population's performance for eleven horticulturally important traits, over multiple years. Population structure analyses based on Fana-50 k SNP array data confirmed pedigree-based grouping of the progenies into four distinct groups. As complex traits are often influenced by environmental variables, and population structure can lead to spurious associations, we tested multiple genome-wide association study (GWAS) models. GWAS uncovered 39 quantitative trait loci (QTL) regions for eight traits distributed across twenty chromosomes, including 11 consistent and 28 putative QTLs. Candidate genes for traits including winter survival, flowering time, runnering vigor, and hermaphrodism were identified within the QTL regions. To our knowledge, this study marks the first comprehensive investigation of adaptive and horticultural traits in a large, multi-familial reconstructed strawberry population using SNP markers.
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Affiliation(s)
- Attiq Ur Rehman
- Natural Resources Institute Finland (Luke), Finland
- Doctoral Program in Plant Sciences, University of Helsinki, Finland
| | | | - Jakob Junkers
- Norwegian Institute of Bioeconomy Research, Ås, Norway
| | | | - Saila Karhu
- Natural Resources Institute Finland (Luke), Finland
| | | | - Muath Alsheikh
- Graminor AS, Norway
- Faculty of Life Sciences, Department of Plant Sciences, Norwegian University of Life Sciences, Ås, Norway
| | | | - Bruno Mezzetti
- Department of Agriculture, Food and Environmental Sciences, Università Politecnica delle Marche, Ancona, Italy
| | - Jahn Davik
- Norwegian Institute of Bioeconomy Research, Ås, Norway
| | - Alan H Schulman
- Natural Resources Institute Finland (Luke), Finland
- Viikki Plant Science Centre, Finland
- Institute of Biotechnology, University of Helsinki, Finland
| | - Timo Hytönen
- Viikki Plant Science Centre, Finland
- Department of Agricultural Sciences, University of Helsinki, Finland
| | - Tuuli Haikonen
- Natural Resources Institute Finland (Luke), Finland
- Viikki Plant Science Centre, Finland
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Jan S, Rustgi S, Barmukh R, Shikari AB, Leske B, Bekuma A, Sharma D, Ma W, Kumar U, Kumar U, Bohra A, Varshney RK, Mir RR. Advances and opportunities in unraveling cold-tolerance mechanisms in the world's primary staple food crops. THE PLANT GENOME 2024; 17:e20402. [PMID: 37957947 DOI: 10.1002/tpg2.20402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Revised: 10/03/2023] [Accepted: 10/04/2023] [Indexed: 11/15/2023]
Abstract
Temperatures below or above optimal growth conditions are among the major stressors affecting productivity, end-use quality, and distribution of key staple crops including rice (Oryza sativa), wheat (Triticum aestivum), and maize (Zea mays L.). Among temperature stresses, cold stress induces cellular changes that cause oxidative stress and slowdown metabolism, limit growth, and ultimately reduce crop productivity. Perception of cold stress by plant cells leads to the activation of cold-responsive transcription factors and downstream genes, which ultimately impart cold tolerance. The response triggered in crops to cold stress includes gene expression/suppression, the accumulation of sugars upon chilling, and signaling molecules, among others. Much of the information on the effects of cold stress on perception, signal transduction, gene expression, and plant metabolism are available in the model plant Arabidopsis but somewhat lacking in major crops. Hence, a complete understanding of the molecular mechanisms by which staple crops respond to cold stress remain largely unknown. Here, we make an effort to elaborate on the molecular mechanisms employed in response to low-temperature stress. We summarize the effects of cold stress on the growth and development of these crops, the mechanism of cold perception, and the role of various sensors and transducers in cold signaling. We discuss the progress in cold tolerance research at the genome, transcriptome, proteome, and metabolome levels and highlight how these findings provide opportunities for designing cold-tolerant crops for the future.
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Affiliation(s)
- Sofora Jan
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore Kashmir, India
| | - Sachin Rustgi
- Department of Plant and Environmental Sciences, Clemson University, Florence, South Carolina, USA
| | - Rutwik Barmukh
- Center of Excellence in Genomics and Systems Biology, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India
- Centre for Crop & Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, Western Australia, Australia
| | - Asif B Shikari
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore Kashmir, India
| | - Brenton Leske
- Department of Primary Industries and Regional Development, South Perth, Western Australia, Australia
| | - Amanuel Bekuma
- Department of Primary Industries and Regional Development, South Perth, Western Australia, Australia
| | - Darshan Sharma
- Department of Primary Industries and Regional Development, South Perth, Western Australia, Australia
| | - Wujun Ma
- Centre for Crop & Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, Western Australia, Australia
- College of Agronomy, Qingdao Agriculture University, Qingdao, China
| | - Upendra Kumar
- Department of Plant Science, Mahatma Jyotiba Phule Rohilkhand University, Bareilly, Uttar Pradesh, India
| | - Uttam Kumar
- Borlaug Institute for South Asia (BISA), Ludhiana, Punjab, India
| | - Abhishek Bohra
- Centre for Crop & Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, Western Australia, Australia
| | - Rajeev K Varshney
- Centre for Crop & Food Innovation, State Agricultural Biotechnology Centre, Food Futures Institute, Murdoch University, Murdoch, Western Australia, Australia
| | - Reyazul Rouf Mir
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore Kashmir, India
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Kanbar A, Beisel J, Gutierrez MT, Graeff-Hönninger S, Nick P. Peruvian Amaranth (kiwicha) Accumulates Higher Levels of the Unsaturated Linoleic Acid. Int J Mol Sci 2023; 24:ijms24076215. [PMID: 37047191 PMCID: PMC10093863 DOI: 10.3390/ijms24076215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 03/22/2023] [Accepted: 03/24/2023] [Indexed: 03/29/2023] Open
Abstract
Grain amaranth (Amaranthus spp.) is an emerging crop rich in proteins and other valuable nutrients. It was domesticated twice, in Mexico and Peru. Although global trade is dominated by Mexican species of amaranth, Peruvian amaranth (A. caudatus, kiwicha) has remained neglected, although it harbours valuable traits. In the current study, we investigate the accumulation of polyunsaturated fatty acids, comparing four genotypes of A. caudatus with K432, a commercial variety deriving from the Mexican species A. hypochondriacus under the temperate environment of Southwest Germany. We show that the A. caudatus genotypes flowered later (only in late autumn), such that they were taller as compared to the Mexican hybrid but yielded fewer grains. The oil of kiwicha showed a significantly higher content of unsaturated fatty acids, especially of linoleic acid and α-linolenic acid compared to early flowering genotype K432. To gain insight into the molecular mechanisms behind these differences, we sequenced the genomes of the A. hypochondriacus × hybridus variety K432 and the Peruvian kiwicha genotype 8300 and identified the homologues for genes involved in the ω3 fatty-acid pathway and concurrent oxylipin metabolism, as well as of key factors for jasmonate signalling and cold acclimation. We followed the expression of these transcripts over three stages of seed development in all five genotypes. We find that transcripts for Δ6 desaturases are elevated in kiwicha, whereas in the Mexican hybrid, the concurrent lipoxygenase is more active, which is followed by the activation of jasmonate biosynthesis and signalling. The early accumulation of transcripts involved in cold-stress signalling reports that the Mexican hybrid experiences cold stress already early in autumn, whereas the kiwicha genotypes do not display indications for cold stress, except for the very final phase, when there were already freezing temperatures. We interpret the higher content of unsaturated fatty acids in the context of the different climatic conditions shaping domestication (tropical conditions in the case of Mexican amaranth, sharp cold snaps in the case of kiwicha) and suggest that kiwicha oil has high potential as functional food which can be developed further by tailoring genetic backgrounds, agricultural practice, and processing.
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Affiliation(s)
- Adnan Kanbar
- Molecular Cell Biology, Joseph Kölreuter Institute for Plant Sciences, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
| | - Julia Beisel
- Molecular Cell Biology, Joseph Kölreuter Institute for Plant Sciences, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
| | | | | | - Peter Nick
- Molecular Cell Biology, Joseph Kölreuter Institute for Plant Sciences, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
- Correspondence:
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Le Provost G, Lalanne C, Lesur I, Louvet JM, Delzon S, Kremer A, Labadie K, Aury JM, Da Silva C, Moritz T, Plomion C. Oak stands along an elevation gradient have different molecular strategies for regulating bud phenology. BMC PLANT BIOLOGY 2023; 23:108. [PMID: 36814198 PMCID: PMC9948485 DOI: 10.1186/s12870-023-04069-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/29/2022] [Accepted: 01/16/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Global warming raises serious concerns about the persistence of species and populations locally adapted to their environment, simply because of the shift it produces in their adaptive landscape. For instance, the phenological cycle of tree species may be strongly affected by higher winter temperatures and late frost in spring. Given the variety of ecosystem services they provide, the question of forest tree adaptation has received increasing attention in the scientific community and catalyzed research efforts in ecology, evolutionary biology and functional genomics to study their adaptive capacity to respond to such perturbations. RESULTS In the present study, we used an elevation gradient in the Pyrenees Mountains to explore the gene expression network underlying dormancy regulation in natural populations of sessile oak stands sampled along an elevation cline and potentially adapted to different climatic conditions mainly driven by temperature. By performing analyses of gene expression in terminal buds we identified genes displaying significant dormancy, elevation or dormancy-by-elevation interaction effects. Our Results highlighted that low- and high-altitude populations have evolved different molecular strategies for minimizing late frost damage and maximizing the growth period, thereby increasing potentially their respective fitness in these contrasting environmental conditions. More particularly, population from high elevation overexpressed genes involved in the inhibition of cell elongation and delaying flowering time while genes involved in cell division and flowering, enabling buds to flush earlier were identified in population from low elevation. CONCLUSION Our study made it possible to identify key dormancy-by-elevation responsive genes revealing that the stands analyzed in this study have evolved distinct molecular strategies to adapt their bud phenology in response to temperature.
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Affiliation(s)
| | | | - Isabelle Lesur
- INRAE, Univ. Bordeaux, BIOGECO, F-33610, Cestas, France
- Helix Venture, F-33700, Mérignac, France
| | | | | | | | - Karine Labadie
- Genoscope, Institut François Jacob, CEA, Université Paris-Saclay, Evry, France
| | - Jean-Marc Aury
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057, Evry, France
| | - Corinne Da Silva
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057, Evry, France
| | - Thomas Moritz
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre, Swedish University of Agricultural Sciences, 901 87, Umeå, Sweden
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Hu Y, Zhang H, Gu B, Zhang J. The transcription factor VaMYC2 from Chinese wild Vitis amurensis enhances cold tolerance of grape (V. vinifera) by up-regulating VaCBF1 and VaP5CS. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 192:218-229. [PMID: 36272189 DOI: 10.1016/j.plaphy.2022.10.011] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Revised: 08/26/2022] [Accepted: 10/09/2022] [Indexed: 06/16/2023]
Abstract
Cultivated grapes, one of the most important fruit crops in the world, are sensitive to low temperature. Since Chinese wild grape Vitis amurensis is highly tolerant to cold, it is imperative to study and utilize its cold-tolerance genes for molecular breeding. Here, a VaMYC2 gene from V. amurensis was cloned, and its function was investigated by expressing VaMYC2 in the cold-sensitive V. vinifera cultivar 'Thompson Seedless'. The expression of VaMYC2 could be induced by cold stress, methyl jasmonate and ethylene treatment, but was inhibited by abscisic acid in leaves of V. amurensis. When transgenic grape lines expressing VaMYC2 were subjected to cold stress (-1 °C) for 41 h, the transgenic lines showed less freezing injury and lower electrolyte leakage and malondialdehyde content, but higher contents of soluble sugars, soluble proteins and proline, and antioxidant enzyme activities compared with wild-type. Moreover, the expression of some cold-tolerance related genes increased in transgenic lines. Besides, the interactions of VaMYC2 with VaJAZ1 and VaJAZ7B were confirmed by yeast two-hybrid and bimolecular fluorescence complementation assays. Yeast one-hybrid and dual luciferase assays showed that VaMYC2 can bind to the promoters of VaCBF1 and VaP5CS and activate their expressions. In conclusion, expression of VaMYC2 in V. vinifera enhances cold tolerance of transgenic grapes which is attributed to enhanced accumulation of osmotic regulatory substances, cell membrane stability, antioxidant enzyme activity, and expression of cold tolerance-related genes. Also, VaMYC2 interacts with VaJAZ1 and VaJAZ7, and activates the expression of VaCBF1 and VaP5CS to mediate cold tolerance in grapes.
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Affiliation(s)
- Yafan Hu
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China; Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Hongjuan Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China; Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Bao Gu
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China; Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Jianxia Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China; Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, China; State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, China.
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6
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Shi W, Riemann M, Rieger SM, Nick P. Cold-Induced Nuclear Import of CBF4 Regulates Freezing Tolerance. Int J Mol Sci 2022; 23:ijms231911417. [PMID: 36232718 PMCID: PMC9570231 DOI: 10.3390/ijms231911417] [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: 08/24/2022] [Revised: 09/16/2022] [Accepted: 09/21/2022] [Indexed: 11/22/2022] Open
Abstract
C-repeat binding factors (CBFs) are crucial transcriptional activators in plant responses to low temperature. CBF4 differs in its slower, but more persistent regulation and its role in cold acclimation. Cold acclimation has accentuated relevance for tolerance to late spring frosts as they have become progressively more common, as a consequence of blurred seasonality in the context of global climate change. In the current study, we explore the functions of CBF4 from grapevine, VvCBF4. Overexpression of VvCBF4 fused to GFP in tobacco BY-2 cells confers cold tolerance. Furthermore, this protein shuttles from the cytoplasm to the nucleus in response to cold stress, associated with an accumulation of transcripts for other CBFs and the cold responsive gene, ERD10d. This response differs for chilling as compared to freezing and is regulated differently by upstream signalling involving oxidative burst, proteasome activity and jasmonate synthesis. The difference between chilling and freezing is also seen in the regulation of the CBF4 transcript in leaves from different grapevines differing in their cold tolerance. Therefore, we propose the quality of cold stress is transduced by different upstream signals regulating nuclear import and, thus, the transcriptional activation of grapevine CBF4.
