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Ladwig LM, Henn JJ, Stahlheber KA, Meiners SJ. Germination response to winter temperature changes with seed shape and length of temperature exposure. Ecology 2024; 105:e4361. [PMID: 39009507 DOI: 10.1002/ecy.4361] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Revised: 12/12/2023] [Accepted: 02/09/2024] [Indexed: 07/17/2024]
Abstract
In many regions, the climate is changing faster during winter than during the other seasons, and a loss of snow cover combined with increased temperature variability can expose overwintering organisms to harmful conditions. Understanding how species respond to these changes during critical developmental times, such as seed germination, helps us assess the ecological implications of winter climate change. To address this concern, we measured the breaking of seed dormancy and cold tolerance of temperate grassland species in the lab and field. In the lab, we ran germination trials testing the tolerance of 17 species to an extreme cold event. In the field, we deployed seeds of two species within a snow manipulation experiment at three locations and measured germination success biweekly from seeds subjected to ambient and reduced snow cover from winter into spring. From lab trials, cold tolerance varied among species, with seed germination decreasing <10%-100% following extreme cold events. Cold tolerance was related to seed traits, specifically less round seeds, seeds that required cold stratification, and seeds that mature later in the season tended to be more impacted by extreme cold temperatures. This variation in seed cold tolerance may contribute to altered community composition with continued winter climate change. In the field, germination increased through late winter, coinciding with the accumulation of days where temperatures were favorable for cold stratification. Through spring, germination success decreased as warm temperatures accumulated. Collectively, species-specific seed cold tolerances and mortality rates may contribute to compositional changes in grasslands under continued winter climate change.
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Affiliation(s)
- Laura M Ladwig
- Biology Department, University of Wisconsin Oshkosh, Oshkosh, Wisconsin, USA
| | - Jonathan J Henn
- Institute for Arctic and Alpine Research, University of Colorado - Boulder, Boulder, Colorado, USA
- Department of Ecology, Evolution, and Organismal Biology, University of California Riverside, Riverside, California, USA
| | - Karen A Stahlheber
- Natural and Applied Sciences, University of Wisconsin Green Bay, Green Bay, Wisconsin, USA
| | - Scott J Meiners
- Department of Biological Science, Eastern Illinois University, Charleston, Illinois, USA
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2
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Zhang L, Yang H, Zheng M, Zhou G, Yang Y, Liu S. Physiological and transcriptomic analyses reveal the regulatory mechanisms of Anoectochilus roxburghii in response to high-temperature stress. BMC PLANT BIOLOGY 2024; 24:584. [PMID: 38898387 PMCID: PMC11188188 DOI: 10.1186/s12870-024-05088-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2024] [Accepted: 04/30/2024] [Indexed: 06/21/2024]
Abstract
BACKGROUND High temperatures significantly affect the growth, development, and yield of plants. Anoectochilus roxburghii prefers a cool and humid environment, intolerant of high temperatures. It is necessary to enhance the heat tolerance of A. roxburghii and breed heat-tolerant varieties. Therefore, we studied the physiological indexes and transcriptome of A. roxburghii under different times of high-temperature stress treatments. RESULTS Under high-temperature stress, proline (Pro), H2O2 content increased, then decreased, then increased again, catalase (CAT) activity increased continuously, peroxidase (POD) activity decreased rapidly, then increased, then decreased again, superoxide dismutase (SOD) activity, malondialdehyde (MDA), and soluble sugars (SS) content all decreased, then increased, and chlorophyll and soluble proteins (SP) content increased, then decreased. Transcriptomic investigation indicated that a total of 2740 DEGs were identified and numerous DEGs were notably enriched for "Plant-pathogen interaction" and "Plant hormone signal transduction". We identified a total of 32 genes in these two pathways that may be the key genes for resistance to high-temperature stress in A. roxburghii. CONCLUSIONS To sum up, the results of this study provide a reference for the molecular regulation of A. roxburghii's tolerance to high temperatures, which is useful for further cultivation of high-temperature-tolerant A. roxburghii varieties.
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Affiliation(s)
- Linghui Zhang
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, Guangzhou, 510642, China
- Guangdong Province Research Center of Woody Forage Engineering Technology, Guangzhou, 510642, China
- College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, China
| | - Heyue Yang
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, Guangzhou, 510642, China
- Guangdong Province Research Center of Woody Forage Engineering Technology, Guangzhou, 510642, China
- College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, China
| | - Mengxia Zheng
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, Guangzhou, 510642, China
- Guangdong Province Research Center of Woody Forage Engineering Technology, Guangzhou, 510642, China
- College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, China
| | - Guo Zhou
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, Guangzhou, 510642, China
- Guangdong Province Research Center of Woody Forage Engineering Technology, Guangzhou, 510642, China
- College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, China
| | - Yuesheng Yang
- Southern Medicine Research Institute of Yunfu, Yunfu, China.
| | - Siwen Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China.
- Heny Fok School of Biology and Agriculture, ShaoGuan University, Shaoguan, 512005, China.
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3
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Tian X, Li J, Chen S. Key anti-freeze genes and pathways of Lanzhou lily (Lilium davidii, var. unicolor) during the seedling stage. PLoS One 2024; 19:e0299259. [PMID: 38512835 PMCID: PMC10956819 DOI: 10.1371/journal.pone.0299259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2023] [Accepted: 02/07/2024] [Indexed: 03/23/2024] Open
Abstract
Temperature is one of the most important environmental factors for plant growth, as low-temperature freezing damage seriously affects the yield and distribution of plants. The Lanzhou lily (Lilium davidii, var. unicolor) is a famous ornamental plant with high ornamental value. Using an Illumina HiSeq transcriptome sequencing platform, sequencing was conducted on Lanzhou lilies exposed to two different temperature conditions: a normal temperature treatment at 20°C (A) and a cold treatment at -4°C (C). After being treated for 24 hours, a total of 5848 differentially expressed genes (DEGs) were identified, including 3478 significantly up regulated genes and 2370 significantly down regulated genes, accounting for 10.27% of the total number of DEGs. Quantitative real-time PCR (QRT-PCR) analysis showed that the expression trends of 10 randomly selected DEGs coincided with the results of high-throughput sequencing. In addition, genes responding to low-temperature stress were analyzed using the interaction regulatory network method. The anti-freeze pathway of Lanzhou lily was found to involve the photosynthetic and metabolic pathways, and the key freezing resistance genes were the OLEO3 gene, 9 CBF family genes, and C2H2 transcription factor c117817_g1 (ZFP). This lays the foundation for revealing the underlying mechanism of the molecular anti-freeze mechanism in Lanzhou lily.
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Affiliation(s)
- Xuehui Tian
- Department of Ecological Environment and Engineering, Yangling Vocational and Technical College, Shaanxi, Yangling, China
| | - Jianning Li
- Gansu Provincial Transportation Planning Survey and Design Institute Limited Liability Company, Lanzhou, Gansu Province, China
| | - Sihui Chen
- Department of Ecological Environment and Engineering, Yangling Vocational and Technical College, Shaanxi, Yangling, China
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Liu S, Xiong Z, Zhang Z, Wei Y, Xiong D, Wang F, Huang J. Exploration of chlorophyll fluorescence characteristics gene regulatory in rice ( Oryza sativa L.): a genome-wide association study. FRONTIERS IN PLANT SCIENCE 2023; 14:1234866. [PMID: 37746023 PMCID: PMC10513790 DOI: 10.3389/fpls.2023.1234866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Accepted: 08/21/2023] [Indexed: 09/26/2023]
Abstract
Chlorophyll content and fluorescence parameters are crucial indicators to evaluate the light use efficiency in rice; however, the correlations among these parameters and the underlying genetic mechanisms remain poorly understood. Here, to clarify these issues, we conducted a genome-wide association study (GWAS) on 225 rice accessions. In the phenotypic and Mendelian randomization (MR) analysis, a weak negative correlation was observed between the chlorophyll content and actual quantum yield of photosystem II (Φ I I ). The phenotypic diversity observed in SPAD, N P Q t , Φ N P Q , and F v / F m among accessions was affected by genetic background. Furthermore, the GWAS identified 78 SNPs and 17 candidate genes significantly associated with SPAD, N P Q t , Φ I I , Φ N P Q , q L and q P . Combining GWAS on 225 rice accessions with transcriptome analysis of two varieties exhibiting distinct fluorescence characteristics revealed two potential candidate genes (Os03g0583000 from Φ I I & q P traits and Os06g0587200 from N P Q t trait), which are respectively associated with peroxisomes, and protein kinase catalytic domains might involve in regulating the chlorophyll content and chlorophyll fluorescence. This study provides novel insights into the correlation among chlorophyll content and fluorescence parameters and the genetic mechanisms in rice, and offers valuable information for the breeding of rice with enhanced photosynthetic efficiency.
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Affiliation(s)
- Sicheng Liu
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Zhuang Xiong
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Zuolin Zhang
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Wuhan, China
| | - Youbo Wei
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Dongliang Xiong
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Fei Wang
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Jianliang Huang
- Ministry of Agriculture Key Laboratory of Crop Ecophysiology and Farming System in the Middle Reaches of the Yangtze River, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China
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Moustaka J, Moustakas M. Early-Stage Detection of Biotic and Abiotic Stress on Plants by Chlorophyll Fluorescence Imaging Analysis. BIOSENSORS 2023; 13:796. [PMID: 37622882 PMCID: PMC10452221 DOI: 10.3390/bios13080796] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Revised: 07/30/2023] [Accepted: 08/04/2023] [Indexed: 08/26/2023]
Abstract
Most agricultural land, as a result of climate change, experiences severe stress that significantly reduces agricultural yields. Crop sensing by imaging techniques allows early-stage detection of biotic or abiotic stress to avoid damage and significant yield losses. Among the top certified imaging techniques for plant stress detection is chlorophyll a fluorescence imaging, which can evaluate spatiotemporal leaf changes, permitting the pre-symptomatic monitoring of plant physiological status long before any visible symptoms develop, allowing for high-throughput assessment. Here, we review different examples of how chlorophyll a fluorescence imaging analysis can be used to evaluate biotic and abiotic stress. Chlorophyll a is able to detect biotic stress as early as 15 min after Spodoptera exigua feeding, or 30 min after Botrytis cinerea application on tomato plants, or on the onset of water-deficit stress, and thus has potential for early stress detection. Chlorophyll fluorescence (ChlF) analysis is a rapid, non-invasive, easy to perform, low-cost, and highly sensitive method that can estimate photosynthetic performance and detect the influence of diverse stresses on plants. In terms of ChlF parameters, the fraction of open photosystem II (PSII) reaction centers (qp) can be used for early stress detection, since it has been found in many recent studies to be the most accurate and appropriate indicator for ChlF-based screening of the impact of environmental stress on plants.
