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 |
|---|---|---|---|---|---|---|---|---|
eugene3.00070346 | AT1G73260 | Q8RXD5 | 20.1.7.6.1 | stress.biotic.PR-proteins.proteinase inhibitors.trypsin inhibitor | 4.372610679 | 0.000549868 | trypsin and protease inhibitor family protein / Kunitz family protein | |
estExt_Genewise1_v1.C_LG_XVI3242 | AT2G37770 | Q0PGJ6 | 3.5 | minor CHO metabolism.others | 1.664496372 | 0.001768656 | oxidoreductase | |
estExt_Genewise1_v1.C_LG_XIV2782 | AT3G63010 | Q9LYC1 | 17.6.2 | hormone metabolism.gibberelin.signal transduction | 1.675410238 | 0.003971384 | ATGID1B/GID1B (GA INSENSITIVE DWARF1B) | Encodes a gibberellin (GA) receptor ortholog of the rice GA receptor gene (OsGID1). Has GA-binding activity, showing higher affinity to GA4. Interacts with DELLA proteins in vivo in the presence of GA4. |
fgenesh4_pm.C_LG_XV000479 | AT5G52470 | Q9FEF8 | 27.1 | RNA.processing | 1.696377524 | 0.000299527 | FIB1 (FIBRILLARIN 1) | encodes a fibrillarin, a key nucleolar protein in eukaryotes which associates with box C/D small nucleolar RNAs (snoRNAs) directing 2-O-ribose methylation of the rRNA. This gene also encodes a novel box C/D snoRNA, U60.1f in its fifth intron that accumulates in seedlings and that their targeted residue on the 25 S rRNA is methylated. |
estExt_Genewise1_v1.C_LG_IX3674 | AT3G07600 | Q9SSF0 | 15 | metal handling | 1.697540864 | 0.001132159 | heavy-metal-associated domain-containing protein | |
eugene3.00100655 | AT2G27380 | Q9ZQI0 | 35.1.42 | not assigned.no ontology.proline rich family | 1.706860996 | 0.000443601 | ATEPR1 (Arabidopsis thaliana extensin proline-rich 1) | Encodes an extensin like gene involved in seed germination. |
grail3.19938000101 | AT3G51240 | Q9S818 | 16.8.3.2 | secondary metabolism.flavonoids.dihydroflavonols.flavanone 3-hydroxylase | 1.723826327 | 0.000985708 | F3H (TRANSPARENT TESTA 6); naringenin 3-dioxygenase | Encodes flavanone 3-hydroxylase that is coordinately expressed with chalcone synthase and chalcone isomerases. Regulates flavonoid biosynthesis. |
grail3.0036009801 | AT2G29420 | Q9ZW24 | 26.9 | misc.glutathione S transferases | 1.724551335 | 0.002865151 | ATGSTU7 (GLUTATHIONE S-TRANSFERASE 25); glutathione transferase | Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). Induced by Salicylic acid. Independent of NPR1 for their induction by salicylic acid. |
estExt_Genewise1_v1.C_LG_XIV0250 | AT1G02930 | P42760 | 26.9 | misc.glutathione S transferases | 1.750390524 | 0.002383737 | ATGSTF6 (EARLY RESPONSIVE TO DEHYDRATION 11); glutathione transferase | Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002). |
estExt_fgenesh4_pm.C_LG_XIX0276 | AT1G26910 | Q08770 | 29.2.1.2.2.10 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L10 | 1.761304196 | 0.000629799 | 60S ribosomal protein L10 (RPL10B) | |
grail3.5873000103 | AT5G61030 | Q9FNR1 | 27.4 | RNA.RNA binding | 1.768032569 | 0.000230029 | GR-RBP3 (glycine-rich RNA-binding protein 3); RNA binding | encodes a glycine-rich RNA binding protein. Gene expression is induced by cold. |
grail3.0024029101 | AT2G26190 | O64851 | 30.3 | signalling.calcium | 1.776028609 | 0.000867401 | calmodulin-binding family protein |