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Luo D, Usman M, Pang F, Zhang W, Qin Y, Li Q, Li Y, Xing Y, Dong D. Comparative transcriptomic and physiological analyses unravel wheat source root adaptation to phosphorous deficiency. Sci Rep 2024; 14:11050. [PMID: 38745054 PMCID: PMC11094128 DOI: 10.1038/s41598-024-61767-z] [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: 01/19/2024] [Accepted: 05/09/2024] [Indexed: 05/16/2024] Open
Abstract
Phosphorus (P) is a crucial macronutrient for plant growth and development. Basic metabolic processes regulate growth; however, the molecular detail of these pathways under low phosphorous (LP) in wheat is still unclear. This study aims to elucidate the varied regulatory pathways responses to LP stress in wheat genotypes. Phenotypic, physiological, and transcriptome analyses were conducted on Fielder (P efficient) and Ardito (P inefficient) wheat genotypes after four days of normal phosphorous (NP) and LP stress. In response to LP, Fielder outperformed Ardito, displaying higher chlorophyll content-SPAD values (13%), plant height (45%), stem diameter (12%), shoot dry weight (42%), and root biomass (75%). Root structure analysis revealed that Fielder had greater total root length (50%), surface area (56%), volume (15%), and diameter (4%) than Ardito under LP. These findings highlight Fielder's superior performance and adaptation to LP stress. Transcriptome analysis of wheat genotype roots identified 3029 differentially expressed genes (DEGs) in Fielder and 1430 in Ardito, highlighting LP-induced changes. Key DEGs include acid phosphatases (PAPs), phosphate transporters (PHT1 and PHO1), SPX, and transcription factors (MYB, bHLH, and WRKY). KEGG enrichment analysis revealed key pathways like plant hormones signal transduction, biosynthesis of secondary metabolites, and carbohydrate biosynthesis metabolism. This study unveils crucial genes and the intricate regulatory process in wheat's response to LP stress, offering genetic insights for enhancing plant P utilization efficiency.
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Affiliation(s)
- Daozhen Luo
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Muhammad Usman
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Fei Pang
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Wenjie Zhang
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Ying Qin
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Qing Li
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China
| | - Yangrui Li
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, China
| | - Yongxiu Xing
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China.
| | - Dengfeng Dong
- Guangxi Key Laboratory of Agro-Environment and Agric-Products Safety, College of Agriculture, Guangxi University, Nanning, 530004, China.
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Zhao X, Chen KK, Wang LT, Zhao LL, Wang PC. Transcriptome analysis provides insights into the response of Lotus corniculatus roots to low-phosphorus stress. FRONTIERS IN PLANT SCIENCE 2023; 14:1089380. [PMID: 36938008 PMCID: PMC10014540 DOI: 10.3389/fpls.2023.1089380] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Accepted: 02/17/2023] [Indexed: 06/18/2023]
Abstract
INTRODUCTION A lack of soil phosphorus (P) is a principal factor restricting the normal growth of Lotus corniculatus in the karst area of Guizhou Province, China, but the response mechanism of L. corniculatus under low-phosphorus stress remains unclear. METHODS Therefore, we treated two selected L. corniculatus lines (low-P-intolerant line 08518 and low-P-tolerant line 01549) from 13 L. corniculatus lines with normal phosphorus (0.5 mmol/L KH2PO4, NP) and low phosphorus (0.005 mmol/L KH2PO4, LP) concentrations to study changes in morphological, physiological and transcriptome data under low-phosphorus stress. RESULTS The low-P-tolerant line 01549 exhibited better performance under low-phosphorus stress. Compared with the NP treatment, all root morphological indicators of the low-P-tolerant line 01549 increased, and those of the low-P-intolerant line 08518 decreased under low-P stress. Compared with the NP treatment, acid phosphatase (ACP), catalase (CAT), superoxide dismutase (SOD), and peroxidase (POD) activities, and the malondialdehyde (MDA), soluble sugar (SS), soluble protein (SP) and proline (Pro) contents of the two L. corniculatus lines increased under low-P stress. A transcriptome analysis of L. corniculatus showed that a total of 656 and 2243 differentially expressed genes (DEGs) were identified in line 01549 and line 08518, respectively. Meanwhile, the main pathways, such as carbohydrate metabolism, acid phosphatases, phosphate transporters and biosynthesis of secondary metabolites, as well as related genes were also screened by performing a KEGG enrichment analysis. DISCUSSION The findings provide an essential point of reference for studying the physiological and molecular mechanism of the response to low-P stress in L. corniculatus.
