Species & Dataset
Experiment
Foliar Ozone Injury
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Populus trichocarpa
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Common name: Poplar cottonwood
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Family: Salicaceae
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Genotype: An inbred F2 mapping population (Family 331), formed from a cross between Populus trichocarpa and P. deltoides
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Tissue: Shoot leaves
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Ozone concentration: 16.7 nL L-1 (Control)
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93.1 nL L-1 (Treatment)
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Ozone exposure: Whole experimental period
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Sampling time: End of exposure period
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Platform: Microarray
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Year of study: 2010
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Location: UK
Title: The physiological, transcriptional and genetic responses of an ozone- sensitive and an ozone tolerant poplar and selected extremes of their F2 progeny
Summary: Relatively little is known about the transcriptional response or genetic control of response and adaptation of trees to tropospheric ozone exposure. Such understanding is needed as up to 50% of forests, globally, may be subjected to phytotoxic concentrations of ozone. The physiological, transcriptional and genetic response to ozone was examined in Populus trichocarpa and P. deltoides, which show extreme sensitivity and tolerance to ozone, respectively. Using an inbred F2 mapping population derived from these two species, we mapped quantitative trait loci (QTL) for traits associated with ozone response, examined segregation of the transcriptional response to ozone and co-located genes showing divergent responses between tolerant and sensitive genotypes with QTL. QTL were identified linking detrimental effects of ozone with leaf and biomass traits and differential responses were found for key genes involved in ethylene production and response.
Reference: Street, N.R., James, T.M., James, T., Mikael, B., Jaakko, K., Mark, B. and Taylor, G., 2011. The physiological, transcriptional and genetic responses of an ozone-sensitive and an ozone tolerant poplar and selected extremes of their F2 progeny. Environmental Pollution, 159(1), pp.45-54
Gene name | AGI code | Uniprot ID | Bin Code | Bin Name | logFoldChange | p-value | Functional annotation | Summary |
|---|---|---|---|---|---|---|---|---|
gw1.182.27.1 | AT1G08170 | Q9SGE3 | 28.1.3.2.2 | DNA.synthesis/chromatin structure.histone.core.H2B | 2.532096813 | 0.000275032 | histone H2B family protein | |
estExt_Genewise1_v1.C_LG_XI0270 | AT4G27270 | Q6NQE2 | 11.8 | lipid metabolism.'exotics'(steroids, squalene etc) | 2.591935893 | 0.000274645 | quinone reductase family protein | |
estExt_Genewise1_v1.C_LG_XI2337 | AT4G27270 | Q6NQE2 | 11.8 | lipid metabolism.'exotics'(steroids, squalene etc) | 2.59477872 | 0.000811014 | quinone reductase family protein | |
estExt_fgenesh4_pg.C_LG_I1494 | AT2G19730 | O82204 | 29.2.1.2.2.28 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L28 | 1.312587384 | 0.000495971 | 60S ribosomal protein L28 (RPL28A) | |
gw1.I.2068.1 | AT5G12300 | Q94CL2 | 35.1.19 | not assigned.no ontology.C2 domain-containing protein | 1.315766275 | 0.001225212 | C2 domain-containing protein | |
gw1.142.209.1 | AT3G54420 | Q9M2U5 | 20.1 | stress.biotic | 1.318160606 | 0.001887833 | ATEP3 (Arabidopsis thaliana chitinase class IV); chitinase | encodes an EP3 chitinase that is expressed during somatic embryogenesis in nursing cells surrounding the embryos but not in embryos themselves. The gene is also expressed in mature pollen and growing pollen tubes until they enter the receptive synergid, but not in endosperm and integuments as in carrot. Post-embryonically, expression is found in hydathodes, stipules, root epidermis and emerging root hairs. |
grail3.0106016001 | AT3G22435 | #N/A | #N/A | 1.319420629 | 0.002199336 | XS domain-containing protein | ||
grail3.0009049102 | AT5G19140 | Q94BR2 | 15 | metal handling | 1.324272555 | 0.001365733 | auxin/aluminum-responsive protein, putative | |
estExt_fgenesh4_pg.C_1630059 | AT2G33860 | O23661 | 27.3.4 | RNA.regulation of transcription.ARF, Auxin Response Factor family | 1.326769721 | 0.0000598 | ETT (ETTIN); transcription factor | ettin (ett) mutations have pleiotropic effects on Arabidopsis flower development, causing increases in perianth organ number, decreases in stamen number and anther formation, and apical-basal patterning defects in the gynoecium. The ETTIN gene encodes a protein with homology to DNA binding proteins which bind to auxin response elements. ETT transcript is expressed throughout stage 1 floral meristems and subsequently resolves to a complex pattern within petal, stamen and carpel primordia. ETT probably functions to impart regional identity in floral meristems that affects perianth organ number spacing, stamen formation, and regional differentiation in stamens and the gynoecium. During stage 5, ETT expression appears in a ring at the top of the floral meristem before morphological appearance of the gynoecium, consistent with the proposal that ETT is involved in prepatterning apical and basal boundaries in the gynoecium primordium. It is a target of the ta-siRNA tasiR-ARF. |
estExt_fgenesh4_pm.C_LG_VIII0168 | AT2G39390 | O80626 | 29.2.1.2.2.35 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L35 | 1.331621828 | 0.000579136 | 60S ribosomal protein L35 (RPL35B) | |
grail3.0032000401 | AT4G26850 | Q8RWE8 | 21.2.1.2 | redox.ascorbate and glutathione.ascorbate.GDP-L-galactose-hexose-1-phosphate guanyltransferase | 1.332898277 | 0.000316173 | VTC2 (VITAMIN C DEFECTIVE 2) | a gene encoding a novel protein is involved in ascorbate biosynthesis. recessive mutation has a reduced amount of vitamin C, lower level of non-photochemical quenching, and reduced rate of conversion of violaxanthin to zeaxanthin in high light. |
estExt_fgenesh4_pg.C_LG_X1891 | AT2G39460 | Q8LD46 | 29.2.1.2.2.523 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L23A | 1.334267053 | 0.000156749 | ATRPL23A (RIBOSOMAL PROTEIN L23A); RNA binding / structural constituent of ribosome | Encodes a putative ribosomal protein L23a (AtrpL23a). |