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 |
|---|---|---|---|---|---|---|---|---|
grail3.0021029701 | AT1G62480 | Q9SXE9 | 30.3 | signalling.calcium | -0.794460929 | 0.002876788 | vacuolar calcium-binding protein-related | |
grail3.0064002701 | AT4G05320 | Q8H159 | 29.5.11.1 | protein.degradation.ubiquitin.ubiquitin | -0.794067922 | 0.003509863 | UBQ10 (POLYUBIQUITIN 10); protein binding | One of five polyubiquitin genes in A. thaliana. These genes encode the highly conserved 76-amino acid protein ubiquitin that is covalently attached to substrate proteins targeting most for degradation. Polyubiquitin genes are characterized by the presence of tandem repeats of the 228 bp that encode a ubiquitin monomer. Induced by salicylic acid. Independent of NPR1 for their induction by salicylic acid. |
estExt_Genewise1_v1.C_LG_XVI2679 | AT2G37090 | Q9ZQC6 | 10.3.2 | cell wall.hemicellulose synthesis.glucuronoxylan | -0.792231982 | 0.000943875 | IRX9 (IRREGULAR XYLEM 9); transferase, transferring glycosyl groups | The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis. |
estExt_fgenesh4_kg.C_LG_X0015 | AT5G14740 | P42737 | 8.3 | TCA / org transformation.carbonic anhydrases | -0.791567746 | 0.002519753 | CA2 (BETA CARBONIC ANHYDRASE 2); carbonate dehydratase/ zinc ion binding | Encodes a beta carbonic anhydrase likely to be localized in the cytoplasm. Expression of its mRNA is seen in etiolated seedlings and points to a possible nonphotosynthetic role for this isoform. |
fgenesh4_pg.C_LG_XVIII000183 | AT5G07950 | Q8LA67 | 1.1.5.2 | PS.lightreaction.other electron carrier (ox/red).ferredoxin | -0.787369412 | 0.002270496 | ||
estExt_fgenesh4_pg.C_LG_III0079 | AT1G25290 | F4ICF4 | 35.1 | not assigned.no ontology | -0.774450522 | 0.004009396 | rhomboid family protein | |
grail3.0009008501 | AT1G05380 | Q9ZW00 | 27.3.63 | RNA.regulation of transcription.PHD finger transcription factor | -0.764413983 | 0.001914673 | DNA binding | |
grail3.0025023802 | AT5G01650 | F4K9G5 | 35.1 | not assigned.no ontology | -0.752543494 | 0.004233836 | macrophage migration inhibitory factor family protein / MIF family protein | |
estExt_fgenesh4_pg.C_LG_II1494 | AT5G12370 | X5JA13 | 31.4 | cell.vesicle transport | -0.746600173 | 0.003633068 | SEC10 (EXOCYST COMPLEX COMPONENT SEC10) | |
estExt_Genewise1_v1.C_LG_VI0741 | AT5G02560 | Q9LZ46 | 28.1.3.2.1 | DNA.synthesis/chromatin structure.histone.core.H2A | -0.745855282 | 0.002236611 | histone H2A, putative | |
eugene3.00180824 | AT1G07660 | A8MRV1 | 28.1.3.2.4 | DNA.synthesis/chromatin structure.histone.core.H4 | -0.74471611 | 0.00286594 | histone H4 | |
gw1.III.2689.1 | AT1G72640 | Q6NMC1 | 35.2 | not assigned.unknown | -0.738523145 | 0.002900608 |