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Affiliation(s)
| | - Michael Moustakas
- Department of Botany, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece;
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6
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Xue Y, Wu F, Chen R, Wang X, Tseke Inkabanga A, Huang L, Qin S, Zhang M, Chai Y. Genome-wide analysis of fatty acid desaturase genes in chia (Salvia hispanica) reveals their crucial roles in cold response and seed oil formation. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 199:107737. [PMID: 37163804 DOI: 10.1016/j.plaphy.2023.107737] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Revised: 04/17/2023] [Accepted: 04/29/2023] [Indexed: 05/12/2023]
Abstract
Chia (Salvia hispanica) is a functional food crop with high α-linolenic acid (ALA), the omega-3 essential fatty acid, but its worldwide plantation is limited by cold-intolerance and strict short-photoperiod flowering feature. Fatty acid desaturases (FADs) are responsible for seed oil accumulation, and play important roles in cold stress tolerance of plants. To date, there is no report on systemically genome-wide analysis of FAD genes in chia (ShiFADs). In this study, 31 ShiFAD genes were identified, 3 of which contained 2 alternative splicing transcripts, and they were located in 6 chromosomes of chia. Phylogenetic analysis classified the ShiFAD proteins into 7 groups, with conserved gene structure and MEME motifs within each group. Tandem and segmental duplications coursed the expansion of ShiFAD genes. Numerous cis-regulatory elements, including hormone response elements, growth and development elements, biotic/abiotic stress response elements, and transcription factor binding sites, were predicted in ShiFAD promoters. 24 miRNAs targeting ShiFAD genes were identified at whole-genome level. In total, 15 SSR loci were predicted in ShiFAD genes/promoters. RNA-seq data showed that ShiFAD genes were expressed in various organs with different levels. qRT-PCR detection revealed the inducibility of ShiSAD2 and ShiSAD7 in response to cold stress, and validated the seed-specific expression of ShiSAD11a. Yeast expression of ShiSAD11a confirmed the catalytic activity of its encoded protein, and its heterologous expression in Arabidopsis thaliana significantly increased seed oleic acid content. This work lays a foundation for molecular dissection of chia high-ALA trait and functional study of ShiFAD genes in cold tolerance.
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Affiliation(s)
- Yufei Xue
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Fangzhou Wu
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Ruochen Chen
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Xiaoyang Wang
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Alain Tseke Inkabanga
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China; Faculté des Sciences Agronomiques, Université Pédagogique Nationale (UPN), Kinshasa, Congo
| | - Li Huang
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Shujun Qin
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Min Zhang
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China
| | - Yourong Chai
- Chongqing Engineering Research Center for Rapeseed, Chongqing Key Laboratory of Crop Quality Improvement, College of Agronomy and Biotechnology, Southwest University, Chongqing, 400715, China; Engineering Research Center of South Upland Agriculture of Ministry of Education, Academy of Agricultural Sciences, Southwest University, Chongqing, 400715, China.
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Cao Y, Qu J, Yu H, Yang Q, Li W, Fu F. Genomic Characteristics of Elite Maize Inbred Line 18-599 and Its Transcriptional Response to Drought and Low-Temperature Stresses. PLANTS (BASEL, SWITZERLAND) 2022; 11:3242. [PMID: 36501283 PMCID: PMC9739999 DOI: 10.3390/plants11233242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2022] [Revised: 11/10/2022] [Accepted: 11/23/2022] [Indexed: 06/17/2023]
Abstract
Elite inbred line 18-599 was developed via triple test cross from introduced hybrid P78599 and used as parents of dozens of maize hybrids adapting to the diverse ecological conditions of the maize ecological region in Southwest China. In this study, its genomic DNA was resequenced and aligned with the B73 genome sequence to identify single nucleotide polymorphism (SNP), and insertion (In) and deletion (Del) loci. These loci were aligned with those between B73 and 1020 inbred lines in the HapMap database to identify specific variation loci of 18-599. The results showed that there were 930,439 specific SNPs and 358,750 InDels between 18-599 and the 1020 lines. In total, 21,961 of them showed significant impacts on the functions of 12,297 genes, such as frameshift, change of splicing site, stop gain, change of start site, and stop loss. Phylogenetic analysis showed that 18-599 was closely related to inbred lines ZEAxujRAUDIAAPE and 2005-4, but far from some inbred lines directly isolated from P78599. This result indicated that 18-599 not only pyramided the elite genes of P78599, but also acquired genetic divergence during the repetitive backcrosses of triple test cross to confer its elite agronomic characteristics. Subsequently, the RNA of 18-599 was sequenced. The aligned 9713 and 37,528 of the 165,098 unigenes were screened and aligned with annotated transcripts of the B73 genome differentially expressed under drought and low-temperature stress, respectively, and their functions were involved in the responses to these stresses. The quantitative PCR results of fourteen random genes verified the RNA sequencing results. These findings suggest that the transcriptional responses of many resistance-related genes were an important mechanism for 18-599 to adapt to diverse ecological conditions.
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Affiliation(s)
- Yang Cao
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Jingtao Qu
- CIMMYT-China Specialty Maize Research Center, Crop Breeding and Cultivation Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China
| | - Haoqiang Yu
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Qingqing Yang
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Wanchen Li
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Fengling Fu
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
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8
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David S, Levin E, Fallik E, Alkalai-Tuvia S, Foolad MR, Lers A. Physiological genetic variation in tomato fruit chilling tolerance during postharvest storage. FRONTIERS IN PLANT SCIENCE 2022; 13:991983. [PMID: 36160961 PMCID: PMC9493348 DOI: 10.3389/fpls.2022.991983] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Accepted: 08/22/2022] [Indexed: 06/16/2023]
Abstract
Storage at low temperatures is a common practice to prolong postharvest life of fruit and vegetables with a minimal negative impact on human/environmental health. Storage at low temperatures, however, can be restricted due to produce susceptibility to non-freezing chilling temperatures, when injuries such as physiological disorders and decays may result in unmarketable produce. We have investigated tomato fruit response to postharvest chilling stress in a recombinant inbred line (RIL) population developed from a cross between a chilling-sensitive cultivated tomato (Solanum lycopersicum L.) breeding line and a chilling-tolerant inbred accession of the tomato wild species S. pimpinellifolium L. Screening of the fruit of 148 RILs under cold storage (1.5°C) indicated presence of significant variations in chilling tolerance, manifested by varying degrees of fruit injury. Two extremely contrasting groups of RILs were identified, chilling-tolerant and chilling-sensitive RILs. The RILs in the two groups were further investigated under chilling stress conditions, and several physiological parameters, including weight loss, chlorophyll fluorescence parameters Fv/Fm, and Performance Index (PI), were determined to be efficient markers for identifying response to chilling stress in postharvest fruit. The Fv/Fm values reflected the physiological damages endured by the fruit after cold storage, and PI was a sensitive marker for early changes in photosystem II function. These two parameters were early indicators of chilling response before occurrence of visible chilling injuries. Antioxidant activities and ascorbic acid content were significantly higher in the chilling-tolerant than the chilling-sensitive lines. Further, the expression of C-repeat/DREB binding factors (CBFs) genes swiftly changed within 1-hr of fruit exposure to the chilling temperature, and the SlCBF1 transcript level was generally higher in the chilling-tolerant than chilling-sensitive lines after 2-hr exposure to the low temperature. This research demonstrates the presence of potential genetic variation in fruit chilling tolerance in the tomato RIL population. Further investigation of the RIL population is underway to better understand the genetic, physiological, and biochemical mechanisms involved in postharvest fruit chilling tolerance in tomato.
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Affiliation(s)
- Sivan David
- Department of Postharvest Science, Volcani Institute, Agricultural Research Organization, Rishon LeZion, Israel
- Robert H. Smith Faculty of Agriculture Food and Environment, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, The Hebrew University of Jerusalem, Rehovot, Israel
| | - Elena Levin
- Department of Postharvest Science, Volcani Institute, Agricultural Research Organization, Rishon LeZion, Israel
| | - Elazar Fallik
- Department of Postharvest Science, Volcani Institute, Agricultural Research Organization, Rishon LeZion, Israel
| | - Sharon Alkalai-Tuvia
- Department of Postharvest Science, Volcani Institute, Agricultural Research Organization, Rishon LeZion, Israel
| | - Majid R. Foolad
- Department of Plant Science, The Pennsylvania State University, University Park, PA, United States
| | - Amnon Lers
- Department of Postharvest Science, Volcani Institute, Agricultural Research Organization, Rishon LeZion, Israel
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Wu DC, Zhu JF, Shu ZZ, Wang W, Yan C, Xu SB, Wu DX, Wang CY, Dong ZR, Sun G. Physiological and transcriptional response to heat stress in heat-resistant and heat-sensitive maize (Zea mays L.) inbred lines at seedling stage. PROTOPLASMA 2020; 257:1615-1637. [PMID: 32728849 DOI: 10.1007/s00709-020-01538-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2020] [Accepted: 07/24/2020] [Indexed: 05/21/2023]
Abstract
To understand the molecular and physiological mechanism underlying the heat stress in maize, transcriptional and physiological response to heat stress in the heat-resistant Huangzaosi (HZS) and heat-sensitive Lv-9-Kuan (L9K) inbred lines at seedling stage were analyzed and compared at seedling stage. Our results indicated that MDA content of the two inbred lines increased significantly under heat stress; the values of MDA in L9K was significantly higher than that in HZS. The level of SOD, CAT, and POD enzyme activities in HZS was higher than those in L9K for both the heat-treated group and controls. The values of Fv/Fm, qP, and ФPSII reduced by heat stress in L9K were higher than the respective values in HZS. RNA-seq data showed that heat stress induced more heat stress-related genes in HZS (257 heat stress-related genes) than in L9K (224 heat stress-related genes). GO and KEGG enrichment analyses indicated that HZS and L9K changed their physiological and biochemical mechanisms in response to heat stress through different molecular mechanisms. Weighted Gene Co-expression Network Analysis showed that HZS might obtain stronger heat resistance than L9K through a unique transcriptional regulatory network. Our findings provide insights into the molecular networks that mediate the tolerance of maize heat stress and also help us to mine key heat stress-related genes.
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Affiliation(s)
- De-Chuan Wu
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Jia-Fei Zhu
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Zhong-Ze Shu
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Wei Wang
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Cheng Yan
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Shan-Bin Xu
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - De-Xiang Wu
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Cheng-Yu Wang
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Zhao-Rong Dong
- College of Agronomy, Anhui Agricultural University, Hefei, Anhui, China
| | - Genlou Sun
- Biology Department, Saint Mary's University, Halifax, NS, Canada.
