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Sidhu D, Vasundhara M, Dey P. Chemical characterization, pathway enrichments and bioactive potentials of catechin-producing endophytic fungi isolated from tea leaves. RSC Adv 2024; 14:33034-33047. [PMID: 39434990 PMCID: PMC11492194 DOI: 10.1039/d4ra05758a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2024] [Accepted: 10/02/2024] [Indexed: 10/23/2024] Open
Abstract
Endophytes acquire flavonoid biosynthetic genes from the host medicinal plants. Despite tea (Camellia sinensis (L.) Kuntze) being the major source of bioactive catechins, catechin-producing endophytic fungi have never been reported from the tea plant. Here, we report the isolation and characterization of catechin-producing endophytic fungi isolated from tea leaves, their chemical characterization, and associated bioactivities. Among the nine isolated endophytes, two (CSPL6 and CSPL5b) produced catechin (381.48 and 166.40 μg per mg extract) and epigallocatechin-o-gallate (EGCG; 484.41 and 281.99 μg per mg extract) as quantified by high-performance liquid chromatography (HPLC). The isolates were identified as Pseudopestalotiopsis camelliae-sinensis and Didymella sinensis based on molecular and morphological characterization. Untargeted metabolomics using gas-chromatography mass spectroscopy (GCMS) revealed the presence of several bioactive phytochemicals mostly belonging to tyrosols, pyridoxines, fatty acids, aminopyrimidine, and benzenetriol classes. Metabolic pathways pertaining to the biosynthesis of unsaturated fatty acids (UFAs), butanoate metabolism, and linoleic acid metabolism were highly enriched in both catechin-producing isolates. The isolates were able to differentially scavenge intracellular O2 and N2 free-radicals, but CSPL5b demonstrated relatively superior bioactivities compared to CSPL6. Both isolates stimulated the growth of various probiotic strains, indicating prebiotic effects that are otherwise known to be associated with catechins. Collectively, the current study demonstrated that fungal endophytes CSPL6 and CSPL5b, isolated from tea leaves, could be used as alternative sources of catechins, and hold promising potential in evidence-based therapeutics.
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Affiliation(s)
- Dwinder Sidhu
- Department of Biotechnology, Thapar Institute of Engineering & Technology Patiala Punjab 147004 India +91-9064275660 +91-8146480908
| | - M Vasundhara
- Department of Biotechnology, Thapar Institute of Engineering & Technology Patiala Punjab 147004 India +91-9064275660 +91-8146480908
| | - Priyankar Dey
- Department of Biotechnology, Thapar Institute of Engineering & Technology Patiala Punjab 147004 India +91-9064275660 +91-8146480908
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2
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Brinley AR, Conner PJ, Yu F, Sarkhosh A, Liu T. Morphological and genetic characterization of the muscadine fruit abscission zone. HORTICULTURE RESEARCH 2024; 11:uhae227. [PMID: 39415976 PMCID: PMC11480701 DOI: 10.1093/hr/uhae227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Accepted: 08/02/2024] [Indexed: 10/19/2024]
Abstract
Muscadines face limitations to fresh market production due to high manual labor costs. Mechanical harvesting holds promise for reducing the costs associated with muscadine production but requires cultivars with easily detached fruit at maturity. This study aimed to determine muscadine fruit and pedicel characteristics influencing fruit detachment force (FDF) and to unravel the genes, hormones, and regulatory networks governing muscadine abscission. We characterized the FDF of muscadine fruit across 18 genotypes and at four developmental stages. Following this, we performed a transcriptome analysis using the mature pedicel tissue of two genotypes, a genotype with high FDF at maturity and a genotype with low FDF at maturity, to identify differentially expressed and uniquely expressed genes contributing to fruit detachment. We found that pedicel length, pedicel-fruit junction area, and fruit diameter positively correlated with FDF. This study also identified novel candidate genes, transcription factor families, and pathways associated with muscadine fruit abscission. These findings provide valuable knowledge on the progression of fruit abscission and insights for reducing FDF, particularly in developing machine-harvestable muscadine cultivars and fostering sustainability and efficiency in muscadine production.
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Affiliation(s)
- Alana R Brinley
- Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA
| | - Patrick J Conner
- Department of Horticulture, University of Georgia, Tifton, GA 31793, USA
| | - Fahong Yu
- Bioinformatics, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32611, USA
| | - Ali Sarkhosh
- Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA
| | - Tie Liu
- Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA
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3
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Balliau T, Ashenafi M, Blein-Nicolas M, Turc O, Zivy M, Marchadier E. A Moderate Water Deficit Induces Profound Changes in the Proteome of Developing Maize Ovaries. Biomolecules 2024; 14:1239. [PMID: 39456174 PMCID: PMC11506675 DOI: 10.3390/biom14101239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2024] [Revised: 09/20/2024] [Accepted: 09/23/2024] [Indexed: 10/28/2024] Open
Abstract
Water deficit is a major cause of yield loss for maize (Zea mays), leading to ovary abortion when applied at flowering time. To help understand the mechanisms involved in this phenomenon, the proteome response to water deficit has been analysed in developing ovaries at the silk emergence stage and five days later. Differential analysis, abundance pattern clustering and co-expression networks were performed in order to draw a general picture of the proteome changes all along ovary development and under the effect of water deficit. The results show that even mild water deficit has a major impact on ovary proteome, but this impact is very different from a response to stress. A part of the changes can be related to a slowdown of ovary development, while another part cannot. In particular, ovaries submitted to water deficit show an increase in proteins involved in protein biosynthesis and in vesicle transport together with a decrease in proteins involved in amino acid metabolism and proteolysis. According to the functions of increased proteins, the changes may be linked to auxin, brassinosteroids and jasmonate signalling but not abscisic acid.
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Affiliation(s)
- Thierry Balliau
- AgroParisTech, GQE—Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France; (T.B.); (M.A.); (M.B.-N.); (M.Z.)
| | - Mariamawit Ashenafi
- AgroParisTech, GQE—Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France; (T.B.); (M.A.); (M.B.-N.); (M.Z.)
| | - Mélisande Blein-Nicolas
- AgroParisTech, GQE—Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France; (T.B.); (M.A.); (M.B.-N.); (M.Z.)
| | - Olivier Turc
- LEPSE, INRAE, Montpellier SupAgro, Université Montpellier, 34293 Montpellier, France;
| | - Michel Zivy
- AgroParisTech, GQE—Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France; (T.B.); (M.A.); (M.B.-N.); (M.Z.)
| | - Elodie Marchadier
- AgroParisTech, GQE—Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France; (T.B.); (M.A.); (M.B.-N.); (M.Z.)
