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Mining of Related Genes with High Efficiency of Phosphorus Utilization Based on Transcriptome Sequencing in Soybean

Bing Wang, Youbin Kong, Hui Du, Wenlong Li, Caiying Zhang, Xihuan Li

Article ID: 1171
Vol 4, Issue 1, 2020, Article identifier:

VIEWS - 184 (Abstract) 69 (PDF)

Abstract

Low phosphorus in soil has become an important limit factor affecting the yield and quality of soybean. The excavation and utilization of high phosphorus efficient related genes is an important prerequisite for the analysis of high pho sphorus mechanism and the improvement of genetic breeding. In this study, the high- and low-efficiency soybean germplasms were used to analyze the root transcriptome data under two different phosphorus conditions through the weight gene co-expression network method.The results showed that there were 15305 high-expressed related genes obtained and were divided into 20 modules, and four of them showed different expressions between these two varieties under two phosphorus treatments. Further analysis results of the Melightcyan module revealed that 268 genes were found in this module, and 13 genes of them were up-regulated with low-phosphorus induction and involved in multiple metabolic pathways. Moreover, the related genes in this module which participate in the phospholipid metabolism pathways showed the most highest expression levels. Finally, combined with the previous reports, six kinds of related genes with high efficient utilization of soybean phosphorus were screened out, which could provide 


Keywords

Soybean; Low-phosphorous Stress; Weighted Gene Co-expression Network Analysis; Transcriptome sequencing; Candidate gene

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References

Liu Ling, Liao Hong, Wang Xiurong, etc. Adaptability of Soybean with Different Root Configurations to Low Phosphorus and Its Relationship with Phosphorus Efficiency [J] Chinese Agricultural Sciences. 2008,41(4):1089-1099.

Yao minlei, Zhang jiyao, Zhou Xi, et al. analysis of digital gene expression profile of soybean response to low phosphorus stress [J] soybean science, 2016 ,35 (2) :213-221.

Xia Xiao, Liu leping, Chen chunfang. effects of phosphorus stress on root morphology of Cinnamomum camphora seedlings [J] Hubei forestry science and technology, 2011 ,6 :31-33.

Gu Mian, Chen Aiqun, Xu Guohua. Plant Phosphorus Deficiency and Mycorrhizal Signal Transduction Network [J] Journal of Nanjing Agricultural University, 2012 ,35 (5) :133-146.

Deng Meiju, Wang Fei, Mao Chuanzao. Plant Phosphate Transporter and Its Molecular Regulation Mechanism.

Xu Jianding .Effects of Soil Water and Nitrogen and Phosphorus Nutrition on Plant Root Growth [J] Shanxi Soil and Water Conservation Science and Technology, 2010, 3: 12-15.

Li Wei, Hu Zhizhi, Ni Yu, et al. Relationship between Root Water Lift and Drought Tolerance in Alfalfa and Maize-Study on Mechanism of Plant Root Water Lift Ⅱ [J] Journal of Grassland, 2007 ,15 (6) :515-518.

Chiou T J, Lin S I. Signaling network in sensing phosphate availability in plants. [J]. Annual Review of Plant Biology, 2010, 62: 185-206.

Li Xihuan, Chang Wensuo, Zhang Caiying. Research Progress on Genes to Improve Phosphorus Nutrition Efficiency (Candidate) in Plants [J] Journal of Plant Genetic Resources, 2012, 13(1):83-97.

Narang R A, Bruene A, Altmann T. Analysis of phosphate acquisition efficiency in different Arabidopsis accessions[J]. Plant Physiology, 2000, 124: 1786-1799.

Dai Kaijie, Where, Guan Huilin, etc. Research Progress on Plants and Low Phosphorus Environment-Induction, Adaptation and Countermeasures [J] .Journal of Ecology, 2006, 25(12):1580-1585.

Ma Q F, Renge Z. Phosphorus acquisition and wheat growth are influenced by shoot phosphorus status and soil phosphorus distribution in asplit-root system[J]. Journal of Plant Nutrition and Soil Science, 2008, 171(2): 266-271.

Tanaka Min, Wang Chen. Comparison of Organic Acids Secreted by Root Exudation and Non-root Exudation Areas of Phosphorus-deficient White Lupin [J] Journal of Plant Physiology and Molecular Biology. 2000,26(4):317-322.

