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Construction of a Full-Length cDNA Library and Analysis of Expressed Sequence Tags from Inflorescence of Apomictic Sabaigrass (Eulaliopsis binata)

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Abstract

Eulaliopsis binata, which is a close relative of cereal crops, was recognized as an important research material owing to its high frequency of apospory and autonomous endosperm formation. However, little information is known about its genomics and regulatory pathway participating in reproductive development. For the first step to understand molecular basis in sabaigrass (E. binata), a SMART complementary DNA library from the inflorescence tissue was constructed and characterized. The titers of original and amplified libraries were 5.53 × 106 and 1.49 × 1010 pfu/ml, respectively. The percentage of recombinants was 96% in the original library. Analysis of sequencing results of 398 out of 437 randomly picked clones showed that 271 (68.1%) expressed sequence tags (ESTs) exhibited significant similarity with known putative functional nucleotide sequences in the GenBank databases, 25 (6.3%) ESTs have significant matches with hypothetical proteins, putative proteins, and unknown proteins, and the other 25.6% ESTs had no significant similarity to sequences in the public databases. Based on molecular function of GO annotation, the four most abundant terms are nucleotide binding, hydrolase activity, ion binding, and protein binding, and these genes were involved in 61 different pathways using the Kyoto Encyclopedia of Genes and Genomes pathway analysis. Besides, simple sequence repeats detection in 398 ESTs was carried out, and several genes were chosen to perform expression analysis. This report represents a first step in expanding molecular-genetic analyses in E. binata and can be used to optimally mine useful information from a relatively small data set.

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References

  • Aubert D, Chen L, Moon YH, Martin D, Castle LA, Yang CH, Sung ZR (2001) EMF1, a novel protein involved in the control of shoot architecture and flowering in Arabidopsis. Plant Cell 13:1865–1875

    Article  PubMed  CAS  Google Scholar 

  • Chen L, Cheng JC, Castle L, Sung ZR (1997) EMF genes regulate Arabidopsis inflorescence development. Plant Cell 9:2011–2024

    Article  PubMed  CAS  Google Scholar 

  • Chen SM, Miao HB, Chen FD, Jiang BB, Lu JG, Fang WM (2009) Analysis of expressed sequence tags (ESTs) collected from the inflorescence of Chrysanthemum. Plant Mol Biol Rep 27:503–510

    Article  CAS  Google Scholar 

  • Conesa A, Gotz S, García-Gómez JM, Terol J, Talon M, Robles M (2005) Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21:3674–3676

    Article  PubMed  CAS  Google Scholar 

  • Curtis MD, Grossniklaus U (2008) Molecular control of autonomous embryo and endosperm development. Sex Plant Reprod 21:79–88

    Article  Google Scholar 

  • Eckardt NA (2003) Patterns of gene expression in apomixis. Plant Cell 15:1499–1501

    Article  Google Scholar 

  • Gueguen Y, Cadoret JP, Flament D, Barreau-Roumiguière C, Girardot AL, Garnier J, Hoareau A, Bachère E, Escoubas JM (2003) Immune gene discovery by expressed sequence tags generated from hemocytes of the bacteria-challenged oyster, Crassostrea gigas. Gene 303:139–145

    Article  PubMed  CAS  Google Scholar 

  • Hofmann NR (2010) Apomixis and gene expression in Boechera. Plant Cell 22:539

    Article  PubMed  CAS  Google Scholar 

  • Iuchi S (2001) Three classes of C2H2 zinc finger proteins. Cell Mol Life Sci 58:625–635

    Article  PubMed  CAS  Google Scholar 

  • Laity JH, Lee BM, Wright PE (2001) Zinc finger proteins: new insights into structural and functional diversity. Curr Opin Struct Biol 11:39–46

    Article  PubMed  CAS  Google Scholar 

  • Laspina NV, Vega T, Seijo JG, González AM, Martelotto LG, Stein J, Podio M, Ortiz JPA, Echenique VC, Quarin CL (2008) Gene expression analysis at the onset of aposporous apomixis in Paspalum notatum. Plant Mol Biol 67:615–628

    Article  PubMed  CAS  Google Scholar 

  • Meng XZ, Huang BB, Zhou LL, He YX, Chen Q, Yuan YW, Xu ZK, Song RT (2010) Construction of a Coix BAC library and isolation of the 22 kDa α-coixin gene cluster. Genome 53(9):667–674

    Article  PubMed  CAS  Google Scholar 

  • Moon YH, Chen L, Pan RL, Chang HS, Zhu T, Maffeo DM, Sung ZR (2003) EMF genes maintain vegetative development by repressing the flower program in Arabidopsis. Plant Cell 15:681–693

    Article  PubMed  CAS  Google Scholar 

  • Musigakun P, Thongngam M (2007) Characteristics and functional properties of sorghum protein (kafirin). Kasetsart J Nat Sci 41:313–318