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7
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Shen J, Liu J, Yuan Y, Chen L, Ma J, Li X, Li J. The mechanism of abscisic acid regulation of wild Fragaria species in response to cold stress. BMC Genomics 2022; 23:670. [PMID: 36162976 PMCID: PMC9513977 DOI: 10.1186/s12864-022-08889-8] [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: 05/16/2022] [Accepted: 09/12/2022] [Indexed: 11/16/2022] Open
Abstract
Background Abiotic stresses have increasingly serious effects on the growth and yield of crops. Cold stress, in particular, is an increasing problem. In this study, Fragaria daltoniana and F. vesca were determined to be cold-resistant and cold-sensitive species, respectively. Integrated transcriptomics and metabolomics methods were used to analyze the regulatory mechanism of abscisic acid (ABA) in F. daltoniana and F. vesca in their response to low temperature stress. Results F. daltoniana and F. vesca increased their ABA content under low temperature stress by upregulating the expression of the ABA biosynthetic pathway gene NCED and downregulating the expression of the ABA degradative gene CYP707A. Both types of regulation increased the accumulation of glucose and fructose, resulting in a reduction of damage under low temperature stress. Twelve transcription factors were found to be involved in the ABA regulatory pathway. The strong cold tolerance of F. daltoniana could be owing to its higher levels of ABA that accumulated compared with those in F. vesca under low temperature stress. In addition, the gene ABF2, which is related to the transduction of glucose signaling, was significantly upregulated in the leaves of F. daltoniana, while it was downregulated in the leaves of F. vesca under low temperature stress. This could contribute to the higher levels of glucose signal transduction in F. daltoniana. Thus, this could explain the higher peroxidase activity and lower damage to cell membranes in the leaves of F. daltoniana compared with F. vesca under low temperature stress, which endows the former with stronger cold tolerance. Conclusions Under low temperature stress, the differences in the accumulation of ABA and the expression trends of ABF2 and ABF4 in different species of wild strawberries may be the primary reason for their differences in cold tolerance. Our results provide an important empirical reference and technical support for breeding resistant cultivated strawberry plants. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-022-08889-8.
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Affiliation(s)
- Jincheng Shen
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China.,College of Life Science and Medicine, Zhejiang Sci-Tech University, Hangzhou, 310018, China.,Department of Plant and Environmental Sciences, University of Copenhagen, 1871, Frederiksberg C, Denmark
| | - Jie Liu
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China
| | - Yongge Yuan
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China
| | - Luxi Chen
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China
| | - Junxia Ma
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China
| | - Xin Li
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China
| | - Junmin Li
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, 318000, China.
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Liu J, Wang T, Weng Y, Liu B, Gao Q, Ji W, Wang Z, Wang Y, Ma X. Identification and Characterization of Regulatory Pathways Controlling Dormancy Under Lower Temperature in Alfalfa ( Medicago sativa L.). FRONTIERS IN PLANT SCIENCE 2022; 13:872839. [PMID: 35720528 PMCID: PMC9201922 DOI: 10.3389/fpls.2022.872839] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 02/28/2022] [Indexed: 06/03/2023]
Abstract
Alfalfa (Medicago sativa L.), a kind of high-quality perennial legume forage, is widely distributed in the northern regions of China. In recent years, low temperatures have frequently occurred and limited alfalfa productivity and survival in early spring and late fall. However, the underlying molecular mechanisms of alfalfa response to cold tolerance are not well-documented. In this study, dormancy and non-dormancy alfalfa standard varieties were characterized under low-temperature stress. Our analysis revealed that plant height of the dormancy genotype was strongly inhibited by low temperature; flavonoids content, and higher expression of flavonoids biosynthesis genes (chalcone synthase, leucoanthocyanidin dioxygenase, and flavonoid 3'-monooxygenase) may play essential roles in response to low-temperature stress in dormancy genotype alfalfa. Further analyses revealed that receptor-like kinase family genes (such as cysteine-rich RLK10, lectin protein kinase, and S-locus glycoprotein like kinase), RNA and protein synthesis genes (RNA polymerases, ribosomal protein, and protein phosphatase 2C family protein), and proteasome degradation pathway genes (such as F-box family protein, RING/U-box superfamily protein, and zinc finger family protein) also highly upregulated and contributed to cold tolerance phenotype in dormancy genotype alfalfa. This will provide new insights into future studies for cold tolerance in alfalfa and offer new target genes for further functional characterization and genetic improvement of alfalfa.
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Affiliation(s)
- Jingfu Liu
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Tiemei Wang
- College of Grassland Science, Beijing Forestry University, Beijing, China
| | - Yinyin Weng
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Bei Liu
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Qiu Gao
- National Animal Husbandry Service, Beijing, China
| | - Wei Ji
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Zhuanling Wang
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Yingwei Wang
- Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Xiqing Ma
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
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Mao W, Han Y, Chen Y, Sun M, Feng Q, Li L, Liu L, Zhang K, Wei L, Han Z, Li B. Low temperature inhibits anthocyanin accumulation in strawberry fruit by activating FvMAPK3-induced phosphorylation of FvMYB10 and degradation of Chalcone Synthase 1. THE PLANT CELL 2022; 34:1226-1249. [PMID: 35018459 PMCID: PMC8972286 DOI: 10.1093/plcell/koac006] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Accepted: 01/05/2022] [Indexed: 05/07/2023]
Abstract
Low temperature causes poor coloration of strawberry (Fragaria sp.) fruits, thus greatly reducing their commercial value. Strawberry fruits accumulate anthocyanins during ripening, but how low temperature modulates anthocyanin accumulation in plants remains largely unknown. We identified MITOGEN-ACTIVATED PROTEIN KINASE3 (FvMAPK3) as an important negative regulator of anthocyanin accumulation that mediates the poor coloration of strawberry fruits in response to low temperature. FvMAPK3 activity was itself induced by low temperature, leading to the repression of anthocyanin accumulation via two mechanisms. Activated FvMAPK3 acted as the downstream target of MAPK KINASE4 (FvMKK4) and SUCROSE NONFERMENTING1-RELATED KINASE2.6 (FvSnRK2.6) to phosphorylate the transcription factor FvMYB10 and reduce its transcriptional activity. In parallel, FvMAPK3 phosphorylated CHALCONE SYNTHASE1 (FvCHS1) to enhance its proteasome-mediated degradation. These results not only provide an important reference to elucidate the molecular mechanisms underlying low-temperature-mediated repression of anthocyanin accumulation in plants, but also offer valuable candidate genes for generating strawberry varieties with high tolerance to low temperature and good fruit quality.
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Affiliation(s)
- Wenwen Mao
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Yu Han
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation & Molecular Breeding, National Engineering Research Center for Floriculture, Beijing Laboratory of Urban and Rural Ecological Environment, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, School of Landscape Architecture, Beijing Forestry University, Beijing, 100083, China
| | - Yating Chen
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Mingzhu Sun
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Qianqian Feng
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Li Li
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Liping Liu
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Kaikai Zhang
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Lingzhi Wei
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Zhenhai Han
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
- State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, China
| | - Bingbing Li
- Department of Pomology, College of Horticulture, China Agricultural University, Beijing, 100193, China
- State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, China
- Author for correspondence:
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Lv J, Zheng T, Song Z, Pervaiz T, Dong T, Zhang Y, Jia H, Fang J. Strawberry Proteome Responses to Controlled Hot and Cold Stress Partly Mimic Post-harvest Storage Temperature Effects on Fruit Quality. Front Nutr 2022; 8:812666. [PMID: 35242791 PMCID: PMC8887963 DOI: 10.3389/fnut.2021.812666] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 12/30/2021] [Indexed: 12/22/2022] Open
Abstract
To determine the effect of different temperature on strawberry after harvest, physiological indicator analysis and proteomics analysis were conducted on ripened strawberry (“Sweet Charlie”) fruit stored at 4, 23, and 37°C for 10 or 20 days. Results showed that 4°C maintained a better visual quality of strawberry, and the weight loss and firmness remained stable within 3 days. Low temperature negatively affected anthocyanin but positively affected soluble sugars. Though anthocyanin content was higher with increasing temperature, anthocyanin synthesis related proteins were downregulated. Higher indole-acetic acid (IAA) content in seeds and lower abscisic acid (ABA) content were found in berry at 4°C. Antioxidant related proteins were upregulated during storage, showing a significant up-regulation of peroxidase (POD) at 4°C, and ascorbate-glutathione (AsA-GSH) cycle related proteins and heat shock proteins (HSPs) at 37°C. In addition, overexpressed sugar phosphate/phosphate translocator, 1-aminocyclopropane-1-carboxylate oxidase, and aquaporin PIP2-2 had a positive effect in response to low temperature stress for containing higher protopectin content and POD activity.
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Affiliation(s)
- Jinhua Lv
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
| | - Ting Zheng
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Zenglu Song
- College of Electrical Engineering, Nanjing Vocational University of Industry Technology, Nanjing, China
| | - Tariq Pervaiz
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
| | - Tianyu Dong
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
| | - Yanyi Zhang
- Agricultural College, Liaocheng University, Liaocheng, China
| | - Haifeng Jia
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
- *Correspondence: Haifeng Jia
| | - Jinggui Fang
- College of Horticulture, Nanjing Agricultural University, Nanjing, China
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11
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Zareei E, Karami F, Gholami M, Ershadi A, Avestan S, Aryal R, Gohari G, Farooq M. Physiological and biochemical responses of strawberry crown and leaf tissues to freezing stress. BMC PLANT BIOLOGY 2021; 21:532. [PMID: 34773991 PMCID: PMC8590311 DOI: 10.1186/s12870-021-03300-2] [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: 03/31/2021] [Accepted: 10/29/2021] [Indexed: 05/25/2023]
Abstract
BACKGROUND In northern Iran and other cold regions, winter freezing injury and resultant yield instability are major limitations to strawberry production. However, there is scarcity of information on the physiological and biochemical responses of strawberry cultivars to freezing stress. This study aimed to investigate the physiological and biochemical responses of strawberry cultivars (Tennessee Beauty, Blakemore, Kurdistan, Queen Elisa, Chandler, Krasnyy Bereg, and Yalova) to different freezing temperature treatments (- 5, - 10, - 15, - 20, and - 25 °C) under controlled conditions. RESULTS All measured physiological and biochemical features were significantly affected by the interaction effect between low temperatures and cultivars. Tennessee Beauty showed the highest RWC at - 25 °C. The highest Fv/Fm was observed in Queen Elisa. Krasnyy Bereg had the least freezing injury (FI) in crown and leaf, while Yalova and Chandler showed the highest crown and leaf FI, respectively. At - 20 to - 25 °C, the highest carbohydrates contents of crown and leaf were noted in Blakemore and Krasnyy Bereg cultivars, respectively. The Yalova showed the highest protein content in both crown and leaf tissues at - 25 °C. The Tennessee Beauty and Blackmore cultivars showed the highest proline in crowns and leaves at - 15 °C, respectively. The highest ThioBarbituric Acid Reactive Substances (TBARS) contents in the crown and leaf were observed in Kurdistan and Queen Elisa, respectively. Queen Elisa and Krasnyy Bereg cultivars showed SOD and POD peaks in the crown at - 15 °C, respectively. CONCLUSION Freezing stress was characterized by decreased Fv/Fm and RWC, and increased FI, TBARS, total carbohydrates, total proteins, proline content, and antioxidant enzyme activity. The extent of changes in above mentioned traits was cultivar dependent. FI and TBARS were the best traits among destructive parameters for evaluating freezing tolerance. Moreover, maximum quantum yield of PSII (Fv/Fm index), as non-destructive parameters, showed a significant efficiency in rapid assessment for screening of freezing tolerant strawberry cultivars. The cultivars Krasnyy Bereg, Queen Elisa, and Kurdistan were the most tolerant cultivars to freezing stress. These cultivars can be used as parents in breeding programs to develop new freezing tolerant cultivars.
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Affiliation(s)
- Elnaz Zareei
- Department of Horticultural Science, Faculty of Agriculture, University of Tabriz, Tabriz, Iran
| | - Farhad Karami
- Horticultural Research Department, Kurdistan Agricultural and Natural Resources Research and Education Center, AREEO, Sanandaj, Iran.
| | - Mansour Gholami
- Department of Horticultural Sciences, Faculty of Agriculture, Bu-Ali Sina University, Hamedan, Iran
| | - Ahmad Ershadi
- Department of Horticultural Sciences, Faculty of Agriculture, Bu-Ali Sina University, Hamedan, Iran
| | - Saber Avestan
- Horticultural Research Department, Kurdistan Agricultural and Natural Resources Research and Education Center, AREEO, Sanandaj, Iran
| | - Rishi Aryal
- Department of Horticultural Science, NC State University, Raleigh, NC, USA
| | - Gholamreza Gohari
- Department of Horticultural Sciences, Faculty of Agriculture, University of Maragheh, Maragheh, Iran
| | - Muhammad Farooq
- Department of Plant Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, 123, Al-Khoud, Oman
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12
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Accumulation Dynamics of Transcripts and Proteins of Cold-Responsive Genes in Fragaria vesca Genotypes of Differing Cold Tolerance. Int J Mol Sci 2021; 22:ijms22116124. [PMID: 34200124 PMCID: PMC8201005 DOI: 10.3390/ijms22116124] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2021] [Revised: 05/13/2021] [Accepted: 05/27/2021] [Indexed: 11/29/2022] Open
Abstract
Identifying and characterizing cold responsive genes in Fragaria vesca associated with or responsible for low temperature tolerance is a vital part of strawberry cultivar development. In this study we have investigated the transcript levels of eight genes, two dehydrin genes, three putative ABA-regulated genes, two cold–inducible CBF genes and the alcohol dehydrogenase gene, extracted from leaf and crown tissues of three F. vesca genotypes that vary in cold tolerance. Transcript levels of the CBF/DREB1 transcription factor FvCBF1E exhibited stronger cold up-regulation in comparison to FvCBF1B.1 in all genotypes. Transcripts of FvADH were highly up-regulated in both crown and leaf tissues from all three genotypes. In the ‘ALTA’ genotype, FvADH transcripts were significantly higher in leaf than crown tissues and more than 10 to 20-fold greater than in the less cold-tolerant ‘NCGR1363’ and ‘FDP817’ genotypes. FvGEM, containing the conserved ABRE promoter element, transcript was found to be cold-regulated in crowns. Direct comparison of the kinetics of transcript and protein accumulation of dehydrins was scrutinized. In all genotypes and organs, the changes of XERO2 transcript levels generally preceded protein changes, while levels of COR47 protein accumulation preceded the increases in COR47 RNA in ‘ALTA’ crowns.
