Zea mays Leaf Dev Li et al, 2010

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Data set to be added in Release #21 Nov 2013, based on Li et al (2010)

Background:

The study authors analyzed the maize leaf transcriptome using Illumina sequencing. They mapped more than 120 million reads to define gene structure and alternative splicing events and to quantify transcript abundance along a leaf developmental gradient and in mature bundle sheath and mesophyll cells.

Figure 1 (Li et al, 2010).png

  • The samples were mapped to PO ids representing the plant structures and plant growth stages used.
  • Data is from:
    • Supplementary Table 2: qRT-PCR analysis of a subset of genes in the 4 stages.
    • Supplementary Table 4: List of genes exhibiting differential expression between bundle sheath and mesophyll cells.


PO anatomy and growth stage mapping table:

Tissue Paper description PO Anatomy term PO ID PO Development stage term PO ID Comments
Leaf base 1 cm above the leaf #3 ligule leaf lamina base PO:0008019 vascular leaf initiation stage PO:0001051 represents sink tissue
" " vascular leaf PO:0009025 LP.03 three leaves visible stage PO:0007106
Transitional zone 1 cm below the leaf #2 ligule vascular leaf PO:0009025 vascular leaf differentiation stage PO:0025574 Represents the sink-source transition
" " " " LP.03 three leaves visible stage PO:0007106
Maturing zone 4 cm above the leaf #2 ligule vascular leaf PO:0009025 vascular leaf expansion stage PO:0001052 Represents a maturing leaf, this position is between the leaf base and leaf tip.
" " central zone of the leaf lamina PO:0008020 LP.03 three leaves visible stage PO:0007106
Leaf Tip represents a mature leaf leaf tip PO:0025142 vascular leaf mature stage PO:0001053
" " leaf lamina tip PO:0025589 LP.03 three leaves visible stage PO:0007106 represents a mature leaf
" " vascular leaf PO:0009025 " "
mesophyll cells Main site of carbon fixation particularly in C4 grasses. leaf mesophyll cell PO:0004006 vascular leaf mature stage PO:0001053
" " leaf lamina tip PO:0025589 LP.03 three leaves visible stage PO:0007106
bundle sheath cells Main site of Calvin cycle particularly in C4 grasses bundle sheath cell PO:0025541 vascular leaf mature stage PO:0001053
" " leaf lamina tip PO:0025589 LP.03 three leaves visible stage PO:0007106


Li, et al. “The Developmental Dynamics of the Maize Leaf Transcriptome.” Nature Genetics 42, no. 12 (December 2010): 1060–1067. doi:10.1038/ng.703. link to paper: http://www.nature.com/ng/journal/v42/n12/abs/ng.703.html#supplementary-information

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