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4
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Qi J, Luo Y, Lu S, Liu H, Huang H, Qiu Y, Zhou X, Ma C. Multi-omics integration analysis reveals the molecular mechanisms of drought adaptation in homologous tetraploid alfalfa(Medicago sativa 'Xinjiang-Daye'). PHYSIOLOGIA PLANTARUM 2024; 176:e14476. [PMID: 39262125 DOI: 10.1111/ppl.14476] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2024] [Revised: 06/27/2024] [Accepted: 07/08/2024] [Indexed: 09/13/2024]
Abstract
Drought stress is a predominant abiotic factor leading to decreased alfalfa yield. Genomic ploidy differences contribute to varying adaptation mechanisms of different alfalfa cultivars to drought conditions. This study employed a multi-omics approach to characterize the molecular basis of drought tolerance in a tetraploid variant of alfalfa (Medicago sativa, Xinjiang-Daye). Under drought treatment, a total of 4446 genes, 859 proteins, and 524 metabolites showed significant differences in abundance. Integrative analysis of the multi-omics data revealed that regulatory modules involved in flavonoid biosynthesis, plant hormone signalling transduction, linoleic acid metabolism, and amino acid biosynthesis play crucial roles in alfalfa adaptation to drought stress. The severity of drought led to the substantial accumulation of flavonoids, plant hormones, free fatty acids, amino acids, and their derivatives in the leaves. Genes such as PAL, 4CL, CHI, CHS, PP2C, ARF_3, and AHP_4 play pivotal regulatory roles in flavonoid biosynthesis and hormone signalling pathways. Differential expression of the LOX gene emerged as a key factor in the elevated levels of free fatty acids. Upregulation of P5CS_1 and GOT1/2 contributed significantly to the accumulation of Pro and Phe contents. ERF19 emerged as a principal positive regulator governing the synthesis of the aforementioned compounds. Furthermore, observations suggest that Xinjiang-Daye alfalfa may exhibit widespread post-transcriptional regulatory mechanisms in adapting to drought stress. The study findings unveil the critical mechanisms by which Xinjiang-Daye alfalfa adapts to drought stress, offering novel insights for the improvement of alfalfa germplasm resources.
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Affiliation(s)
- Jianwei Qi
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Yongzhong Luo
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Songsong Lu
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Hui Liu
- UWA Institute of Agriculture, The University of Western Australia, Perth, WA, Australia
| | - Haixia Huang
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Yingde Qiu
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Xiaotong Zhou
- College of Forestry, Gansu Agricultural University, Lanzhou, China
| | - Chao Ma
- College of Forestry, Gansu Agricultural University, Lanzhou, China
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Lu ZY, Liu CY, Hu YY, Pan Y, Yuan L, Wu LT, Qi KK, Zhang Z, Zhou JC, Zhao JH, Hu Y, Yin H, Sheng GP. Unmasking Spatial Heterogeneity in Phytotoxicology Mechanisms Induced by Carbamazepine by Mass Spectrometry Imaging and Multiomics Analyses. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:13986-13994. [PMID: 38992920 DOI: 10.1021/acs.est.4c04628] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/13/2024]
Abstract
Previous studies have highlighted the toxicity of pharmaceuticals and personal care products (PPCPs) in plants, yet understanding their spatial distribution within plant tissues and specific toxic effects remains limited. This study investigates the spatial-specific toxic effects of carbamazepine (CBZ), a prevalent PPCP, in plants. Utilizing desorption electrospray ionization mass spectrometry imaging (DESI-MSI), CBZ and its transformation products were observed predominantly at the leaf edges, with 2.3-fold higher concentrations than inner regions, which was confirmed by LC-MS. Transcriptomic and metabolic analyses revealed significant differences in gene expression and metabolite levels between the inner and outer leaf regions, emphasizing the spatial location's role in CBZ response. Notably, photosynthesis-related genes were markedly downregulated, and photosynthetic efficiency was reduced at leaf edges. Additionally, elevated oxidative stress at leaf edges was indicated by higher antioxidant enzyme activity, cell membrane impairment, and increased free fatty acids. Given the increased oxidative stress at the leaf margins, the study suggests using in situ Raman spectroscopy for early detection of CBZ-induced damage by monitoring reactive oxygen species levels. These findings provide crucial insights into the spatial toxicological mechanisms of CBZ in plants, forming a basis for future spatial toxicology research of PPCPs.
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Affiliation(s)
- Zhi-Yu Lu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Cheng-Yuan Liu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei 230026, China
| | - Yan-Yun Hu
- Instruments Center for Physical Science, University of Science and Technology of China, Hefei 230026, China
| | - Yang Pan
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei 230026, China
| | - Li Yuan
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei 230026, China
| | - Liu-Tian Wu
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei 230026, China
| | - Ke-Ke Qi
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei 230026, China
| | - Zhan Zhang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Jing-Chen Zhou
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Jia-Heng Zhao
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Yi Hu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Hao Yin
- Instruments Center for Physical Science, University of Science and Technology of China, Hefei 230026, China
| | - Guo-Ping Sheng
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
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Unnikrishnan BV, Binitha NK. Positive effect of inoculation with an Aspergillus strain on phosphorus and iron nutrition plus volatile organic compounds in rice. Folia Microbiol (Praha) 2024; 69:865-874. [PMID: 38200388 DOI: 10.1007/s12223-024-01129-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Accepted: 12/28/2023] [Indexed: 01/12/2024]
Abstract
We explored the potential of a fungal strain Aspergillus costaricensis KS1 for modulating growth and nutrient mobilization in rice. At laboratory conditions, there was a decline in pH of the medium on inoculation with the strain and the production of citric acid was observed under broth conditions. Similarly, there was higher solubilization of tricalcium phosphate and siderophore production in liquid medium on inoculation with the strain. The effect of inoculation of KS1 was studied in rice and higher growth and yield were observed on inoculation compared to control. The content of phosphorus and iron in stem and roots of KS1 inoculated plants was higher in comparison with uninoculated control. There was also increased availability of phosphorus and iron content in soil grown with KS1 inoculated plants. In addition, inoculation with strain resulted in a higher content of volatile organic compounds such as linoleic acid, linolenic acid, and ethyl isoallocholate in stem of rice. A. costaricensis KS1 can be used for improving phosphorus and iron nutrition and impart tolerance against stresses in rice.
