Welcome to Acta Agronomica Sinica，

Acta Agron Sin ›› 2011, Vol. 37 ›› Issue (08): 1378-1388.doi: 10.3724/SP.J.1006.2011.01378

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Analysis of Gene Expression Profiles in Pod and Leaf of Two Major Peanut Cultivars in Southern China

CHEN Xiao-Ping,ZHU Fang-He,HONG Yan-Bin,LIU Hai-Yan,ZHANG Er-Hua,ZHOU Gui-Yuan,LI Shao-Xiong,ZHONG Ni,WEN Shi-Jie,LI Xing-Yu,LIANG Xuan-Qiang*   

  1. Crops Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
  • Received:2011-01-15 Revised:2011-04-27 Online:2011-08-12 Published:2011-06-13
  • Contact: 梁炫强, E-mail: Liang804@yahoo.com; Tel: 020-87597315

PDF

1199

Cited

4

Abstract: Great improvements have been achieved in peanut yield, quality and resistance through traditional breeding methods. However, variations in gene expression profiles in major cultivars are yet unclear. Here, we utilized a high-density peanut oligonucleotide microarray to analyze gene expression profiles in pod and leaf of Shanyou 523 and Yueyou 7, which are widely grown in southern China. The results indicated that 1 383 differentially expressed genes were detected in pod, 662 and 721 of which were up- and down-regulated, respectively, while 647 differentially expressed genes were detected in leaf, 234 and 413 of which were up- and down-regulated, respectively. Among the pod differentially expressed genes, 52 and 105 genes were, respectively, up- and down-regulated at least 10-fold, whereas only two and five were found in leaf. To further characterize these differentially expressed genes, we used Gene Ontology (GO) for annotation of them. The results showed that a large proportion of differentially expressed genes from both pod and leaf were distributed in cell and membrane, possessed binding and catalytic activities and were involved in metabolic and cellular processes. Additionally, the expression of four differentially expressed genes was validated by real time qRT-PCR, further confirming the microarray results.

Key words: Cultivated peanut (Arachis hypogaea L.), Microarray, Gene expression profiles, Differentially expressed genes, Real-time quantitative RT-PCR

