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Khan NF, Ahmed SS, Abdulraheem MI, Reshi ZA, Wahab A, Abdi G. Deciphering mycobiota and its functional dynamics in root hairs of Rhododendron campanulatum D. Don through Next-gen sequencing. Sci Rep 2024; 14:10294. [PMID: 38704448 PMCID: PMC11069570 DOI: 10.1038/s41598-024-61120-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2024] [Accepted: 05/02/2024] [Indexed: 05/06/2024] Open
Abstract
The Himalayas provide unique opportunities for the extension of shrubs beyond the upper limit of the tree. However, little is known about the limitation of the biotic factors belowground of shrub growth at these cruising altitudes. To fill this gap, the present study deals with the documentation of root-associated microbiota with their predicted functional profiles and interactions in the host Rhododendron campanulatum, a krummholz species. While processing 12 root samples of R. campanulatum from the sites using Omics we could identify 134 root-associated fungal species belonging to 104 genera, 74 families, 39 orders, 17 classes, and 5 phyla. The root-associated microbiota members of Ascomycota were unambiguously dominant followed by Basidiomycota. Using FUNGuild, we reported that symbiotroph and pathotroph as abundant trophic modes. Furthermore, FUNGuild revealed the dominant prevalence of the saptroptroph guild followed by plant pathogens and wood saprotrophs. Alpha diversity was significantly different at the sites. The heatmap dendrogram showed the correlation between various soil nutrients and some fungal species. The study paves the way for a more in-depth exploration of unidentified root fungal symbionts, their interactions and their probable functional roles, which may serve as an important factor for the growth and conservation of these high-altitude ericaceous plants.
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Affiliation(s)
- Nafeesa Farooq Khan
- Biological Invasion Lab, Department of Botany, University of Kashmir, Srinagar, Jammu & Kashmir, 190006, India.
| | - Sheikh Sajad Ahmed
- Biological Invasion Lab, Department of Botany, University of Kashmir, Srinagar, Jammu & Kashmir, 190006, India
| | - Mukhtar Iderawumi Abdulraheem
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Science, Zhengzhou, 450002, China
| | - Zafar Ahmad Reshi
- Biological Invasion Lab, Department of Botany, University of Kashmir, Srinagar, Jammu & Kashmir, 190006, India
| | - Abdul Wahab
- University of Chinese Academy of Sciences, Beijing, 100049, China
- Shanghai Center for Plant Stress Biology, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032, China
| | - Gholamreza Abdi
- Department of Biotechnology, Persian Gul Research Institute, Persian Gulf University, Bushehr, 75169, Iran.
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Abdulraheem MI, Xiong Y, Moshood AY, Cadenas-Pliego G, Zhang H, Hu J. Mechanisms of Plant Epigenetic Regulation in Response to Plant Stress: Recent Discoveries and Implications. Plants (Basel) 2024; 13:163. [PMID: 38256717 PMCID: PMC10820249 DOI: 10.3390/plants13020163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2023] [Revised: 01/04/2024] [Accepted: 01/05/2024] [Indexed: 01/24/2024]
Abstract
Plant stress is a significant challenge that affects the development, growth, and productivity of plants and causes an adverse environmental condition that disrupts normal physiological processes and hampers plant survival. Epigenetic regulation is a crucial mechanism for plants to respond and adapt to stress. Several studies have investigated the role of DNA methylation (DM), non-coding RNAs, and histone modifications in plant stress responses. However, there are various limitations or challenges in translating the research findings into practical applications. Hence, this review delves into the recent recovery, implications, and applications of epigenetic regulation in response to plant stress. To better understand plant epigenetic regulation under stress, we reviewed recent studies published in the last 5-10 years that made significant contributions, and we analyzed the novel techniques and technologies that have advanced the field, such as next-generation sequencing and genome-wide profiling of epigenetic modifications. We emphasized the breakthrough findings that have uncovered specific genes or pathways and the potential implications of understanding plant epigenetic regulation in response to stress for agriculture, crop improvement, and environmental sustainability. Finally, we concluded that plant epigenetic regulation in response to stress holds immense significance in agriculture, and understanding its mechanisms in stress tolerance can revolutionize crop breeding and genetic engineering strategies, leading to the evolution of stress-tolerant crops and ensuring sustainable food production in the face of climate change and other environmental challenges. Future research in this field will continue to unveil the intricacies of epigenetic regulation and its potential applications in crop improvement.
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Affiliation(s)
- Mukhtar Iderawumi Abdulraheem
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou 450002, China or (M.I.A.); (Y.X.); (A.Y.M.); (H.Z.)
- Henan International Joint Laboratory of Laser Technology in Agriculture Science, Zhengzhou 450002, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450002, China
| | - Yani Xiong
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou 450002, China or (M.I.A.); (Y.X.); (A.Y.M.); (H.Z.)
- Henan International Joint Laboratory of Laser Technology in Agriculture Science, Zhengzhou 450002, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450002, China
| | - Abiodun Yusuff Moshood
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou 450002, China or (M.I.A.); (Y.X.); (A.Y.M.); (H.Z.)
- Henan International Joint Laboratory of Laser Technology in Agriculture Science, Zhengzhou 450002, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450002, China
| | - Gregorio Cadenas-Pliego
- Centro de Investigación en Química Aplicada, Blvd. Enrique Reyna 140, Saltillo 25294, Mexico;
| | - Hao Zhang
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou 450002, China or (M.I.A.); (Y.X.); (A.Y.M.); (H.Z.)
| | - Jiandong Hu
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou 450002, China or (M.I.A.); (Y.X.); (A.Y.M.); (H.Z.)