    Google Scholar 

  • Nicot N, Chiquet V, Gandon B, Amilhat L, Legeai F, Leroy P, Bernard M, Sourdille P (2004) Study of simple sequence repeat (SSR) markers from wheat expressed sequence tags (ESTs). Theor Appl Genet 109:800–805

    Article  PubMed  CAS  Google Scholar 

  • Ozias-Akins P, van Dijk PJ (2007) Mendelian genetics of apomixis in plants. Annu Rev Genet 41(1):509–537

    Article  PubMed  CAS  Google Scholar 

  • Singh M, Burson BL, Finlayson SA (2007) Isolation of candidate genes for apomictic development in buffelgrass (Pennisetum ciliare). Plant Mol Biol 64:673–682

    Article  PubMed  CAS  Google Scholar 

  • Spillane C, Steimer A, Grossniklaus U (2001) Apomixis in agriculture: the quest for clonal seeds. Sex Plant Reprod 14:179–187

    Article  Google Scholar 

  • Spillane C, Curtis MD, Grossniklaus U (2004) Apomixis technology development—virgin births in farmers' fields? Nat Biotechnol 22:687–691

    Article  PubMed  CAS  Google Scholar 

  • Thanh T, Chi VTQ, Abdullah MP, Omar H, Noroozi M, Ky H, Napis S (2011) Construction of cDNA library and preliminary analysis of expressed sequence tags from green microalga Ankistrodesmus convolutus Corda. Mol Biol Rep 38:177–182

    Article  PubMed  CAS  Google Scholar 

  • Wang YH, Mosebach CM, Kibbey AS, Ryhal MK, Jones AD, Palmer JA, Kochian LV (2009) Generation of Arabidopsis mutants by heterologous expression of a full-length cDNA library from tomato fruits. Plant Mol Biol Rep 27(4):454–461

    Article  CAS  Google Scholar 

  • Wang C, Wang YC, Diao GP, Jiang J, Yang CP (2010) Isolation and characterization of expressed sequence tags (ESTs) from cambium tissue of birch (Betula platyphylla Suk). Plant Mol Biol Rep 28:438–449

    Article  Google Scholar 

  • Wang WK, Liu CC, Chiang TY, Chen MT, Chou CH, Yeh CH (2011) Characterization of expressed sequence tags from flower buds of alpine Lilium formosanum using a subtractive cDNA library. Plant Mol Biol Rep 29(1):88–97

    Article  CAS  Google Scholar 

  • Yang D, Tang ZH, Zhang LP, Zhao CP, Zheng YL (2009) Construction, characterization, and expressed sequence tag (EST) analysis of normalized cDNA library of thermo-photoperiod-sensitive genic male sterile (TPGMS) wheat from spike developmental stages. Plant Mol Biol Rep 27:117–125

    Article  Google Scholar 

  • Yao J, Yang P, Hu C, Zhang Y, Luo B (2004) Embryological evidence of apomixis in Eulaliopsis binata. Acta Bot Sin 46:86–92

    Google Scholar 

  • Yao JL, Zhou Y, Hu CG (2007) Apomixis in Eulaliopsis binata: characterization of reproductive mode and endosperm development. Sex Plant Reprod 20:151–158

    Article  Google Scholar 

  • Zhang JZ, Li ZM, Liu L, Mei L, Yao JL, Hu CG (2008) Identification of early-flower-related ESTs in an early-flowering mutant of trifoliate orange (Poncirus trifoliata) by suppression subtractive hybridization and macroarray analysis. Tree Physiol 28:1449–1457

    Article  PubMed  CAS  Google Scholar 

  • Zhang R, Zhu AD, Wang XJ, Yu J, Zhang HR, Gao JS, Cheng YJ, Deng XX (2010) Development of Juglans regia SSR markers by data mining of the EST database. Plant Mol Biol Rep 28:646–653

    Article  CAS  Google Scholar 

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Acknowledgments

We are grateful to Prof. Ping-Fang Yang and Dr. Jin-Zhi Zhang for their helpful discussions and help in revising the manuscript. This study was supported by the National Natural Science Foundation of China (30670127).

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Authors and Affiliations

  1. Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan, 430070, China

    Dongliang Zhang & Chungen Hu

  2. College of Life Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China

    Yidan Ouyang & Jialing Yao

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  1. Dongliang Zhang
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  2. Chungen Hu
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  3. Yidan Ouyang
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  4. Jialing Yao
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Correspondence to Jialing Yao.

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Zhang, D., Hu, C., Ouyang, Y. et al. Construction of a Full-Length cDNA Library and Analysis of Expressed Sequence Tags from Inflorescence of Apomictic Sabaigrass (Eulaliopsis binata). Plant Mol Biol Rep 30, 46–54 (2012). https://doi.org/10.1007/s11105-011-0316-3

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  • DOI: https://doi.org/10.1007/s11105-011-0316-3

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