Vitis vinifera; grape
Data set added in Release #19, Dec 2012, based on Fasoli et al (2012)
Fasoli et al (2012). The Grapevine Expression Atlas Reveals a Deep Transcriptome Shift Driving the Entire Plant into a Maturation Program. The Plant Cell Online. doi: 10.1105/tpc.112.100230
Background: The authors developed a genome-wide transcriptomic atlas of grapevine (Vitis vinifera) based on 54 samples representing green and woody tissues and organs at different developmental stages as well as specialized tissues such as pollen and senescent leaves. Together, these samples expressed ∼91% of the predicted grapevine genes.
To identify and characterize organ-specific genes, the authors constructed a reduced 38-sample data set, excluding from the analysis samples with redundant organ identity and those collected during senescence and withering (see Supplemental Data Set 2)
Annotations based on Supplemental Data Set 2: Organ-specific transcripts_S2
The 38 samples were mapped to PO ids representing the plant structures and plant growth stages used.
PO anatomy and growth stage mapping table:
Organ | Organ Stage | Anatomy PO ID | Anatomy PO name | Growth Stage PO ID | Growth Stage PO name | comments | ||
green berry | E-L 29-32 | PO:0009001 | fruit | PO:0025501 | fruit formation stage | post-fruit set, before véraison | ||
red berry | E-L 35-36 | PO:0009001 | fruit | PO:0025502 | fruit ripening stage | |||
green rachis | E-L 14 | PO:0025242 | infructescence axis | PO:0007089 | stem elongation stage | |||
red rachis | E-L 43 | PO:0025242 | infructescence axis | PO:0007017 | sporophyte senescent stage | |||
leaf | E-L 14, 29, 43 | PO:0009025 | vascular leaf | PO:0001050 | leaf development stage | |||
root | n/a | PO:0009005 | root | PO:0007520 | root development stage | |||
carpel | E-L 20/E-L 23 | PO:0009005 | root | PO:0007520 | root development stage | |||
petal | ||||||||
stamen | ||||||||
pollen |