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Kaur A, Madhu, Sharma A, Singh K, Upadhyay SK. Investigation of two-pore K + (TPK) channels in Triticum aestivum L. suggests their role in stress response. Heliyon 2024; 10:e27814. [PMID: 38533012 PMCID: PMC10963239 DOI: 10.1016/j.heliyon.2024.e27814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 02/28/2024] [Accepted: 03/07/2024] [Indexed: 03/28/2024] Open
Abstract
Two-pore K+ (TPK) channels are voltage-independent and involved in stress response in plants. Herein, we identified 12 TaTPK genes located on nine chromosomes in the Triticum aestivum genome. The majority of TaTPK genes comprised two exons. Each TaTPK channel comprised four transmembrane (TM) helices, N- and C-terminal ion-channel domains, two EF-hand domains and one 14-3-3 binding site. Additionally, highly conserved 'GYGD' motif responsible for K+ ion specificity, was found in between the TMs in both the ion-channel domains. Nine TaTPK channels were predicted to be localised at the plasma membrane, while three were vacuolar. The protein-protein and protein-chemical interactions indicated the coordinated functioning of the TaTPK channels with the other K+ transporters and their possible interaction with the Ca2+-signaling pathway. Expression studies suggested their importance in both vegetative and reproductive tissues development. Significantly modulated expression of various TaTPK genes during heat, drought, combined heat and drought and salt stresses, and after fungal infestation, depicted their function in stress responses. The miRNAs and transcription factors interaction analyses suggested their role in the hormone, light, growth and development-related, and stress-responsive signaling cascades. The current study suggested vital functions of various TaTPK genes, especially in stress response, and would provide an opportunity for their detailed characterization in future studies.
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Affiliation(s)
- Amandeep Kaur
- Department of Botany, Panjab University, Chandigarh, India, 160014
| | - Madhu
- Department of Botany, Panjab University, Chandigarh, India, 160014
| | - Alok Sharma
- Department of Botany, Panjab University, Chandigarh, India, 160014
- Regional Ayurveda Research Institute, Gwalior, Madhya Pradesh, 474001, India
| | - Kashmir Singh
- Department of Biotechnology, Panjab University, Chandigarh, India
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Physiological and Transcriptional Responses of Apocynum venetum to Salt Stress at the Seed Germination Stage. Int J Mol Sci 2023; 24:ijms24043623. [PMID: 36835035 PMCID: PMC9966927 DOI: 10.3390/ijms24043623] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2023] [Revised: 02/09/2023] [Accepted: 02/09/2023] [Indexed: 02/15/2023] Open
Abstract
Apocynum venetum is a semi-shrubby perennial herb that not only prevents saline-alkaline land degradation but also produces leaves for medicinal uses. Although physiological changes during the seed germination of A. venetum in response to salt stress have been studied, the adaptive mechanism to salt conditions is still limited. Here, the physiological and transcriptional changes during seed germination under different NaCl treatments (0-300 mmol/L) were examined. The results showed that the seed germination rate was promoted at low NaCl concentrations (0-50 mmol/L) and inhibited with increased concentrations (100-300 mmol/L); the activity of antioxidant enzymes exhibited a significant increase from 0 (CK) to 150 mmol/L NaCl and a significant decrease from 150 to 300 mmol/L; and the content of osmolytes exhibited a significant increase with increased concentrations, while the protein content peaked at 100 mmol/L NaCl and then significantly decreased. A total of 1967 differentially expressed genes (DEGs) were generated during seed germination at 300 mmol/L NaCl versus (vs.) CK, with 1487 characterized genes (1293 up-regulated, UR; 194 down-regulated, DR) classified into 11 categories, including salt stress (29), stress response (146), primary metabolism (287), cell morphogenesis (156), transcription factor (TFs, 62), bio-signaling (173), transport (144), photosynthesis and energy (125), secondary metabolism (58), polynucleotide metabolism (21), and translation (286). The relative expression levels (RELs) of selected genes directly involved in salt stress and seed germination were observed to be consistent with the changes in antioxidant enzyme activities and osmolyte contents. These findings will provide useful references to improve seed germination and reveal the adaptive mechanism of A. venetum to saline-alkaline soils.
