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Apple, from omics to systemic function

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Abstract

With complete sequencing of the ‘Golden Delicious’ genome, the transcriptome, proteome and metabolome have been fused with the genome. However, to date, no studies have evaluated the importance of systematic functions based on systematic biology in apples. In this study, we summarized the history of genetic maps of apples, and introduced the functions of gene families from the perspective of genomics; the functions included resisting abiotic and biotic stress, hormone response, fruit development and quality, epitomizing the development of other omics and relationships between functions. Furthermore, we established a model for gene structure and functional analyses, as well as of the protein interaction network, for apple. These results provide detailed systematic information for biological basis studies in apple as well as apple breeding, laying a good foundation for systematic biology.

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Abbreviations

AFLP:

Amplified fragment length polymorphism

RAPD:

Random amplified polymorphic DNA

SSR:

Simple sequence repeat

SCAR:

Sequence characterized amplified regions

QTL:

Quantitative trait locus

SNP:

Single nucleotide polymorphism

CAPS:

Cleaved amplified polymorphism sequences

SSCP:

Single-strand conformation polymorphism

PDS:

Phytoene desaturase

IAA:

Indole-3-acetic acid

GA:

Gibberellin

JA:

Jasmonic acid

Ea :

Erwinia amylovora

LG:

Linkage group

GDR:

Genome database for Rosaceae

PPI:

Protein–protein Interactions

GO:

Gene ontology

1-MCP:

1-methylcyclopropene

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Acknowledgements

This work was supported by the National Natural Science Foundation in China (Grant No. 31401822) and International Science & Technology Cooperation Program of China (2015DFA31190).

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    Authors and Affiliations

    1. State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai’an, 271018, Shandong, People’s Republic of China

      Lin Liu, Cheng Guo, Ze-sheng Jiang, Shi-zhong Zhang & Huai-rui Shu

    2. College of Life Sciences, Zhejiang University, Hangzhou, 310058, Zhejiang, People’s Republic of China

      Xiao-cui Luo

    3. Qingdao Agriculture Academy, Qingdao, 266100, Shandong, People’s Republic of China

      Hong-juan Ge & Guang-li Sha

    Authors
    1. Lin Liu
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    2. Xiao-cui Luo
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    3. Hong-juan Ge
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    4. Cheng Guo
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    5. Guang-li Sha
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    6. Ze-sheng Jiang
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    7. Shi-zhong Zhang
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    8. Huai-rui Shu
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    Corresponding authors

    Correspondence to Shi-zhong Zhang or Huai-rui Shu.

    Additional information

    Lin Liu and Xiao-cu Luo have contributed equally to the work.

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    Cite this article

    Liu, L., Luo, Xc., Ge, Hj. et al. Apple, from omics to systemic function. Plant Growth Regul 83, 1–11 (2017). https://doi.org/10.1007/s10725-017-0276-1

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    • DOI: https://doi.org/10.1007/s10725-017-0276-1

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