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Davik J, Wilson RC, Njah RG, Grini PE, Randall SK, Alsheik MK, Sargent DJ. Genetic mapping and identification of a QTL determining tolerance to freezing stress in Fragaria vesca L. PLoS One 2021; 16:e0248089. [PMID: 34019543 PMCID: PMC8139484 DOI: 10.1371/journal.pone.0248089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Accepted: 05/05/2021] [Indexed: 11/22/2022] Open
Abstract
Extreme cold and frost cause significant stress to plants which can potentially be lethal. Low temperature freezing stress can cause significant and irreversible damage to plant cells and can induce physiological and metabolic changes that impact on growth and development. Low temperatures cause physiological responses including winter dormancy and autumn cold hardening in strawberry (Fragaria) species, and some diploid F. vesca accessions have been shown to have adapted to low-temperature stresses. To study the genetics of freezing tolerance, a F. vesca mapping population of 143 seedlings segregating for differential responses to freezing stress was raised. The progeny was mapped using ‘Genotyping-by-Sequencing’ and a linkage map of 2,918 markers at 851 loci was resolved. The mapping population was phenotyped for freezing tolerance response under controlled and replicated laboratory conditions and subsequent quantitative trait loci analysis using interval mapping revealed a single significant quantitative trait locus on Fvb2 in the physical interval 10.6 Mb and 15.73 Mb on the F. vesca v4.0 genome sequence. This physical interval contained 896 predicted genes, several of which had putative roles associated with tolerance to abiotic stresses including freezing. Differential expression analysis of the 896 QTL-associated gene predictions in the leaves and crowns from ‘Alta’ and ‘NCGR1363’ parental genotypes revealed genotype-specific changes in transcript accumulation in response to low temperature treatment as well as expression differences between genotypes prior to treatment for many of the genes. The putative roles, and significant interparental differential expression levels of several of the genes reported here identified them as good candidates for the control of the effects of freezing tolerance at the QTL identified in this investigation and the possible role of these candidate genes in response to freezing stress is discussed.
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Affiliation(s)
- Jahn Davik
- Division of Biotechnology and Plant Health, Norwegian Institute of Bioeconomy Research, Ås, Norway
- * E-mail:
| | - Robert C. Wilson
- Department of Biotechnology, Faculty of Applied Ecology, Agricultural Sciences & Biotechnology, Inland Norway University of Applied Sciences, Hamar, Norway
| | - Relindis G. Njah
- Department of Biotechnology, Faculty of Applied Ecology, Agricultural Sciences & Biotechnology, Inland Norway University of Applied Sciences, Hamar, Norway
- Department of Biosciences, Section for Genetics and Evolutionary Biology, University of Oslo, Oslo, Norway
| | - Paul E. Grini
- Department of Biosciences, Section for Genetics and Evolutionary Biology, University of Oslo, Oslo, Norway
| | - Stephen K. Randall
- Department of Biology, Indiana University Purdue University Indianapolis, Indianapolis, Indiana, United States of America
| | - Muath K. Alsheik
- Graminor Breeding Ltd., Ridabu, Norway
- Department of Plant Sciences, Norwegian University of Life Sciences, Ås, Norway
| | - Daniel James Sargent
- Department of Genetics, Genomics and Breeding, NIAB-EMR, East Malling, Kent, United Kingdom
- Natural Resources Institute, University of Greenwich, Medway Campus, Chatham Maritime, Kent, United Kingdom
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14
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Martinez-Seidel F, Suwanchaikasem P, Nie S, Leeming MG, Pereira Firmino AA, Williamson NA, Kopka J, Roessner U, Boughton BA. Membrane-Enriched Proteomics Link Ribosome Accumulation and Proteome Reprogramming With Cold Acclimation in Barley Root Meristems. FRONTIERS IN PLANT SCIENCE 2021; 12:656683. [PMID: 33995454 PMCID: PMC8121087 DOI: 10.3389/fpls.2021.656683] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Accepted: 03/22/2021] [Indexed: 05/17/2023]
Abstract
Due to their sessile nature, plants rely on root systems to mediate many biotic and abiotic cues. To overcome these challenges, the root proteome is shaped to specific responses. Proteome-wide reprogramming events are magnified in meristems due to their active protein production. Using meristems as a test system, here, we study the major rewiring that plants undergo during cold acclimation. We performed tandem mass tag-based bottom-up quantitative proteomics of two consecutive segments of barley seminal root apexes subjected to suboptimal temperatures. After comparing changes in total and ribosomal protein (RP) fraction-enriched contents with shifts in individual protein abundances, we report ribosome accumulation accompanied by an intricate translational reprogramming in the distal apex zone. Reprogramming ranges from increases in ribosome biogenesis to protein folding factors and suggests roles for cold-specific RP paralogs. Ribosome biogenesis is the largest cellular investment; thus, the vast accumulation of ribosomes and specific translation-related proteins during cold acclimation could imply a divergent ribosomal population that would lead to a proteome shift across the root. Consequently, beyond the translational reprogramming, we report a proteome rewiring. First, triggered protein accumulation includes spliceosome activity in the root tip and a ubiquitous upregulation of glutathione production and S-glutathionylation (S-GSH) assemblage machineries in both root zones. Second, triggered protein depletion includes intrinsically enriched proteins in the tip-adjacent zone, which comprise the plant immune system. In summary, ribosome and translation-related protein accumulation happens concomitantly to a proteome reprogramming in barley root meristems during cold acclimation. The cold-accumulated proteome is functionally implicated in feedbacking transcript to protein translation at both ends and could guide cold acclimation.
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Affiliation(s)
- Federico Martinez-Seidel
- School of BioSciences, The University of Melbourne, Parkville, VIC, Australia
- Willmitzer Department, Max-Planck-Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | | | - Shuai Nie
- Bio21 Institute of Molecular Science and Biotechnology, The University of Melbourne, Parkville, VIC, Australia
| | - Michael G. Leeming
- Bio21 Institute of Molecular Science and Biotechnology, The University of Melbourne, Parkville, VIC, Australia
- School of Chemistry, The University of Melbourne, Parkville, VIC, Australia
| | | | - Nicholas A. Williamson
- Bio21 Institute of Molecular Science and Biotechnology, The University of Melbourne, Parkville, VIC, Australia
- Department of Biochemistry and Molecular Biology, The University of Melbourne, Parkville, VIC, Australia
| | - Joachim Kopka
- Willmitzer Department, Max-Planck-Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Ute Roessner
- School of BioSciences, The University of Melbourne, Parkville, VIC, Australia
| | - Berin A. Boughton
- School of BioSciences, The University of Melbourne, Parkville, VIC, Australia
- Australian National Phenome Centre, Murdoch University, Murdoch, WA, Australia
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15
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Chen J, Zhou J, Hong Y, Li Z, Cheng X, Zheng A, Zhang Y, Song J, Xie G, Chen C, Yuan M, Wang T, Chen Q. Genome-wide identification of ubiquitin proteasome subunits as superior reference genes for transcript normalization during receptacle development in strawberry cultivars. BMC Genomics 2021; 22:88. [PMID: 33509086 PMCID: PMC7845027 DOI: 10.1186/s12864-021-07393-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 01/18/2021] [Indexed: 11/16/2022] Open
Abstract
Background Gene transcripts that show invariant abundance during development are ideal as reference genes (RGs) for accurate gene expression analyses, such as RNA blot analysis and reverse transcription–quantitative real time PCR (RT-qPCR) analyses. In a genome-wide analysis, we selected three “Commonly used” housekeeping genes (HKGs), fifteen “Traditional” HKGs, and nine novel genes as candidate RGs based on 80 publicly available transcriptome libraries that include data for receptacle development in eight strawberry cultivars. Results The results of the multifaceted assessment consistently revealed that expression of the novel RGs showed greater stability compared with that of the “Commonly used” and “Traditional” HKGs in transcriptome and RT-qPCR analyses. Notably, the majority of stably expressed genes were associated with the ubiquitin proteasome system. Among these, two 26 s proteasome subunits, RPT6A and RPN5A, showed superior expression stability and abundance, and are recommended as the optimal RGs combination for normalization of gene expression during strawberry receptacle development. Conclusion These findings provide additional useful and reliable RGs as resources for the accurate study of gene expression during receptacle development in strawberry cultivars. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-021-07393-9.
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Affiliation(s)
- Jianqing Chen
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China. .,FAFU-UCR Joint Center for Horticultural Biology and Metabolomics, Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
| | - Jinyu Zhou
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Yanhong Hong
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Zekun Li
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Xiangyu Cheng
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Aiying Zheng
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Yilin Zhang
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Juanjuan Song
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Guifeng Xie
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Changmei Chen
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Meng Yuan
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Tengyun Wang
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China
| | - Qingxi Chen
- College of Horticulture, Fujian Agriculture and Forestry University, No. 15 Shangxiadian Road, Fuzhou, 350002, China.
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16
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Oberschelp GPJ, Guarnaschelli AB, Teson N, Harrand L, Podestá FE, Margarit E. Cold acclimation and freezing tolerance in three Eucalyptus species: A metabolomic and proteomic approach. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 154:316-327. [PMID: 32593088 DOI: 10.1016/j.plaphy.2020.05.026] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 05/21/2020] [Accepted: 05/21/2020] [Indexed: 05/20/2023]
Abstract
The ability of plants to cope with frost events relies on the physiological and molecular responses triggered by cold temperatures. This process, named acclimation, involves reprogramming gene expression in order to adjust metabolism. Planted Eucalyptus species are highly productive but most of them are frost sensitive. However, acclimation process varies among species and environmental conditions, promoting more or less frost damage in young plantations of frost-prone areas. To identify metabolites and proteins responsible for these differences, two acclimation regimes were imposed to seedling of Eucalyptus grandis Hill ex Maiden (Eg), Eucalyptus dunnii Maiden (Ed) and Eucalyptus benthamii Maiden Cambage (Eb), and leaves submitted to biochemical and molecular analyses. Further, seedlings were used for simulated frosts in order to test the acclimation status effect on frost tolerance. Eb showed higher frost tolerance than Ed and Eg under control and acclimation scenarios, possibly due to its higher accumulation of phenolics, anthocyanins and soluble sugars as well as lower levels of photosynthetic pigments and related proteins. Also, a rise in frost tolerance and in osmoprotectants and antioxidants was observed for all the species due to cold acclimation treatment. Interestingly, metabolic profiles differed among species, suggesting different mechanisms to endure frosts and, probably, different requirements for cold acclimation. Shotgun proteomics reinforced differences and commonalities and supported metabolome observations. An in depth understanding of these responses could help to safeguard planted forests productivity through breeding of tolerant genetic material.
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Affiliation(s)
| | - Ana Beatriz Guarnaschelli
- Facultad de Agronomía de la Universidad de Buenos Aires (FAUBA), Av. San Martín 4453, CABA, Argentina
| | - Natalia Teson
- EEA Concordia del INTA, Ruta 22 y vías del ferrocarril, Colonia Yeruá, Entre Ríos, Argentina
| | - Leonel Harrand
- EEA Concordia del INTA, Ruta 22 y vías del ferrocarril, Colonia Yeruá, Entre Ríos, Argentina
| | - Florencio Esteban Podestá
- Centro de Estudios Fotosintéticos y Bioquímicos (CEFOBI), Suipacha 531, Rosario, Santa Fe. Argentina
| | - Ezequiel Margarit
- Centro de Estudios Fotosintéticos y Bioquímicos (CEFOBI), Suipacha 531, Rosario, Santa Fe. Argentina.
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18
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Ji M, Hu Z, Hou C, Liu H, Ngo HH, Guo W, Lu S, Zhang J. New insights for enhancing the performance of constructed wetlands at low temperatures. BIORESOURCE TECHNOLOGY 2020; 301:122722. [PMID: 31983576 DOI: 10.1016/j.biortech.2019.122722] [Citation(s) in RCA: 52] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Revised: 12/01/2019] [Accepted: 12/29/2019] [Indexed: 06/10/2023]
Abstract
Constructed wetlands (CWs) have been widely utilized for various types of wastewater treatment due to their merits, including high cost-effectiveness and easy operation. However, a few intrinsic drawbacks have always restricted their application and long-term stability, especially their weak performance at temperatures under 10 °C (low temperatures) due to the deterioration of microbial assimilation and plant uptake processes. The existing modifications to improve CWs performance from the direct optimization of internal components to the indirect adjunction of external resources promoted the wastewater treatment efficiency to a certain degree, but the sustainability and sufficiency of pollutants removal remains a challenge. With the goal of optimizing CW components, the integrity of the CW ecosystem and the removal of emerging pollutants, future directions for research should include radiation plant breeding, improvements to CW ecosystems, and the combination or integration of certain treatment processes with CWs to enhance wastewater treatment effects at low temperatures.