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10
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Chilling effects on primary photosynthetic processes in Medicago sativa: Acclimatory changes after short- and long-term exposure to low temperatures. Biologia (Bratisl) 2020. [DOI: 10.2478/s11756-020-00470-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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11
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Schneider K, Abazaj L, Niemann C, Schröder L, Nägele T. Cold acclimation has a differential effect on leaf vascular bundle structure and carbon export rates in natural Arabidopsis accessions originating from southern and northern Europe. PLANT DIRECT 2020; 4:e00251. [PMID: 32789285 PMCID: PMC7416751 DOI: 10.1002/pld3.251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Revised: 07/08/2020] [Accepted: 07/16/2020] [Indexed: 06/11/2023]
Abstract
Acclimation to low but non-freezing temperature represents an ecologically important process for Arabidopsis thaliana but also for many other plant species from temperate regions. Cold acclimation comprises and affects numerous molecular and physiological processes and the maintenance of sugar supply of sink tissue by photosynthetically active source tissue is essential for plant survival. Here, changes in vascular bundle (VB) structure at the leaf petiole were analysed together with sucrose exudation rates before and after cold acclimation. Six natural Arabidopsis accessions originating from southern and northern Europe were compared. Photosynthetic efficiency, that is, maximum and effective quantum yield of photosystem II, revealed a significant effect of environmental condition. Only for northern accessions was a highly significant negative correlation observed between leaf sucrose exudation rates, xylem, and petiole cross-sectional areas. Furthermore, only for northern accessions was a significant increase of VB and leaf petiole cross-sectional area observed during cold acclimation. In contrast, variance of cross-sectional areas of cold acclimated southern accessions was strongly reduced compared to control plants, while mean areas remained similar under both conditions. In summary, these findings suggest that natural Arabidopsis accessions from northern Europe significantly adjust sink strength and leaf VB structure to maintain plant growth and photosynthesis under low temperature.
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Affiliation(s)
- Katja Schneider
- Department Biology IPlant DevelopmentLMU MünchenPlanegg‐MartinsriedGermany
| | - Lorena Abazaj
- Department Biology IPlant Evolutionary Cell BiologyLMU MünchenPlanegg‐MartinsriedGermany
| | - Cornelia Niemann
- Department Biology IPlant DevelopmentLMU MünchenPlanegg‐MartinsriedGermany
| | - Laura Schröder
- Department Biology IPlant Evolutionary Cell BiologyLMU MünchenPlanegg‐MartinsriedGermany
| | - Thomas Nägele
- Department Biology IPlant Evolutionary Cell BiologyLMU MünchenPlanegg‐MartinsriedGermany
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12
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Prinzenberg AE, Campos‐Dominguez L, Kruijer W, Harbinson J, Aarts MGM. Natural variation of photosynthetic efficiency in Arabidopsis thaliana accessions under low temperature conditions. PLANT, CELL & ENVIRONMENT 2020; 43:2000-2013. [PMID: 32495939 PMCID: PMC7497054 DOI: 10.1111/pce.13811] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2019] [Revised: 03/29/2020] [Accepted: 05/18/2020] [Indexed: 05/18/2023]
Abstract
Low, but non-freezing, temperatures have negative effects on plant growth and development. Despite some molecular signalling pathways being known, the mechanisms causing different responses among genotypes are still poorly understood. Photosynthesis is one of the processes that are affected by low temperatures. Using an automated phenotyping platform for chlorophyll fluorescence imaging the steady state quantum yield of photosystem II (PSII) electron transport (ΦPSII ) was measured and used to quantify the effect of moderately low temperature on a population of Arabidopsis thaliana natural accessions. Observations were made over the course of several weeks in standard and low temperature conditions and a strong decrease in ΦPSII upon the cold treatment was found. A genome wide association study identified several quantitative trait loci (QTLs) that are associated with changes in ΦPSII in low temperature. One candidate for a cold specific QTL was validated with a mutant analysis to be one of the genes that is likely involved in the PSII response to the cold treatment. The gene encodes the PSII associated protein PSB27 which has already been implicated in the adaptation to fluctuating light.
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Affiliation(s)
- Aina E. Prinzenberg
- Horticulture and Product PhysiologyWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
- Laboratory of GeneticsWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
- Plant BreedingWageningen University and ResearchPO Box 386Wageningen6700 AJThe Netherlands
| | - Lucia Campos‐Dominguez
- Laboratory of GeneticsWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
- Royal Botanic Garden Edinburgh20A Inverleith RowEdinburghEH3 5LRUnited Kingdom
| | - Willem Kruijer
- BiometrisWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
| | - Jeremy Harbinson
- Horticulture and Product PhysiologyWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
- Laboratory of BiophysicsWageningen University and ResearchWageningenThe Netherlands
| | - Mark G. M. Aarts
- Laboratory of GeneticsWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708 PBThe Netherlands
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13
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Mattila H, Mishra KB, Kuusisto I, Mishra A, Novotná K, Šebela D, Tyystjärvi E. Effects of low temperature on photoinhibition and singlet oxygen production in four natural accessions of Arabidopsis. PLANTA 2020; 252:19. [PMID: 32671474 PMCID: PMC7363673 DOI: 10.1007/s00425-020-03423-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Accepted: 07/08/2020] [Indexed: 05/27/2023]
Abstract
Low temperature decreases PSII damage in vivo, confirming earlier in vitro results. Susceptibility to photoinhibition differs among Arabidopsis accessions and moderately decreases after 2-week cold-treatment. Flavonols may alleviate photoinhibition. The rate of light-induced inactivation of photosystem II (PSII) at 22 and 4 °C was measured from natural accessions of Arabidopsis thaliana (Rschew, Tenela, Columbia-0, Coimbra) grown under optimal conditions (21 °C), and at 4 °C from plants shifted to 4 °C for 2 weeks. Measurements were done in the absence and presence of lincomycin (to block repair). PSII activity was assayed with the chlorophyll a fluorescence parameter Fv/Fm and with light-saturated rate of oxygen evolution using a quinone acceptor. When grown at 21 °C, Rschew was the most tolerant to photoinhibition and Coimbra the least. Damage to PSII, judged from fitting the decrease in oxygen evolution or Fv/Fm to a first-order equation, proceeded more slowly or equally at 4 than at 22 °C. The 2-week cold-treatment decreased photoinhibition at 4 °C consistently in Columbia-0 and Coimbra, whereas in Rschew and Tenela the results depended on the method used to assay photoinhibition. The rate of singlet oxygen production by isolated thylakoid membranes, measured with histidine, stayed the same or slightly decreased with decreasing temperature. On the other hand, measurements of singlet oxygen from leaves with Singlet Oxygen Sensor Green suggest that in vivo more singlet oxygen is produced at 4 °C. Under high light, the PSII electron acceptor QA was more reduced at 4 than at 22 °C. Singlet oxygen production, in vitro or in vivo, did not decrease due to the cold-treatment. Epidermal flavonols increased during the cold-treatment and, in Columbia-0 and Coimbra, the amount correlated with photoinhibition tolerance.
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Affiliation(s)
- Heta Mattila
- Department of Biochemistry, Molecular Plant Biology, University of Turku, 20014, Turku, Finland
| | - Kumud B Mishra
- Global Change Research Institute of the Czech Academy of Sciences, Bělidla 986, 4a, Brno, 603 00, Czech Republic
| | - Iiris Kuusisto
- Department of Biochemistry, Molecular Plant Biology, University of Turku, 20014, Turku, Finland
| | - Anamika Mishra
- Global Change Research Institute of the Czech Academy of Sciences, Bělidla 986, 4a, Brno, 603 00, Czech Republic
| | - Kateřina Novotná
- Global Change Research Institute of the Czech Academy of Sciences, Bělidla 986, 4a, Brno, 603 00, Czech Republic
| | - David Šebela
- Global Change Research Institute of the Czech Academy of Sciences, Bělidla 986, 4a, Brno, 603 00, Czech Republic
| | - Esa Tyystjärvi
- Department of Biochemistry, Molecular Plant Biology, University of Turku, 20014, Turku, Finland.
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14
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Huang Y, Hussain MA, Luo D, Xu H, Zeng C, Havlickova L, Bancroft I, Tian Z, Zhang X, Cheng Y, Zou X, Lu G, Lv Y. A Brassica napus Reductase Gene Dissected by Associative Transcriptomics Enhances Plant Adaption to Freezing Stress. FRONTIERS IN PLANT SCIENCE 2020; 11:971. [PMID: 32676095 PMCID: PMC7333310 DOI: 10.3389/fpls.2020.00971] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Accepted: 06/15/2020] [Indexed: 06/11/2023]
Abstract
Cold treatment (vernalization) is required for winter crops such as rapeseed (Brassica napus L.). However, excessive exposure to low temperature (LT) in winter is also a stress for the semi-winter, early-flowering rapeseed varieties widely cultivated in China. Photosynthetic efficiency is one of the key determinants, and thus a good indicator for LT tolerance in plants. So far, the genetic basis underlying photosynthetic efficiency is poorly understood in rapeseed. Here the current study used Associative Transcriptomics to identify genetic loci controlling photosynthetic gas exchange parameters in a diversity panel comprising 123 accessions. A total of 201 significant Single Nucleotide Polymorphisms (SNPs) and 147 Gene Expression Markers (GEMs) were detected, leading to the identification of 22 candidate genes. Of these, Cab026133.1, an ortholog of the Arabidopsis gene AT2G29300.2 encoding a tropinone reductase (BnTR1), was further confirmed to be closely linked to transpiration rate. Ectopic expressing BnTR1 in Arabidopsis plants significantly increased the transpiration rate and enhanced LT tolerance under freezing conditions. Also, a much higher level of alkaloids content was observed in the transgenic Arabidopsis plants, which could help protect against LT stress. Together, the current study showed that AT is an effective approach for dissecting LT tolerance trait in rapeseed and that BnTR1 is a good target gene for the genetic improvement of LT tolerance in plant.
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Affiliation(s)
- Yong Huang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
- Laboratory of Rapeseed, The Chongqing Three Gorges Academy of Agricultural Sciences, Chongqing, China
| | - Muhammad Azhar Hussain
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Dan Luo
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Hongzhi Xu
- Laboratory of Rapeseed, The Chongqing Three Gorges Academy of Agricultural Sciences, Chongqing, China
| | - Chuan Zeng
- Laboratory of Rapeseed, The Chongqing Three Gorges Academy of Agricultural Sciences, Chongqing, China
| | - Lenka Havlickova
- Centre for Novel Agricultural Products (CNAP) M119, Department of Biology, University of York, York, United Kingdom
| | - Ian Bancroft
- Centre for Novel Agricultural Products (CNAP) M119, Department of Biology, University of York, York, United Kingdom
| | - Zhitao Tian
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Xuekun Zhang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yong Cheng
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Xiling Zou
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Guangyuan Lu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yan Lv
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
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15
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Méline V, Brin C, Lebreton G, Ledroit L, Sochard D, Hunault G, Boureau T, Belin E. A Computation Method Based on the Combination of Chlorophyll Fluorescence Parameters to Improve the Discrimination of Visually Similar Phenotypes Induced by Bacterial Virulence Factors. FRONTIERS IN PLANT SCIENCE 2020; 11:213. [PMID: 32174949 PMCID: PMC7055487 DOI: 10.3389/fpls.2020.00213] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2019] [Accepted: 02/11/2020] [Indexed: 05/24/2023]
Abstract
Phenotyping biotic stresses in plant-pathogen interactions studies is often hindered by phenotypes that can hardly be discriminated by visual assessment. Particularly, single gene mutants in virulence factors could lack visible phenotypes. Chlorophyll fluorescence (CF) imaging is a valuable tool to monitor plant-pathogen interactions. However, while numerous CF parameters can be measured, studies on plant-pathogen interactions often focus on a restricted number of parameters. It could result in limited abilities to discriminate visually similar phenotypes. In this study, we assess the ability of the combination of multiple CF parameters to improve the discrimination of such phenotypes. Such an approach could be of interest for screening and discriminating the impact of bacterial virulence factors without prior knowledge. A computation method was developed, based on the combination of multiple CF parameters, without any parameter selection. It involves histogram Bhattacharyya distance calculations and hierarchical clustering, with a normalization approach to take into account the inter-leaves and intra-phenotypes heterogeneities. To assess the efficiency of the method, two datasets were analyzed the same way. The first dataset featured single gene mutants of a Xanthomonas strain which differed only by their abilities to secrete bacterial virulence proteins. This dataset displayed expected phenotypes at 6 days post-inoculation and was used as ground truth dataset to setup the method. The efficiency of the computation method was demonstrated by the relevant discrimination of phenotypes at 3 days post-inoculation. A second dataset was composed of transient expression (agrotransformation) of Type 3 Effectors. This second dataset displayed phenotypes that cannot be discriminated by visual assessment and no prior knowledge can be made on the respective impact of each Type 3 Effectors on leaf tissues. Using the computation method resulted in clustering the leaf samples according to the Type 3 Effectors, thereby demonstrating an improvement of the discrimination of the visually similar phenotypes. The relevant discrimination of visually similar phenotypes induced by bacterial strains differing only by one virulence factor illustrated the importance of using a combination of CF parameters to monitor plant-pathogen interactions. It opens a perspective for the identification of specific signatures of biotic stresses.
