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Plant Physiol. 2015 May;168(1):233-46. doi: 10.1104/pp.15.00138. Epub 2015 Mar 16.

A high-resolution tissue-specific proteome and phosphoproteome atlas of maize primary roots reveals functional gradients along the root axes.

Author information

1
Institute of Crop Science and Resource Conservation, Crop Functional Genomics, University of Bonn, 53113 Bonn, Germany (C.M., A.P., F.H.);Institute of Crop Science, Biostatistics Unit, University of Hohenheim, 70599 Stuttgart, Germany (W.A.M., H.-P.P.); andSection of Cell and Developmental Biology, University of California-San Diego, La Jolla, California 92093 (J.W.W., Z.S., L.G.S., S.P.B.).
2
Institute of Crop Science and Resource Conservation, Crop Functional Genomics, University of Bonn, 53113 Bonn, Germany (C.M., A.P., F.H.);Institute of Crop Science, Biostatistics Unit, University of Hohenheim, 70599 Stuttgart, Germany (W.A.M., H.-P.P.); andSection of Cell and Developmental Biology, University of California-San Diego, La Jolla, California 92093 (J.W.W., Z.S., L.G.S., S.P.B.) sbriggs@ucsd.edu hochholdinger@uni-bonn.de.

Abstract

A high-resolution proteome and phosphoproteome atlas of four maize (Zea mays) primary root tissues, the cortex, stele, meristematic zone, and elongation zone, was generated. High-performance liquid chromatography coupled with tandem mass spectrometry identified 11,552 distinct nonmodified and 2,852 phosphorylated proteins across the four root tissues. Two gradients reflecting the abundance of functional protein classes along the longitudinal root axis were observed. While the classes RNA, DNA, and protein peaked in the meristematic zone, cell wall, lipid metabolism, stress, transport, and secondary metabolism culminated in the differentiation zone. Functional specialization of tissues is underscored by six of 10 cortex-specific proteins involved in flavonoid biosynthesis. Comparison of this data set with high-resolution seed and leaf proteome studies revealed 13% (1,504/11,552) root-specific proteins. While only 23% of the 1,504 root-specific proteins accumulated in all four root tissues, 61% of all 11,552 identified proteins accumulated in all four root tissues. This suggests a much higher degree of tissue-specific functionalization of root-specific proteins. In summary, these data illustrate the remarkable plasticity of the proteomic landscape of maize primary roots and thus provide a starting point for gaining a better understanding of their tissue-specific functions.

PMID:
25780097
PMCID:
PMC4424028
DOI:
10.1104/pp.15.00138
[Indexed for MEDLINE]
Free PMC Article

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