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Affiliation(s)
- Mingde Ji
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Zhen Hu
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China.
| | - Chenglin Hou
- North Design and Research Institute Co., Ltd., Shijiazhuang 050011, PR China
| | - Huaqing Liu
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Huu Hao Ngo
- School of Civil and Environmental Engineering, University of Technology Sydney, Broadway, NSW 2007, Australia
| | - Wenshan Guo
- School of Civil and Environmental Engineering, University of Technology Sydney, Broadway, NSW 2007, Australia
| | - Shaoyong Lu
- Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
| | - Jian Zhang
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
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19
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Majláth I, Éva C, Tajti J, Khalil R, Elsayed N, Darko E, Szalai G, Janda T. Exogenous methylglyoxal enhances the reactive aldehyde detoxification capability and frost-hardiness of wheat. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 149:75-85. [PMID: 32058896 DOI: 10.1016/j.plaphy.2020.02.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 01/31/2020] [Accepted: 02/03/2020] [Indexed: 05/21/2023]
Abstract
Cold-acclimation is essential for the development of adequate frost-hardiness in cereals and therefore sudden freezes can cause considerable damage to the canopy. However, timely adding of an appropriate signal in the absence of cold acclimation may also harden wheat for the upcoming freeze. The feasibility of the promising signal molecule methylglyoxal was tested here for such applications and the signal mechanism was studied in bread wheat (Triticum aestivum L.) and durum wheat (Triticum turgidum L. ssp. durum). Spraying with 10 mM methylglyoxal did not decrease the fresh weight and photosynthetic parameters in most wheat varieties at growth temperature (21 °C). Photosynthetic parameters even improved and chlorophyll content increased in some cases. Increased transcript level of glutathione-S-transferases and omega-3 fatty acid desaturases was detected by qPCR 6 h after the last methylglyoxal spray. Aldo-keto reductase and glyoxalase enzyme activities, as well as sorbitol content of wheat plants increased 24 h after the last 10 mM methylglyoxal spray in most of the cultivars. These mechanisms may explain the increased freezing survival of methylglyoxal pretreated wheat plants from less than 10% to over 30%. Our results demonstrate that exogenous methylglyoxal treatment can be safely added to wheat plants as preparatory treatment without detrimental effects but inducing some of the stress-protective mechanisms, which contribute to frost-hardiness.
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Affiliation(s)
- Imre Majláth
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
| | - Csaba Éva
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
| | - Judit Tajti
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
| | - Radwan Khalil
- Botany Department, Faculty of Science, Benha University, Benha, 13518, Egypt.
| | - Nesma Elsayed
- Botany Department, Faculty of Science, Benha University, Benha, 13518, Egypt.
| | - Eva Darko
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
| | - Gabriella Szalai
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
| | - Tibor Janda
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, 2462, Hungary.
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20
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Ding J, Zhang R, Ahmed S, Liu Y, Qin W. Effect of Sonication Duration in the Performance of Polyvinyl Alcohol/Chitosan Bilayer Films and Their Effect on Strawberry Preservation. Molecules 2019; 24:molecules24071408. [PMID: 30974792 PMCID: PMC6479888 DOI: 10.3390/molecules24071408] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2019] [Revised: 04/05/2019] [Accepted: 04/08/2019] [Indexed: 11/16/2022] Open
Abstract
In this study, we fabricated polyvinyl alcohol (PVA)/chitosan (CS) bilayer films by casting and investigated the effects of preparation conditions and CS content (2, 2.5, or 3 wt.%) on the ability of these films to preserve packaged strawberries. The best performance was achieved at a CS loading of 2.5 wt.% (ultrasound time, 25 min); the strain and stress values were 143.15 ± 6.43% and 70.67 ± 0.85 MPa, respectively, oxygen permeability was 0.16 ± 0.08 cm²·m²·day-1·MPa-1, water vapor permeability was 14.93 ± 4.09 g·cm-1·s-1·Pa-1, and the shelf life of fresh strawberries packaged in the PVA/CS 2.5 wt.% bilayer film was determined to be 21 days at 5 ± 2 °C and a relative humidity of 60 ± 5%. Treatment with PVA/CS bilayer films prevented the decrease in the firmness of strawberries during storage (21 days). The evaluated physicochemical parameters (weight loss, decay, firmness, titratable acidity, soluble solid content, ascorbic acid content, and color) indicated that treatment with PVA/CS bilayer films led to better maintenance of the fruit quality. We believe that our study makes a significant contribution to literature because it paves the way to the fabrication of smart packaging materials and facilitates the commercialization of fresh strawberries as an important health food.
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Affiliation(s)
- Jie Ding
- College of Food Science, Sichuan Agricultural University, Yaan 625014, China.
- College of Food Science and Technology, Sichuan Tourism University, Chengdu 610100, China.
| | - Rong Zhang
- College of Food Science, Sichuan Agricultural University, Yaan 625014, China.
| | - Saeed Ahmed
- College of Food Science, Sichuan Agricultural University, Yaan 625014, China.
| | - Yaowen Liu
- College of Food Science, Sichuan Agricultural University, Yaan 625014, China.
- School of Materials Science and Engineering, Southwest Jiaotong University, Chengdu 610031, China.
- California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA.
| | - Wen Qin
- College of Food Science, Sichuan Agricultural University, Yaan 625014, China.
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21
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Wang L, Sadeghnezhad E, Riemann M, Nick P. Microtubule dynamics modulate sensing during cold acclimation in grapevine suspension cells. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 280:18-30. [PMID: 30823996 DOI: 10.1016/j.plantsci.2018.11.008] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2018] [Revised: 11/07/2018] [Accepted: 11/14/2018] [Indexed: 06/09/2023]
Abstract
Cold acclimation is of practical relevance, since it can avoid cold-induced damage in various crops. To efficiently activate cold acclimation requires that the chilling stress is perceived and processed efficiently. In the current work, we use a transgenic cell line of V. rupestris expressing a GFP-labelled tubulin to follow the effect of cold acclimation and the relation between microtubules and the expression of the transcription factor Cold Box Factor 4 (CBF4) as molecular readout for adaptive responses to cold stress. We find that chilling induced cold tolerance correlated with increased CBF4 expression. We show that cold acclimation can be achieved through stabilisation of microtubules by taxol, as well as through transient elimination of microtubules by pronamide in the absence of cold stress. Furthermore, results from inhibitor studies indicate that transcriptional activation of CBF4 appears to be under control of calcium influx. We screened a population of the ancestor of V. sylvestris and could identify different clades with strong induction of CBF4, indicative of genetic variation in cold adaptability that can be used for breeding. We summarize our findings into a working model where microtubule dynamics controls the sensitivity of cold induced calcium influx mediating the induction of CBF4 culminating in cold hardening.
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Affiliation(s)
- Lixin Wang
- Molecular Cell Biology, Botanical Institute, Karlsruhe Institute of Technology, Fritz-Haber-Weg 4, D-76131, Karlsruhe, Germany; Research Center of Chinese Jujube, Agricultural University of Hebei, Baoding, Hebei, China.
| | - Ehsan Sadeghnezhad
- Molecular Cell Biology, Botanical Institute, Karlsruhe Institute of Technology, Fritz-Haber-Weg 4, D-76131, Karlsruhe, Germany; Department of Plant Biology, Faculty of Biological Sciences, Tarbiat Modares University, Teheran, Iran
| | - Michael Riemann
- Molecular Cell Biology, Botanical Institute, Karlsruhe Institute of Technology, Fritz-Haber-Weg 4, D-76131, Karlsruhe, Germany
| | - Peter Nick
- Molecular Cell Biology, Botanical Institute, Karlsruhe Institute of Technology, Fritz-Haber-Weg 4, D-76131, Karlsruhe, Germany
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22
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Hikosaka S, Goto E, Tabayashi N, Matsumura T. Effects of air temperature before harvest on the concentration of human adiponectin in transgenic strawberry fruits. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2019; 36:21-27. [PMID: 31275045 PMCID: PMC6566012 DOI: 10.5511/plantbiotechnology.19.0128a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Accepted: 01/28/2019] [Indexed: 06/09/2023]
Abstract
Transgenic ever-bearing strawberry (Fragaria×ananassa Duch. 'HS 138') was cultivated in a closed plant production system to produce functional proteins that can enhance human immune functions. We investigated the effects of air temperature before harvest on fruit growth and the concentration of human adiponectin (hAdi) at harvest in transgenic strawberry. During the different stages of maturity (mature white and immature green stages), hAdi-expressing plants were exposed to four air temperature treatments (15, 20, 25, and 30°C) under 24-h illumination provided by fluorescent lamps. Fruits were harvested at the mature red stage. The number of days to the mature red stage decreased with increasing air temperature, being the least at 30°C. Fruit total soluble protein (TSP) concentration increased with decreasing air temperature, particularly at 15°C, whereas fruit hAdi concentration tended to be higher under the 30°C treatment than under any other of the temperature treatments. There was no significant relationship between fruit fresh weight at harvest time and hAdi concentration within treatments, nor between the number of days to harvest and hAdi or TSP concentration. Although there were no significant differences in fruit hAdi content among treatments, hAdi production rate was the highest at 30°C because of the shortest duration to harvest. These results indicate that a higher air temperature promoted fruit maturation and accelerated the production of functional hAdi proteins in the fruit. For hAdi-expressing strawberry plants, exposure to 30°C may reduce energy consumption (lighting and air conditioning) for functional protein production under controlled environments.
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Affiliation(s)
- Shoko Hikosaka
- Graduate School of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba 271-8510, Japan
| | - Eiji Goto
- Graduate School of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba 271-8510, Japan
| | - Noriko Tabayashi
- Agroscience Research Laboratories, Hokusan Co., Ltd., 27-4 Kitanosato, Kitahiroshima, Hokkaido 061-1111, Japan
| | - Takeshi Matsumura
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Hokkaido, Hokkaido, 2-17-2-1 Tsukisamu-Higashi, Toyohira-ku, Sapporo, Hokkaido 062-8517, Japan
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23
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Peng JX, He PP, Wei PY, Zhang B, Zhao YZ, Li QY, Chen XL, Peng M, Zeng DG, Yang CL, Chen X. Proteomic Responses Under Cold Stress Reveal Unique Cold Tolerance Mechanisms in the Pacific White Shrimp ( Litopenaeus vannamei). Front Physiol 2018; 9:1399. [PMID: 30483139 PMCID: PMC6243039 DOI: 10.3389/fphys.2018.01399] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 09/13/2018] [Indexed: 11/13/2022] Open
Abstract
The Pacific white shrimp (Litopenaeus vannamei), one of the most widely cultured shrimp species in the world, often suffers from cold stress. To understand the molecular mechanism of cold tolerance in Pacific white shrimp, we conducted a proteomic analysis on two contrasting shrimp cultivars, namely, cold-tolerant Guihai2 (GH2) and cold-sensitive Guihai1 (GH1), under normal temperature (28°C), under cold stress (16°C), and during recovery to 28°C. In total, 3,349 proteins were identified, among which 2,736 proteins were quantified. Based on gene ontology annotations, differentially expressed proteins largely belonged to biological processes, cellular components, and molecular functions. KEGG pathway annotations indicated that the main changes were observed in the lysosome, ribosomes, and oxidative phosphorylation. Subcellular localization analysis showed a significant increase in proteins present in cytosol, extracellular regions, and mitochondria. Combining enrichment-based clustering analysis and qRT-PCR analysis, we found that glutathione S-transferase, zinc proteinase, m7GpppX diphosphatase, AP2 transcription complex, and zinc-finger transcription factors played a major role in the cold stress response in Pacific white shrimp. Moreover, structure proteins, including different types of lectin and DAPPUDRAFT, were indispensable for cold stress tolerance of the Pacific white shrimp. Results indicate the molecular mechanisms of the Pacific white shrimp in response to cold stress and provide new insight into breeding new cultivars with increased cold tolerance.
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Affiliation(s)
- Jin-Xia Peng
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Ping-Ping He
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Pin-Yuan Wei
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Bin Zhang
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Yong-Zhen Zhao
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Qiang-Yong Li
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Xiu-Li Chen
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Min Peng
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Di-Gang Zeng
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Chun-Ling Yang
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
| | - Xiaohan Chen
- Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China
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24
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Zhang Y, Yin X, Xiao Y, Zhang Z, Li S, Liu X, Zhang B, Yang X, Grierson D, Jiang G, Klee HJ, Chen K. An ETHYLENE RESPONSE FACTOR-MYB Transcription Complex Regulates Furaneol Biosynthesis by Activating QUINONE OXIDOREDUCTASE Expression in Strawberry. PLANT PHYSIOLOGY 2018; 178:189-201. [PMID: 29987002 PMCID: PMC6130037 DOI: 10.1104/pp.18.00598] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Accepted: 06/30/2018] [Indexed: 05/03/2023]
Abstract
4-Hydroxy-2,5-dimethyl-3(2H)-furanone is a major contributor to the aroma of strawberry (Fragaria × ananassa) fruit, and the last step in its biosynthesis is catalyzed by strawberry quinone oxidoreductase (FaQR). Here, an ethylene response factor (FaERF#9) was characterized as a positive regulator of the FaQR promoter. Linear regression analysis indicated that FaERF#9 transcript levels were correlated significantly with both FaQR transcripts and furanone content in different strawberry cultivars. Transient overexpression of FaERF#9 in strawberry fruit significantly increased FaQR expression and furaneol production. Yeast one-hybrid assays, however, indicated that FaERF#9 by itself did not bind to the FaQR promoter. An MYB transcription factor (FaMYB98) identified in yeast one-hybrid screening of the strawberry cDNA library was capable of both binding to the promoter and activating the transcription of FaQR by ∼5.6-fold. Yeast two-hybrid assay and bimolecular fluorescence complementation confirmed a direct protein-protein interaction between FaERF#9 and FaMYB98, and in combination, they activated the FaQR promoter 14-fold in transactivation assays. These results indicate that an ERF-MYB complex containing FaERF#9 and FaMYB98 activates the FaQR promoter and up-regulates 4-hydroxy-2,5-dimethyl-3(2H)-furanone biosynthesis in strawberry.