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Affiliation(s)
| | - Nadayi Karayi Binitha
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Kerala Agricultural University, Kasaragod, Kerala, India
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7
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Bi YL, Tan H, Zhang SS, Kang JP. Response Mechanism of Extracellular Polymeric Substances Synthesized by Alternaria sp. on Drought Stress in Alfalfa ( Medicago sativa L.). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2024. [PMID: 39021158 DOI: 10.1021/acs.jafc.4c04009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/20/2024]
Abstract
This study investigates how extracellular polymeric substances (EPS) synthesized by dark septate endophytic (DSE) improve alfalfa's drought resistance. Drought stress was simulated in hydroponic culture, and roots were treated with different EPS concentrations to determine their effects on drought tolerance and applicable concentrations. Hydroponic solutions with 0.25 and 0.50% EPS concentrations alleviated leaf wilting and increased total plant fresh weight by 35.8 and 57.7%, respectively. SEM shows that EPS attached to the roots and may have served to protect the root system. EPS treatment significantly depressed the MDA contents of the roots, stems, and leaves. Roots responded to drought stress by increasing soluble sugar contents and antioxidant enzyme activities, while mitigating stem and leaf stress by synthesizing lipid compounds, amino acids, and organic acid metabolites. Five metabolites in the stem have been reported to be associated with plant stress tolerance and growth, namely 3-O-methyl 5-O-(2-methyl propyl) (4S)-2,6-dimethyl-4-(2-nitrophenyl)-3,4-dihydropyridine-3,5-dicarboxylate, malic acid, PA (20:1(11Z)/15:0), N-methyl-4,6,7-trihydroxy-1,2,3,4-tetrahydroisoquinoline, and 2-(S-glutathionyl) acetyl glutathione. In summary, EPS treatment induced oxidative stress and altered plant metabolism, and this in turn increased plant antioxidant capacity. The results provide a theoretical basis for the application of EPS in commercial products that increase plant resistance and ecological restoration.
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Affiliation(s)
- Yin-Li Bi
- Institute of Ecological and Environment Restoration in Mine Areas of West China, Xi'an University of Science and Technology, Xi'an 710054, China
- College of Geology and Environment, Xi'an University of Science and Technology, Xi'an 710054, China
- State Key Laboratory of Coal Resources and Safe Mining, China University of Mining and Technology (Beijing), Beijing 100083, China
| | - Hai Tan
- Institute of Ecological and Environment Restoration in Mine Areas of West China, Xi'an University of Science and Technology, Xi'an 710054, China
- College of Geology and Environment, Xi'an University of Science and Technology, Xi'an 710054, China
| | - Shi-Shuang Zhang
- Institute of Ecological and Environment Restoration in Mine Areas of West China, Xi'an University of Science and Technology, Xi'an 710054, China
- College of Geology and Environment, Xi'an University of Science and Technology, Xi'an 710054, China
| | - Jia-Peng Kang
- Institute of Ecological and Environment Restoration in Mine Areas of West China, Xi'an University of Science and Technology, Xi'an 710054, China
- College of Geology and Environment, Xi'an University of Science and Technology, Xi'an 710054, China
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8
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Xiao F, Zhao Y, Wang X, Jian X, Yang Y. Physiological responses to drought stress of three pine species and comparative transcriptome analysis of Pinus yunnanensis var. pygmaea. BMC Genomics 2024; 25:281. [PMID: 38493093 PMCID: PMC10944613 DOI: 10.1186/s12864-024-10205-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Accepted: 03/08/2024] [Indexed: 03/18/2024] Open
Abstract
Drought stress can significantly affect plant growth, development, and yield. Fewer comparative studies have been conducted between different species of pines, particularly involving Pinus yunnanensis var. pygmaea (P. pygmaea). In this study, the physiological indices, photosynthetic pigment and related antioxidant enzyme changes in needles from P. pygmaea, P. elliottii and P. massoniana under drought at 0, 7, 14, 21, 28 and 35 d, as well as 7 days after rehydration, were measured. The PacBio single-molecule real-time (SMRT) and Illumina RNA sequencing were used to uncover the gene expression differences in P. pygmaea under drought and rehydration conditions. The results showed that the total antioxidant capacity (TAOC) of P. pygmaea was significantly higher than P. massoniana and P. elliottii. TAOC showed a continuous increase trend across all species. Soluble sugar (SS), starch content and non-structural carbohydrate (NSC) of all three pines displayed a "W" pattern, declining initially, increasing, and then decreasing again. P. pygmaea exhibits stronger drought tolerance and greater recovery ability under prolonged drought conditions. Through the PacBio SMRT-seq, a total of 50,979 high-quality transcripts were generated, and 6,521 SSR and 5,561 long non-coding RNAs (LncRNAs) were identified. A total of 2310, 1849, 5271, 5947, 7710, and 6854 differentially expressed genes (DEGs) were identified compared to the control (Pp0D) in six pair-wise comparisons of treatment versus control. bHLH, NAC, ERF, MYB_related, C3H transcription factors (TFs) play an important role in drought tolerance of P. pygmaea. KEGG enrichment analysis and Gene set enrichment analysis (GSEA) analysis showed that P. pygmaea may respond to drought by enhancing metabolic processes such as ABA signaling pathway, alpha-linolenic acid. Weighted gene co-expression network analysis (WGCNA) revealed GST, CAT, LEC14B, SEC23 were associated with antioxidant enzyme activity and TAOC. This study provides a basis for further research on drought tolerance differences among coniferous species.
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Affiliation(s)
- Feng Xiao
- Institute for Forest Resources and Environment of Guizhou, Key Laboratory of Forest Cultivation in Plateau Mountain of Guizhou Province, College of Forestry, Guizhou University, Guizhou, 550025, China
| | - Yang Zhao
- Institute for Forest Resources and Environment of Guizhou, Key Laboratory of Forest Cultivation in Plateau Mountain of Guizhou Province, College of Forestry, Guizhou University, Guizhou, 550025, China.
| | - Xiurong Wang
- Institute for Forest Resources and Environment of Guizhou, Key Laboratory of Forest Cultivation in Plateau Mountain of Guizhou Province, College of Forestry, Guizhou University, Guizhou, 550025, China
| | - Xueyan Jian
- College of Continuing Education, Yanbian University, Jilin, 133002, China
| | - Yao Yang
- Institute for Forest Resources and Environment of Guizhou, Key Laboratory of Forest Cultivation in Plateau Mountain of Guizhou Province, College of Forestry, Guizhou University, Guizhou, 550025, China
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Wang Y, Jiang C, Zhang X, Yan H, Yin Z, Sun X, Gao F, Zhao Y, Liu W, Han S, Zhang J, Zhang Y, Zhang Z, Zhang H, Li J, Xie X, Zhao Q, Wang X, Ye G, Li J, Ming R, Li Z. Upland rice genomic signatures of adaptation to drought resistance and navigation to molecular design breeding. PLANT BIOTECHNOLOGY JOURNAL 2024; 22:662-677. [PMID: 37909415 PMCID: PMC10893945 DOI: 10.1111/pbi.14215] [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: 06/06/2023] [Revised: 07/31/2023] [Accepted: 10/16/2023] [Indexed: 11/03/2023]
Abstract
Upland rice is a distinctive drought-aerobic ecotype of cultivated rice highly resistant to drought stress. However, the genetic and genomic basis for the drought-aerobic adaptation of upland rice remains largely unclear due to the lack of genomic resources. In this study, we identified 25 typical upland rice accessions and assembled a high-quality genome of one of the typical upland rice varieties, IRAT109, comprising 384 Mb with a contig N50 of 19.6 Mb. Phylogenetic analysis revealed upland and lowland rice have distinct ecotype differentiation within the japonica subgroup. Comparative genomic analyses revealed that adaptive differentiation of lowland and upland rice is likely attributable to the natural variation of many genes in promoter regions, formation of specific genes in upland rice, and expansion of gene families. We revealed differentiated gene expression patterns in the leaves and roots of the two ecotypes and found that lignin synthesis mediated by the phenylpropane pathway plays an important role in the adaptive differentiation of upland and lowland rice. We identified 28 selective sweeps that occurred during domestication and validated that the qRT9 gene in selective regions can positively regulate drought resistance in rice. Eighty key genes closely associated with drought resistance were appraised for their appreciable potential in drought resistance breeding. Our study enhances the understanding of the adaptation of upland rice and provides a genome navigation map of drought resistance breeding, which will facilitate the breeding of drought-resistant rice and the "blue revolution" in agriculture.