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Tan L, Waqas M, Rehman A, Rashid MAR, Fiaz S, Manzoor H, Azeem F. Computational analysis and expression profiling of potassium transport-related gene families in mango ( Mangifera indica) indicate their role in stress response and fruit development. FRONTIERS IN PLANT SCIENCE 2023; 13:1102201. [PMID: 36756234 PMCID: PMC9899903 DOI: 10.3389/fpls.2022.1102201] [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: 11/18/2022] [Accepted: 12/21/2022] [Indexed: 06/18/2023]
Abstract
Mango (Mangifera indica) fruit is known for its taste, health benefits, and drought tolerance. Potassium (K+) is one of the most abundant ions in a plant cell. It is important for various biological functions related to plant growth, development, and flowering/fruiting. It significantly contributes to fruit yield, quality, and drought tolerance in plants. However, molecular mechanisms comprising K+ transport in mango are least known. In the present study, 37 members of K+ transport-related genes (PTGs) were identified in mango, which include 22 K+ transporters (16 HAKs, 1 HKT, and 6 KEAs) and 15 K+ channels (6 TPKs and 8 Shakers). All PTGs were predicted to be expressed at the plasma membrane and possess characteristic motifs and domains. Phylogenetic analysis identified a strong kinship of PTGs among Oryza sativa, Arabidopsis thaliana, Cicer arietinum, Malus domestica, and M. indica. The promoter analysis identified 60 types of cis-elements related to various biological processes. RNA-seq-based expression profiling identified that MiTPK1.2, MiHAK1, MiHAK2.1, HAK6.1, and MiAKT1.1 were most upregulated in roots and that MiKEA2, MiAKT2, and MiAKT1 were upregulated in leaves. Moreover, MiAKT6, MiHAK1.1, MiKAT2, MiKAT2.1, MiHKT1, MiTPK1.1, MiHAK7, and MiHAK12 were highly expressed during the five growth stages of mango fruit. The current study is the first comprehensive report on K+ transport system in tropical fruits. Therefore, it will provide the foundation knowledge for the functional characterization of K+ genes in mango and related plants.
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Affiliation(s)
- Lin Tan
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, China
| | - Muhammad Waqas
- Department of Bioinformatics and Biotechnology, Government College University, Faisalabad, Pakistan
| | - Abdul Rehman
- Department of Bioinformatics and Biotechnology, Government College University, Faisalabad, Pakistan
| | | | - Sajid Fiaz
- Department of Plant Breeding and Genetics, The University of Haripur, Haripur, Pakistan
| | - Hamid Manzoor
- Institute of Molecular Biology and Biotechnology, Bahauddin Zakariya University, Multan, Pakistan
| | - Farrukh Azeem
- Department of Bioinformatics and Biotechnology, Government College University, Faisalabad, Pakistan
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Peng Y, Cao H, Peng Z, Zhou L, Sohail H, Cui L, Yang L, Huang Y, Bie Z. Transcriptomic and functional characterization reveals CsHAK5;3 as a key player in K + homeostasis in grafted cucumbers under saline conditions. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2023; 326:111509. [PMID: 36283579 DOI: 10.1016/j.plantsci.2022.111509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2022] [Revised: 10/18/2022] [Accepted: 10/21/2022] [Indexed: 06/16/2023]
Abstract
Grafting can improve the salt tolerance of many crops. However, critical genes in scions responsive to rootstock under salt stress remain a mystery. We found that pumpkin rootstock decreased the content of Na+ by 70.24 %, increased the content of K+ by 25.9 %, and increased the K+/Na+ ratio by 366.0 % in cucumber scion leaves. RNA-seq analysis showed that ion transport-related genes were the key genes involved in salt stress tolerance in grafted cucumber. The identification and analysis of the expression of K+ transporter proteins in cucumber and pumpkin revealed six and five HAK5 members, respectively. The expression of CsHAK5;3 in cucumber was elevated in different graft combinations under salt stress and most notably in cucumber scion/pumpkin rootstock. CsHAK5;3 was localized to the plasma membrane, and a yeast complementation assay revealed that it can transport K+. CsHAK5;3 knockout in hairy root mutants decreased the K+ content of leaves (45.6 %) and roots (50.3 %), increased the Na+ content of leaves (29.3 %) and roots (34.8 %), and decreased the K+/Na+ ratio of the leaves (57.9 %) and roots (62.9 %) in cucumber. However, CsHAK5;3 overexpression in hairy roots increased the K+ content of the leaves (31.2 %) and roots (38.3 %), decreased the Na+ content of leaves (17.2 %) and roots (14.3 %), and increased the K+/Na+ ratio of leaves (58.9 %) and roots (61.6 %) in cucumber. In conclusion, CsHAK5;3 in cucumber can mediate K+ transport and is one of the key target pumpkin genes that enhance salt tolerance of cucumber grafted.