- Henan International Joint Laboratory of Laser Technology in Agriculture Science, Zhengzhou 450002, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou 450002, China
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Su R, Wu J, Hu J, Ma L, Ahmed S, Zhang Y, Abdulraheem MI, Birech Z, Li L, Li C, Wei W. Minimalizing Non-point Source Pollution Using a Cooperative Ion-Selective Electrode System for Estimating Nitrate Nitrogen in Soil. Front Plant Sci 2022; 12:810214. [PMID: 35095982 PMCID: PMC8790048 DOI: 10.3389/fpls.2021.810214] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Accepted: 12/10/2021] [Indexed: 05/25/2023]
Abstract
Nitrate nitrogen ( NO 3 - -N) in the soil is one of the important nutrients for growing crops. During the period of precipitation or irrigation, an excessive NO 3 - -N readily causes its leaching or runoff from the soil surface to rivers due to inaccurate fertilization and water management, leading to non-point source pollution. In general, the measurement of the NO 3 - -N relies upon the laboratory-based absorbance, which is often time-consuming, therefore not suitable for the rapid measurements in the field directly. Ion-selective electrodes (ISEs) support the possibility of NO 3 - -N measurement by measuring the nitrate ( NO 3 - ) ions in soil quickly and accurately due to the high water solubility and mobility of NO 3 - ions. However, such a method suffers from a complicated calibration to remove the influences caused by both temperature and other ions in the measured solution, thus limiting field use. In this study, a kind of all-solid ISE system combined with a temperature sensor and a pH electrode is proposed to automatically measure the concentrations of the NO 3 - -N. In this study, a soil water content calibration function was established, which significantly reduces a relative error (RE) by 13.09%. The experimental results showed that the stabilization time of this electrode system was less than 15 s with a slope of -51.63 mV/decade in the linear range of 10-5-10-2.2 mol/L. Both the limit of detection of 0.5 ppm of the NO 3 - -N and a relative SD of less than 3% were obtained together with the recovery rate of 90-110%. Compared with the UV-Vis spectroscopy method, a correlation coefficient (R 2) of 0.9952 was obtained. The performances of this all-solid ISE system are satisfied for measuring the NO 3 - -N in the field.
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Affiliation(s)
- Rui Su
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Junfeng Wu
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
| | - Jiandong Hu
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Liuzheng Ma
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Shakeel Ahmed
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Yanyan Zhang
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Mukhtar Iderawumi Abdulraheem
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
- Department of Agricultural Science Education, Oyo State College of Education, Lanlate, Nigeria
| | - Zephania Birech
- Department of Physics, University of Nairobi, Nairobi, Kenya
| | - Linze Li
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Can Li
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
| | - Wentao Wei
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, China
- Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, China
- State Key Laboratory of Wheat and Maize Crop Science, Zhengzhou, China
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Naqvi SMZA, Zhang Y, Ahmed S, Abdulraheem MI, Hu J, Tahir MN, Raghavan V. Applied surface enhanced Raman Spectroscopy in plant hormones detection, annexation of advanced technologies: A review. Talanta 2022; 236:122823. [PMID: 34635213 DOI: 10.1016/j.talanta.2021.122823] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Revised: 08/20/2021] [Accepted: 08/22/2021] [Indexed: 12/13/2022]
Abstract
Plant hormones are the molecules that control the vigorous development of plants and help to cope with the stress conditions efficiently due to vital and mechanized physiochemical regulations. Biologists and analytical chemists, both endorsed the extreme problems to quantify plant hormones due to their low level existence in plants and the technological support is devastatingly required to established reliable and efficient detection methods of plant hormones. Surface Enhanced Raman Spectroscopy (SERS) technology is becoming vigorously favored and can be used to accurately and specifically identify biological and chemical molecules. Subsistence molecular properties with varying excitation wavelength require the pertinent substrate to detect SERS signals from plant hormones. Three typical mechanisms of Raman signal enhancement have been discovered, electromagnetic, chemical and Tip-enhanced Raman spectroscopy (TERS). Though, complex detection samples hinder in consistent and reproducible results of SERS-based technology. However, different algorithmic models applied on preprocessed data enhanced the prediction performances of Raman spectra by many folds and decreased the fluorescence value. By incorporating SERS measurements into the microfluidic platform, further highly repeatable SERS results can be obtained. This review paper tends to study the fundamental working principles, methods, applications of SERS systems and their execution in experiments of rapid determination of plant hormones as well as several ways of integrated SERS substrates. The challenges to develop an SERS-microfluidic framework with reproducible and accurate results for plant hormone detection are discussed comprehensively and highlighted the key areas for future investigation briefly.
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Affiliation(s)
- Syed Muhammad Zaigham Abbas Naqvi
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China; Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, 450002, China.
| | - Yanyan Zhang
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China; Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, 450002, China.
| | - Shakeel Ahmed
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China; Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, 450002, China.
| | - Mukhtar Iderawumi Abdulraheem
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China; Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, 450002, China; Oyo State College of Education, Lanlate, 202001, Nigeria.
| | - Jiandong Hu
- Department of Electrical Engineering, Henan Agricultural University, Zhengzhou, 450002, China; Henan International Joint Laboratory of Laser Technology in Agriculture Sciences, Zhengzhou, 450002, China.
| | - Muhammad Naveed Tahir
- Department of Agronomy, PMAS-Arid Agriculture University Rawalpindi, 46300, Pakistan.
| | - Vijaya Raghavan
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, QC, H9X 3V9, Canada
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