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Affiliation(s)
- Yuanyuan Zhang
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Xueren Yin
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Yuwei Xiao
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Zuying Zhang
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Shaojia Li
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Xiaofen Liu
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Bo Zhang
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
| | - Xiaofang Yang
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, People's Republic of China
| | - Donald Grierson
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough LE12 5RD, United Kingdom
| | - Guihua Jiang
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, People's Republic of China
| | - Harry J Klee
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- Horticultural Sciences, Plant Innovation Center, Genetics Institute, University of Florida, Gainesville, Florida 32611
| | - Kunsong Chen
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
- State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou 310058, People's Republic of China
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25
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Rurek M, Czołpińska M, Pawłowski TA, Krzesiński W, Spiżewski T. Cold and Heat Stress Diversely Alter Both Cauliflower Respiration and Distinct Mitochondrial Proteins Including OXPHOS Components and Matrix Enzymes. Int J Mol Sci 2018; 19:ijms19030877. [PMID: 29547512 PMCID: PMC5877738 DOI: 10.3390/ijms19030877] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2018] [Revised: 03/07/2018] [Accepted: 03/09/2018] [Indexed: 12/11/2022] Open
Abstract
Complex proteomic and physiological approaches for studying cold and heat stress responses in plant mitochondria are still limited. Variations in the mitochondrial proteome of cauliflower (Brassica oleracea var. botrytis) curds after cold and heat and after stress recovery were assayed by two-dimensional polyacrylamide gel electrophoresis (2D PAGE) in relation to mRNA abundance and respiratory parameters. Quantitative analysis of the mitochondrial proteome revealed numerous stress-affected protein spots. In cold, major downregulations in the level of photorespiratory enzymes, porine isoforms, oxidative phosphorylation (OXPHOS) and some low-abundant proteins were observed. In contrast, carbohydrate metabolism enzymes, heat-shock proteins, translation, protein import, and OXPHOS components were involved in heat response and recovery. Several transcriptomic and metabolic regulation mechanisms are also suggested. Cauliflower plants appeared less susceptible to heat; closed stomata in heat stress resulted in moderate photosynthetic, but only minor respiratory impairments, however, photosystem II performance was unaffected. Decreased photorespiration corresponded with proteomic alterations in cold. Our results show that cold and heat stress not only operate in diverse modes (exemplified by cold-specific accumulation of some heat shock proteins), but exert some associations at molecular and physiological levels. This implies a more complex model of action of investigated stresses on plant mitochondria.
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Affiliation(s)
- Michał Rurek
- Department of Molecular and Cellular Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznań, Umultowska 89, 61-614 Poznań, Poland.
| | - Magdalena Czołpińska
- Department of Molecular and Cellular Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznań, Umultowska 89, 61-614 Poznań, Poland.
| | | | - Włodzimierz Krzesiński
- Department of Vegetable Crops, Poznan University of Life Sciences, Dąbrowskiego 159, 60-594 Poznań, Poland.
| | - Tomasz Spiżewski
- Department of Vegetable Crops, Poznan University of Life Sciences, Dąbrowskiego 159, 60-594 Poznań, Poland.
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26
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Gates DJ, Olson BJSC, Clemente TE, Smith SD. A novel R3 MYB transcriptional repressor associated with the loss of floral pigmentation in Iochroma. THE NEW PHYTOLOGIST 2018; 217:1346-1356. [PMID: 29023752 DOI: 10.1111/nph.14830] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Accepted: 08/31/2017] [Indexed: 05/23/2023]
Abstract
Losses of floral pigmentation represent one of the most common evolutionary transitions in flower color, yet the genetic basis for these changes has been elucidated in only a handful of cases. Here we used crossing studies, bulk-segregant RNA sequencing, phylogenetic analyses and functional tests to identify the gene(s) responsible for the transition to white flowers in Iochroma loxense. Crosses between I. loxense and its blue-flowered sister species, I. cyaneum, suggested that a single locus controls the flower color difference and that the white allele causes a nearly complete loss of pigmentation. Examining sequence variation across phenotypic pools from the crosses, we found that alleles at a novel R3 MYB transcription factor were tightly associated with flower color variation. This gene, which we term MYBL1, falls into a class of MYB transcriptional repressors and, accordingly, higher expression of this gene is associated with downregulation of multiple anthocyanin pigment pathway genes. We confirmed the repressive function of MYBL1 through stable transformation of Nicotiana. The mechanism underlying the evolution of white flowers in I. loxense differs from that uncovered in previous studies, pointing to multiple mechanisms for achieving fixed transitions in flower color intensity.
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Affiliation(s)
- Daniel J Gates
- School of Biological Sciences, University of Nebraska, Lincoln, NE, 68588, USA
| | | | - Tom E Clemente
- Department of Agronomy and Horticulture and Center for Plant Science Innovation, University of Nebraska, Lincoln, NE, 68588, USA
| | - Stacey D Smith
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, 80305, USA
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27
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Han Z, Zhang J, Cai S, Chen X, Quan X, Zhang G. Association mapping for total polyphenol content, total flavonoid content and antioxidant activity in barley. BMC Genomics 2018; 19:81. [PMID: 29370751 PMCID: PMC5784657 DOI: 10.1186/s12864-018-4483-6] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Accepted: 01/16/2018] [Indexed: 11/30/2022] Open
Abstract
BACKGROUND The interest has been increasing on the phenolic compounds in plants because of their nutritive function as food and the roles regulating plant growth. However, their underlying genetic mechanism in barley is still not clear. RESULTS A genome-wide association study (GWAS) was conducted for total phenolic content (TPC), total flavonoid content (FLC) and antioxidant activity (AOA) in 67 cultivated and 156 Tibetan wild barley genotypes. Most markers associated with phenolic content were different in cultivated and wild barleys. The markers bPb-0572 and bPb-4531 were identified as the major QTLs controlling phenolic compounds in Tibetan wild barley. Moreover, the marker bPb-4531 was co-located with the UDP- glycosyltransferase gene (HvUGT), which is a homolog to Arabidopsis UGTs and involved in biosynthesis of flavonoid glycosides . CONCLUSIONS GWAS is an efficient tool for exploring the genetic architecture of phenolic compounds in the cultivated and Tibetan wild barleys. The DArT markers applied in this study can be used in barley breeding for developing new barley cultivars with higher phenolics content. The candidate gene (HvUGT) provides a potential route for deep understanding of the molecular mechanism of flavonoid synthesis.
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Affiliation(s)
- Zhigang Han
- Department of Agronomy, Zhejiang Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, 310058 China
| | - Jingjie Zhang
- Department of Agronomy, Zhejiang Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, 310058 China
| | - Shengguan Cai
- Department of Agronomy, Zhejiang Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, 310058 China
| | - Xiaohui Chen
- Department of Agronomy, Zhejiang Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, 310058 China
| | - Xiaoyan Quan
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
| | - Guoping Zhang
- Department of Agronomy, Zhejiang Key Laboratory of Crop Germplasm, Zhejiang University, Hangzhou, 310058 China
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28
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Haimi P, Vinskienė J, Stepulaitienė I, Baniulis D, Stanienė G, Šikšnianienė JB, Rugienius R. Patterns of low temperature induced accumulation of dehydrins in Rosaceae crops-Evidence for post-translational modification in apple. JOURNAL OF PLANT PHYSIOLOGY 2017; 218:175-181. [PMID: 28886453 DOI: 10.1016/j.jplph.2017.08.008] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Revised: 08/06/2017] [Accepted: 08/07/2017] [Indexed: 06/07/2023]
Abstract
Important crop plants of Rosaceae family are often damaged during winter due to the lack of acclimation and cold hardiness. One of the cellular responses of plants to cold stress is the accumulation of dehydrin proteins. We studied the expression of dehydrins in several Rosaceae species during low temperature treatment in vitro. Microshoots of Pyrus communis, Malus×domestica, Fragaria vesca, Fragaria×ananassa, Prunus cerasus and Prunus avium cultivars were grown in low temperature conditions. Genotype -specific accumulation of dehydrins was detected by immunoblot analysis of the extracted proteins. Untargeted difference gel electrophoresis of Malus x domestica microshoots revealed an extensive accumulation of three dehydrins. In a protein phosphatase assay, MdDHN2 and MdDHN4, but not MdDHN6 proteins were found to be extensively phosphorylated. In terms of the amount of protein synthesized, dehydrins are a major protein-level adaptation mechanism to low temperature in M. x domestica. In addition to dehydrins, the induction of proteins involved in the response for oxidative stress were observed. Additionally, a Xero2 -like dehydrin of F. vesca was detected by difference gel electrophoresis and identified by nano LC-MS/MS.
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Affiliation(s)
- Perttu Haimi
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania.
| | - Jurgita Vinskienė
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
| | - Inga Stepulaitienė
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
| | - Danas Baniulis
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
| | - Gražina Stanienė
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
| | - Jūratė Bronė Šikšnianienė
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
| | - Rytis Rugienius
- Institute of Horticulture, Lithuanian Research Centre for Agriculture and Forestry, Kaunas st. 30, Babtai LT-54333, Kaunas distr., Lithuania
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29
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Tan BC, Lim YS, Lau SE. Proteomics in commercial crops: An overview. J Proteomics 2017; 169:176-188. [PMID: 28546092 DOI: 10.1016/j.jprot.2017.05.018] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2016] [Revised: 04/21/2017] [Accepted: 05/19/2017] [Indexed: 02/06/2023]
Abstract
Proteomics is a rapidly growing area of biological research that is positively affecting plant science. Recent advances in proteomic technology, such as mass spectrometry, can now identify a broad range of proteins and monitor their modulation during plant growth and development, as well as during responses to abiotic and biotic stresses. In this review, we highlight recent proteomic studies of commercial crops and discuss the advances in understanding of the proteomes of these crops. We anticipate that proteomic-based research will continue to expand and contribute to crop improvement. SIGNIFICANCE Plant proteomics study is a rapidly growing area of biological research that is positively impacting plant science. With the recent advances in new technologies, proteomics not only allows us to comprehensively analyses crop proteins, but also help us to understand the functions of the genes. In this review, we highlighted recent proteomic studies in commercial crops and updated the advances in our understanding of the proteomes of these crops. We believe that proteomic-based research will continue to grow and contribute to the improvement of crops.
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Affiliation(s)
- Boon Chin Tan
- Centre for Research in Biotechnology for Agriculture, University of Malaya, Lembah Pantai, 50603 Kuala Lumpur, Malaysia.
| | - Yin Sze Lim
- School of Biosciences, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500 Semenyih, Selangor, Malaysia
| | - Su-Ee Lau
- Centre for Research in Biotechnology for Agriculture, University of Malaya, Lembah Pantai, 50603 Kuala Lumpur, Malaysia
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30
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Kårlund A, Moor U, McDougall G, Lehtonen M, Karjalainen RO, Hanhineva K. Metabolic profiling discriminates between strawberry ( Fragaria×ananassa Duch.) cultivars grown in Finland or Estonia. Food Res Int 2016; 89:647-653. [DOI: 10.1016/j.foodres.2016.09.013] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2016] [Revised: 09/05/2016] [Accepted: 09/08/2016] [Indexed: 10/21/2022]
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31
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Schulz E, Tohge T, Zuther E, Fernie AR, Hincha DK. Flavonoids are determinants of freezing tolerance and cold acclimation in Arabidopsis thaliana. Sci Rep 2016; 6:34027. [PMID: 27658445 PMCID: PMC5034326 DOI: 10.1038/srep34027] [Citation(s) in RCA: 120] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2016] [Accepted: 09/06/2016] [Indexed: 12/15/2022] Open
Abstract
In plants from temperate climates such as Arabidopsis thaliana low, non-freezing temperatures lead to increased freezing tolerance in a process termed cold acclimation. This process is accompanied by massive changes in gene expression and in the content of primary metabolites and lipids. In addition, most flavonols and anthocyanins accumulate upon cold exposure, along with most transcripts encoding transcription factors and enzymes of the flavonoid biosynthetic pathway. However, no evidence for a functional role of flavonoids in plant freezing tolerance has been shown. Here, we present a comprehensive analysis using qRT-PCR for transcript, LC-MS for flavonoid and GC-MS for primary metabolite measurements, and an electrolyte leakage assay to determine freezing tolerance of 20 mutant lines in two Arabidopsis accessions that are affected in different steps of the flavonoid biosynthetic pathway. This analysis provides evidence for a functional role of flavonoids in plant cold acclimation. The accumulation of flavonoids in the activation tagging mutant line pap1-D improved, while reduced flavonoid content in different knock-out mutants impaired leaf freezing tolerance. Analysis of the different knock-out mutants suggests redundancy of flavonoid structures, as the lack of flavonols or anthocyanins could be compensated by other compound classes.