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Affiliation(s)
- Valérian Méline
- Emersys, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- ImHorPhen, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Chrystelle Brin
- Emersys, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Guillaume Lebreton
- Phenotic Platform, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Lydie Ledroit
- Phenotic Platform, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Daniel Sochard
- Phenotic Platform, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Gilles Hunault
- ImHorPhen, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- Laboratoire HIFIH, UPRES EA 3859, SFR 4208, Université d'Angers, Angers, France
| | - Tristan Boureau
- Emersys, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- ImHorPhen, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- Phenotic Platform, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
| | - Etienne Belin
- ImHorPhen, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- Phenotic Platform, SFR 4207 QUASAV, IRHS, UMR1345, Université d'Angers, Angers, France
- Laboratoire Angevin de Recherche en Ingénierie des Systèmes, Université d'Angers, Angers, France
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16
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Keller B, Matsubara S, Rascher U, Pieruschka R, Steier A, Kraska T, Muller O. Genotype Specific Photosynthesis x Environment Interactions Captured by Automated Fluorescence Canopy Scans Over Two Fluctuating Growing Seasons. FRONTIERS IN PLANT SCIENCE 2019; 10:1482. [PMID: 31998328 PMCID: PMC6962999 DOI: 10.3389/fpls.2019.01482] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Accepted: 10/25/2019] [Indexed: 05/19/2023]
Abstract
Photosynthesis reacts dynamic and in different time scales to changing conditions. Light and temperature acclimation balance photosynthetic processes in a complex interplay with the fluctuating environment. However, due to limitations in the measurements techniques, these acclimations are often described under steady-state conditions leading to inaccurate photosynthesis estimates in the field. Here we analyze the photosynthetic interaction with the fluctuating environment and canopy architecture over two seasons using a fully automated phenotyping system. We acquired over 700,000 chlorophyll fluorescence transients and spectral measurements under semi-field conditions in four crop species including 28 genotypes. As expected, the quantum efficiency of the photosystem II (Fv/Fm in the dark and Fq'/Fm' in the light) was determined by light intensity. It was further significantly affected by spectral indices representing canopy structure effects. In contrast, a newly established parameter, monitoring the efficiency of electron transport (Fr2/Fv in the dark respective Fr2'/Fq' in the light), was highly responsive to temperature (R2 up to 0.75). This parameter decreased with temperature and enabled the detection of cold tolerant species and genotypes. We demonstrated the ability to capture and model the dynamic photosynthesis response to the environment over entire growth seasons. The improved linkage of photosynthetic performance to canopy structure, temperature and cold tolerance offers great potential for plant breeding and crop growth modeling.
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Affiliation(s)
- Beat Keller
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Shizue Matsubara
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Uwe Rascher
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Roland Pieruschka
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Angelina Steier
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Thorsten Kraska
- Field Lab Campus Klein-Altendorf, University of Bonn, Rheinbach, Germany
| | - Onno Muller
- IBG-2: Plant Sciences, Institute of Bio- and Geosciences, Forschungszentrum Jülich GmbH, Jülich, Germany
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17
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Shi Y, Cai Z, Li D, Lu J, Ye J, Liang Y, Zheng X. Effect of Freezing on Photosystem II and Assessment of Freezing Tolerance of Tea Cultivar. PLANTS 2019; 8:plants8100434. [PMID: 31652528 PMCID: PMC6843692 DOI: 10.3390/plants8100434] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Revised: 10/18/2019] [Accepted: 10/19/2019] [Indexed: 11/23/2022]
Abstract
Freezing tolerant tea cultivars are urgently needed. The tea cultivars with highly freezing tolerance showed resistance to freezing stress induced photoinhibition. Freezing sensitivity index (H) of 47 tea clonal cultivars was investigated after severe freezing winter in 2016. To develop instrumental methods for freezing tolerance selection, the maximum photochemical efficiency of photosystem II (PSII) (Fv/Fm) and leaf color indicator a on the Hunter color scale were determined on control group (non-frozen) and frozen group (being frozen at −15 °C for 2 h and then stood at 20 °C for 5 h) of the cultivars. When the two indicators were expressed as the ratios (RFv/Fm and Ra) of frozen group to control group, linear regression of the freezing sensitivity index (H) upon the RFv/Fm and Ra produced significant relationship respectively, i.e., H = 60.31 − 50.09 RFv/Fm (p < 0.01) and H = 30.03 − 10.82 Ra (p < 0.01). Expression of gene psbA encoding D1 protein and gene psbD encoding D2 protein in PSII showed that the frezzing tolerant tea cultivars maintained a high expression level of psbA after freezing stress, which is considered to be beneficial to de novo synthesis of D1 protein and sustaining PSII activity. These findings can provide instrumental tools for assessing freezing tolerance of tea cultivars in tea breeding program.
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Affiliation(s)
- Yunlong Shi
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Zhuoyu Cai
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Da Li
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Jianliang Lu
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Jianhui Ye
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Yuerong Liang
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
| | - Xinqiang Zheng
- Tea Research Institute, Zhejiang University, Hangzhou 310058, China.
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18
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Mir RR, Reynolds M, Pinto F, Khan MA, Bhat MA. High-throughput phenotyping for crop improvement in the genomics era. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 282:60-72. [PMID: 31003612 DOI: 10.1016/j.plantsci.2019.01.007] [Citation(s) in RCA: 94] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2018] [Revised: 12/10/2018] [Accepted: 01/09/2019] [Indexed: 05/24/2023]
Abstract
Tremendous progress has been made with continually expanding genomics technologies to unravel and understand crop genomes. However, the impact of genomics data on crop improvement is still far from satisfactory, in large part due to a lack of effective phenotypic data; our capacity to collect useful high quality phenotypic data lags behind the current capacity to generate high-throughput genomics data. Thus, the research bottleneck in plant sciences is shifting from genotyping to phenotyping. This article review the current status of efforts made in the last decade to systematically collect phenotypic data to alleviate this 'phenomics bottlenecks' by recording trait data through sophisticated non-invasive imaging, spectroscopy, image analysis, robotics, high-performance computing facilities and phenomics databases. These modern phenomics platforms and tools aim to record data on traits like plant development, architecture, plant photosynthesis, growth or biomass productivity, on hundreds to thousands of plants in a single day, as a phenomics revolution. It is believed that this revolution will provide plant scientists with the knowledge and tools necessary for unlocking information coded in plant genomes. Efforts have been also made to present the advances made in the last 10 years in phenomics platforms and their use in generating phenotypic data on different traits in several major crops including rice, wheat, barley, and maize. The article also highlights the need for phenomics databases and phenotypic data sharing for crop improvement. The phenomics data generated has been used to identify genes/QTL through QTL mapping, association mapping and genome-wide association studies (GWAS) for genomics-assisted breeding (GAB) for crop improvement.
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Affiliation(s)
- Reyazul Rouf Mir
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (SKUAST-K), Wadura Campus, Sopore-193201, Kashmir, India.
| | - Mathew Reynolds
- Global Wheat Program, International Maize and Wheat Improvement Centre (CIMMYT), Mexico, D.F., Mexico
| | - Francisco Pinto
- Global Wheat Program, International Maize and Wheat Improvement Centre (CIMMYT), Mexico, D.F., Mexico
| | - Mohd Anwar Khan
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (SKUAST-K), Wadura Campus, Sopore-193201, Kashmir, India
| | - Mohd Ashraf Bhat
- Division of Genetics & Plant Breeding, Faculty of Agriculture (FoA), Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (SKUAST-K), Wadura Campus, Sopore-193201, Kashmir, India
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19
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Mishra KB, Mishra A, Kubásek J, Urban O, Heyer AG. Low temperature induced modulation of photosynthetic induction in non-acclimated and cold-acclimated Arabidopsis thaliana: chlorophyll a fluorescence and gas-exchange measurements. PHOTOSYNTHESIS RESEARCH 2019; 139:123-143. [PMID: 30306531 DOI: 10.1007/s11120-018-0588-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2018] [Accepted: 09/24/2018] [Indexed: 05/23/2023]
Abstract
Cold acclimation modifies the photosynthetic machinery and enables plants to survive at sub-zero temperatures, whereas in warm habitats, many species suffer even at non-freezing temperatures. We have measured chlorophyll a fluorescence (ChlF) and CO2 assimilation to investigate the effects of cold acclimation, and of low temperatures, on a cold-sensitive Arabidopsis thaliana accession C24. Upon excitation with low intensity (40 µmol photons m- 2 s- 1) ~ 620 nm light, slow (minute range) ChlF transients, at ~ 22 °C, showed two waves in the SMT phase (S, semi steady-state; M, maximum; T, terminal steady-state), whereas CO2 assimilation showed a linear increase with time. Low-temperature treatment (down to - 1.5 °C) strongly modulated the SMT phase and stimulated a peak in the CO2 assimilation induction curve. We show that the SMT phase, at ~ 22 °C, was abolished when measured under high actinic irradiance, or when 3-(3, 4-dichlorophenyl)-1, 1- dimethylurea (DCMU, an inhibitor of electron flow) or methyl viologen (MV, a Photosystem I (PSI) electron acceptor) was added to the system. Our data suggest that stimulation of the SMT wave, at low temperatures, has multiple reasons, which may include changes in both photochemical and biochemical reactions leading to modulations in non-photochemical quenching (NPQ) of the excited state of Chl, "state transitions," as well as changes in the rate of cyclic electron flow through PSI. Further, we suggest that cold acclimation, in accession C24, promotes "state transition" and protects photosystems by preventing high excitation pressure during low-temperature exposure.
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Affiliation(s)
- Kumud B Mishra
- Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic.