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Affiliation(s)
- Xin Zhao
- College of Animal Science, Guizhou University, Guiyang, China
| | - Ke-ke Chen
- College of Animal Science, Guizhou University, Guiyang, China
| | - Lei-ting Wang
- College of Animal Science, Guizhou University, Guiyang, China
| | - Li-Li Zhao
- College of Animal Science, Guizhou University, Guiyang, China
| | - Pu-Chang Wang
- School of Life Sciences, Guizhou Normal University, Guiyang, China
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Islam MR, Hossain MR, Jesse DMI, Jung HJ, Kim HT, Park JI, Nou IS. Characterization, identification and expression profiling of genome-wide R-genes in melon and their putative roles in bacterial fruit blotch resistance. BMC Genet 2020; 21:80. [PMID: 32698865 PMCID: PMC7376666 DOI: 10.1186/s12863-020-00885-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 07/12/2020] [Indexed: 11/30/2022] Open
Abstract
Background Bacterial fruit blotch (BFB), a disease caused by Acidovorax citrulli, results in significant economic losses in melon. The causal QTLs and genes for resistance to this disease have yet to be identified. Resistance (R)-genes play vital roles in resistance to plant diseases. Since the complete genome sequence of melon is available and genome-wide identification of R-genes has been performed for this important crop, comprehensive expression profiling may lead to the identification of putative candidate genes that function in the response to BFB. Results We identified melon accessions that are resistant and susceptible to BFB through repeated bioassays and characterized all 70 R-genes in melon, including their gene structures, chromosomal locations, domain organizations, motif distributions, and syntenic relationships. Several disease resistance-related domains were identified, including NBS, TIR, LRR, CC, RLK, and DUF domains, and the genes were categorized based on the domains of their encoded proteins. In addition, we profiled the expression patterns of the genes in melon accessions with contrasting levels of BFB resistance at 12 h, 1 d, 3 d, and 6 d after inoculation with A. citrulli. Six R-genes exhibited consistent expression patterns (MELO3C023441, MELO3C016529, MELO3C022157, MELO3C022146, MELO3C025518, and MELO3C004303), with higher expression levels in the resistant vs. susceptible accession. Conclusion We identified six putative candidate R-genes against BFB in melon. Upon functional validation, these genes could be targeted for manipulation via breeding and biotechnological approaches to improve BFB resistance in melon in the future.
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Affiliation(s)
- Md Rafiqul Islam
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea.,Department of Biotechnology, Sher-e-Bangla Agricultural University, Dhaka, 1207, Bangladesh
| | - Mohammad Rashed Hossain
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea.,Department of Genetics and Plant Breeding, Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh
| | | | - Hee-Jeong Jung
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea
| | - Hoy-Taek Kim
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea
| | - Jong-In Park
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea
| | - Ill-Sup Nou
- Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea.
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Naureen Z, Sham A, Al Ashram H, Gilani SA, Al Gheilani S, Mabood F, Hussain J, Al Harrasi A, AbuQamar SF. Effect of phosphate nutrition on growth, physiology and phosphate transporter expression of cucumber seedlings. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2018; 127:211-222. [PMID: 29614440 DOI: 10.1016/j.plaphy.2018.03.028] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2017] [Revised: 03/22/2018] [Accepted: 03/23/2018] [Indexed: 06/08/2023]
Abstract
Although abundantly present in soils, inorganic phosphate (Pi) acquisition by plants is highly dependent on the transmembrane phosphate transporter (PT) gene family. Cucumber (Cucumis sativus) requires a large amount of phosphorus (P). The purpose of this study was to isolate the CsPT2-1 from cucumber roots, and to determine the influence of Pi nutrition on cucumber growth, metabolism and transcript levels of CsPT2-1 in tissues. Full length CsPT2-1 was cloned and phylogenetically identified. In two greenhouse experiments, P-deficient seedlings provided with low or high P concentrations were sampled at 10 and 21 days post treatment, respectively. Addition of P dramatically reduced growth of roots but not shoots. Supplying plants with high P resulted in increased total protein in leaves. Acid phosphatase activity increased significantly in leaves at any rate higher than 4 mM P. Increasing P concentration had a notable decrease in glucose concentrations in leaves of plants supplied with >0.5 mM P. In roots, glucose and starch concentrations increased with increasing P supply. Steady-state transcript levels of CsPT2-1 were high in P-deprived roots, but declined when plants were provided >10 mM P. To our knowledge, this is the first report focusing on a PT and its expression levels in cucumber.