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Affiliation(s)
- Yulong Wang
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Conghui Jiang
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
- Institute of Wetland Agriculture and EcologyShandong Academy of Agricultural SciencesJinanShandongChina
| | - Xingtan Zhang
- Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of EducationFujian Agriculture and Forestry UniversityFuzhouFujianChina
- Agricultural Genomics Institute in ShenzhenChinese Academy of Agricultural SciencesShenzhenGuangdongChina
| | - Huimin Yan
- Collaborative Innovation Center of Henan Grain Crops, Henan Key Laboratory of Rice BiologyHenan Agricultural UniversityZhengzhouHenanChina
| | - Zhigang Yin
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Xingming Sun
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Fenghua Gao
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Yan Zhao
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Wei Liu
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Shichen Han
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Jingjing Zhang
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Yage Zhang
- Sanya Institute of Hainan Academy of Agricultural SciencesSanyaHainanChina
| | - Zhanying Zhang
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Hongliang Zhang
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Jinjie Li
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
| | - Xianzhi Xie
- Institute of Wetland Agriculture and EcologyShandong Academy of Agricultural SciencesJinanShandongChina
| | - Quanzhi Zhao
- Collaborative Innovation Center of Henan Grain Crops, Henan Key Laboratory of Rice BiologyHenan Agricultural UniversityZhengzhouHenanChina
| | - Xiaoning Wang
- Sanya Institute of Hainan Academy of Agricultural SciencesSanyaHainanChina
| | - Guoyou Ye
- Agricultural Genomics Institute in ShenzhenChinese Academy of Agricultural SciencesShenzhenGuangdongChina
- Institution International Rice Research InstituteLos BañosLagunaPhilippines
| | - Junzhou Li
- Collaborative Innovation Center of Henan Grain Crops, Henan Key Laboratory of Rice BiologyHenan Agricultural UniversityZhengzhouHenanChina
| | - Ray Ming
- Center for Genomics and Biotechnology, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Crops, Ministry of EducationFujian Agriculture and Forestry UniversityFuzhouFujianChina
| | - Zichao Li
- Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and BiotechnologyChina Agricultural UniversityBeijingChina
- Sanya Institute of Hainan Academy of Agricultural SciencesSanyaHainanChina
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Balasubramanian VK, Veličković D, Rubio Wilhelmi MDM, Anderton CR, Stewart CN, DiFazio S, Blumwald E, Ahkami AH. Spatiotemporal metabolic responses to water deficit stress in distinct leaf cell-types of poplar. FRONTIERS IN PLANT SCIENCE 2024; 15:1346853. [PMID: 38495374 PMCID: PMC10940329 DOI: 10.3389/fpls.2024.1346853] [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: 11/30/2023] [Accepted: 02/12/2024] [Indexed: 03/19/2024]
Abstract
The impact of water-deficit (WD) stress on plant metabolism has been predominantly studied at the whole tissue level. However, plant tissues are made of several distinct cell types with unique and differentiated functions, which limits whole tissue 'omics'-based studies to determine only an averaged molecular signature arising from multiple cell types. Advancements in spatial omics technologies provide an opportunity to understand the molecular mechanisms underlying plant responses to WD stress at distinct cell-type levels. Here, we studied the spatiotemporal metabolic responses of two poplar (Populus tremula× P. alba) leaf cell types -palisade and vascular cells- to WD stress using matrix-assisted laser desorption/ionization-mass spectrometry imaging (MALDI-MSI). We identified unique WD stress-mediated metabolic shifts in each leaf cell type when exposed to early and prolonged WD stresses and recovery from stress. During water-limited conditions, flavonoids and phenolic metabolites were exclusively accumulated in leaf palisade cells. However, vascular cells mainly accumulated sugars and fatty acids during stress and recovery conditions, respectively, highlighting the functional divergence of leaf cell types in response to WD stress. By comparing our MALDI-MSI metabolic data with whole leaf tissue gas chromatography-mass spectrometry (GC-MS)-based metabolic profile, we identified only a few metabolites including monosaccharides, hexose phosphates, and palmitic acid that showed a similar accumulation trend at both cell-type and whole leaf tissue levels. Overall, this work highlights the potential of the MSI approach to complement the whole tissue-based metabolomics techniques and provides a novel spatiotemporal understanding of plant metabolic responses to WD stress. This will help engineer specific metabolic pathways at a cellular level in strategic perennial trees like poplars to help withstand future aberrations in environmental conditions and to increase bioenergy sustainability.
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Affiliation(s)
- Vimal Kumar Balasubramanian
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | - Dušan Veličković
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | | | - Christopher R. Anderton
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
| | - C. Neal Stewart
- Department of Plant Sciences, University of Tennessee, Knoxville, TN, United States
- Center for Agricultural Synthetic Biology, University of Tennessee, Knoxville, TN, United States
| | - Stephen DiFazio
- Department of Biology, West Virginia University, Morgantown, WV, United States
| | - Eduardo Blumwald
- Department of Plant Sciences, University of California Davis, Davis, CA, United States
| | - Amir H. Ahkami
- Environmental Molecular Sciences Laboratory (EMSL), Pacific Northwest National Laboratory (PNNL), Richland, WA, United States
- Adjoint Faculty, School of Biological Science (SBS), Washington State University (WSU), Pullman, WA, United States
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11
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Zhai Y, Guo W, Li D, Chen B, Xu X, Cao X, Zhao L. Size-dependent influences of nanoplastics on microbial consortium differentially inhibiting 2, 4-dichlorophenol biodegradation. WATER RESEARCH 2024; 249:121004. [PMID: 38101052 DOI: 10.1016/j.watres.2023.121004] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 11/22/2023] [Accepted: 12/08/2023] [Indexed: 12/17/2023]
Abstract
Nanoplastics (NPs), as a type of newly emerging pollutant, are ubiquitous in various environmental systems, one of which is coexistence with organic pollutants in wastewater, potentially influencing the pollutants' biodegradation. A knowledge gap exists regarding the influence of microbial consortium and NPs interactions on biodegradation efficiency. In this work, a 2,4-dichlorophenol (DCP) biodegradation experiment with presence of polystyrene nanoplastics (PS-NPs) with particle sizes of 100 nm (PS100) or 20 nm (PS20) was conducted to verify that PS-NPs had noticeable inhibitory effect on DCP biodegradation in a size-dependent manner. PS100 at 10 mg/L and 100 mg/L both prolonged the microbial stagnation compared to the control without PS-NPs; PS20 exacerbated greater, with PS20 at 100 mg/L causing a noticeable 6-day lag before the start-up of rapid DCP reduction. The ROS level increased to 1.4-fold and 1.8-fold under PS100 and PS20 exposure, respectively, while the elevated LDH under PS20 exposure indicated the mechanical damage to cell membrane by smaller NPs. PS-NPs exposure also resulted in a decrease in microbial diversity and altered the niches of microbial species, e.g., they decreased the abundance of some functional bacteria such as Brevundimonas and Comamonas, while facilitated some minor members to obtain more proliferation. A microbial network with higher complexity and less competition was induced to mediate PS-NPs stress. Functional metabolism responded differentially to PS100 and PS20 exposure. Specifically, PS100 downregulated amino acid metabolism, while PS20 stimulated certain pathways in response to more severe oxidative stress. Our findings give insights into PS-NPs environmental effects concerning microflora and biological degradation.
