Regulation of the β-hydroxyacyl ACP dehydratase gene of Picea mariana by alternative splicing

Tai, Helen H.; Williams, Martin; Iyengar, Abhinav; Yeates, Jessica A. M.; Beardmore, Tannis

doi:10.1007/s00299-006-0213-7

Cited by 20 publications

(13 citation statements)

References 44 publications

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“…Nomenclature and classification recently proposed by Barta et al 44 Notably, heat stress changes the alternative splicing patterns of both the waxy gene encoding a rice starch synthase 82 and the Arabidopsis heat shock factor HSFA2, 83 while cold-dependent changes in alternative transcripts have been reported for a potato invertase gene, 84 the black spruce β-hydroxyacyl ACP dehydratase gene involved in fatty acid biosynthesis, 85 the trifoliate orange CTL gene expressed exclusively at low temperatures, 86 a durum wheat gene encoding a putative ribokinase, 87 and a tomato alternative oxidase (AOX ) gene involved in the removal of stressinduced reactive oxygen species. 88 In rice, alternative splicing of an AOX gene is also changed, but in response to salt stress.…”

Section: Plant Sr Proteinsmentioning

confidence: 99%

A role for SR proteins in plant stress responses

Duque

2011

Plant Signaling & Behavior

143

104

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REVIEWSR (serine/arginine-rich) proteins constitute a highly conserved family of RNA-binding proteins, which plays key roles in the execution and regulation of precursor-mRNA (pre-mRNA) splicing. By affecting splice site selection in a concentration-and phosphorylation-dependent fashion, SR proteins significantly contribute to the alternative splicing process, which they appear to modulate in a tissue-specific, developmentally-regulated and stress-responsive manner.The splicing of introns from the pre-mRNA is carried out by one of the largest molecular complexes of the cell, the spliceosome, which consists of five small nuclear ribonucleoproteins (snRNPs) and numerous additional proteins.1,2 Members of the SR protein family are non-snRNP spliceosomal factors that have been shown in animal systems to play vital roles in the most crucial and early steps of spliceosome assembly.3-6 These essential splicing factors share a multidomain structure typically characterized by the presence of one or two N-terminal RNA Recognition Motifs (RRMs) and a C-terminal reversibly phosphorylated arginine/serine-rich (RS) domain.3,7 Binding of SR proteins to the pre-mRNA is mediated by the RRM, which recognizes short and degenerate sequences such as exonic splicing enhancers or silencers (ESEs or ESSs, respectively). The RRM confers RNA-binding specificity and each ESE/ESS is thought

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Section: Plant Sr Proteinsmentioning

confidence: 99%

A role for SR proteins in plant stress responses

Duque

2011

Plant Signaling & Behavior

143

104

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“…Stress-dependent and differential pre-mRNA processing has been proposed as a new mechanism of stress response and regulation (70). Temperature-dependent splicing has been shown for Arabidopsis SR1 splicing factor (71), Oryza granule bound starch synthase (72) and cold induced isoforms of hydroxyl-ACPdehydratase in Picea (73). Furthermore the induction of a DEAD/DEAH box helicase and the loss of SC35-like factor after 48 h of culture, the loss of the H/ACA snoRNP splicing factor after 72 h, and the constant but slow decrease of the serine/arginine-rich-mRNA splicing factor levels may be related to a long term or a second-stage remodeling step of the spliceosome caused by low temperatures.…”

Section: Fig 5 Central Metabolismmentioning

confidence: 99%

Systemic Cold Stress Adaptation of Chlamydomonas reinhardtii

Valledor

Furuhashi

Hanak

et al. 2013

Molecular & Cellular Proteomics

129

131

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Chlamydomonas reinhardtii is one of the most important model organisms nowadays phylogenetically situated between higher plants and animals (Merchant et al. 2007). Stress adaptation of this unicellular model algae is in the focus because of its relevance to biomass and biofuel production. Here, we have studied cold stress adaptation of C. reinhardtii hitherto not described for this algae whereas intensively studied in higher plants. Toward this goal, high throughput mass spectrometry was employed to integrate proteome, metabolome, physiological and cell-morphological changes during a time-course from 0 to 120 h. These data were complemented with RT-qPCR for target genes involved in central metabolism, signaling, and lipid biosynthesis. Using this approach dynamics in central metabolism were linked to cold-stress dependent sugar and autophagy pathways as well as novel genes in C. reinhardtii such as CKIN1, CKIN2 and a hitherto functionally not annotated protein named CKIN3. Cold stress affected extensively the physiology and the organization of the cell. Gluconeogenesis and starch biosynthesis pathways are activated leading to a pronounced starch and sugar accumulation. Quantitative lipid profiles indicate a sharp decrease in the lipophilic fraction and an increase in polyunsaturated fatty acids suggesting this as a mechanism of maintaining membrane fluidity. The proteome is completely remodeled during cold stress: specific candidates of the ribosome and the spliceosome indicate altered biosynthesis and degradation of proteins important for adaptation to low temperatures. Specific proteasome degradation may be mediated by the observed cold-specific changes in the ubiquitinylation system. Sparse partial least squares regression analysis was applied for protein correlation network analysis using proteins as predictors and Fv/Fm, FW, total lipids, and starch as responses. We applied also Granger causality analysis and revealed correlations between proteins and metabolites otherwise not detectable. Twenty percent of the proteins responsive to cold are uncharacterized proteins. This presents a considerable resource for new discoveries in cold stress biology in alga and plants. Molecular &

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“…DNA concentrations were determined by UV spectrophotometry bands were showing circadian cycling. In a black spruce DDRT-PCR study examining seed germination, 2.2% of the 5,000 bands were differentially displayed between dry seed and imbibed seed (Tai et al 2007). These studies provide evidence that arbitrary RT-PCR mostly amplifies genes that do not change in expression.…”

Section: Resultsmentioning

confidence: 99%

“…DDRT-PCR involves the amplification of PCR products using an arbitrary and an anchored oligo d(T) primer; however, RT-PCR products can be amplified with arbitrary primers alone (McClelland et al 1995;Tai et al 2007). A typical DDRT-PCR fingerprint can yield 50-100 bands on a gel, and differences in banding patterns are indicative of differential gene expression between samples.…”

Section: Introductionmentioning

confidence: 99%

Arbitrary Multi-gene Reference for Normalization of Real-Time PCR Gene Expression Data

et al. 2009

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Analysis of gene expression using real-time reverse transcription polymerase chain reaction (RT-PCR) requires reference genes to normalize expression values between samples. We have developed a novel reference for real-time RT-PCR using an arbitrary primer to amplify a random set of genes. The arbitrary primer amplifies over 30 genes, whose cumulative expression as measured by real-time RT-PCR closely follows that of UBQ 11, an Arabidopsis thaliana gene that is used as a reference on microarrays. The expression of arbitrary genes is also compared with potato (Solanum tuberosum spp. tubersosum) housekeeping genes and was shown to be stable during Phytophthora infestans infection.

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Regulation of the β-hydroxyacyl ACP dehydratase gene of Picea mariana by alternative splicing

Cited by 20 publications

References 44 publications

A role for SR proteins in plant stress responses

A role for SR proteins in plant stress responses

Systemic Cold Stress Adaptation of Chlamydomonas reinhardtii

Arbitrary Multi-gene Reference for Normalization of Real-Time PCR Gene Expression Data

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