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Affiliation(s)
- Elisa Schulz
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476 Potsdam, Germany
| | - Takayuki Tohge
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476 Potsdam, Germany
| | - Ellen Zuther
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476 Potsdam, Germany
| | - Alisdair R. Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476 Potsdam, Germany
| | - Dirk K. Hincha
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476 Potsdam, Germany
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Barkla BJ. Identification of Abiotic Stress Protein Biomarkers by Proteomic Screening of Crop Cultivar Diversity. Proteomes 2016; 4:proteomes4030026. [PMID: 28248236 PMCID: PMC5217352 DOI: 10.3390/proteomes4030026] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Revised: 09/01/2016] [Accepted: 09/03/2016] [Indexed: 12/11/2022] Open
Abstract
Modern day agriculture practice is narrowing the genetic diversity in our food supply. This may compromise the ability to obtain high yield under extreme climactic conditions, threatening food security for a rapidly growing world population. To identify genetic diversity, tolerance mechanisms of cultivars, landraces and wild relatives of major crops can be identified and ultimately exploited for yield improvement. Quantitative proteomics allows for the identification of proteins that may contribute to tolerance mechanisms by directly comparing protein abundance under stress conditions between genotypes differing in their stress responses. In this review, a summary is provided of the data accumulated from quantitative proteomic comparisons of crop genotypes/cultivars which present different stress tolerance responses when exposed to various abiotic stress conditions, including drought, salinity, high/low temperature, nutrient deficiency and UV-B irradiation. This field of research aims to identify molecular features that can be developed as biomarkers for crop improvement, however without accurate phenotyping, careful experimental design, statistical robustness and appropriate biomarker validation and verification it will be challenging to deliver what is promised.
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Affiliation(s)
- Bronwyn J Barkla
- Southern Cross Plant Sciences, Southern Cross University, Lismore 2481, NSW, Australia.
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Meng X, Zhao Q, Jin Y, Yu J, Yin Z, Chen S, Dai S. Chilling-responsive mechanisms in halophyte Puccinellia tenuiflora seedlings revealed from proteomics analysis. J Proteomics 2016; 143:365-381. [PMID: 27130536 DOI: 10.1016/j.jprot.2016.04.038] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2015] [Revised: 04/14/2016] [Accepted: 04/24/2016] [Indexed: 11/28/2022]
Abstract
Alkali grass (Puccinellia tenuiflora), a monocotyledonous perennial halophyte species, is a good pasture with great nutritional value for livestocks. It can thrive under low temperature in the saline-alkali soil of Songnen plain in northeastern China. In the present study, the chilling-responsive mechanism in P. tenuiflora leaves was investigated using physiological and proteomic approaches. After treatment of 10°C for 10 and 20days, photosynthesis, biomass, contents of osmolytes and antioxidants, and activities of reactive oxygen species scavenging enzymes were analyzed in leaves of 20-day-old seedlings. Besides, 89 chilling-responsive proteins were revealed from proteomic analysis. All the results highlighted that the growth of seedlings was inhibited due to chilling-decreased enzymes in photosynthesis, carbohydrate metabolism, and energy supplying. The accumulation of osmolytes (i.e., proline, soluble sugar, and glycine betaine) and enhancement of ascorbate-glutathione cycle and glutathione peroxidase/glutathione S-transferase pathway in leaves could minimize oxidative damage of membrane and other molecules under the chilling conditions. In addition, protein synthesis and turnover in cytoplasm and chloroplast were altered to cope with the chilling stress. This study provides valuable information for understanding the chilling-responsive and cross-tolerant mechanisms in monocotyledonous halophyte plant species.
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Affiliation(s)
- Xuejiao Meng
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China
| | - Qi Zhao
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China
| | - Yudan Jin
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China
| | - Juanjuan Yu
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China
| | - Zepeng Yin
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China
| | - Sixue Chen
- Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology Program, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
| | - Shaojun Dai
- Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China.
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Zhang W, Zhang H, Ning L, Li B, Bao M. Quantitative Proteomic Analysis Provides Novel Insights into Cold Stress Responses in Petunia Seedlings. FRONTIERS IN PLANT SCIENCE 2016; 7:136. [PMID: 26941746 PMCID: PMC4766708 DOI: 10.3389/fpls.2016.00136] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2015] [Accepted: 01/26/2016] [Indexed: 05/17/2023]
Abstract
Low temperature is a major adverse environmental factor that impairs petunia growth and development. To better understand the molecular mechanisms of cold stress adaptation of petunia plants, a quantitative proteomic analysis using iTRAQ technology was performed to detect the effects of cold stress on protein expression profiles in petunia seedlings which had been subjected to 2°C for 5 days. Of the 2430 proteins whose levels were quantitated, a total of 117 proteins were discovered to be differentially expressed under low temperature stress in comparison to unstressed controls. As an initial study, 44 proteins including well known and novel cold-responsive proteins were successfully annotated. By integrating the results of two independent Gene Ontology (GO) enrichment analyses, seven common GO terms were found of which "oxidation-reduction process" was the most notable for the cold-responsive proteins. By using the subcellular localization tool Plant-mPLoc predictor, as much as 40.2% of the cold-responsive protein group was found to be located within chloroplasts, suggesting that the chloroplast proteome is particularly affected by cold stress. Gene expression analyses of 11 cold-responsive proteins by real time PCR demonstrated that the mRNA levels were not strongly correlated with the respective protein levels. Further activity assay of anti-oxidative enzymes showed different alterations in cold treated petunia seedlings. Our investigation has highlighted the role of antioxidation mechanisms and also epigenetic factors in the regulation of cold stress responses. Our work has provided novel insights into the plant response to cold stress and should facilitate further studies regarding the molecular mechanisms which determine how plant cells cope with environmental perturbation. The data have been deposited to the ProteomeXchange with identifier PXD002189.
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Affiliation(s)
- Wei Zhang
- College of Life Science and Technology, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural UniversityWuhan, China
| | - Huilin Zhang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural UniversityWuhan, China
| | - Luyun Ning
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural UniversityWuhan, China
| | - Bei Li
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural UniversityWuhan, China
| | - Manzhu Bao
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural UniversityWuhan, China
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An F, Li G, Li QX, Li K, Carvalho LJCB, Ou W, Chen S. The Comparatively Proteomic Analysis in Response to Cold Stress in Cassava Plantlets. PLANT MOLECULAR BIOLOGY REPORTER 2016; 34:1095-1110. [PMID: 27881899 PMCID: PMC5099363 DOI: 10.1007/s11105-016-0987-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Cassava (Manihot esculenta Crantz) is a tropical root crop and sensitive to low temperature. However, it is poorly to know how cassava can modify its metabolism and growth to adapt to cold stress. An investigation aimed at a better understanding of cold-tolerant mechanism of cassava plantlets was carried out with the approaches of physiology and proteomics in the present study. The principal component analysis of seven physiological characteristics showed that electrolyte leakage (EL), chlorophyll content, and malondialdehyde (MDA) may be the most important physiological indexes for determining cold-resistant abilities of cassava. The genome-wide proteomic analysis showed that 20 differential proteins had the same patterns in the apical expanded leaves of cassava SC8 and Col1046. They were mainly related to photosynthesis, carbon metabolism and energy metabolism, defense, protein synthesis, amino acid metabolism, signal transduction, structure, detoxifying and antioxidant, chaperones, and DNA-binding proteins, in which 40 % were related with photosynthesis. The remarkable variation in photosynthetic activity and expression level of peroxiredoxin is closely linked with expression levels of proteomic profiles. Moreover, analysis of differentially expressed proteins under cold stress is an important step toward further elucidation of mechanisms of cold stress resistance.
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Affiliation(s)
- Feifei An
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Genghu Li
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Qing X. Li
- Department of Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, Manoa, HI USA
| | - Kaimian Li
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | | | - Wenjun Ou
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Songbi Chen
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
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Wagner MC, Campos-Bilderback SB, Chowdhury M, Flores B, Lai X, Myslinski J, Pandit S, Sandoval RM, Wean SE, Wei Y, Satlin LM, Wiggins RC, Witzmann FA, Molitoris BA. Proximal Tubules Have the Capacity to Regulate Uptake of Albumin. J Am Soc Nephrol 2015; 27:482-94. [PMID: 26054544 DOI: 10.1681/asn.2014111107] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2014] [Accepted: 05/04/2015] [Indexed: 12/26/2022] Open
Abstract
Evidence from multiple studies supports the concept that both glomerular filtration and proximal tubule (PT) reclamation affect urinary albumin excretion rate. To better understand these roles of glomerular filtration and PT uptake, we investigated these processes in two distinct animal models. In a rat model of acute exogenous albumin overload, we quantified glomerular sieving coefficients (GSC) and PT uptake of Texas Red-labeled rat serum albumin using two-photon intravital microscopy. No change in GSC was observed, but a significant decrease in PT albumin uptake was quantified. In a second model, loss of endogenous albumin was induced in rats by podocyte-specific transgenic expression of diphtheria toxin receptor. In these albumin-deficient rats, exposure to diphtheria toxin induced an increase in albumin GSC and albumin filtration, resulting in increased exposure of the PTs to endogenous albumin. In this case, PT albumin reabsorption was markedly increased. Analysis of known albumin receptors and assessment of cortical protein expression in the albumin overload model, conducted to identify potential proteins and pathways affected by acute protein overload, revealed changes in the expression levels of calreticulin, disabled homolog 2, NRF2, angiopoietin-2, and proteins involved in ATP synthesis. Taken together, these results suggest that a regulated PT cell albumin uptake system can respond rapidly to different physiologic conditions to minimize alterations in serum albumin level.
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Affiliation(s)
- Mark C Wagner
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Silvia B Campos-Bilderback
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Mahboob Chowdhury
- Department of Internal Medicine, University of Michigan, Ann Arbor, Michigan
| | - Brittany Flores
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Xianyin Lai
- Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana; and
| | - Jered Myslinski
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Sweekar Pandit
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Ruben M Sandoval
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Sarah E Wean
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana
| | - Yuan Wei
- Department of Pediatrics, The Icahn School of Medicine at Mount Sinai, New York
| | - Lisa M Satlin
- Department of Pediatrics, The Icahn School of Medicine at Mount Sinai, New York
| | - Roger C Wiggins
- Department of Internal Medicine, University of Michigan, Ann Arbor, Michigan
| | - Frank A Witzmann
- Department of Cellular and Integrative Physiology, Indiana University School of Medicine, Indianapolis, Indiana
| | - Bruce A Molitoris
- Indiana University School of Medicine, The Roudebush Veterans Affair Medical Center, Indiana Center for Biological Microscopy, Indianapolis, Indiana; Department of Cellular and Integrative Physiology, Indiana University School of Medicine, Indianapolis, Indiana
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37
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Yu X, Pijut PM, Byrne S, Asp T, Bai G, Jiang Y. Candidate gene association mapping for winter survival and spring regrowth in perennial ryegrass. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2015; 235:37-45. [PMID: 25900564 DOI: 10.1016/j.plantsci.2015.03.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2014] [Revised: 02/12/2015] [Accepted: 03/04/2015] [Indexed: 05/05/2023]
Abstract
Perennial ryegrass (Lolium perenne L.) is a widely cultivated cool-season grass species because of its high quality for forage and turf. Susceptibility to freezing damage limits its further use in temperate zones. The objective of this study was to identify candidate genes significantly associated with winter survival and spring regrowth in a global collection of 192 perennial ryegrass accessions. Significant differences in winter survival (WS), percentage of canopy green cover (CGC), chlorophyll index (Chl), and normalized difference vegetation index (NDVI) were found among accessions. After controlling population structure, LpLEA3 encoding a late embryogenesis abundant group 3 protein and LpCAT encoding a catalase were associated with CGC and Chl, while LpMnSOD encoding a magnesium superoxide dismutase and LpChl Cu-ZnSOD encoding a chlorophyll copper-zinc superoxide dismutase were associated with NDVI or Chl. Significant association was also discovered between C-repeat binding factor LpCBF1b and WS. Three sequence variations identified in LpCAT, LpMnSOD, and LpChl Cu-ZnSOD were synonymous substitutions, whereas one pair of adjacent single nucleotide polymorphisms (SNPs) in LpLEA3 and one SNP in LpCBF1b resulted in amino acid change. The results demonstrated that allelic variation in LpLEA3 and LpCBF1b was closely related to winter survival and spring regrowth in perennial ryegrass.
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Affiliation(s)
- Xiaoqing Yu
- Department of Agronomy, Iowa State University, Ames, IA 50011, USA
| | - Paula M Pijut
- USDA-Forest Service, Northern Research Station, Hardwood Tree Improvement and Regeneration Center, West Lafayette, IN 47907, USA
| | - Stephen Byrne
- Department of Molecular Biology and Genetics, Faculty of Science and Technology, Research Centre Flakkebjerg, Aarhus University, Forsøgsvej 1, Slagelse 4200, Denmark
| | - Torben Asp
- Department of Molecular Biology and Genetics, Faculty of Science and Technology, Research Centre Flakkebjerg, Aarhus University, Forsøgsvej 1, Slagelse 4200, Denmark
| | - Guihua Bai
- USDA-ARS Hard Winter Wheat Genetics Research Unit, Manhattan, KS 66506, USA
| | - Yiwei Jiang
- Department of Agronomy, Purdue University, West Lafayette, IN 47907-2054, USA.
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38
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Gu X, Chen Y, Gao Z, Qiao Y, Wang X. Transcription factors and anthocyanin genes related to low-temperature tolerance in rd29A:RdreB1BI transgenic strawberry. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2015; 89:31-43. [PMID: 25686702 DOI: 10.1016/j.plaphy.2015.02.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2014] [Accepted: 02/09/2015] [Indexed: 05/08/2023]
Abstract
Dehydration-responsive element-binding (DREB) transcription factors play critical roles in plant stress responses and signal transduction. To further understand how DREB regulates genes expression to promote cold-hardiness, Illumina/Solexa sequencing technology was used to compare the transcriptomes of non-transgenic and rd29A:RdreB1BI transgenic strawberry plants exposed to low temperatures. Approximately 3.5 million sequence tags were obtained from non-transgenic (NT) and transgenic (T) strawberry untreated (C) or low-temperature treated (LT) leaf samples. Over 1000 genes were differentially expressed between the NT-C and T-C plants, and also the NT-C and NT-LT, as well as the T-C and T-LT plants. Analysis of the genes up-regulated following low-temperature treatment revealed that the majority are linked to metabolism, biosynthesis, transcription and signal transduction. Uniquely up-regulated transcription factors as well as anthocyanin biosynthetic pathway genes are discussed. Accumulation of anthocyanin in the stolon and the base of the petiole differed between non-treated NT and T plants, and this correlated with gene expression patterns. The differentially expressed genes that encode transcription factors and anthocyanin enzymes may contribute to the cold hardiness of RdreB1BI transgenic strawberry. The transcriptome data provide a valuable resource for further studies of strawberry growth and development and DREB-mediated gene regulation under low-temperature stress.
