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_pg.C_LG_V000190 | AT2G22250 | Q9SIE1 | 13.1.1.2.1 | amino acid metabolism.synthesis.central amino acid metabolism.aspartate.aspartate aminotransferase | 0.75310122 | 0.002236164 | AAT/ATAAT/MEE17 (maternal effect embryo arrest 17); aspartate transaminase | |
estExt_fgenesh4_pm.C_280132 | AT2G36530 | P25696 | 4.1.13 | glycolysis.cytosolic branch.enolase | 0.753134754 | 0.002020806 | LOS2 (Low expression of osmotically responsive genes 1); phosphopyruvate hydratase | Involved in light-dependent cold tolerance and encodes an enolase. |
estExt_fgenesh4_pg.C_LG_II1803 | AT3G62420 | Q9LZP8 | 27.3.35 | RNA.regulation of transcription.bZIP transcription factor family | 0.753379614 | 0.001334468 | ATBZIP53 (BASIC REGION/LEUCINE ZIPPER MOTIF 53); DNA binding / sequence-specific DNA binding / transcription factor | Encodes a group-S bZIP transcription factor. Forms heterodimers with group-C bZIP transcription factors. The heterodimers bind to the ACTCAT cis-element of proline dehydrogenase gene. |
estExt_fgenesh4_pg.C_LG_XVII0366 | AT1G26880 | Q42351 | 29.2.1.2.2.34 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L34 | 0.754406116 | 0.002377585 | 60S ribosomal protein L34 (RPL34A) | |
estExt_fgenesh4_pg.C_LG_III0677 | AT4G10770 | O82485 | 34.13 | transport.peptides and oligopeptides | 0.754948002 | 0.003676495 | ATOPT7 (oligopeptide transporter 7); oligopeptide transporter | oligopeptide transporter |
fgenesh4_pm.C_LG_IX000568 | AT3G54140 | Q9M390 | 34.13 | transport.peptides and oligopeptides | 0.757342205 | 0.002652433 | proton-dependent oligopeptide transport (POT) family protein | |
estExt_fgenesh4_kg.C_LG_IV0022 | AT2G36620 | Q42347 | 29.2.1.2.2.24 | protein.synthesis.ribosomal protein.eukaryotic.60S subunit.L24 | 0.757807986 | 0.001873873 | RPL24A (RIBOSOMAL PROTEIN L24); structural constituent of ribosome | RPL24A encodes ribosomal protein L24, homolog of cytosolic RPL24, found in archaea and higher eukaryotes. Arabidopsis has two RPL24 homologs, RPL24A (AT2G36620) and RPL24B (AT3G53020). |
estExt_Genewise1_v1.C_LG_I7944 | AT5G13430 | Q94JS0 | 9.5 | mitochondrial electron transport / ATP synthesis.cytochrome c reductase | 0.758678517 | 0.003126864 | ubiquinol-cytochrome C reductase iron-sulfur subunit, mitochondrial, putative / Rieske iron-sulfur protein, putative | |
eugene3.00080332 | AT5G42300 | Q9FGZ9 | 29.5.11.1 | protein.degradation.ubiquitin.ubiquitin | 0.760425762 | 0.003389319 | ubiquitin family protein | |
estExt_Genewise1_v1.C_1330112 | AT1G09150 | Q8L7N2 | 29.1 | protein.aa activation | 0.761331425 | 0.003015981 | pseudouridine synthase and archaeosine transglycosylase (PUA) domain-containing protein | |
estExt_fgenesh4_pg.C_LG_II2454 | AT2G21660 | Q03250 | 27.4 | RNA.RNA binding | 0.762027884 | 0.003579037 | ATGRP7 (COLD, CIRCADIAN RHYTHM, AND RNA BINDING 2); RNA binding / double-stranded DNA binding / single-stranded DNA binding | Encodes a small glycine-rich RNA binding protein that is part of a negative-feedback loop through which AtGRP7 regulates the circadian oscillations of its own transcript. Gene expression is induced by cold. |
estExt_fgenesh4_pm.C_LG_XVI0055 | AT3G56860 | Q9LES2 | 27.4 | RNA.RNA binding | 0.763975382 | 0.002547551 | UBA2A; RNA binding | encodes a nuclear protein that binds to RNA with a specificity for oligouridylates in vitro. Along with UBP1 and UBA1a, it may act as a component of a complex recognizing U-rich sequences in plant 3-UTRs and contributing to the stabilization of mRNAs in the nucleus. |