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Affiliation(s)
- Ying Zhai
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Wenbo Guo
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Deping Li
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Bo Chen
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Xiaoyun Xu
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Xinde Cao
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China; China-UK Low Carbon College, Shanghai Jiao Tong University, Shanghai 201306, China
| | - Ling Zhao
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China; China-UK Low Carbon College, Shanghai Jiao Tong University, Shanghai 201306, China.
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12
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Wang R, Du C, Gu G, Zhang B, Lin X, Chen C, Li T, Chen R, Xie X. Genome-wide identification and expression analysis of the ADH gene family under diverse stresses in tobacco (Nicotiana tabacum L.). BMC Genomics 2024; 25:13. [PMID: 38166535 PMCID: PMC10759372 DOI: 10.1186/s12864-023-09813-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 11/17/2023] [Indexed: 01/04/2024] Open
Abstract
BACKGROUND Alcohol dehydrogenases (ADHs) are the crucial enzymes that can convert ethanol into acetaldehyde. In tobacco, members of ADH gene family are involved in various stresses tolerance reactions, lipid metabolism and pathways related to plant development. It will be of great application significance to analyze the ADH gene family and expression profile under various stresses in tobacco. RESULTS A total of 53 ADH genes were identified in tobacco (Nicotiana tabacum L.) genome and were grouped into 6 subfamilies based on phylogenetic analysis. Gene structure (exon/intron) and protein motifs were highly conserved among the NtADH genes, especially the members within the same subfamily. A total of 5 gene pairs of tandem duplication, and 3 gene pairs of segmental duplication were identified based on the analysis of gene duplication events. Cis-regulatory elements of the NtADH promoters participated in cell development, plant hormones, environmental stress, and light responsiveness. The analysis of expression profile showed that NtADH genes were widely expressed in topping stress and leaf senescence. However, the expression patterns of different members appeared to be diverse. The qRT-PCR analysis of 13 NtADH genes displayed their differential expression pattern in response to the bacterial pathogen Ralstonia solanacearum L. INFECTION Metabolomics analysis revealed that NtADH genes were primarily associated with carbohydrate metabolism, and moreover, four NtADH genes (NtADH20/24/48/51) were notably involved in the pathway of alpha-linolenic acid metabolism which related to the up-regulation of 9-hydroxy-12-oxo-10(E), 15(Z)-octadecadienoic acid and 9-hydroxy-12-oxo-15(Z)-octadecenoic acid. CONCLUSION The genome-wide identification, evolutionary analysis, expression profiling, and exploration of related metabolites and metabolic pathways associated with NtADH genes have yielded valuable insights into the roles of these genes in response to various stresses. Our results could provide a basis for functional analysis of NtADH gene family under stressful conditions.
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Affiliation(s)
- Ruiqi Wang
- College of Life Sciences, Fujian Agriculture & Forestry University, Fuzhou, 350002, China
| | - Chaofan Du
- Longyan Tobacco Company, Longyan, 364000, China
| | - Gang Gu
- Institute of Tobacco Science, Fujian Provincial Tobacco Company, Fuzhou, 350003, China
| | - Binghui Zhang
- Institute of Tobacco Science, Fujian Provincial Tobacco Company, Fuzhou, 350003, China
| | - Xiaolu Lin
- Longyan Tobacco Company, Longyan, 364000, China
| | - Chengliang Chen
- Jianning Branch of Sanming Tobacco Company, Sanming, 354500, China
| | - Tong Li
- College of Life Sciences, Fujian Agriculture & Forestry University, Fuzhou, 350002, China
| | - Rui Chen
- College of Life Sciences, Fujian Agriculture & Forestry University, Fuzhou, 350002, China
| | - Xiaofang Xie
- College of Life Sciences, Fujian Agriculture & Forestry University, Fuzhou, 350002, China.
- Fujian Key Laboratory of Crop Breeding By Design, Fujian Agriculture & Forestry University, Fuzhou, 350002, China.
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Cadena-Zamudio JD, Monribot-Villanueva JL, Pérez-Torres CA, Alatorre-Cobos F, Guerrero-Analco JA, Ibarra-Laclette E. Non-Targeted Metabolomic Analysis of Arabidopsis thaliana (L.) Heynh: Metabolic Adaptive Responses to Stress Caused by N Starvation. Metabolites 2023; 13:1021. [PMID: 37755301 PMCID: PMC10535036 DOI: 10.3390/metabo13091021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Revised: 09/12/2023] [Accepted: 09/15/2023] [Indexed: 09/28/2023] Open
Abstract
As sessile organisms, plants develop the ability to respond and survive in changing environments. Such adaptive responses maximize phenotypic and metabolic fitness, allowing plants to adjust their growth and development. In this study, we analyzed the metabolic plasticity of Arabidopsis thaliana in response to nitrate deprivation by untargeted metabolomic analysis and using wild-type (WT) genotypes and the loss-of-function nia1/nia2 double mutant. Secondary metabolites were identified using seedlings grown on a hydroponic system supplemented with optimal or limiting concentrations of N (4 or 0.2 mM, respectively) and harvested at 15 and 30 days of age. Then, spectral libraries generated from shoots and roots in both ionization modes (ESI +/-) were compared. Totals of 3407 and 4521 spectral signals (m/z_rt) were obtained in the ESI+ and ESI- modes, respectively. Of these, approximately 50 and 65% were identified as differentially synthetized/accumulated. This led to the presumptive identification of 735 KEGG codes (metabolites) belonging to 79 metabolic pathways. The metabolic responses in the shoots and roots of WT genotypes at 4 mM of N favor the synthesis/accumulation of metabolites strongly related to growth. In contrast, for the nia1/nia2 double mutant (similar as the WT genotype at 0.2 mM N), metabolites identified as differentially synthetized/accumulated help cope with stress, regulating oxidative stress and preventing programmed cell death, meaning that metabolic responses under N starvation compromise growth to prioritize a defensive response.