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Affiliation(s)
- Zakira Naureen
- Department of Biological Sciences and Chemistry, University of Nizwa, Nizwa, Oman
| | - Arjun Sham
- Department of Biology, United Arab Emirates University, P.O. Box 15551, Al-Ain, United Arab Emirates
| | - Hibatullah Al Ashram
- Department of Biology, United Arab Emirates University, P.O. Box 15551, Al-Ain, United Arab Emirates
| | - Syed A Gilani
- Department of Biological Sciences and Chemistry, University of Nizwa, Nizwa, Oman
| | - Salma Al Gheilani
- Department of Biological Sciences and Chemistry, University of Nizwa, Nizwa, Oman
| | - Fazal Mabood
- Department of Biological Sciences and Chemistry, University of Nizwa, Nizwa, Oman
| | - Javid Hussain
- Department of Biological Sciences and Chemistry, University of Nizwa, Nizwa, Oman
| | - Ahmed Al Harrasi
- UoN Chair of Oman's Medicinal Plants and Marine Natural Products, University of Nizwa, Oman
| | - Synan F AbuQamar
- Department of Biology, United Arab Emirates University, P.O. Box 15551, Al-Ain, United Arab Emirates.
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Hasan MM, Hasan MM, Teixeira da Silva JA, Li X. Regulation of phosphorus uptake and utilization: transitioning from current knowledge to practical strategies. Cell Mol Biol Lett 2016; 21:7. [PMID: 28536610 PMCID: PMC5415736 DOI: 10.1186/s11658-016-0008-y] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2015] [Accepted: 11/04/2015] [Indexed: 11/18/2022] Open
Abstract
Phosphorus is a poorly bioavailable macronutrient that is essential for crop growth and yield. Overuse of phosphorus fertilizers results in low phosphorus use efficiency (PUE), has serious environmental consequences and accelerates the depletion of phosphorus mineral reserves. It has become extremely challenging to improve PUE while preserving global food supplies and maintaining environmental sustainability. Molecular and genetic analyses have revealed the primary mechanisms of phosphorus uptake and utilization and their relationships to phosphorus transporters, regulators, root architecture, metabolic adaptations, quantitative trait loci, hormonal signaling and microRNA. The ability to improve PUE requires a transition from this knowledge of molecular mechanisms and plant architecture to practical strategies. These could include: i) the use of arbuscular mycorrhizal fungal symbioses for efficient phosphorus mining and uptake; ii) intercropping with suitable crop species to achieve phosphorus activation and mobilization in the soil; and iii) tissue-specific overexpression of homologous genes with advantageous agronomic properties for higher PUE along with breeding for phosphorus-efficient varieties and introgression of key quantitative trait loci. More effort is required to further dissect the mechanisms controlling phosphorus uptake and utilization within plants and provide new insight into the means to efficiently improve PUE.