- Department of Experimental Biology, Masaryk University, Kamenice 5, 625 00, Brno, Czech Republic.
| | - Anamika Mishra
- Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic
| | - Jiří Kubásek
- Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic
| | - Otmar Urban
- Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic
| | - Arnd G Heyer
- Department of Plant Biotechnology, Institute of Biomaterials and Biomolecular Systems, University of Stuttgart, Pfaffenwaldring 57, 70567, Stuttgart, Germany
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20
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Wang YY, Wang Y, Li GZ, Hao L. Salicylic acid-altering Arabidopsis plant response to cadmium exposure: Underlying mechanisms affecting antioxidation and photosynthesis-related processes. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 169:645-653. [PMID: 30496997 DOI: 10.1016/j.ecoenv.2018.11.062] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 11/09/2018] [Accepted: 11/15/2018] [Indexed: 06/09/2023]
Abstract
Previous studies have demonstrated that the genetic modification of basal salicylic acid (SA) level changed Arabidopsis plant response to cadmium (Cd) stress, but the mechanisms remain evaluated. In this study, Arabidopsis wild type (WT) and its SA-reducing transgenic line nahG (naphthalene hydroxylase G), SA-accumulating mutant snc1 (suppressor of nonexpressor of PR gene, constitutive 1) were exposed to 50 μM Cd2+ for 48 h or 7 d (just for assessing plant growth). The Cd treatment increased the expression levels of SA biosynthesis-related genes leading to enhanced SA accumulations in plant leaves, which was further confirmed by the expression patterns of SA marker genes. Cadmium accumulation was much higher in the Cd-exposed roots than in leaves, but was not affected by SA levels. Exposure to Cd inhibited plant growth of both aerial parts and roots, to a greater degree in snc1, and a lesser extent in nahG as compared with WT. Although Cd treatment increased plant antioxidative capacity, oxidative damage happened, especially to snc1 plants. Photoinhibition occurred in Cd-stressed plants leading to a decrease in photosynthetic activity, with a greater degree in snc1, while a lesser in nahG, as indicated by the changes of several key photosynthetic parameters. We comprehensively analyzed the expression profiles of photosynthesis-related genes, and observed a positive correlation between Cd tolerance and gene expression levels, wherein the transcription levels of two electron transport-related genes and two amylase-encoding genes were all up-regulated in nahG plants after Cd treatment, implying a significance of the related processes in this genotype against Cd stress.
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Affiliation(s)
- Yuan-Yuan Wang
- College of Life Science, Shenyang Normal University, Shenyang 110034, China
| | - Yu Wang
- College of Life Science, Shenyang Normal University, Shenyang 110034, China
| | - Guang-Zhe Li
- College of Life Science, Shenyang Normal University, Shenyang 110034, China.
| | - Lin Hao
- College of Life Science, Shenyang Normal University, Shenyang 110034, China.
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21
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Mishra KB, Vítek P, Barták M. A correlative approach, combining chlorophyll a fluorescence, reflectance, and Raman spectroscopy, for monitoring hydration induced changes in Antarctic lichen Dermatocarpon polyphyllizum. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 208:13-23. [PMID: 30282060 DOI: 10.1016/j.saa.2018.09.036] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2018] [Revised: 09/06/2018] [Accepted: 09/18/2018] [Indexed: 06/08/2023]
Abstract
Lichens are successful colonizers in extreme environments worldwide, and they are considered to have played an important role during the evolution of life. Here, we have used a correlative approach, combining three optical signals (chlorophyll a fluorescence (ChlF), reflectance, and Raman spectra), to monitor hydration induced changes in photosynthetic properties of an Antarctic chlorolichen Dermatocarpon polyphyllizum. We measured these three signals from this lichen at different stages (after 4 h, 24 h, and 48 h) of hydration, and compared the data obtained from this lichen in "dry state" as well as in different "hydrated state". We found that dry state of this lichen has: (1) no variable ChlF, (2) high reflectance, with no red-edge and almost zero photochemical reflectance index (PRI), and (3) low-intensity Raman bands of their carotenoids. Furthermore, 4 h of hydration, increased its relative water content (RWC) by 93%, showed red-edge in reflectance spectra, and changed the maximum quantum yield of PSII photochemistry (Fv/Fm) from 0 to 0.57 ± 0.01. We found that reflectance indices, normalized difference index (NDVI) and PRI, significantly differed between brown and black/green surface areas, at all hydration stages; whereas, a shift in the Raman ν1(CC) band, between brown and black/green surface areas, occurred in 24 h or 48 h hydrated samples. These data indicate that hydration shortly (within 4 h) activated functions of photosynthetic apparatus, and the de novo synthesis of carotenoids occured in 24 h or 48 h. Furthermore, exposure to high irradiance (2000 μmol photons m-2 s-1), in 48 h hydrated lichen, significantly reduced Fv/Fm (signifies photoinhibition) and increased PRI (represents changes in xanthophyll pigments). We conclude that the implication of such a correlative approach is highly useful for understanding survival and protective mechanisms on extremophile photosynthetic organisms.
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Affiliation(s)
- Kumud Bandhu Mishra
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic.
| | - Petr Vítek
- Global Change Research Institute, Czech Academy of Sciences, Bělidla 986/4a, 603 00, Brno, Czech Republic
| | - Miloš Barták
- Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
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22
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Islam M, Janssen D, Romero-Talamas C, Kostov D, Wang W, Liu Z, Singh NB, Choa FS. Nuclear Radiation Monitoring Using Plants. JOURNAL OF NUCLEAR ENGINEERING AND RADIATION SCIENCE 2018. [DOI: 10.1115/1.4040364] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Plants exhibit complex responses to change in environmental conditions such as radiant heat flux, water quality, airborne pollutants, and soil contents. We seek to utilize natural chemical and electrophysiological response of plants to develop novel plant-based sensor networks. Our present work focuses on plant responses to nuclear radiation—with the goal of monitoring plant responses as benchmarks for detection and dosimetry. In our study, we used plants including Cactus, Arabidopsis, Dwarf mango (pine), Euymus, and Azela. We demonstrated that these plants Chlorophyll-a (F680) to Chlorophyll-b (F735) ratio can be changed according to the radiation dose amount. The recovery processes and speed are different for different plants.
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Affiliation(s)
- Mohammad Islam
- Department of Computer Science and Electrical Engineering, University of Maryland Baltimore County, Baltimore, MD 21250
| | - Douglas Janssen
- Department of Computer Science and Electrical Engineering, University of Maryland Baltimore County, Baltimore, MD 21250
| | - Carlos Romero-Talamas
- Department of Mechanical Engineering, University of Maryland Baltimore County, Baltimore, MD 21250
| | - Dan Kostov
- Department of Cell Biology & Molecular Genetics, University of Maryland Baltimore County, Baltimore, MD 21250
| | - Wanpeng Wang
- Department of Mechanical Engineering, University of Maryland, College Park, MD 20742
| | - Zhongchi Liu
- Department of Cell Biology & Molecular Genetics, University of Maryland, College Park, MD 20742
| | - Narsingh B. Singh
- Department of Chemistry and Biochemistry, University of Maryland Baltimore County, Baltimore, MD 21250
| | - Fow-Sen Choa
- Department of Computer Science and Electrical Engineering, University of Maryland Baltimore County, Baltimore, MD 21250
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23
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Yao J, Sun D, Cen H, Xu H, Weng H, Yuan F, He Y. Phenotyping of Arabidopsis Drought Stress Response Using Kinetic Chlorophyll Fluorescence and Multicolor Fluorescence Imaging. FRONTIERS IN PLANT SCIENCE 2018; 9:603. [PMID: 29868063 PMCID: PMC5958224 DOI: 10.3389/fpls.2018.00603] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Accepted: 04/16/2018] [Indexed: 05/21/2023]
Abstract
Plant responses to drought stress are complex due to various mechanisms of drought avoidance and tolerance to maintain growth. Traditional plant phenotyping methods are labor-intensive, time-consuming, and subjective. Plant phenotyping by integrating kinetic chlorophyll fluorescence with multicolor fluorescence imaging can acquire plant morphological, physiological, and pathological traits related to photosynthesis as well as its secondary metabolites, which will provide a new means to promote the progress of breeding for drought tolerant accessions and gain economic benefit for global agriculture production. Combination of kinetic chlorophyll fluorescence and multicolor fluorescence imaging proved to be efficient for the early detection of drought stress responses in the Arabidopsis ecotype Col-0 and one of its most affected mutants called reduced hyperosmolality-induced [Ca2+]i increase 1. Kinetic chlorophyll fluorescence curves were useful for understanding the drought tolerance mechanism of Arabidopsis. Conventional fluorescence parameters provided qualitative information related to drought stress responses in different genotypes, and the corresponding images showed spatial heterogeneities of drought stress responses within the leaf and the canopy levels. Fluorescence parameters selected by sequential forward selection presented high correlations with physiological traits but not morphological traits. The optimal fluorescence traits combined with the support vector machine resulted in good classification accuracies of 93.3 and 99.1% for classifying the control plants from the drought-stressed ones with 3 and 7 days treatments, respectively. The results demonstrated that the combination of kinetic chlorophyll fluorescence and multicolor fluorescence imaging with the machine learning technique was capable of providing comprehensive information of drought stress effects on the photosynthesis and the secondary metabolisms. It is a promising phenotyping technique that allows early detection of plant drought stress.
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Affiliation(s)
- Jieni Yao
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
| | - Dawei Sun
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
| | - Haiyan Cen
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
| | - Haixia Xu
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
| | - Haiyong Weng
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
| | - Fang Yuan
- Center for Plant Environmental Sensing, College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, China
| | - Yong He
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Spectroscopy Sensing, Ministry of Agriculture, Hangzhou, China
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De Diego N, Fürst T, Humplík JF, Ugena L, Podlešáková K, Spíchal L. An Automated Method for High-Throughput Screening of Arabidopsis Rosette Growth in Multi-Well Plates and Its Validation in Stress Conditions. FRONTIERS IN PLANT SCIENCE 2017; 8:1702. [PMID: 29046681 PMCID: PMC5632805 DOI: 10.3389/fpls.2017.01702] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2017] [Accepted: 09/19/2017] [Indexed: 05/02/2023]
Abstract
High-throughput plant phenotyping platforms provide new possibilities for automated, fast scoring of several plant growth and development traits, followed over time using non-invasive sensors. Using Arabidopsis as a model offers important advantages for high-throughput screening with the opportunity to extrapolate the results obtained to other crops of commercial interest. In this study we describe the development of a highly reproducible high-throughput Arabidopsis in vitro bioassay established using our OloPhen platform, suitable for analysis of rosette growth in multi-well plates. This method was successfully validated on example of multivariate analysis of Arabidopsis rosette growth in different salt concentrations and the interaction with varying nutritional composition of the growth medium. Several traits such as changes in the rosette area, relative growth rate, survival rate and homogeneity of the population are scored using fully automated RGB imaging and subsequent image analysis. The assay can be used for fast screening of the biological activity of chemical libraries, phenotypes of transgenic or recombinant inbred lines, or to search for potential quantitative trait loci. It is especially valuable for selecting genotypes or growth conditions that improve plant stress tolerance.