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Affiliation(s)
- Yuquan Peng
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Haishun Cao
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China; Institute of Facility Agriculture, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Zhaowen Peng
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Lijian Zhou
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Hamza Sohail
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Lvjun Cui
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Li Yang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Yuan Huang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China.
| | - Zhilong Bie
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China.
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Li Q, Du W, Tian X, Jiang W, Zhang B, Wang Y, Pang Y. Genome-wide characterization and expression analysis of the HAK gene family in response to abiotic stresses in Medicago. BMC Genomics 2022; 23:791. [PMID: 36456911 PMCID: PMC9714174 DOI: 10.1186/s12864-022-09009-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Accepted: 11/14/2022] [Indexed: 12/03/2022] Open
Abstract
The high-affinity K+ transporter (HAK) family plays a vital role in K+ uptake and transport as well as in salt and drought stress responses. In the present study, we identified 22 HAK genes in each Medicago truncatula and Medicago sativa genome. Phylogenetic analysis suggested that these HAK proteins could be divided into four clades, and the members of the same subgroup share similar gene structure and conserved motifs. Many cis-acting elements related with defense and stress were found in their promoter region. In addition, gene expression profiles analyzed with genechip and transcriptome data showed that these HAK genes exhibited distinct expression pattern in different tissues, and in response to salt and drought treatments. Furthermore, co-expression analysis showed that 6 homologous HAK hub gene pairs involved in direct network interactions. RT-qPCR verified that the expression level of six HAK gene pairs was induced by NaCl and mannitol treatment to different extents. In particular, MtHK2/7/12 from M. truncatula and MsHAK2/6/7 from M. sativa were highly induced. The expression level of MsHAK1/2/11 determined by RT-qPCR showed significantly positive correlation with transcriptome data. In conclusion, our study shows that HAK genes play a key role in response to various abiotic stresses in Medicago, and the highly inducible candidate HAK genes could be used for further functional studies and molecular breeding in Medicago.
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Affiliation(s)
- Qian Li
- grid.410727.70000 0001 0526 1937Institute of Animal Science, Chinese Academy of Agricultural Sciences, 100193 Beijing, China ,grid.413251.00000 0000 9354 9799West Arid Region Grassland Resource and Ecology Key Laboratory, College of Grassland and Environmental Sciences, Xinjiang Agricultural University, 830052 Urumqi, China
| | - Wenxuan Du
- grid.410727.70000 0001 0526 1937Institute of Animal Science, Chinese Academy of Agricultural Sciences, 100193 Beijing, China
| | - Xinge Tian
- grid.262246.60000 0004 1765 430XQinghai Academy of Agriculture and Forestry Sciences, Qinghai University, 810016 Xining, Qinghai, China
| | - Wenbo Jiang
- grid.410727.70000 0001 0526 1937Institute of Animal Science, Chinese Academy of Agricultural Sciences, 100193 Beijing, China
| | - Bo Zhang
- grid.413251.00000 0000 9354 9799West Arid Region Grassland Resource and Ecology Key Laboratory, College of Grassland and Environmental Sciences, Xinjiang Agricultural University, 830052 Urumqi, China
| | - Yuxiang Wang
- grid.413251.00000 0000 9354 9799West Arid Region Grassland Resource and Ecology Key Laboratory, College of Grassland and Environmental Sciences, Xinjiang Agricultural University, 830052 Urumqi, China
| | - Yongzhen Pang
- grid.410727.70000 0001 0526 1937Institute of Animal Science, Chinese Academy of Agricultural Sciences, 100193 Beijing, China
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Anil Kumar S, Hima Kumari P, Nagaraju M, Sudhakar Reddy P, Durga Dheeraj T, Mack A, Katam R, Kavi Kishor PB. Genome-wide identification and multiple abiotic stress transcript profiling of potassium transport gene homologs in Sorghum bicolor. FRONTIERS IN PLANT SCIENCE 2022; 13:965530. [PMID: 36119582 PMCID: PMC9478208 DOI: 10.3389/fpls.2022.965530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Accepted: 08/04/2022] [Indexed: 06/15/2023]