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Affiliation(s)
- Md. Mahmudul Hasan
- The Key Laboratory of Plant-Soil Interactions, MOE, Center for Resources, Environment and Food Security, Department of Plant Nutrition, China Agricultural University, Beijing, 100193 China
| | - Md. Mainul Hasan
- Faculty of Agriculture, Patuakhali Science and Technology University, Dumki, Patuakhali Bangladesh
| | | | - Xuexian Li
- The Key Laboratory of Plant-Soil Interactions, MOE, Center for Resources, Environment and Food Security, Department of Plant Nutrition, China Agricultural University, Beijing, 100193 China
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Liang C, Wang J, Zhao J, Tian J, Liao H. Control of phosphate homeostasis through gene regulation in crops. CURRENT OPINION IN PLANT BIOLOGY 2014; 21:59-66. [PMID: 25036899 DOI: 10.1016/j.pbi.2014.06.009] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2014] [Revised: 06/23/2014] [Accepted: 06/23/2014] [Indexed: 05/23/2023]
Abstract
Phosphorus (P) is an essential yet frequently deficient element in plants. Maintenance of phosphate (Pi) homeostasis is crucial for crop production. In comparison with the model plant Arabidopsis, crops face wider ranges and larger fluctuations in P supply from the soil environment, and thus develop more complicated strategies to improve Pi acquisition and utilization efficiency. Undergirding these strategies, there are numerous genes involved in alternative metabolism pathways that are regulated by complex Pi signaling networks. In this review, we intend to summarize the recent advances in crops on control of Pi homeostasis through gene regulation from Pi acquisition and mobilization within plants, as well as activation of rhizosphere P and P uptake through symbiotic associations.
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Affiliation(s)
- Cuiyue Liang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China
| | - Jinxiang Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China
| | - Jing Zhao
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China
| | - Jiang Tian
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China
| | - Hong Liao
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China.
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Fan F, Cui B, Zhang T, Qiao G, Ding G, Wen X. The temporal transcriptomic response of Pinus massoniana seedlings to phosphorus deficiency. PLoS One 2014; 9:e105068. [PMID: 25165828 PMCID: PMC4148236 DOI: 10.1371/journal.pone.0105068] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2014] [Accepted: 07/20/2014] [Indexed: 11/18/2022] Open
Abstract
BACKGROUND Phosphorus (P) is an essential macronutrient for plant growth and development. Several genes involved in phosphorus deficiency stress have been identified in various plant species. However, a whole genome understanding of the molecular mechanisms involved in plant adaptations to low P remains elusive, and there is particularly little information on the genetic basis of these acclimations in coniferous trees. Masson pine (Pinus massoniana) is grown mainly in the tropical and subtropical regions in China, many of which are severely lacking in inorganic phosphate (Pi). In previous work, we described an elite P. massoniana genotype demonstrating a high tolerance to Pi-deficiency. METHODOLOGY/PRINCIPAL FINDINGS To further investigate the mechanism of tolerance to low P, RNA-seq was performed to give an idea of extent of expression from the two mixed libraries, and microarray whose probes were designed based on the unigenes obtained from RNA-seq was used to elucidate the global gene expression profiles for the long-term phosphorus starvation. A total of 70,896 unigenes with lengths ranging from 201 to 20,490 bp were assembled from 112,108,862 high quality reads derived from RNA-Seq libraries. We identified 1,396 and 943 transcripts that were differentially regulated (P<0.05) under P1 (0.01 mM P) and P2 (0.06 mM P) Pi-deficiency conditions, respectively. Numerous transcripts were consistently differentially regulated under Pi deficiency stress, many of which were also up- or down-regulated in other species under the corresponding conditions, and are therefore ideal candidates for monitoring the P status of plants. The results also demonstrated the impact of different Pi starvation levels on global gene expression in Masson pine. CONCLUSIONS/SIGNIFICANCE To our knowledge, this work provides the first insight into the molecular mechanisms involved in acclimation to long-term Pi starvation and different Pi availability levels in coniferous trees.