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Affiliation(s)
- Xianbin Gu
- College of Horticulture, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China; College of Life Sciences, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China
| | - Yahua Chen
- College of Life Sciences, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China
| | - Zhihong Gao
- College of Horticulture, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China
| | - Yushan Qiao
- College of Horticulture, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China
| | - Xiuyun Wang
- College of Agro-grassland Science, Nanjing Agricultural University, No 1 Weigang, Nanjing 210095, People's Republic of China
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Li L, Luo Z, Huang X, Zhang L, Zhao P, Ma H, Li X, Ban Z, Liu X. Label-free quantitative proteomics to investigate strawberry fruit proteome changes under controlled atmosphere and low temperature storage. J Proteomics 2015; 120:44-57. [PMID: 25753123 DOI: 10.1016/j.jprot.2015.02.016] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2014] [Revised: 02/16/2015] [Accepted: 02/23/2015] [Indexed: 12/14/2022]
Abstract
UNLABELLED To elucidate the mechanisms contributing to fruit responses to senescence and stressful environmental stimuli under low temperature (LT) and controlled atmosphere (CA) storage, a label-free quantitative proteomic investigation was conducted in strawberry (Fragaria ananassa, Duch. cv. 'Akihime'). Postharvest physiological quality traits including firmness, total soluble solids, total acidity, ascorbic acid and volatile production were characterized following storage under different conditions. The observed post-storage protein expression profiles may be associated with delayed senescence features in strawberry. A total of 454 proteins were identified in differentially treated strawberry fruits. Quantitative analysis, using normalized spectral counts, revealed 73 proteins common to all treatments, which formed three clusters in a hierarchical clustering analysis. The proteins spanned a range of functions in various metabolic pathways and networks involved in carbohydrate and energy metabolism, volatile biosynthesis, phenylpropanoid activity, stress response and protein synthesis, degradation and folding. After CA and LT storage, 16 (13) and 11 (17) proteins, respectively, were significantly increased (decreased) in abundance, while expression profile of 12 proteins was significantly changed by both CA and LT. To summarize, the differential variability of abundance in strawberry proteome, working in a cooperative manner, provided an overview of the biological processes that occurred during CA and LT storage. BIOLOGICAL SIGNIFICANCE Controlled atmosphere storage at an optimal temperature is regarded to be an effective postharvest technology to delay fruit senescence and maintain fruit quality during shelf life. Nonetheless, little information on fruit proteomic changes under controlled atmosphere and/or low temperature storage is available. The significance of this paper is that it is the first study employing a label-free approach in the investigation of strawberry fruit response to controlled atmosphere and cold storage. Changes in postharvest physiological quality traits including volatile production, firmness, ascorbic acid, soluble solids and total acidity were also characterized. Significant biological changes associated with senescence were revealed and differentially abundant proteins under various storage conditions were identified. Proteomic profiles were linked to physiological aspects of strawberry fruit senescence in order to provide new insights into possible regulation mechanisms. Findings from this study not only provide proteomic information on fruit regulation, but also pave the way for further quantitative studies at the transcriptomic and metabolomic levels.
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Affiliation(s)
- Li Li
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Zisheng Luo
- Department of Food Science and Nutrition, Zhejiang University, Hangzhou, Zhejiang 310058, PR China
| | - Xinhong Huang
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Lu Zhang
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Pengyu Zhao
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Hongyuan Ma
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Xihong Li
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China.
| | - Zhaojun Ban
- Jinan Fruit Research Institute, All China Federation of Supply and Marketing Cooperatives, Jinan, Shandong 250014, PR China; College of Forestry and Horticulture, Xinjiang Agricultural University, Urumqi, Xinjiang 830052, PR China
| | - Xia Liu
- Key Laboratory of Food Nutrition and Safety (Ministry of Education), Tianjin University of Science and Technology, Tianjin 300457, PR China
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Chen J, Han G, Shang C, Li J, Zhang H, Liu F, Wang J, Liu H, Zhang Y. Proteomic analyses reveal differences in cold acclimation mechanisms in freezing-tolerant and freezing-sensitive cultivars of alfalfa. FRONTIERS IN PLANT SCIENCE 2015; 6:105. [PMID: 25774161 PMCID: PMC4343008 DOI: 10.3389/fpls.2015.00105] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2014] [Accepted: 02/09/2015] [Indexed: 05/11/2023]
Abstract
Cold acclimation in alfalfa (Medicago sativa L.) plays a crucial role in cold tolerance to harsh winters. To examine the cold acclimation mechanisms in freezing-tolerant alfalfa (ZD) and freezing-sensitive alfalfa (W5), holoproteins, and low-abundance proteins (after the removal of RuBisCO) from leaves were extracted to analyze differences at the protein level. A total of 84 spots were selected, and 67 spots were identified. Of these, the abundance of 49 spots and 24 spots in ZD and W5, respectively, were altered during adaptation to chilling stress. Proteomic results revealed that proteins involved in photosynthesis, protein metabolism, energy metabolism, stress and redox and other proteins were mobilized in adaptation to chilling stress. In ZD, a greater number of changes were observed in proteins, and autologous metabolism and biosynthesis were slowed in response to chilling stress, thereby reducing consumption, allowing for homeostasis. The capability for protein folding and protein biosynthesis in W5 was enhanced, which allows protection against chilling stress. The ability to perceive low temperatures was more sensitive in freezing-tolerant alfalfa compared to freezing-sensitive alfalfa. This proteomics study provides new insights into the cold acclimation mechanism in alfalfa.
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Affiliation(s)
- Jing Chen
- College of Life Sciences and Technology, Harbin Normal UniversityHarbin, China
| | - Guiqing Han
- College of Life Sciences and Technology, Harbin Normal UniversityHarbin, China
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Chen Shang
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Jikai Li
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Hailing Zhang
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Fengqi Liu
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Jianli Wang
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Huiying Liu
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
| | - Yuexue Zhang
- Institute of Grass Research, Heilongjiang Academy of Agricultural SciencesHarbin, China
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Blanch M, Rosales R, Mateos R, Perez-Gago MB, Sanchez-Ballesta MT, Escribano MI, Merodio C. Effects of high CO₂ levels on fermentation, peroxidation, and cellular water stress in Fragaria vesca stored at low temperature in conditions of unlimited O₂. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2015; 63:761-768. [PMID: 25568930 DOI: 10.1021/jf505715s] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
To better understand the tolerance of strawberries (Fragaria vesca L.) to high CO2 in storage atmospheres, fermentation and cellular damage were investigated. Fruits were stored for 3 and 6 days at 0 °C in the presence of different CO2 levels (0, 20, or 40%) with 20% O2. Changes in pyruvate decarboxylase (PDC) and alcohol dehydrogenase (ADH) gene expression and in fermentative metabolites, as well as in bound water and malondialdehyde (MDA) concentrations, were analyzed. In strawberries stored without added CO2, up-regulation of PDC and ADH was not associated with an increase in fermentative metabolites. By contrast, moderate ethanol fermentation in fruits exposed to 20% CO2 seems to be essential to maintain fruit metabolism, reducing both lipid peroxidation and cellular water stress. However, if the CO2 concentration increases (40%), the excess acetaldehyde and ethanol produced were closely correlated with a decrease in bound water and production of MDA.
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Affiliation(s)
- Maria Blanch
- Department of Characterization, Quality and Security and ‡Department of Metabolism and Nutrition, Institute of Food Science Technology and Nutrition (ICTAN-CSIC) , Madrid, Spain
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Koehler G, Rohloff J, Wilson RC, Kopka J, Erban A, Winge P, Bones AM, Davik J, Alsheikh MK, Randall SK. Integrative "omic" analysis reveals distinctive cold responses in leaves and roots of strawberry, Fragaria × ananassa 'Korona'. FRONTIERS IN PLANT SCIENCE 2015; 6:826. [PMID: 26528299 PMCID: PMC4606020 DOI: 10.3389/fpls.2015.00826] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Accepted: 09/22/2015] [Indexed: 05/18/2023]
Abstract
To assess underlying metabolic processes and regulatory mechanisms during cold exposure of strawberry, integrative "omic" approaches were applied to Fragaria × ananassa Duch. 'Korona.' Both root and leaf tissues were examined for responses to the cold acclimation processes. Levels of metabolites, proteins, and transcripts in tissues from plants grown at 18°C were compared to those following 1-10 days of cold (2°C) exposure. When leaves and roots were subjected to GC/TOF-MS-based metabolite profiling, about 160 compounds comprising mostly structurally annotated primary and secondary metabolites, were found. Overall, 'Korona' showed a modest increase of protective metabolites such as amino acids (aspartic acid, leucine, isoleucine, and valine), pentoses, phosphorylated and non-phosphorylated hexoses, and distinct compounds of the raffinose pathway (galactinol and raffinose). Distinctive responses were observed in roots and leaves. By 2DE proteomics a total of 845 spots were observed in leaves; 4.6% changed significantly in response to cold. Twenty-one proteins were identified, many of which were associated with general metabolism or photosynthesis. Transcript levels in leaves were determined by microarray, where dozens of cold associated transcripts were quantitatively characterized, and levels of several potential key contributors (e.g., the dehydrin COR47 and GADb) to cold tolerance were confirmed by qRT-PCR. Cold responses are placed within the existing knowledge base of low temperature-induced changes in plants, allowing an evaluation of the uniqueness or generality of Fragaria responses in photosynthetic tissues. Overall, the cold response characteristics of 'Korona' are consistent with a moderately cold tolerant plant.
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Affiliation(s)
- Gage Koehler
- Department of Biology, Indiana University–Purdue University Indianapolis, IndianapolisIN, USA
| | - Jens Rohloff
- Department of Biology, Norwegian University of Science and TechnologyTrondheim, Norway
| | - Robert C. Wilson
- Department of Natural Sciences and Technology, Hedmark University CollegeHamar, Norway
| | - Joachim Kopka
- Max Planck Institute of Molecular Plant PhysiologyPotsdam, Germany
| | - Alexander Erban
- Max Planck Institute of Molecular Plant PhysiologyPotsdam, Germany
| | - Per Winge
- Department of Biology, Norwegian University of Science and TechnologyTrondheim, Norway
| | - Atle M. Bones
- Department of Biology, Norwegian University of Science and TechnologyTrondheim, Norway
| | - Jahn Davik
- Bioforsk, Norwegian Institute for Agricultural and Environmental Research – Grassland and Landscape DivisionKvithamar, Norway
| | - Muath K. Alsheikh
- Graminor Breeding Ltd.Ridabu, Norway
- Department of Plant Sciences, Norwegian University of Life SciencesÅs, Norway
| | - Stephen K. Randall
- Department of Biology, Indiana University–Purdue University Indianapolis, IndianapolisIN, USA
- *Correspondence: Stephen K. Randall, Department of Biology, Indiana University–Purdue University Indianapolis, 723 West Michigan Street, Indianapolis, IN 46202-5132, USA,
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Li B, Ning L, Zhang J, Bao M, Zhang W. Transcriptional profiling of Petunia seedlings reveals candidate regulators of the cold stress response. FRONTIERS IN PLANT SCIENCE 2015; 6:118. [PMID: 25784921 PMCID: PMC4345802 DOI: 10.3389/fpls.2015.00118] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2014] [Accepted: 02/12/2015] [Indexed: 05/05/2023]
Abstract
Petunias are important ornamentals with the capacity for cold acclimation. So far, there is limited information concerning gene regulation and signaling pathways associated with the cold stress response in petunias. A custom-designed petunia microarray representing 24816 genes was used to perform transcriptome profiling in petunia seedlings subjected to cold at 2°C for 0.5 h, 2 h, 24 h, and 5 d. A total of 2071 transcripts displayed differential expression patterns under cold stress, of which 1149 were up-regulated and 922 were down-regulated. Gene ontology enrichment analysis demarcated related biological processes, suggesting a possible link between flavonoid metabolism and plant adaptation to low temperatures. Many novel stress-responsive regulators were revealed, suggesting that diverse regulatory pathways may exist in petunias in addition to the well-characterized CBF pathway. The expression changes of selected genes under cold and other abiotic stress conditions were confirmed by real-time RT-PCR. Furthermore, weighted gene co-expression network analysis divided the petunia genes on the array into 65 modules that showed high co-expression and identified stress-specific hub genes with high connectivity. Our identification of these transcriptional responses and groups of differentially expressed regulators will facilitate the functional dissection of the molecular mechanism in petunias responding to environment stresses and extend our ability to improve cold tolerance in plants.