[1]FAOSTAT. 2009.
[http://faostat.fao.org/site/567/DesktopDefault.aspx?PageID=567#ancor]
[2]Qiu L-J(邱丽娟), Wang C-L(王昌陵), Zhou G-A(周国安), Chen S-Y(陈受宜), Chang R-Z(常汝镇). Soybean molecular breeding. Sci Agric Sin (中国农业科学), 2007, 40(11): 2418–2436 (in Chinese with English abstract)
[3]Su Y(苏岩), Qian Q(钱前), Zeng D-L(曾大力). Current status and prospects of rice molecular design breeding. China Rice (中国稻米), 2010, 16(2): 5–9 (in Chinese)
[4]Schena M, Shalon D, Davis R W, Brown P O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science, 1995, 270: 467–470
[5]Sreenivasulu N, Sunkar R, Wobus U, Strickert M. Array platforms and bioinformatics tools for the analysis of plant transcriptome in response to abiotic stress. Methods Mol Biol, 2010, 639: 71–93
[6]Aharoni A, Vorst O. DNA microarrays for functional plant genomics. Plant Mol Biol, 2002, 48: 99–118
[7]Luo M, Liang X Q, Dang P, Holbrook C C, Bausher M G, Lee R D, Guo B Z. Microarray-based screening of differentially expressed genes in peanut in response to Aspergillus parasiticus infection and drought stress. Plant Sci, 2005, 169: 695–703
[8]Payton P, Kottapalli K R, Rowland D, Faircloth W, Guo B, Burow M, Puppala N, Gallo M. Gene expression profiling in peanut using high density oligonucleotide microarrays. BMC Genomics, 2009, 10: 265
[9]Guo B, Chen X, Hong Y, Liang X, Dang P, Brenneman T, Holbrook C, Culbreath A. Analysis of gene expression profiles in leaf tissues of cultivated peanuts and development of EST-SSR markers and gene discovery. Int J Plant Genomics, 2009, (2009): Article ID 715605, DOI: 10.1155/2009/715605
[10]Guo B, Chen X, Dang P, Scully B T, Liang X, Holbrook C C, Yu J, Culbreath A K. Peanut gene expression profiling in developing seeds at different reproduction stages during Aspergillus parasiticus infection. BMC Dev Biol, 2008, 8: 12
[11]Kottapalli K R, Rakwal R, Shibato J, Burow G, Tissue D, Burke J, Puppala N, Burow M, Payton P. Physiology and proteomics of the water-deficit stress response in three contrasting peanut genotypes. Plant Cell Environ, 2009, 32: 380–407
[12]Yu S-L(禹山林). Peanut Variety in China and Its Pedigree( ). Shanghai: Shanghai Scientific and Technical Publishers, 2008. pp 401–445 (in Chinese)
[13]Boote K J. Growth stages of peanut (Arachis hypogaea L.). Peanut Sci, 1982, 9: 35–40
[14]Chang S, Puryear J, Cairney J. A simple and efficient method for isolating RNA from pine trees. Plant Mol Biol Rep, 1993, 11: 113–116
[15]Yang Y H, Dudoit S, Luu P, Lin D M, Peng V, Ngai J, Speed T P. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucl Acids Res, 2002, 30: e15
[16]Tusher V G, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA, 2001, 98: 5116–5121
[17]Xiao J-H(肖景华), Wu C-Y(吴昌银), Han B(韩斌), Xue Y-B(薛勇彪), Deng X-W(邓兴旺), Zhang Q-F(张启发). Advances in rice functional genomics in China. Sci China (Ser C: Life Sci)(中国科学C辑: 生命科学), 2009, 39 (10): 909–924 (in Chinese with English abstract)
[18]Song X J, Huang W, Shi M, Zhu M Z, Lin H X. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat Genet, 2007, 39: 623–630
[19]Fan C, Yu S, Wang C, Xing Y. A causal C-A mutation in the second exon of GS3 highly associated with rice grain length and validated as a functional marker. Theor Appl Genet, 2009, 118: 465–472
[20]Lescallett J, Chicurel M E, Lipshutz R, Dalma-Weiszhausz D D. Monitoring eukaryotic gene expression using oligonucleotide microarrays. Methods Mol Biol, 2004, 258: 71–94
[21]Wang Y, Barbacioru C, Hyland F, Xiao W, Hunkapiller K L, Blake J, Chan F, Gonzalez C, Zhang L, Samaha R R. Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays. BMC Genomics, 2006, 7: 59
[22]Dallas P B, Gottardo N G, Firth M J, Beesley A H, Hoffmann K, Terry P A, Freitas J R, Boag J M, Cummings A J, Kees U R. Gene expression levels assessed by oligonucleotide microarray analysis and quantitative real-time RT-PCR—how well do they correlate? BMC Genomics, 2005, 6: 59