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Affiliation(s)
- Fuhua Fan
- Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
- School of Forestry Science, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
- The School of Nuclear Technology and Chemical and Biological, Hubei University of Science and Technology, Xianning, Hubei Province, People’s Republic of China
| | - Bowen Cui
- Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
| | - Ting Zhang
- Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
| | - Guang Qiao
- Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
| | - Guijie Ding
- School of Forestry Science, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
| | - Xiaopeng Wen
- Key Laboratory of Plant Resources Conservation and Germplasm Innovation in Mountainous region (Guizhou University), Ministry of Education, Institute of Agro-bioengineering, Guizhou University, Guiyang, Guizhou Province, People’s Republic of China
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Kong Q, Yuan J, Niu P, Xie J, Jiang W, Huang Y, Bie Z. Screening suitable reference genes for normalization in reverse transcription quantitative real-time PCR analysis in melon. PLoS One 2014; 9:e87197. [PMID: 24475250 DOI: 10.1371/journal.pone.008719] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2013] [Accepted: 12/18/2013] [Indexed: 05/25/2023] Open
Abstract
Melon (Cucumis melo. L) is not only an economically important cucurbitaceous crop but also an attractive model for studying many biological characteristics. Screening appropriate reference genes is essential to reverse transcription quantitative real-time PCR (RT-qPCR), which is key to many studies involving gene expression analysis. In this study, 14 candidate reference genes were selected, and the variations in their expression in roots and leaves of plants subjected to biotic stress, abiotic stress, and plant growth regulator treatment were assessed by RT-qPCR. The stability of the expression of the selected genes was determined and ranked using geNorm and NormFinder. geNorm identified the two most stable genes for each set of conditions: CmADP and CmUBIep across all samples, CmUBIep and CmRPL in roots, CmRAN and CmACT in leaves, CmADP and CmRPL under abiotic stress conditions, CmTUA and CmACT under biotic stress conditions, and CmRAN and CmACT under plant growth regulator treatments. NormFinder determined CmRPL to be the best reference gene in roots and under biotic stress conditions and CmADP under the other experimental conditions. CmUBC2 and CmPP2A were not found to be suitable under many experimental conditions. The catalase family genes CmCAT1, CmCAT2, and CmCAT3 were identified in melon genome and used as target genes to validate the reliability of identified reference genes. The catalase family genes showed the most upregulation 3 days after inoculation with Fusarium wilt in roots, after which they were downregulated. Their levels of expression were significantly overestimated when the unsuitable reference gene was used for normalization. These results not only provide guidelines for the selection of reference genes for gene expression analyses in melons but may also provide valuable information for studying the functions of catalase family genes in stress responses.
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Affiliation(s)
- Qiusheng Kong
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Jingxian Yuan
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Penghui Niu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Junjun Xie
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Wei Jiang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Yuan Huang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
| | - Zhilong Bie
- Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P. R. China
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Screening suitable reference genes for normalization in reverse transcription quantitative real-time PCR analysis in melon. PLoS One 2014; 9:e87197. [PMID: 24475250 PMCID: PMC3903635 DOI: 10.1371/journal.pone.0087197] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2013] [Accepted: 12/18/2013] [Indexed: 12/17/2022] Open
Abstract
Melon (Cucumis melo. L) is not only an economically important cucurbitaceous crop but also an attractive model for studying many biological characteristics. Screening appropriate reference genes is essential to reverse transcription quantitative real-time PCR (RT-qPCR), which is key to many studies involving gene expression analysis. In this study, 14 candidate reference genes were selected, and the variations in their expression in roots and leaves of plants subjected to biotic stress, abiotic stress, and plant growth regulator treatment were assessed by RT-qPCR. The stability of the expression of the selected genes was determined and ranked using geNorm and NormFinder. geNorm identified the two most stable genes for each set of conditions: CmADP and CmUBIep across all samples, CmUBIep and CmRPL in roots, CmRAN and CmACT in leaves, CmADP and CmRPL under abiotic stress conditions, CmTUA and CmACT under biotic stress conditions, and CmRAN and CmACT under plant growth regulator treatments. NormFinder determined CmRPL to be the best reference gene in roots and under biotic stress conditions and CmADP under the other experimental conditions. CmUBC2 and CmPP2A were not found to be suitable under many experimental conditions. The catalase family genes CmCAT1, CmCAT2, and CmCAT3 were identified in melon genome and used as target genes to validate the reliability of identified reference genes. The catalase family genes showed the most upregulation 3 days after inoculation with Fusarium wilt in roots, after which they were downregulated. Their levels of expression were significantly overestimated when the unsuitable reference gene was used for normalization. These results not only provide guidelines for the selection of reference genes for gene expression analyses in melons but may also provide valuable information for studying the functions of catalase family genes in stress responses.
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