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Affiliation(s)
- Nuria De Diego
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
| | - Tomáš Fürst
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
| | - Jan F. Humplík
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
- Laboratory of Growth Regulators, Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Czech Academy of Sciences, Olomouc, Czechia
| | - Lydia Ugena
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
| | - Kateřina Podlešáková
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
| | - Lukáš Spíchal
- Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czechia
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25
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de Sousa CAF, de Paiva DS, Casari RADCN, de Oliveira NG, Molinari HBC, Kobayashi AK, Magalhães PC, Gomide RL, Souza MT. A procedure for maize genotypes discrimination to drought by chlorophyll fluorescence imaging rapid light curves. PLANT METHODS 2017; 13:61. [PMID: 28769996 PMCID: PMC5530575 DOI: 10.1186/s13007-017-0209-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Accepted: 07/17/2017] [Indexed: 05/30/2023]
Abstract
BACKGROUND Photosynthesis can be roughly separated into biochemical and photochemical processes. Both are affected by drought and can be assessed by non-invasive standard methods. Gas exchange, which mainly assesses the first process, has well-defined protocols. It is considered a standard method for evaluation of plant responses to drought. Under such stress, assessment of photochemical apparatus by chlorophyll fluorescence needs improvement to become faster and reproducible, especially in growing plants under field conditions. For this, we developed a protocol based on chlorophyll fluorescence imaging, using a rapid light curve approach. RESULTS Almost all parameters obtained by rapid light curves have shown statistical differences between control and drought stressed maize plants. However, most of them were affected by induction processes, relaxation rate, and/or differences in chlorophyll content; while they all were influenced by actinic light intensity on each light step of light curve. Only the normalized parameters related to photochemical and non-photochemical quenching were strongly correlated with data obtained by gas exchange, but only from the light step in which the linear electron flow reached saturation. CONCLUSIONS The procedure developed in this study for discrimination of plant responses to water deficit stress proved to be as fast, efficient and reliable as the standard technique of gas exchange in order to discriminate the responses of maize genotypes to drought. However, unlike that, there is no need to perform daily and time consuming calibration routines. Moreover, plant acclimation to the dark is not required. The protocol can be applied to plants growing in both controlled conditions and full sunlight in the field. In addition, it generates parameters in a fast and accurate measurement process, which enables evaluating several plants in a short period of time.
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Affiliation(s)
| | - Dayane Silva de Paiva
- Embrapa Agroenergia, Parque Estação Biológica (PqEB), Avenida W3 Norte (Final), Brasília, DF 70770-901 Brazil
| | | | - Nelson Geraldo de Oliveira
- Embrapa Agroenergia, Parque Estação Biológica (PqEB), Avenida W3 Norte (Final), Brasília, DF 70770-901 Brazil
| | - Hugo Bruno Correa Molinari
- Embrapa Agroenergia, Parque Estação Biológica (PqEB), Avenida W3 Norte (Final), Brasília, DF 70770-901 Brazil
| | - Adilson Kenji Kobayashi
- Embrapa Agroenergia, Parque Estação Biológica (PqEB), Avenida W3 Norte (Final), Brasília, DF 70770-901 Brazil
| | - Paulo Cesar Magalhães
- Embrapa Milho e Sorgo, Rod. MG 424 km 45, Zona Rural, Sete Lagoas, MG 35701-970 Brazil
| | - Reinaldo Lúcio Gomide
- Embrapa Milho e Sorgo, Rod. MG 424 km 45, Zona Rural, Sete Lagoas, MG 35701-970 Brazil
| | - Manoel Teixeira Souza
- Embrapa Agroenergia, Parque Estação Biológica (PqEB), Avenida W3 Norte (Final), Brasília, DF 70770-901 Brazil
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26
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Lu X, Zhou X, Cao Y, Zhou M, McNeil D, Liang S, Yang C. RNA-seq Analysis of Cold and Drought Responsive Transcriptomes of Zea mays ssp. mexicana L. FRONTIERS IN PLANT SCIENCE 2017; 8:136. [PMID: 28223998 PMCID: PMC5293773 DOI: 10.3389/fpls.2017.00136] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2016] [Accepted: 01/23/2017] [Indexed: 05/18/2023]
Abstract
The annual Zea mays ssp. mexicana L. is a member of teosinte, a wild relative of the Zea mays spp. mays L. This subspecies has strong growth and regeneration ability, high tiller numbers, high protein and lysine content as well as resistance to many fungal diseases, and it can be effectively used in maize improvement. In this study, we reported a Zea mays ssp. mexicana L. transcriptome by merging data from untreated control (CK), cold (4°C) and drought (PEG2000, 20%) treated plant samples. A total of 251,145 transcripts (N50 = 1,269 bp) and 184,280 unigenes (N50 = 923 bp) were predicted, which code for homologs of near 47% of the published maize proteome. Under cold conditions, 2,232 and 817 genes were up-regulated and down-regulated, respectively, while fewer genes were up-regulated (532) and down-regulated (82) under drought stress, indicating that Zea mays ssp. mexicana L. is more sensitive to the applied cold rather than to the applied drought stresses. Functional enrichment analyses identified many common or specific biological processes and gene sets in response to drought and cold stresses. The ABA dependent pathway, trehalose synthetic pathway and the ICE1-CBF pathway were up-regulated by both stresses. GA associated genes have been shown to differentially regulate the responses to cold in close subspecies in Zea mays. These findings and the identified functional genes can provide useful clues for improving abiotic stress tolerance of maize.
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Affiliation(s)
- Xiang Lu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
- Tasmanian Institute of Agriculture, University of TasmaniaKings Meadows, TAS, Australia
- College of Pratacultural Science, Gansu Agriculture UniversityLanzhou, China
| | - Xuan Zhou
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Yu Cao
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Meixue Zhou
- Tasmanian Institute of Agriculture, University of TasmaniaKings Meadows, TAS, Australia
| | - David McNeil
- Tasmanian Institute of Agriculture, University of TasmaniaKings Meadows, TAS, Australia
| | - Shan Liang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Chengwei Yang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
- Dongli Planting and Farming Industrial Co., LTDLianzhou, China
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27
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Lv Y, Yang M, Hu D, Yang Z, Ma S, Li X, Xiong L. The OsMYB30 Transcription Factor Suppresses Cold Tolerance by Interacting with a JAZ Protein and Suppressing β-Amylase Expression. PLANT PHYSIOLOGY 2017; 173:1475-1491. [PMID: 28062835 PMCID: PMC5291022 DOI: 10.1104/pp.16.01725] [Citation(s) in RCA: 90] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2016] [Accepted: 01/03/2017] [Indexed: 05/17/2023]
Abstract
Cold stress is one of the major limiting factors for rice (Oryza sativa) productivity. Several MYB transcriptional factors have been reported as important regulators in the cold stress response, but the molecular mechanisms are largely unknown. In this study, we characterized a cold-responsive R2R3-type MYB gene, OsMYB30, for its regulatory function in cold tolerance in rice. Functional analysis revealed that overexpression of OsMYB30 in rice resulted in increased cold sensitivity, while the osmyb30 knockout mutant showed increased cold tolerance. Microarray and quantitative real-time polymerase chain reaction analyses revealed that a few β-amylase (BMY) genes were down-regulated by OsMYB30. The BMY activity and maltose content, which were decreased and increased in the OsMYB30 overexpression and osmyb30 knockout mutant, respectively, were correlated with the expression patterns of the BMY genes. OsMYB30 was shown to bind to the promoters of the BMY genes. These results suggested that OsMYB30 exhibited a regulatory effect on the breakdown of starch through the regulation of the BMY genes. In addition, application of maltose had a protective effect for cell membranes under cold stress conditions. Furthermore, we identified an OsMYB30-interacting protein, OsJAZ9, that had a significant effect in suppressing the transcriptional activation of OsMYB30 and in the repression of BMY genes mediated by OsMYB30. These results together suggested that OsMYB30 might be a novel regulator of cold tolerance through the negative regulation of the BMY genes by interacting with OsJAZ9 to fine-tune the starch breakdown and the content of maltose, which might contribute to the cold tolerance as a compatible solute.
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Affiliation(s)
- Yan Lv
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Mei Yang
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Dan Hu
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Zeyu Yang
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Siqi Ma
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Xianghua Li
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Lizhong Xiong
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
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28
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Kenta T, Edwards JEM, Butlin RK, Burke T, Quick WP, Urwin P, Davey MP. Tissue Culture as a Source of Replicates in Nonmodel Plants: Variation in Cold Response in Arabidopsis lyrata ssp. petraea. G3 (BETHESDA, MD.) 2016; 6:3817-3823. [PMID: 27729439 PMCID: PMC5144953 DOI: 10.1534/g3.116.034314] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/14/2016] [Accepted: 08/26/2016] [Indexed: 11/23/2022]
Abstract
While genotype-environment interaction is increasingly receiving attention by ecologists and evolutionary biologists, such studies need genetically homogeneous replicates-a challenging hurdle in outcrossing plants. This could be potentially overcome by using tissue culture techniques. However, plants regenerated from tissue culture may show aberrant phenotypes and "somaclonal" variation. Here, we examined somaclonal variation due to tissue culturing using the response to cold treatment of photosynthetic efficiency (chlorophyll fluorescence measurements for Fv/Fm, Fv'/Fm', and ΦPSII, representing maximum efficiency of photosynthesis for dark- and light-adapted leaves, and the actual electron transport operating efficiency, respectively, which are reliable indicators of photoinhibition and damage to the photosynthetic electron transport system). We compared this to variation among half-sibling seedlings from three different families of Arabidopsis lyrata ssp. petraea Somaclonal variation was limited, and we could detect within-family variation in change in chlorophyll fluorescence due to cold shock successfully with the help of tissue-culture derived replicates. Icelandic and Norwegian families exhibited higher chlorophyll fluorescence, suggesting higher performance after cold shock, than a Swedish family. Although the main effect of tissue culture on Fv/Fm, Fv'/Fm', and ΦPSII was small, there were significant interactions between tissue culture and family, suggesting that the effect of tissue culture is genotype-specific. Tissue-cultured plantlets were less affected by cold treatment than seedlings, but to a different extent in each family. These interactive effects, however, were comparable to, or much smaller than the single effect of family. These results suggest that tissue culture is a useful method for obtaining genetically homogenous replicates for studying genotype-environment interaction related to adaptively-relevant phenotypes, such as cold response, in nonmodel outcrossing plants.