[1] LI A-Li, FENG Ya-Nan, LI Ping, ZHANG Dong-Sheng, ZONG Yu-Zheng, LIN Wen, HAO Xing-Yu. Transcriptome analysis of leaves responses to elevated CO2 concentration, drought and interaction conditions in soybean [Glycine max (Linn.) Merr.] [J]. Acta Agronomica Sinica, 2022, 48(5): 1103-1118.
[2] HUANG Wen-Gong, JIANG Wei-Dong, YAO Yu-Bo, SONG Xi-Xia, LIU Yan, CHEN Si, ZHAO Dong-Sheng, WU Guang-Wen, YUAN Hong-Mei, REN Chuan-Ying, SUN Zhong-Yi, WU Jian-Zhong, KANG Qing-Hua. Transcriptome profiling of flax (Linum usttatissimum L.) response to low potassium stress [J]. Acta Agronomica Sinica, 2021, 47(6): 1070-1081.
[3] XU Jing, PAN Li-Juan, LI Hao-Yuan, WANG Tong, CHEN Na, CHEN Ming-Na, WANG Mian, YU Shan-Lin, HOU Yan-Hua, CHI Xiao-Yuan. Expression pattern analysis of genes related to lipid synthesis in peanut [J]. Acta Agronomica Sinica, 2021, 47(6): 1124-1137.
[4] WANG Rui-Li, WANG Liu-Yan, LEI Wei, WU Jia-Yi, SHI Hong-Song, LI Chen-Yang, TANG Zhang-Lin, LI Jia-Na, ZHOU Qing-Yuan, CUI Cui. Screening candidate genes related to aluminum toxicity stress at germination stage via RNA-seq and QTL mapping in Brassica napus L. [J]. Acta Agronomica Sinica, 2021, 47(12): 2407-2422.
[5] REN Meng-Meng, ZHANG Hong-Wei, WANG Jian-Hua, WANG Guo-Ying, ZHENG Jun. Fine mapping of a major QTL qMES20-10 associated with deep-seeding tolerance in maize and analysis of differentially expressed genes [J]. Acta Agronomica Sinica, 2020, 46(7): 1016-1024.
[6] JIA Xiao-Xia,QI En-Fang,LIU Shi,WEN Guo-Hong,MA Sheng,LI Jian-Wu,HUANG Wei. Effects of over-expression of AtDREB1A gene on potato growth and abiotic stress resistance gene expression [J]. Acta Agronomica Sinica, 2019, 45(8): 1166-1175.
[7] YANG Hui-Ju,GUO Hua-Chun*. Digital Gene Expression Profiling Analysis of Potato Under Low Temperature Stress [J]. Acta Agron Sin, 2017, 43(03): 454-463.
[8] CHEN Lin-Bo,XIA Li-Fei,TIAN Yi-Ping,LI Mei,SONG Wei-Xi,LIANG Ming-Zhi,JIANG Chang-Jun. Exploring Sterility Gene from Tea Plant Flower Based on Digital Gene Expression Profiling [J]. Acta Agron Sin, 2017, 43(02): 210-217.
[9] LI Chang-Ning,XIE Jin-Lan,WANG Wei-Zan,LIANG Qiang,LI Yi-Jie,DONG Wen-Bin,LIU Xiao-Yan,YANG Li-Tao*,LI Yang-Rui*. Screening of Differentially Expressed Genes and Analysis of Plant Hormones Related Genes under Water Stress in Sugarcane [J]. Acta Agron Sin, 2015, 41(07): 1127-1135.
[10] GE Shu-Juan,SUN Ai-Qing,LIU Peng,ZHANG Jie-Dao,DONG Shu-Ting. In silico Expression Profile of Maize Genes in Response to Osmotic Stress [J]. Acta Agron Sin, 2014, 40(07): 1164-1173.
[11] LI Yu-Liang,LIU Jian-Hua,ZHENG Jin-Rong,HU Jian-Guang. Gene Expression Profile of Sweet Corn Ears under Heat Stress [J]. Acta Agron Sin, 2013, 39(02): 269-279.
[12] YAN Gui-Xin,CHEN Bi-Yun,XU Kun,GAO Gui-Zhen,Lü Pei-Jun,WU Xiao-Ming,LI Feng,LI Jun. Differential Gene Expression Profiles in Developing Seeds of Brassica napus L. under Different Nitrogen Application Levels [J]. Acta Agron Sin, 2012, 38(11): 2052-2060.
[13] CHEN Rong-Beng, LIU Lei, MO Xiu-Qing, QIU En-Jian, WANG Chun-Jun, SONG Bao-Gang, YA Pei-Jiang, YANG Tie-Zhao. cDNA-AFLP Analysis of Differentially Expressed Genes in Tobacco Infected by TMV [J]. Acta Agron Sin, 2012, 38(01): 62-70.
[14] LI Long-Yun, XU Wen-Wen, ZHAI Hong-Hong, HUANG Shuang-Ling, LI Xin-Li, ZHANG Hong-Wei, ZHANG Jin-Fa. Identification of Fiber Length-Related Genes Using Cotton Oligonucleotide Microarrays [J]. Acta Agron Sin, 2011, 37(01): 95-104.
[15] LENG Xue, GIA Yin-Hua, DU Xiong-Ming. Analysis of Up and Down Regulation Genes and Relative Pathway during Cotton Fiber Elongation [J]. Acta Agron Sin, 2010, 36(11): 1891-1901.
Viewed
Full text


Abstract

Cited
  Shared   
  Discussed   
No Suggested Reading articles found!
Add: No. 80 Xueyuan South Rd, Beijing 100081, P. R. China E-mail: zwxb301@caas.cn
Supported by Beijing Magtech Co.Ltd