Abstract
Potassium (K+) is the most abundant cation that plays a crucial role in various cellular processes in plants. Plants have developed an efficient mechanism for the acquisition of K+ when grown in K+ deficient or saline soils. A total of 47 K+ transport gene homologs (27 HAKs, 4 HKTs, 2 KEAs, 9 AKTs, 2 KATs, 2 TPCs, and 1 VDPC) have been identified in Sorghum bicolor. Of 47 homologs, 33 were identified as K+ transporters and the remaining 14 as K+ channels. Chromosome 2 has been found as the hotspot of K+ transporters with 9 genes. Phylogenetic analysis revealed the conservation of sorghum K+ transport genes akin to Oryza sativa. Analysis of regulatory elements indicates the key roles that K+ transport genes play under different biotic and abiotic stress conditions. Digital expression data of different developmental stages disclosed that expressions were higher in milk, flowering, and tillering stages. Expression levels of the genes SbHAK27 and SbKEA2 were higher during milk, SbHAK17, SbHAK11, SbHAK18, and SbHAK7 during flowering, SbHAK18, SbHAK10, and 23 other gene expressions were elevated during tillering inferring the important role that K+ transport genes play during plant growth and development. Differential transcript expression was observed in different tissues like root, stem, and leaf under abiotic stresses such as salt, drought, heat, and cold stresses. Collectively, the in-depth genome-wide analysis and differential transcript profiling of K+ transport genes elucidate their role in ion homeostasis and stress tolerance mechanisms.
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Affiliation(s)
- S. Anil Kumar
- Department of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Guntur, India
- Department of Biological Sciences, Florida A&M University, Tallahassee, FL, United States
| | - P. Hima Kumari
- Department of Biological Sciences, Florida A&M University, Tallahassee, FL, United States
| | - Marka Nagaraju
- Biochemistry Division, National Institute of Nutrition, Hyderabad, India
| | | | - T. Durga Dheeraj
- Department of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Guntur, India
| | - Alexis Mack
- Department of Biological Sciences, Florida A&M University, Tallahassee, FL, United States
- Department of Biology, Florida State University, Tallahassee, FL, United States
| | - Ramesh Katam
- Department of Biological Sciences, Florida A&M University, Tallahassee, FL, United States
| | - P. B. Kavi Kishor
- Department of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Guntur, India
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Characterization of the Gene Expression Profile Response to Drought Stress in Populus ussuriensis Using PacBio SMRT and Illumina Sequencing. Int J Mol Sci 2022; 23:ijms23073840. [PMID: 35409200 PMCID: PMC8998571 DOI: 10.3390/ijms23073840] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Revised: 03/27/2022] [Accepted: 03/28/2022] [Indexed: 12/26/2022] Open
Abstract
In this study, we characterized the gene expression profile in the roots of Populus ussuriensis at 0, 6, 12, 24, 48 and 120 h after the start of polyethylene glycol (PEG)-induced drought stress using PacBio single-molecule real-time sequencing (SMRT-seq) and Illumina RNA sequencing. Compared to the control, 2244 differentially expressed genes (DEGs) were identified, and many of these DEGs were associated with the signal transduction, antioxidant system, ion accumulation and drought-inducing proteins. Changes in certain physiological and biochemical indexes, such as antioxidant activity and the contents of Ca2+, proline, and total soluble sugars, were further confirmed in P. ussuriensis roots. Furthermore, most of the differentially expressed transcription factors were members of the AP2/ERF, C2H2, MYB, NAC, C2C2 and WRKY families. Additionally, based on PacBio SMRT-seq results, 5955 long non-coding RNAs and 700 alternative splicing events were identified. Our results provide a global view of the gene expression profile that contributes to drought resistance in P. ussuriensis and meaningful information for genetic engineering research in the future.
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