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Affiliation(s)
| | | | | | | | - Wei Zhang
- *Correspondence: Wei Zhang, Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, No.1, Shizishan Street, Hongshan District, Wuhan 430070 Hubei, China e-mail:
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Han H, Sun X, Xie Y, Feng J, Zhang S. Transcriptome and proteome profiling of adventitious root development in hybrid larch (Larix kaempferi × Larix olgensis). BMC PLANT BIOLOGY 2014; 14:305. [PMID: 25425065 PMCID: PMC4253636 DOI: 10.1186/s12870-014-0305-4] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2014] [Accepted: 10/27/2014] [Indexed: 05/12/2023]
Abstract
BACKGROUND Hybrids of larch (Larix kaempferi × Larix olgensis) are important afforestation species in northeastern China. They are routinely propagated via rooted stem cuttings. Despite the importance of rooting, little is known about the regulation of adventitious root development in larch hybrids. 454 GS FLX Titanium technology represents a new method for characterizing the transcriptomes of non-model species. This method can be used to identify differentially expressed genes, and then two-dimensional difference gel electrophoresis (2D-DIGE) and matrix-assisted laser desorption-ionization time-of-flight mass spectrometry (MALDI-TOF/TOF MS) analyses can be used to analyze their corresponding proteins. In this study, we analyzed semi-lignified cuttings of two clones of L. kaempferi × L. olgensis with different rooting capacities to study the molecular basis of adventitious root development. RESULTS We analyzed two clones; clone 25-5, with strong rooting capacity, and clone 23-12, with weak rooting capacity. We constructed four cDNA libraries from 25-5 and 23-12 at two development stages. Sequencing was conducted using the 454 pyrosequencing platform. A total of 957832 raw reads was produced; 95.07% were high-quality reads, and were assembled into 45137 contigs and 61647 singletons. The functions of the unigenes, as indicated by their Gene Ontology annotation, included diverse roles in the molecular functions, biological processes, and cellular component categories. We analyzed 75 protein spots (-fold change ≥ 2, P ≤ 0.05) by 2D-DIGE, and identified the differentially expressed proteins using MALDI-TOF/TOF MS. A joint analysis of transcriptome and proteome showed genes related to two pathways, polyamine synthesis and stress response, might play an important role on adventitious root development. CONCLUSIONS These results provide fundamental and important information for research on the molecular mechanism of adventitious root development. We also demonstrated for the first time the combined use of two important technologies as a powerful approach to advance research on non-model, but otherwise important, larch species.
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Affiliation(s)
- Hua Han
- />State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
| | - Xiaomei Sun
- />State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
- />Research Institute of Forestry, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
| | - Yunhui Xie
- />Research Institute of Forestry, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
| | - Jian Feng
- />Forestry Biotechnology and Analysis Test Center, Liaoning Academy of Forestry Sciences, Chongshan Rd, Liaoning, 110032 P. R. China
| | - Shougong Zhang
- />State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
- />Research Institute of Forestry, Chinese Academy of Forestry, Xiangshan Rd, Beijing, 100091 P. R. China
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Liston A, Cronn R, Ashman TL. Fragaria: a genus with deep historical roots and ripe for evolutionary and ecological insights. AMERICAN JOURNAL OF BOTANY 2014; 101:1686-99. [PMID: 25326614 DOI: 10.3732/ajb.1400140] [Citation(s) in RCA: 81] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
The cultivated strawberry, Fragaria ×ananassa, is one of the youngest domesticated plants. Its 18th century origin via hybridization in Europe between the North American F. virginiana and the South American F. chiloensis was documented by the botanist Antoine Nicolas Duchesne. His 1766 "Natural History of Strawberries" is an extraordinary work that integrates fundamental discoveries on the biology, ecology, and phylogeny of Fragaria with applied information on cultivation and ethnobotanical uses, serving as an inspiration for current research in the genus. Fragaria species exhibit the full range of sexual systems in the gynodioecy pathway from hermaphroditism to dioecy (and back again), as well as variation in self-compatibility, and evidence of sex chromosomes with female heterogamety. The genus is also characterized by interspecific hybridization and polyploidy, with a natural range of ploidy levels from diploids to decaploids. This biological diversity, combined with the availability of genomic resources and the ease of growing and experimenting with the plants, makes Fragaria a very attractive system for ecological and evolutionary genomics. The goal of this review is to introduce Fragaria as a model genus and to provide a roadmap for future integrative research. These research directions will deepen our understanding of the ecological and evolutionary context that shaped the ancestors of the cultivated strawberry, not only providing information that can be applied to efforts to shape the future of this important fruit crop but also our understanding of key transitions in plant evolution.
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Affiliation(s)
- Aaron Liston
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon 97331 USA
| | - Richard Cronn
- Pacific Northwest Research Station, USDA Forest Service, Corvallis, Oregon 97331 USA
| | - Tia-Lynn Ashman
- Department of Biological Sciences, University of Pittsburgh, Pittsburgh, Pennsylvania 15260 USA
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Zeng C, Chen Z, Xia J, Zhang K, Chen X, Zhou Y, Bo W, Song S, Deng D, Guo X, Wang B, Zhou J, Peng H, Wang W, Peng M, Zhang W. Chilling acclimation provides immunity to stress by altering regulatory networks and inducing genes with protective functions in cassava. BMC PLANT BIOLOGY 2014; 14:207. [PMID: 25090992 PMCID: PMC4236759 DOI: 10.1186/s12870-014-0207-5] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2014] [Accepted: 07/22/2014] [Indexed: 05/23/2023]
Abstract
BACKGROUND Stress acclimation is an effective mechanism that plants acquired for adaption to dynamic environment. Even though generally considered to be sensitive to low temperature, Cassava, a major tropical crop, can be tolerant to much lower temperature after chilling acclimation. Improvement to chilling resistance could be beneficial to breeding. However, the underlying mechanism and the effects of chilling acclimation on chilling tolerance remain largely unexplored. RESULTS In order to understand the mechanism of chilling acclimation, we profiled and analyzed the transcriptome and microRNAome of Cassava, using high-throughput deep sequencing, across the normal condition, a moderate chilling stress (14°C), a harsh stress (4°C) after chilling acclimation (14°C), and a chilling shock from 24°C to 4°C. The results revealed that moderate stress and chilling shock triggered comparable degrees of transcriptional perturbation, and more importantly, about two thirds of differentially expressed genes reversed their expression from up-regulation to down-regulation or vice versa in response to hash stress after experiencing moderate stress. In addition, microRNAs played important roles in the process of this massive genetic circuitry rewiring. Furthermore, function analysis revealed that chilling acclimation helped the plant develop immunity to further harsh stress by exclusively inducing genes with function for nutrient reservation therefore providing protection, whereas chilling shock induced genes with function for viral reproduction therefore causing damage. CONCLUSIONS Our study revealed, for the first time, the molecular basis of chilling acclimation, and showed potential regulation role of microRNA in chilling response and acclimation in Euphorbia.
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Affiliation(s)
- Changying Zeng
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Zheng Chen
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
- Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, 63130, MO, USA
| | - Jing Xia
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
- Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, 63130, MO, USA
| | - Kevin Zhang
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
- Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, 63130, MO, USA
| | - Xin Chen
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Yufei Zhou
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Weiping Bo
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Shun Song
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Deli Deng
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Xin Guo
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Bin Wang
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Junfei Zhou
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
| | - Hai Peng
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
| | - Wenquan Wang
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Ming Peng
- The Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Weixiong Zhang
- Institute for Systems Biology, Jianghan University, Wuhan, 430056, Hubei, China
- Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, 63130, MO, USA
- Department of Genetics, Washington University School of Medicine, St. Louis, 63110, MO, USA
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Molassiotis A, Tanou G, Filippou P, Fotopoulos V. Proteomics in the fruit tree science arena: new insights into fruit defense, development, and ripening. Proteomics 2014; 13:1871-84. [PMID: 23986917 DOI: 10.1002/pmic.201200428] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Fruit tree crops are agricultural commodities of high economic importance, while fruits also represent one of the most vital components of the human diet. Therefore, a great effort has been made to understand the molecular mechanisms covering fundamental biological processes in fruit tree physiology and fruit biology. Thanks to the development of cutting-edge "omics" technologies such as proteomic analysis, scientists now have powerful tools to support traditional fruit tree research. Such proteomic analyses are establishing high-density 2DE reference maps and peptide mass fingerprint databases that can lead fruit science into a new postgenomic research era. Here, an overview of the application of proteomics in key aspects of fruit tree physiology as well as in fruit biology, including defense responses to abiotic and biotic stress factors, is presented. A panoramic view of ripening-related proteins is also discussed, as an example of proteomic application in fruit science.
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Isshiki R, Galis I, Tanakamaru S. Farinose flavonoids are associated with high freezing tolerance in fairy primrose (Primula malacoides) plants. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2014; 56:181-8. [PMID: 24325406 DOI: 10.1111/jipb.12145] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Accepted: 12/02/2013] [Indexed: 05/05/2023]
Abstract
The deposition of surface (farinose) flavonoids on aerial parts of some Primula species is a well-documented but poorly understood phenomenon. Here, we show that flavonoid deposition on the leaves and winter buds may contribute strongly to preventing freezing damage in these plants. The ice nucleation temperature of fairy primrose (Primula malacoides) leaves covered with natural flavone was approximately 6 °C lower compared to those that had their flavone artificially removed. Additionally, farinose flavonoids on the leaves reduced subsequent electrolyte leakage (EL) from the cells exposed to freezing temperatures. Interestingly, exogenous application of flavone at 4 mg/g fresh weight to P. malacoides leaves, which had the original flavone mechanically removed, restored freezing tolerance, and diminished EL from the cells to pretreatment values. Our results suggest that farinose flavonoids may function as mediators of freezing tolerance in P. malacoides, and exogenous application of flavone could be used to reduce freezing damage during sudden but predictable frost events in other plant species.
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Affiliation(s)
- Ryutaro Isshiki
- Institute of Plant Science and Resources, Okayama University, Kurashiki, 710-0046, Japan
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Li P, Lai X, Witzmann FA, Blazer-Yost BL. Bioinformatic Analysis of Differential Protein Expression in Calu-3 Cells Exposed to Carbon Nanotubes. Proteomes 2013; 1:219-239. [PMID: 25177543 PMCID: PMC4148817 DOI: 10.3390/proteomes1030219] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Carbon nanomaterials are widely produced and used in industry, medicine and scientific research. To examine the impact of exposure to nanoparticles on human health, the human airway epithelial cell line, Calu-3, was used to evaluate changes in the cellular proteome that could account for alterations in cellular function of airway epithelia after 24 hexposure to 10 μg/mL and 100 ng/mLof two common carbon nanoparticles, single- and multi-wall carbon nanotubes (SWCNT, MWCNT). After exposure to the nanoparticles, label-free quantitative mass spectrometry (LFQMS) was used to study the differential protein expression. Ingenuity Pathway Analysis (IPA) was used to conduct a bioinformaticanalysis of proteins identified in LFQMS. Interestingly, after exposure to ahigh concentration (10 μg/mL; 0.4 μg/cm2) of MWCNT or SWCNT, only 8 and 13 proteins, respectively, exhibited changes in abundance. In contrast, the abundance of hundreds of proteins was altered in response to a low concentration (100 ng/mL; 4 ng/cm2) of either CNT. Of the 281 and 282 proteins that were significantly altered in response to MWCNT or SWCNT respectively, 231 proteins were the same. Bioinformatic analyses found that the proteins in common to both nanotubes occurred within the cellular functions of cell death and survival, cell-to-cell signaling and interaction, cellular assembly and organization, cellular growth and proliferation, infectious disease, molecular transport and protein synthesis. The majority of the protein changes represent a decrease in amount suggesting a general stress response to protect cells. The STRING database was used to analyze the various functional protein networks. Interestingly, some proteins like cadherin 1 (CDH1), signal transducer and activator of transcription 1 (STAT1), junction plakoglobin (JUP), and apoptosis-associated speck-like protein containing a CARD (PYCARD), appear in several functional categories and tend to be in the center of the networks. This central positioning suggests they may play important roles in multiple cellular functions and activities that are altered in response to carbon nanotube exposure.
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Affiliation(s)
- Pin Li
- Department of Biology, Indiana University Purdue University, 723 West Michigan Street, Indianapolis, IN 46202, USA; E-Mail:
| | - Xianyin Lai
- Department of Cellular and Integrative Physiology, Indiana University School of Medicine, 1345 West 16th Street, Indianapolis, IN 46202, USA; E-Mails: (X.L.); (F.A.W.)
| | - Frank A. Witzmann
- Department of Cellular and Integrative Physiology, Indiana University School of Medicine, 1345 West 16th Street, Indianapolis, IN 46202, USA; E-Mails: (X.L.); (F.A.W.)
| | - Bonnie L. Blazer-Yost
- Department of Biology, Indiana University Purdue University, 723 West Michigan Street, Indianapolis, IN 46202, USA; E-Mail:
- Department of Cellular and Integrative Physiology, Indiana University School of Medicine, 1345 West 16th Street, Indianapolis, IN 46202, USA; E-Mails: (X.L.); (F.A.W.)
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +1-317-278-1145; Fax: +1-317-274-2846
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Li MW, Qi X, Ni M, Lam HM. Silicon era of carbon-based life: application of genomics and bioinformatics in crop stress research. Int J Mol Sci 2013; 14:11444-83. [PMID: 23759993 PMCID: PMC3709742 DOI: 10.3390/ijms140611444] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2013] [Revised: 05/07/2013] [Accepted: 05/17/2013] [Indexed: 01/25/2023] Open
Abstract
Abiotic and biotic stresses lead to massive reprogramming of different life processes and are the major limiting factors hampering crop productivity. Omics-based research platforms allow for a holistic and comprehensive survey on crop stress responses and hence may bring forth better crop improvement strategies. Since high-throughput approaches generate considerable amounts of data, bioinformatics tools will play an essential role in storing, retrieving, sharing, processing, and analyzing them. Genomic and functional genomic studies in crops still lag far behind similar studies in humans and other animals. In this review, we summarize some useful genomics and bioinformatics resources available to crop scientists. In addition, we also discuss the major challenges and advancements in the "-omics" studies, with an emphasis on their possible impacts on crop stress research and crop improvement.
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Affiliation(s)
- Man-Wah Li
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Xinpeng Qi
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Meng Ni
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Hon-Ming Lam
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
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