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Affiliation(s)
- Jorge David Cadena-Zamudio
- Red de Estudios Moleculares Avanzados (REMAV), Instituto de Ecología, A.C. (INECOL), Xalapa 91073, Veracruz, Mexico; (J.D.C.-Z.); (J.L.M.-V.); (C.-A.P.-T.); (J.A.G.-A.)
| | - Juan Luis Monribot-Villanueva
- Red de Estudios Moleculares Avanzados (REMAV), Instituto de Ecología, A.C. (INECOL), Xalapa 91073, Veracruz, Mexico; (J.D.C.-Z.); (J.L.M.-V.); (C.-A.P.-T.); (J.A.G.-A.)
| | - Claudia-Anahí Pérez-Torres
- Red de Estudios Moleculares Avanzados (REMAV), Instituto de Ecología, A.C. (INECOL), Xalapa 91073, Veracruz, Mexico; (J.D.C.-Z.); (J.L.M.-V.); (C.-A.P.-T.); (J.A.G.-A.)
- Consejo Nacional de Ciencia y Tecnología, Unidad de Bioquímica y Biología Molecular de Plantas, Merida 97205, Yucatan, Mexico;
| | - Fulgencio Alatorre-Cobos
- Consejo Nacional de Ciencia y Tecnología, Unidad de Bioquímica y Biología Molecular de Plantas, Merida 97205, Yucatan, Mexico;
- Centro de Investigación Científica de Yucatán (CICY), Unidad de Biotecnología, Merida 97205, Yucatan, Mexico
| | - José Antonio Guerrero-Analco
- Red de Estudios Moleculares Avanzados (REMAV), Instituto de Ecología, A.C. (INECOL), Xalapa 91073, Veracruz, Mexico; (J.D.C.-Z.); (J.L.M.-V.); (C.-A.P.-T.); (J.A.G.-A.)
| | - Enrique Ibarra-Laclette
- Red de Estudios Moleculares Avanzados (REMAV), Instituto de Ecología, A.C. (INECOL), Xalapa 91073, Veracruz, Mexico; (J.D.C.-Z.); (J.L.M.-V.); (C.-A.P.-T.); (J.A.G.-A.)
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14
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Kim GE, Sung J. ABA-dependent suberization and aquaporin activity in rice ( Oryza sativa L.) root under different water potentials. FRONTIERS IN PLANT SCIENCE 2023; 14:1219610. [PMID: 37746006 PMCID: PMC10512726 DOI: 10.3389/fpls.2023.1219610] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Accepted: 08/01/2023] [Indexed: 09/26/2023]
Abstract
Drought is one of the most stressful environments limiting crop growth and yield throughout the world. Therefore, most efforts have been made to document drought-derived genetic and physiological responses and to find better ways to improve drought tolerance. The interaction among them is unclear and/or less investigated. Therefore, the current study is to find a clue of metabolic connectivity among them in rice root experiencing different levels of drought condition. We selected 19 genes directly involved in abscisic acid (ABA) metabolism (6), suberization (6), and aquaporins (AQPs) activity (7) and analyzed the relatively quantitative gene expression using qRT-PCR from rice roots. In addition, we also analyzed proline, chlorophyll, and fatty acids and observed cross-sectional root structure (aerenchyma) and suberin lamella deposition in the endodermis. All drought conditions resulted in an obvious development of aerenchyma and two- to fourfold greater accumulation of proline. The limited water supply (-1.0 and -1.5 MPa) significantly increased gene expression (ABA metabolism, suberization, and AQPs) and developed greater layer of suberin lamella in root endodermis. In addition, the ratio of the unsaturated to the saturated fatty acids was increased, which could be considered as an adjusted cell permeability. Interestingly, these metabolic adaptations were an exception with a severe drought condition (hygroscopic coefficient, -3.1 MPa). Accordingly, we concluded that the drought-tolerant mechanism in rice roots is sophisticatedly regulated until permanent wilting point (-1.5 MPa), and ABA metabolism, suberization, and AQPs activity might be independent and/or concurrent process as a survival strategy against drought.
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Affiliation(s)
| | - Jwakyung Sung
- Deptment of Crop Science, Chungbuk National University, Cheong-ju, Republic of Korea
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15
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Yang Z, Tan P, Huang Z, Sun Z, Liu Z, Liu L, Zeng C, Tong J, Yan M. Metabolic profiles in the xylem sap of Brassica juncea exposed to cadmium. PHYSIOLOGIA PLANTARUM 2023; 175:e13886. [PMID: 36862032 DOI: 10.1111/ppl.13886] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 02/17/2023] [Indexed: 06/18/2023]
Abstract
Metabolic profiles in xylem sap are considered a fundamental mechanism for Cadmium (Cd) detoxification in plants. However, the metabolic mechanism of Brassica juncea xylem sap in response to Cd is still unclear. Here, we investigated the effects on the metabolomics of B. juncea xylem sap treated with Cd at different times by utilizing a nontargeted liquid chromatography-mass spectrometry (LC-MS)-based metabolomics method for further elucidating the response mechanism of Cd exposure. The findings indicated that 48 h and 7 days Cd exposure caused significant differences in metabolic profiles of the B. juncea xylem sap. Those differential metabolites are primarily involved in amino acids, organic acids, lipids, and carbohydrates, and most of them were downregulated, which played essential roles in response to Cd stress. Furthermore, B. juncea xylem sap resisted 48-h Cd exposure via regulation of glycerophospholipid metabolism, carbon metabolism, aminoacyl-tRNA biosynthesis, glyoxylate and dicarboxylate metabolism, linoleic acid metabolism, C5-branched dibasic acid metabolism, alpha-linolenic acid metabolism, cyanoamino acid metabolism, ABC transporters, biosynthesis of amino acids, and pyrimidine metabolism; whereas alpha-linolenic acid metabolism, glycerophospholipid metabolism, photosynthesis, and oxidative phosphorylation were regulated for resisting 7-day Cd exposure.