Kong Y B, Li X H, Wang B, et al. The soybean purple acid phosphatase GmPAP14 predominantly enhances external phytate utilization in plants.[J]. Frontiers in Plant Science, 2018, 9: 292.

Wu B, Li X H, Liu C, et al. Genetic transformation and function analysis of transcription factor GmPHR1 in soybean[J]. Soybean Science, 2013, 3 : 302-305.

Mulchhal U S, Pardo J M, Raghothama K G. Phosphate transporters from the higher plant Arabidopsis thaliana [J]. Proc Natl Acad Sci,1996, 93: 10519-10523.

Gamuyao R, Chin J H, Pariascatanaka J, et al. The protein kinase Pstol1 from traditional rice confers tolerance of phosphorus deficiency[J].Nature, 2012, 488(7412): 535-539.

Wang Tao, Jiang Qinghua, Peng Jiajie, et al. Review of Research on Construction and Analysis Methods of Gene Co-expression Networks[J] Intelligent Computers and Applications, 2014, 4(6):47-50+53.

Farber C R. Systems-level analysis of genome-wide association data[J]. G3-Genes Genom Genet, 2013, 3(1): 119-129

Chao G, Zheng J, Shan L, et al. Deciphering ascorbic acid regulatory pathways in ripening tomato fruit using a weighted gene correlation network analysis approach[J]. Journal of Integrative Plant Biology, 2013, 55(11):1080-1091.

Wei Dayong, Cui Yixin, Xiong Qing, et al. Identification of Candidate Bases for Glucosinolate Content in Rape Seeds by Genome-wide Association Mapping and Co-expression Network Analysis. Cause [J]. Journal of Crops, 2018, 44 (5): 629-641.

Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis[J]. BMC bioinformatics, 2008, 9(1): 559.

Zhu Lin, Yuan Meng, Gao Hongxiu, et al. Transcriptome Analysis of Low Temperature Response in Rice Seedling Stage [J] Journal of North China Agriculture, 2018 ,33 (5) :40-51.

Qin Wenting, Yang Caiqiong, Yang Feng, et al. Transcriptome Analysis of Soybean Seed Aging [J]. Journal of Northeast Agricultural University, 2018 ,49 (3) :1-9.

Zhu Jianxiong, Su Hang, Zeng Xiu, et al. Analysis of Transcriptome Quality of Maize Flooding Stress [J]. Molecular Plant Breeding, 2017, 15 (2): 532-537.

Xian Xiaohua, Wang Jia, Xu Xinfu, et al. Integration GWAS and WGCNA Analysis and Excavation of Yellow Seed Microeffective Loci of Brassica napus [J]. Acta Crop Sinica, 2018 ,44 (8) : 1105-1113.

Darlington T M, Ehringer M A, Larson C, et al. Transcriptome analysis of inbred long sleep and inbred short sleep mice[J]. Genes, Brain and Behavior, 2013, 12(2): 263-274.

Ghazalpour A, Doss S, Zhang B, et al. Integrating genetic and network analysis to characterize genes related to mouse weight[J]. PLoS Genetics, 2006, 2(8): e130.

Hammond J P, Broadley M R, White P J. Genetic responses to phosphorus deficiency[J]. Annals of Botany, 2004, 94(3): 323-332.

Li M Y, Welti R, Wang X M. Quantitative profiling of Arabidopsis polar glycerolipids in response to phosphorus starvation. Roles of Phospholipases D zeta 1 and D zeta 2 in phosphatidylcholine hydrolysis and digalactosyldiacylglycerol accumulation in phosphorus-starved plants[J] .Plant Physiology, 2006, 142(2): 750-761.

Cruz- Ramirez A, Oropeza- Aburto A, Razo- Hernandez F, et al. Phospholipase DZ2 plays an important role in extraplastidic galactolipid biosynthesis and phosphate recycling in Arabidopsis roots[J]. Proceedings of the National Academy of Sciences of the United States of America, 2006, 103(17): 6765-6770

Nakamura Y. Plant phospholipid diversity: emerging functions in metabolism and protein-lipid interactions[J]. Trends in Plant Science, 2017, 22(12): 1027-1040.


DOI: http://dx.doi.org/10.18063/gse.v4i1.1171
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Copyright (c) 2020 Bing Wang, Youbin Kong, Hui Du, Wenlong Li, Caiying Zhang, Xihuan Li

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