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Affiliation(s)
- Tanaka Kenta
- Department of Animal & Plant Sciences, University of Sheffield, S10 2TN, UK
| | | | - Roger K Butlin
- Department of Animal & Plant Sciences, University of Sheffield, S10 2TN, UK
| | - Terry Burke
- Department of Animal & Plant Sciences, University of Sheffield, S10 2TN, UK
| | - W Paul Quick
- Department of Animal & Plant Sciences, University of Sheffield, S10 2TN, UK
| | - Peter Urwin
- Centre for Plant Sciences, Institute of Integrative and Comparative Biology, University of Leeds, LS2 9JT, UK
| | - Matthew P Davey
- Department of Animal & Plant Sciences, University of Sheffield, S10 2TN, UK
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30
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Mishra KB, Mishra A, Novotná K, Rapantová B, Hodaňová P, Urban O, Klem K. Chlorophyll a fluorescence, under half of the adaptive growth-irradiance, for high-throughput sensing of leaf-water deficit in Arabidopsis thaliana accessions. PLANT METHODS 2016; 12:46. [PMID: 27872654 PMCID: PMC5109828 DOI: 10.1186/s13007-016-0145-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2016] [Accepted: 10/26/2016] [Indexed: 05/29/2023]
Abstract
BACKGROUND Non-invasive and high-throughput monitoring of drought in plants from its initiation to visible symptoms is essential to quest drought tolerant varieties. Among the existing methods, chlorophyll a fluorescence (ChlF) imaging has the potential to probe systematic changes in photosynthetic reactions; however, prerequisite of dark-adaptation limits its use for high-throughput screening. RESULTS To improve the throughput monitoring of plants, we have exploited their light-adaptive strategy, and investigated possibilities of measuring ChlF transients under low ambient irradiance. We found that the ChlF transients and associated parameters of two contrasting Arabidopsis thaliana accessions, Rsch and Co, give almost similar information, when measured either after ~20 min dark-adaptation or in the presence of half of the adaptive growth-irradiance. The fluorescence parameters, effective quantum yield of PSII photochemistry (ΦPSII) and fluorescence decrease ratio (RFD) resulting from this approach enabled us to differentiate accessions that is often not possible by well-established dark-adapted fluorescence parameter maximum quantum efficiency of PSII photochemistry (FV/FM). Further, we screened ChlF transients in rosettes of well-watered and drought-stressed six A. thaliana accessions, under half of the adaptive growth-irradiance, without any prior dark-adaptation. Relative water content (RWC) in leaves was also assayed and compared to the ChlF parameters. As expected, the RWC was significantly different in drought-stressed from that in well-watered plants in all the six investigated accessions on day-10 of induced drought; the maximum reduction in the RWC was obtained for Rsch (16%), whereas the minimum reduction was for Co (~7%). Drought induced changes were reflected in several features of ChlF transients; combinatorial images obtained from pattern recognition algorithms, trained on pixels of image sequence, improved the contrast among drought-stressed accessions, and the derived images were well-correlated with their RWC. CONCLUSIONS We demonstrate here that ChlF transients and associated parameters measured even in the presence of low ambient irradiance preserved its features comparable to that of measured after dark-adaptation and discriminated the accessions having differential geographical origin; further, in combination with combinatorial image analysis tools, these data may be readily employed for early sensing and mapping effects of drought on plant's physiology via easy and fully non-invasive means.
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Affiliation(s)
- Kumud B. Mishra
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Anamika Mishra
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Kateřina Novotná
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Barbora Rapantová
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Petra Hodaňová
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Otmar Urban
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
| | - Karel Klem
- Global Change Research Institute, The Czech Academy of Sciences, v. v. i, Bělidla 986/4a, 603 00 Brno, Czech Republic
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Rigó G, Valkai I, Faragó D, Kiss E, Van Houdt S, Van de Steene N, Hannah MA, Szabados L. Gene mining in halophytes: functional identification of stress tolerance genes in Lepidium crassifolium. PLANT, CELL & ENVIRONMENT 2016; 39:2074-84. [PMID: 27343166 DOI: 10.1111/pce.12768] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2015] [Accepted: 05/08/2016] [Indexed: 05/27/2023]
Abstract
Extremophile plants are valuable sources of genes conferring tolerance traits, which can be explored to improve stress tolerance of crops. Lepidium crassifolium is a halophytic relative of the model plant Arabidopsis thaliana, and displays tolerance to salt, osmotic and oxidative stresses. We have employed the modified Conditional cDNA Overexpression System to transfer a cDNA library from L. crassifolium to the glycophyte A. thaliana. By screening for salt, osmotic and oxidative stress tolerance through in vitro growth assays and non-destructive chlorophyll fluorescence imaging, 20 Arabidopsis lines were identified with superior performance under restrictive conditions. Several cDNA inserts were cloned and confirmed to be responsible for the enhanced tolerance by analysing independent transgenic lines. Examples include full-length cDNAs encoding proteins with high homologies to GDSL-lipase/esterase or acyl CoA-binding protein or proteins without known function, which could confer tolerance to one or several stress conditions. Our results confirm that random gene transfer from stress tolerant to sensitive plant species is a valuable tool to discover novel genes with potential for biotechnological applications.
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Affiliation(s)
- Gábor Rigó
- Biological Research Centre, Institute of Plant Biology, 6726, Szeged, Hungary
| | - Ildikó Valkai
- Biological Research Centre, Institute of Plant Biology, 6726, Szeged, Hungary
| | - Dóra Faragó
- Biological Research Centre, Institute of Plant Biology, 6726, Szeged, Hungary
| | - Edina Kiss
- Biological Research Centre, Institute of Plant Biology, 6726, Szeged, Hungary
| | | | | | | | - László Szabados
- Biological Research Centre, Institute of Plant Biology, 6726, Szeged, Hungary
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Ma C, Burd S, Lers A. miR408 is involved in abiotic stress responses in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2015; 84:169-87. [PMID: 26312768 DOI: 10.1111/tpj.12999] [Citation(s) in RCA: 160] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2015] [Revised: 08/08/2015] [Accepted: 08/13/2015] [Indexed: 05/22/2023]
Abstract
MicroRNAs (miRNAs) are small RNAs that regulate the expression of target genes post-transcriptionally; they are known to play major roles in development and responses to abiotic stress. miR408 is a highly conserved miRNA in plants that responds to the availability of copper and targets genes encoding copper-containing proteins. It was recently recognized to be an important component of the HY5-SPL7 gene network that mediates a coordinated response to light and copper, illustrating its central role in the response of plants to the environment. Expression of miR408 is significantly affected by a variety of developmental and environmental conditions; however, its biological function is unknown. Involvement of miR408 in the abiotic stress response was investigated in Arabidopsis. Expression of miR408, as well as its target genes, was investigated in response to salinity, cold, oxidative stress, drought and osmotic stress. Analyses of transgenic plants with modulated miR408 expression revealed that higher miR408 expression leads to improved tolerance to salinity, cold and oxidative stress, but enhanced sensitivity to drought and osmotic stress. Cellular antioxidant capacity was enhanced in plants with elevated miR408 expression, as manifested by reduced levels of reactive oxygen species and induced expression of genes associated with antioxidative functions, including Cu/Zn superoxide dismutases (CSD1 and CSD2) and glutathione-S-transferase (GST-U25), as well as auxiliary genes: the copper chaperone CCS1 and the redox stress-associated gene SAP12. Overall, the results demonstrate significant involvement of miR408 in abiotic stress responses, emphasizing the central function of miR408 in plant survival.
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Affiliation(s)
- Chao Ma
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China
- Department of Postharvest Science of Fresh Produce, Agricultural Research Organization, Volcani Center, Bet Dagan, 50250, Israel
| | - Shaul Burd
- Department of Postharvest Science of Fresh Produce, Agricultural Research Organization, Volcani Center, Bet Dagan, 50250, Israel
| | - Amnon Lers
- Department of Postharvest Science of Fresh Produce, Agricultural Research Organization, Volcani Center, Bet Dagan, 50250, Israel
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Khanal N, Moffatt BA, Gray GR. Acquisition of freezing tolerance in Arabidopsis and two contrasting ecotypes of the extremophile Eutrema salsugineum (Thellungiella salsuginea). JOURNAL OF PLANT PHYSIOLOGY 2015; 180:35-44. [PMID: 25889872 DOI: 10.1016/j.jplph.2015.03.011] [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: 12/22/2014] [Revised: 03/13/2015] [Accepted: 03/13/2015] [Indexed: 05/28/2023]
Abstract
Eutrema salsugineum (Thellungiella salsuginea) is an extremophile, a close relative of Arabidopsis, but possessing much higher constitutive levels of tolerance to abiotic stress. This study aimed to characterize the freezing tolerance of Arabidopsis (Columbia ecotype) and two ecotypes of Eutrema (Yukon and Shandong) isolated from contrasting geographical locations. Under our growth conditions, maximal freezing tolerance was observed after two- and three-weeks of cold acclimation for Arabidopsis and Eutrema, respectively. The ecotypes of Eutrema and Arabidopsis do not differ in their constitutive level of freezing tolerance or short-term cold acclimation capacity. However Eutrema remarkably outperforms Arabidopsis in long-term acclimation capacity suggesting a wider phenotypic plasticity for the trait of freezing tolerance. The combination of drought treatment and one-week of cold acclimation was more effective than long-term cold acclimation in achieving maximum levels of freezing tolerance in Eutrema, but not Arabidopsis. Furthermore, it was demonstrated growth conditions, particularly irradiance, are determinates of the level of freezing tolerance attained during cold acclimation suggesting a role for photosynthetic processes in adaptive stress responses.
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Affiliation(s)
- Nityananda Khanal
- Department of Plant Sciences, University of Saskatchewan, Saskatoon SK S7N 5A8, Canada
| | - Barbara A Moffatt
- Department of Biology, University of Waterloo, Waterloo ON N2L 3G1, Canada
| | - Gordon R Gray
- Department of Plant Sciences, University of Saskatchewan, Saskatoon SK S7N 5A8, Canada; Department of Biochemistry, University of Saskatchewan, Saskatoon SK S7N 5E5, Canada.
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Rousseau C, Hunault G, Gaillard S, Bourbeillon J, Montiel G, Simier P, Campion C, Jacques MA, Belin E, Boureau T. Phenoplant: a web resource for the exploration of large chlorophyll fluorescence image datasets. PLANT METHODS 2015; 11:24. [PMID: 25866549 DOI: 10.1186/s13007-015-0068-4.ecollection2015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Subscribe] [Scholar Register] [Received: 12/30/2014] [Accepted: 03/16/2015] [Indexed: 05/24/2023]
Abstract
BACKGROUND Image analysis is increasingly used in plant phenotyping. Among the various imaging techniques that can be used in plant phenotyping, chlorophyll fluorescence imaging allows imaging of the impact of biotic or abiotic stresses on leaves. Numerous chlorophyll fluorescence parameters may be measured or calculated, but only a few can produce a contrast in a given condition. Therefore, automated procedures that help screening chlorophyll fluorescence image datasets are needed, especially in the perspective of high-throughput plant phenotyping. RESULTS We developed an automatic procedure aiming at facilitating the identification of chlorophyll fluorescence parameters impacted on leaves by a stress. First, for each chlorophyll fluorescence parameter, the procedure provides an overview of the data by automatically creating contact sheets of images and/or histograms. Such contact sheets enable a fast comparison of the impact on leaves of various treatments, or of the contrast dynamics during the experiments. Second, based on the global intensity of each chlorophyll fluorescence parameter, the procedure automatically produces radial plots and box plots allowing the user to identify chlorophyll fluorescence parameters that discriminate between treatments. Moreover, basic statistical analysis is automatically generated. Third, for each chlorophyll fluorescence parameter the procedure automatically performs a clustering analysis based on the histograms. This analysis clusters images of plants according to their health status. We applied this procedure to monitor the impact of the inoculation of the root parasitic plant Phelipanche ramosa on Arabidopsis thaliana ecotypes Col-0 and Ler. CONCLUSIONS Using this automatic procedure, we identified eight chlorophyll fluorescence parameters discriminating between the two ecotypes of A. thaliana, and five impacted by the infection of Arabidopsis thaliana by P. ramosa. More generally, this procedure may help to identify chlorophyll fluorescence parameters impacted by various types of stresses. We implemented this procedure at http://www.phenoplant.org freely accessible to users of the plant phenotyping community.