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Affiliation(s)
- Zhen Yang
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Piaopiao Tan
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Zhihao Huang
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Zhenzhen Sun
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Zhixiang Liu
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Lili Liu
- College of Life Sciences, Hunan Key Laboratory of Economic Crops Genetic Improvement and Integrated Utilization, Hunan University of Science and Technology, Xiangtan, China
| | - Chaozhen Zeng
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha, China
| | - Jianhua Tong
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Mingli Yan
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha, China
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16
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Yang R, Li X, Yang Q, Zhao M, Bai W, Liang Y, Liu X, Gao B, Zhang D. Transcriptional profiling analysis providing insights into desiccation tolerance mechanisms of the desert moss Syntrichia caninervis. FRONTIERS IN PLANT SCIENCE 2023; 14:1127541. [PMID: 36909421 PMCID: PMC9995853 DOI: 10.3389/fpls.2023.1127541] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 02/02/2023] [Indexed: 06/18/2023]
Abstract
Syntrichia caninervis is a desiccation tolerant moss and is the dominant bryophyte found in biological soil crusts in the Gurbantunggut desert. In this study, we assessed the transcriptome profiles of S. caninervis gametophytes during the dehydration-rehydration (D-R) process (across 9 time points) using Illumina sequencing. In total, 22489 transcripts were identified, including 5337 novel transcripts, that mapped to the reference genome. A total of 12548 transcripts exhibited significant alterations in the D-R samples compared with the control samples. The differentially expressed transcripts (DETs) possessed several enriched Gene Ontology terms, such as "water stress response", "oxidation-reduction process", "membrane metabolism", "photosynthesis", and "transcription factor activity". Moreover, during early dehydration stress, the DETs were significantly enriched in stress-related pathways from the Kyoto Encyclopedia of Genes and Genomes, such as "phenylpropanoid biosynthesis", "alpha-linolenic acid metabolism", and "fructose and mannose metabolism". Photosynthesis-related transcripts (e.g., ScPsa H, ScRubisco, and ScLhcb1) were inhibited during the dehydration treatment and significantly accumulated during the late rehydration period. Most transcripts from the late embryogenesis abundant proteins (LEA) and early light-inducible protein (ELIP) families strongly accumulated at the late dehydration stage. These pathways were positively correlated with the content changes of absolute water content and Fv/Fm values, alongside peroxidase and superoxide dismutase activities. Seven transcription factor families, including AP2-ERF, bHLH, G2-like, MYB, NAC, WRKY, and bZIP, were enriched in DETs during D-R treatment. This study is the first transcriptome analysis using the S. caninervis genome for gene annotation and multigroup D-R treatment points. Our results demonstrated the detailed dynamic changes in the transcriptome of S. caninervis during the D-R process. These results also improve understanding of desiccation tolerant plants' adaptations to desiccation stress at the transcription level and provide promising gene resources for transgenic crop breeding.
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Affiliation(s)
- Ruirui Yang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Xiaoshuang Li
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Lab of Conservation and Utilization of Plant Gene Resources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Turpan Eremophytes Botanical Garden, Chinese Academy of Sciences, Turpan, China
| | - Qilin Yang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Mingqi Zhao
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Wenwan Bai
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Yuqing Liang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Lab of Conservation and Utilization of Plant Gene Resources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Turpan Eremophytes Botanical Garden, Chinese Academy of Sciences, Turpan, China
| | - Xiujin Liu
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Lab of Conservation and Utilization of Plant Gene Resources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Turpan Eremophytes Botanical Garden, Chinese Academy of Sciences, Turpan, China
| | - Bei Gao
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Lab of Conservation and Utilization of Plant Gene Resources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Turpan Eremophytes Botanical Garden, Chinese Academy of Sciences, Turpan, China
| | - Daoyuan Zhang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Lab of Conservation and Utilization of Plant Gene Resources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Turpan Eremophytes Botanical Garden, Chinese Academy of Sciences, Turpan, China
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L-Arginine Alleviates the Reduction in Photosynthesis and Antioxidant Activity Induced by Drought Stress in Maize Seedlings. Antioxidants (Basel) 2023; 12:antiox12020482. [PMID: 36830040 PMCID: PMC9952503 DOI: 10.3390/antiox12020482] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Revised: 01/27/2023] [Accepted: 02/10/2023] [Indexed: 02/17/2023] Open
Abstract
Maize (Zea mays L.) is one of the most important food crops in the world. Drought is currently the most important abiotic factor affecting maize yield. L-arginine has emerged as a nontoxic plant growth regulator that enhances the tolerance of plants to drought. An experiment was conducted to examine the role of L-arginine in alleviating the inhibitory effects of drought on the photosynthetic capacity and activities of antioxidant enzymes when the plants were subjected to drought stress. The results showed that the biomass of maize seedlings decreased significantly under a 20% polyethylene glycol-simulated water deficit compared with the control treatment. However, the exogenous application of L-arginine alleviated the inhibition of maize growth induced by drought stress. Further analysis of the photosynthetic parameters showed that L-arginine partially restored the chloroplasts' structure under drought stress and increased the contents of chlorophyll, the performance index on an adsorption basis, and Fv/Fm by 151.3%, 105.5%, and 37.1%, respectively. Supplementation with L-arginine also reduced the oxidative damage caused by hydrogen peroxide, malondialdehyde, and superoxide ions by 27.2%, 10.0%, and 31.9%, respectively. Accordingly, the activities of ascorbate peroxidase, catalase, glutathione S-transferase, glutathione reductase, peroxidase, and superoxide dismutase increased by 11.6%, 108.5%, 104.4%, 181.1%, 18.3%, and 46.1%, respectively, under drought. Thus, these findings suggest that L-arginine can improve the drought resistance of maize seedlings by upregulating their rate of photosynthesis and their antioxidant capacity.
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de Brito-Machado D, Ramos YJ, Defaveri ACAE, de Queiroz GA, Guimarães EF, de Lima Moreira D. Volatile Chemical Variation of Essential Oils and Their Correlation with Insects, Phenology, Ontogeny and Microclimate: Piper mollicomum Kunth, a Case of Study. PLANTS (BASEL, SWITZERLAND) 2022; 11:3535. [PMID: 36559647 PMCID: PMC9785739 DOI: 10.3390/plants11243535] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 12/08/2022] [Accepted: 12/10/2022] [Indexed: 06/17/2023]
Abstract
The aim of this study was to monitor the volatile chemical composition from leaves and reproductive organs of Piper mollicomum Kunth (PM), in its reproduction period, as well as register inflorescence visitors, microclimate and phenological information. The essential oils (EOs) obtained from the different fresh organs by hydrodistillation were identified and quantified by Gas Chromatography/Mass Spectrometry (GC/MS) and by GC coupled to a Flame Ionization Detector (GC/FID), respectively. The cercentage content of some volatiles present in reproductive organs, such as limonene, 1,8-cineole, linalool and eupatoriochromene, increased during the maturation period of the inflorescences, and decreased during the fruiting period, suggesting a defense/attraction activities. Furtermore, a biosynthetic dichotomy between 1,8-cineole (leaves) and linalool (reproductive organs) was recorded. A high frequency of bee visits was registered weekly, and some correlations showed a positive relationship between this variable and terpenes. Microclimate has an impact on this species' phenological cycles and insect visiting behavior. All correlations between volatiles, insects, phenology and microclimate allowed us to present important data about the complex information network in PM. These results are extremely relevant for the understanding of the mechanisms of chemical-ecological plant-insect interactions in Piperaceae, a basal angiosperm.
