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Plant Genomics Databases pp 315–333Cite as

Construction of the Leaf Senescence Database and Functional Assessment of Senescence-Associated Genes

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1533))

Abstract

Leaf senescence is the last phase of plant development and a highly coordinated process regulated by a large number of senescence-associated genes (SAGs). By broad literature survey, we constructed a leaf senescence database (LSD) in 2011 and updated it to Version 2.0 in 2014 (http://www.eplantsenescence.org/ and http://psd.cbi.pku.edu.cn/) which contains a total of 5357 genes and 324 mutants from 44 species. These SAGs were retrieved based on genetic, genomic, proteomic, physiological, or other experimental evidence and were classified into different categories according to their functions in leaf senescence or morphological phenotype of mutants. To provide comprehensive information for SAGs, we made extensive annotation by both manual and computational approaches. In addition, we predicted putative orthologues of the SAGs in other species. LSD has a user-friendly interface to allow users to make text queries or BLAST searches and to download SAGs sequences for local analysis. Functional analyses of putative SAGs reveal that WRKY75, AZF2, NAC16, and WRKY26 are positive regulators of leaf senescence, while MKP2 and CTR1 perform negative regulation to leaf senescence. This database has been served as a valuable resource for basic research on the function of SAGs and evolution of plant leaf senescence, as well as for the exploration of genetic traits in agronomically important plants.

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Author information

Authors and Affiliations

  1. State Key Laboratory of Protein and Plant Gene Research, College of Life Sciences, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, 100871, China

    Zhonghai Li, Xiaochuan Liu, Jinying Peng & Hongwei Guo

  2. State Key Laboratory of Protein and Plant Gene Research, College of Life Sciences and Center for Bioinformatics, Peking University, Beijing, 100871, China

    Yi Zhao, Zhiqiang Jiang, Jinpu Jin & Jingchu Luo

  3. Current Address: Department of Microbiology, Biochemistry, and Molecular Genetics, Rutgers University, New Brunswick, NJ, 07103, USA

    Xiaochuan Liu

  4. Channing Division of Network Medicine, Brigham and Women’s Hospital and Harvard Medical School, 181 Longwood Ave, Boston, MA, 02115, USA

    Zhiqiang Jiang

Authors
  1. Zhonghai Li
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  2. Yi Zhao
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  3. Xiaochuan Liu
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  4. Zhiqiang Jiang
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  5. Jinying Peng
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  6. Jinpu Jin
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  7. Hongwei Guo
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  8. Jingchu Luo
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Corresponding authors

Correspondence to Hongwei Guo or Jingchu Luo .

Editor information

Editors and Affiliations

  1. PRI Bioscience, Biometris and Bioinformatics, Wageningen University & Research Wageningen, Wageningen, The Netherlands

    Aalt D.J van Dijk

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Li, Z. et al. (2017). Construction of the Leaf Senescence Database and Functional Assessment of Senescence-Associated Genes. In: van Dijk, A. (eds) Plant Genomics Databases. Methods in Molecular Biology, vol 1533. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6658-5_19

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  • DOI: https://doi.org/10.1007/978-1-4939-6658-5_19

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6656-1

  • Online ISBN: 978-1-4939-6658-5

  • eBook Packages: Springer Protocols

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