| Literature DB >> 21499864 |
Annie Archambault1, Martina V Strömvik.
Abstract
In many studied plants, typical responses to cold treatment include up-regulating the hydrophilic COR/LEA genes and down-regulating photosynthesis-related genes, carbohydrate metabolism, GDSL-motif lipase, hormone metabolism and oxidative regulation genes. However, next to nothing is known about gene expression in arctic plants, which are actually adapted to a harsh, cold environment. The molecular mechanisms behind the many specific adaptations of arctic plants, such as slow growth, well-developed root systems and short stature, are not well understood. In this study, we examine whole plantlet transcriptome differences between two arctic and two temperate Oxytropis (Fabaceae) species, grown under their respective controlled environmental conditions. Gene expression differences are analyzed using cDNA library subtraction followed by expressed sequence tags sequencing and annotation. Sequences from a total of nearly 2,000 clones cluster into 121 and 368 unique genes from the arctic and from the temperate plants, respectively. The predominant biological process for genes from the arctic-enriched library is "response to stimulus". A concurrent overexpression of pathogenesis-related class 10 proteins (PR-10), plant defensin and cold dehydrin genes is a novel feature for species adapted to stressful growth environment. The temperate-enriched genes are involved in photosynthesis, translation and nucleosome assembly. Interestingly, both arctic and temperate-enriched libraries also contain genes involved in ribosome biogenesis and assembly, however of different types. Real-time reverse transcription PCR of cold dehydrin and two PR-10 genes, as well as the light harvesting complex b1 genes demonstrates that the gene expression is dependent on species and growth conditions.Entities:
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Year: 2011 PMID: 21499864 PMCID: PMC3156302 DOI: 10.1007/s10142-011-0223-6
Source DB: PubMed Journal: Funct Integr Genomics ISSN: 1438-793X Impact factor: 3.410
Proportion of expressed sequence tags (ESTs) retrieved from arctic-enriched and temperate-enriched Oxytropis subtractive cDNA libraries according to general categories
| Gene category | EST ratio in arctic-enriched librarya (potential false positive)b | EST ratio in temperate-enriched librarya (potential false positive)b |
|---|---|---|
| No similarity | 5.85 × 10−1 (5.91 × 10−3) | 5.84 × 10−2 (0) |
| Unclassified | 3.55 × 10−3 (0) | 2.12 × 10−1 (1.82 × 10−3) |
| ROS related | 5.91 × 10−3 (3.54 × 10−3) | 2.74 × 10−2 (5.47 × 10−3) |
| Histones | 1.18 × 10−3 (1.18 × 10−3) | 2.92 × 10−2 (1.82 × 10−3) |
| DNA-proteins | 0 | 2.00 × 10−2 (0) |
| RNA-proteins (ribosomes) | 2.01 × 10−2 (9.46 × 10−3) | 7.66 × 10−2 (3.65 × 10−3) |
| Response to stimulus | 2.31 × 10−1 (1.19 × 10−1) | 1.08 × 10−1 (1.28 × 10−2) |
| Secondary metabolism | 0 | 1.46 × 10−2 (0) |
| Hormones | 4.73 × 10−3 (4.73 × 10−3) | 3.83 × 10−2 (7.30 × 10−3) |
| Transport | 2.36 × 10−4 (1.18 × 10−3) | 4.01 × 10−2 (7.3 × 10−3) |
| Nucleotides | 0 | 1.82 × 10−3 (0) |
| Signaling | 1.18 × 10−3 (1.18 × 10−3) | 1.82 × 10−2 (1.82 × 10−3) |
| Protein modifications | 1.18 × 10−3 (0) | 2.00 × 10−2 (0) |
| Nitrogen | 1.18 × 10−3 (1.18 × 10−3) | 2.00 × 10−2 (5.47 × 10−3) |
| Lipid | 7.57 × 10−2 (7.47 × 10−2) | 1.46 × 10−2 (3.65 × 10−3) |
| Carbohydrates | 1.18 × 10−3 (0) | 3.65 × 10−2 (0) |
| Energy | 3.55 × 10−2 (1.18 × 10−4) | 2.65 × 10−1 (1.82 × 10−3) |
ROS reactive oxygen species
aThe ratio of ESTs in a category is expressed relative to the total number of ESTs in the subtracted library of origin, as EST ratio = number of EST sequences in library in this category/total number of EST sequences in library
bValues in parenthesis report the potential false positive, identified using similarity of unique genes from one subtracted library to the unique genes of the other subtracted library
Fig. 1Expression of selected genes compared in transcriptomes of two arctic Oxytropis species (O. arctobia and O. maydelliana) and two temperate species (O. campestris subsp. johannensis and O. splendens) under two climatic conditions. Real-time RT-PCR was used to measure gene expression in cDNA. Values on the Y-axis are the mean ratio of the selected gene relative to actin expression. Actin was used as a normalizing gene ±1 standard deviation of three biological replicates and two technical replicates. a Expression of arctic.contig47 (cold dehydrin); b arctic.contig61 (PR-10); c arctic.contig13/36 (PR-10); d temperate.contig98 (light harvesting protein I, lhcbI). Abbreviations: oa, O. arctobia; om, O. maydelliana; ocj, O. campestris subsp. johannensis; os O. splendens. The white bars represent expression of plantlets from the arctic conditions, and the dark grey bars from the temperate conditions. Small letters a or b above bars denote values that are significantly different at the 0.05 level (one-way ANOVA-GLM with SNK)