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 |
|---|---|---|---|---|---|---|---|---|
fgenesh4_pm.C_LG_II000371 | AT1G77490 | Q42593 | 21.2.1 | redox.ascorbate and glutathione.ascorbate | -1.156503197 | 0.000546151 | TAPX; L-ascorbate peroxidase | Encodes a chloroplastic thylakoid ascorbate peroxidase tAPX. Ascorbate peroxidases are enzymes that scavenge hydrogen peroxide in plant cells. Eight types of APX have been described for Arabidopsis: three cytosolic (APX1, APX2, APX6), two chloroplastic types (stromal sAPX, thylakoid tAPX), and three microsomal (APX3, APX4, APX5) isoforms. |
gw1.I.3925.1 | AT4G34200 | O49485 | 13.1.5.1.1 | amino acid metabolism.synthesis.serine-glycine-cysteine group.serine.phosphoglycerate dehydrogenase | -1.152413081 | 0.001669559 | EDA9 (embryo sac development arrest 9); NAD binding / amino acid binding / cofactor binding / oxidoreductase, acting on the CH-OH group of donors, NAD or NADP as acceptor / phosphoglycerate dehydrogenase | |
gw1.VI.1805.1 | AT3G22120 | Q9LIE9 | 26.21 | misc.protease inhibitor/seed storage/lipid transfer protein (LTP) family protein | -1.148594167 | 0.002477485 | CWLP (CELL WALL-PLASMA MEMBRANE LINKER PROTEIN); lipid binding | cell wall-plasma membrane linker protein homolog (CWLP) |
fgenesh4_pm.C_scaffold_44000028 | AT3G13750 | Q9SCW1 | 26.3.2 | misc.gluco-, galacto- and mannosidases.beta-galactosidase | -1.148333799 | 0.00244894 | BGAL1 (BETA GALACTOSIDASE 1); beta-galactosidase | beta-galactosidase, glycosyl hydrolase family 35 |
estExt_Genewise1_v1.C_LG_X4165 | AT5G35630 | Q43127 | 12.2.2 | N-metabolism.ammonia metabolism.glutamine synthetase | -1.144870844 | 0.002309632 | GS2 (GLUTAMINE SYNTHETASE 2); glutamate-ammonia ligase | chloroplastic glutamine synthetase |
estExt_Genewise1_v1.C_LG_V4944 | AT4G30100 | Q9SZW3 | 28.1 | DNA.synthesis/chromatin structure | -1.142325479 | 0.003841825 | tRNA-splicing endonuclease positive effector-related | |
estExt_fgenesh4_pg.C_LG_V1470 | AT1G75500 | Q94AP3 | 33.99 | development.unspecified | -1.138674569 | 0.002106639 | nodulin MtN21 family protein | |
eugene3.00070971 | AT2G23620 | Q8S8S9 | 26.8 | misc.nitrilases, *nitrile lyases, berberine bridge enzymes, reticuline oxidases, troponine reductases | -1.129816464 | 0.001711289 | esterase, putative | |
gw1.V.1967.1 | AT1G76110 | Q9SGS2 | 27.3.62 | RNA.regulation of transcription.Nucleosome/chromatin assembly factor group | -1.127700487 | 0.000472543 | high mobility group (HMG1/2) family protein / ARID/BRIGHT DNA-binding domain-containing protein | |
estExt_fgenesh4_pm.C_1420001 | AT4G03510 | O64425 | 29.5.11.4.2 | protein.degradation.ubiquitin.E3.RING | -1.126367567 | 0.00060882 | RMA1 (Ring finger protein with Membrane Anchor 1); protein binding / ubiquitin-protein ligase/ zinc ion binding | RMA1 encodes a novel 28 kDa protein with a RING finger motif and a C-terminal membrane-anchoring domain that is involved in the secretory pathway. |
gw1.X.4521.1 | AT2G33450 | O22795 | 29.2.1.1.1.2.28 | protein.synthesis.ribosomal protein.prokaryotic.chloroplast.50S subunit.L28 | -1.125558257 | 0.003035915 | 50S ribosomal protein L28, chloroplast (CL28) | |
estExt_fgenesh4_pm.C_LG_XVI0323 | AT4G30080 | Q93YR9 | 27.3.4 | RNA.regulation of transcription.ARF, Auxin Response Factor family | -1.120402816 | 0.002385159 | ARF16 (AUXIN RESPONSE FACTOR 16); miRNA binding / transcription factor | Involved in root cap cell differentiation. Gene expression is regulated by mir160.Located in the nucleus. |