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Affiliation(s)
- Daniel de Brito-Machado
- Instituto de Biologia, Pós-Graduação em Biologia Vegetal, Universidade do Estado do Rio de Janeiro, Maracanã, Rio de Janeiro 20550-013, Brazil
- Diretoria de Pesquisa do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
- Centro de Responsabilidade Socioambiental do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
| | - Ygor Jessé Ramos
- Diretoria de Pesquisa do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
- Centro de Responsabilidade Socioambiental do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
| | - Anna Carina Antunes e Defaveri
- Centro de Responsabilidade Socioambiental do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
| | - George Azevedo de Queiroz
- Diretoria de Pesquisa do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
| | - Elsie Franklin Guimarães
- Diretoria de Pesquisa do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
| | - Davyson de Lima Moreira
- Instituto de Biologia, Pós-Graduação em Biologia Vegetal, Universidade do Estado do Rio de Janeiro, Maracanã, Rio de Janeiro 20550-013, Brazil
- Diretoria de Pesquisa do Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Jardim Botânico do Rio de Janeiro, Rio de Janeiro 22460-030, Brazil
- Instituto de Tecnologia em Fármacos, Fundação Oswaldo Cruz, Manguinhos, Rio de Janeiro 21041-250, Brazil
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19
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Zi X, Wang W, Zhou S, Zhou F, Rao D, Shen P, Fang S, Wu B. Prolonged drought regulates the silage quality of maize ( Zea mays L.): Alterations in fermentation microecology. FRONTIERS IN PLANT SCIENCE 2022; 13:1075407. [PMID: 36570957 PMCID: PMC9780442 DOI: 10.3389/fpls.2022.1075407] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Accepted: 11/29/2022] [Indexed: 06/17/2023]
Abstract
Prolonged drought stress caused by global warming poses a tremendous challenge to silage production of maize. Drought during maize growth and development resulted in altered micro-environment for silage fermentation. How fermentation of silage maize responds to moisture scales remains uncharted territory. In this research, Maize water control trials were conducted and the silage quality and microbial community of drought-affected maize were determined. The results showed that drought stress significantly reduced the dry matter but increased root-to-shoot ratio, soluble sugar and malonaldehyde content in maize. Before fermentation, the crude protein, crude ash and acid detergent fiber contents were significantly increased but the ether extract content was decreased under drought. The crude protein and acid detergent fiber were significantly decreased in the drought affected group after fermentation. Furthermore, water stress at maize maturity stage greatly reduced the number of total bacteria in silage fermentation but increased the proportion of the lactobacillus and lactic acid content of silage. Drought stress alters the microbial ecosystem of the fermentation process and reconstitutes the diversity of the bacterial community and its metabolites. This study provides a theoretical basis for the study of changes in silage fermentation as affected by abiotic stresses.
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Affiliation(s)
- Xuejing Zi
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Wan Wang
- Kunming Seed Management Station, Kunming, Yunnan, China
| | - Shiyong Zhou
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Feng Zhou
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Dongyun Rao
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Peng Shen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Siyang Fang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
| | - Bozhi Wu
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, Yunnan, China
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20
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Ullah S, Khan MN, Lodhi SS, Ahmed I, Tayyab M, Mehmood T, Din IU, Khan M, Sohail Q, Akram M. Targeted metabolomics reveals fatty acid abundance adjustments as playing a crucial role in drought-stress response and post-drought recovery in wheat. Front Genet 2022; 13:972696. [PMID: 36437965 PMCID: PMC9691424 DOI: 10.3389/fgene.2022.972696] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2022] [Accepted: 10/19/2022] [Indexed: 07/30/2023] Open
Abstract
Drought stress is one of the abiotic stresses restricting plant development, reproductive growth, and survival. In the present study, the effect of drought stress and post-drought recovery for the selected local wheat cultivar, Atta Habib, was studied. Wheat was grown for 16 days followed by drought stress for 7 days and allowed to recover for 7 days after the removal of the drought stress. Same-aged untreated plants were also grown as a control. The effect of drought stress and post-drought recovery on morphology (root length, shoot length, root weight, and shoot weight), enzymatic activity, and fatty acid profile were analyzed. The results showed that shoot weight (93.1 mg), root weight (85.2 mg), and shoot length (11.1 cm) decreased in the stressed plants but increased steadily in the recovered plants compared to the same-aged control plants, while root length showed a higher increase (14.0 cm) during drought stress and tended to normalize during the recovery phase (13.4 cm). The ascorbate peroxidase activity increased in the stressed plants (5.44 unit/mg protein) compared to the control, while gradually normalizing in the recovery phase (5.41 unit/mg protein). Gas chromatography coupled mass spectrometric analysis revealed abundance changes in important fatty acids, such as palmitic acid, stearic acid, oleic acid, linoleic acid, and linolenic acid. Palmitic acid (39.1%) and oleic acid (2.11%) increased in the drought-stressed plants, while a reduction in linoleic acid (6.85%) and linolenic acid (51.18%) was observed compared to the same-aged control plants, i.e., palmitic (33.71%), oleic (0.95%), linoleic (7.52%), and linolenic acid (55.23%). The results suggest that wheat tries to recover in the post-drought stage by repairing oxidative damage through ascorbate peroxidase, and by adjusting fatty acid abundances under drought stress and during the post-drought phase in an effort to maintain membranes' integrity and a suitable fat metabolism route, thus helping recovery. Targeted metabolomics may be further used to explore the role of other metabolites in the drought-stress response mechanism in wheat. Furthermore, this relatively little explored avenue of post-drought recovery needs more detailed studies involving multiple stress durations.
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Affiliation(s)
- Safi Ullah
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar, Pakistan
| | - Mudassar Nawaz Khan
- Department of Biotechnology and Genetic Engineering, Hazara University Mansehra, Mansehra, Pakistan
| | | | - Iftikhar Ahmed
- National Culture Collection of Pakistan, Land Resources Research Institute, National Agricultural Research Centre, Islamabad, Pakistan
| | - Muhammad Tayyab
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar, Pakistan
| | - Tariq Mehmood
- Department of Agriculture, Hazara University Mansehra, Mansehra, Pakistan
| | - Israr Ud Din
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar, Pakistan
| | - Majid Khan
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar, Pakistan
| | - Quahir Sohail
- Institute of Biotechnology and Genetic Engineering, The University of Agriculture Peshawar, Peshawar, Pakistan
- AgroBioSiences, University Mohammed VI Polytechnic (UM6P), Ben Guerir, Morocco
| | - Muhammad Akram
- Medicinal Botanic Centre, PCSIR Labs Complex Peshawar, Peshawar, Pakistan
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