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Affiliation(s)
| | - Gilles Hunault
- Université d'Angers, Laboratoire d'Hémodynamique, Interaction Fibrose et Invasivité tumorale hépatique, UPRES 3859, IFR 132, F-49045 Angers, France
| | - Sylvain Gaillard
- Institut de Recherche en Horticulture et Semences, UMR1345, INRA, SFR 4207 QUASAV, F-49071 Beaucouzé, France
| | - Julie Bourbeillon
- Institut de Recherche en Horticulture et Semences, UMR1345, AgroCampus-Ouest, SFR 4207 QUASAV, F-49045 Angers, France
| | - Gregory Montiel
- Université de Nantes, Laboratoire de Biologie et de Pathologie Végétales EA 1157, SFR 4207 QUASAV, F-44322 Nantes, France
| | - Philippe Simier
- Université de Nantes, Laboratoire de Biologie et de Pathologie Végétales EA 1157, SFR 4207 QUASAV, F-44322 Nantes, France
| | - Claire Campion
- Institut de Recherche en Horticulture et Semences, UMR1345, Université d'Angers, SFR 4207 QUASAV, F-49045 Angers, France
| | - Marie-Agnès Jacques
- PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- Institut de Recherche en Horticulture et Semences, UMR1345, INRA, SFR 4207 QUASAV, F-49071 Beaucouzé, France
| | - Etienne Belin
- PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- Laboratoire Angevin de Recherche en Ingénierie des Systèmes (LARIS), Université d'Angers, F-49000 Angers, France
| | - Tristan Boureau
- PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- Institut de Recherche en Horticulture et Semences, UMR1345, Université d'Angers, SFR 4207 QUASAV, F-49045 Angers, France
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Rousseau C, Hunault G, Gaillard S, Bourbeillon J, Montiel G, Simier P, Campion C, Jacques MA, Belin E, Boureau T. Phenoplant: a web resource for the exploration of large chlorophyll fluorescence image datasets. PLANT METHODS 2015; 11:24. [PMID: 25866549 PMCID: PMC4392743 DOI: 10.1186/s13007-015-0068-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2014] [Accepted: 03/16/2015] [Indexed: 05/29/2023]
Abstract
BACKGROUND Image analysis is increasingly used in plant phenotyping. Among the various imaging techniques that can be used in plant phenotyping, chlorophyll fluorescence imaging allows imaging of the impact of biotic or abiotic stresses on leaves. Numerous chlorophyll fluorescence parameters may be measured or calculated, but only a few can produce a contrast in a given condition. Therefore, automated procedures that help screening chlorophyll fluorescence image datasets are needed, especially in the perspective of high-throughput plant phenotyping. RESULTS We developed an automatic procedure aiming at facilitating the identification of chlorophyll fluorescence parameters impacted on leaves by a stress. First, for each chlorophyll fluorescence parameter, the procedure provides an overview of the data by automatically creating contact sheets of images and/or histograms. Such contact sheets enable a fast comparison of the impact on leaves of various treatments, or of the contrast dynamics during the experiments. Second, based on the global intensity of each chlorophyll fluorescence parameter, the procedure automatically produces radial plots and box plots allowing the user to identify chlorophyll fluorescence parameters that discriminate between treatments. Moreover, basic statistical analysis is automatically generated. Third, for each chlorophyll fluorescence parameter the procedure automatically performs a clustering analysis based on the histograms. This analysis clusters images of plants according to their health status. We applied this procedure to monitor the impact of the inoculation of the root parasitic plant Phelipanche ramosa on Arabidopsis thaliana ecotypes Col-0 and Ler. CONCLUSIONS Using this automatic procedure, we identified eight chlorophyll fluorescence parameters discriminating between the two ecotypes of A. thaliana, and five impacted by the infection of Arabidopsis thaliana by P. ramosa. More generally, this procedure may help to identify chlorophyll fluorescence parameters impacted by various types of stresses. We implemented this procedure at http://www.phenoplant.org freely accessible to users of the plant phenotyping community.
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Affiliation(s)
| | - Gilles Hunault
- />Université d’Angers, Laboratoire d’Hémodynamique, Interaction Fibrose et Invasivité tumorale hépatique, UPRES 3859, IFR 132, F-49045 Angers, France
| | - Sylvain Gaillard
- />Institut de Recherche en Horticulture et Semences, UMR1345, INRA, SFR 4207 QUASAV, F-49071 Beaucouzé, France
| | - Julie Bourbeillon
- />Institut de Recherche en Horticulture et Semences, UMR1345, AgroCampus-Ouest, SFR 4207 QUASAV, F-49045 Angers, France
| | - Gregory Montiel
- />Université de Nantes, Laboratoire de Biologie et de Pathologie Végétales EA 1157, SFR 4207 QUASAV, F-44322 Nantes, France
| | - Philippe Simier
- />Université de Nantes, Laboratoire de Biologie et de Pathologie Végétales EA 1157, SFR 4207 QUASAV, F-44322 Nantes, France
| | - Claire Campion
- />Institut de Recherche en Horticulture et Semences, UMR1345, Université d’Angers, SFR 4207 QUASAV, F-49045 Angers, France
| | - Marie-Agnès Jacques
- />PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- />Institut de Recherche en Horticulture et Semences, UMR1345, INRA, SFR 4207 QUASAV, F-49071 Beaucouzé, France
| | - Etienne Belin
- />PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- />Laboratoire Angevin de Recherche en Ingénierie des Systèmes (LARIS), Université d’Angers, F-49000 Angers, France
| | - Tristan Boureau
- />PHENOTIC, SFR 4207 QUASAV, F-49045 Angers, France
- />Institut de Recherche en Horticulture et Semences, UMR1345, Université d’Angers, SFR 4207 QUASAV, F-49045 Angers, France
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Humplík JF, Lazár D, Fürst T, Husičková A, Hýbl M, Spíchal L. Automated integrative high-throughput phenotyping of plant shoots: a case study of the cold-tolerance of pea (Pisum sativum L.). PLANT METHODS 2015; 11:20. [PMID: 25798184 PMCID: PMC4369061 DOI: 10.1186/s13007-015-0063-9] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2014] [Accepted: 03/02/2015] [Indexed: 05/04/2023]
Abstract
BACKGROUND Recently emerging approaches to high-throughput plant phenotyping have discovered their importance as tools in unravelling the complex questions of plant growth, development and response to the environment, both in basic and applied science. High-throughput methods have been also used to study plant responses to various types of biotic and abiotic stresses (drought, heat, salinity, nutrient-starving, UV light) but only rarely to cold tolerance. RESULTS We present here an experimental procedure of integrative high-throughput in-house phenotyping of plant shoots employing automated simultaneous analyses of shoot biomass and photosystem II efficiency to study the cold tolerance of pea (Pisum sativum L.). For this purpose, we developed new software for automatic RGB image analysis, evaluated various parameters of chlorophyll fluorescence obtained from kinetic chlorophyll fluorescence imaging, and performed an experiment in which the growth and photosynthetic activity of two different pea cultivars were followed during cold acclimation. The data obtained from the automated RGB imaging were validated through correlation of pixel based shoot area with measurement of the shoot fresh weight. Further, data obtained from automated chlorophyll fluorescence imaging analysis were compared with chlorophyll fluorescence parameters measured by a non-imaging chlorophyll fluorometer. In both cases, high correlation was obtained, confirming the reliability of the procedure described. CONCLUSIONS This study of the response of two pea cultivars to cold stress confirmed that our procedure may have important application, not only for selection of cold-sensitive/tolerant varieties of pea, but also for studies of plant cold-response strategies in general. The approach, provides a very broad tool for the morphological and physiological selection of parameters which correspond to shoot growth and the efficiency of photosystem II, and is thus applicable in studies of various plant species and crops.
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Affiliation(s)
- Jan F Humplík
- />Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Šlechtitelů 11, Olomouc, CZ-78371 Czech Republic
| | - Dušan Lazár
- />Department of Biophysics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Šlechtitelů 11, Olomouc, CZ-78371 Czech Republic
| | - Tomáš Fürst
- />Department of Mathematical Analysis and Applications of Mathematics, Faculty of Science, Palacký University, 17. listopadu 12, Olomouc, CZ-77146 Czech Republic
| | - Alexandra Husičková
- />Department of Biophysics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Šlechtitelů 11, Olomouc, CZ-78371 Czech Republic
| | - Miroslav Hýbl
- />Department of Genetic Resources for Vegetables, Medicinal and Special Plants, Centre of the Region Haná for Biotechnological and Agricultural Research, Crop Research Institute, Šlechtitelů 11, Olomouc, CZ-78371 Czech Republic
| | - Lukáš Spíchal
- />Department of Chemical Biology and Genetics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Šlechtitelů 11, Olomouc, CZ-78371 Czech Republic
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Mishra A, Hájek J, Tuháčková T, Barták M, Mishra KB. Features of chlorophyll fluorescence transients can be used to investigate low temperature induced effects on photosystem II of algal lichens from polar regions ( Short Communication ). ACTA ACUST UNITED AC 2015. [DOI: 10.5817/cpr2015-1-10] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Chlorophyll fluorescence is an effective tool for investigating characteristics of any photosynthesizing organisms and its responses due to different stressors. Here, we have studied a short-term temperature response on three Antarctic green algal lichen species: Umbilicaria antarctica, Xanthoria elegans, and Rhizoplaca melanophtalma. We measured slow chlorophyll fluorescence transients in these Antarctic lichen species during slowely cooling of thallus temperature from 20°C to 5, 0 and -5°C with 20 minute acclimation at each temperature. The measurements were supplemented with saturation pulses for the analysis of chlorophyll fluorescence parameters: maximum yield of PS II photochemistry (FV/FM), effective quantum yield of PS II photochemistry (FPSII) and quenching parameters. In response to decreasing thallus temperature, we observed species-specific changes in chlorophyll fluorescence parameters as well as in the shape of the chlorophyll fluorescence transients. We propose that species-specific changes in the slow phase of chlorophyll fluorescence transients can be potentially used as indicators of freezing stress in photosynthetic apparatus of lichen algal photobionts.
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Kasajima I, Suetsugu N, Wada M, Takahara K. Collective Calculation of Actual Values of Non-Photochemical Quenching from Their Apparent Values after Chloroplast Movement and Photoinhibition. ACTA ACUST UNITED AC 2015. [DOI: 10.4236/ajps.2015.611180] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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