Cloning and characterization of differentially expressed genes in imbibed dormant and afterripened Avena fatua embryos

Li, Bailin; Foley, Michael

doi:10.1007/bf00041171

Cited by 72 publications

(52 citation statements)

References 39 publications

(60 reference statements)

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“…A homology search was performed with BLASTN and BLASTX, and by homology searches of publicly available sequence data we assigned tentative protein functions. We used 21,938 TUs that were equivalent to ϳ32,000 FL-cDNA clones; to maximize the effective use of these ϳ32,000 published clones, in accordance with the recommendations of the manufacturer of oligonucleotide array (Agilent Technologies, Tokyo, Japan), the array format was 22,000 spots per glass slide. The functional annotations and identities (including accession numbers and related reference papers) of all ϳ32,000 rice FL-cDNA clones are listed in the Knowledge-based Oryza Molecular Biological Encyclopedia (KOME; http://cdna01.dna.affrc.go.jp/cDNA/).…”

Section: Rice Fl-cdna Clonesmentioning

confidence: 99%

Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice andArabidopsis

Yazaki

Shimatani²,

Hashimoto³

et al. 2004

Physiological Genomics

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We collected and completely sequenced 32,127 full-length complementary DNA clones from Oryza sativa L. ssp. japonica cv. “Nipponbare.” Mapping of these clones to genomic DNA revealed ∼20,500 transcriptional units (TUs) in the rice genome. For each TU, we selected 60-mers using an algorithm that took into account some DNA conditions such as base composition and sequence complexity. Using in situ synthesis technology, we constructed oligonucleotide arrays with these TUs on glass slides. We targeted RNAs prepared from normally grown rice callus and from callus treated with abscisic acid (ABA) or gibberellin (GA). We identified 200 ABA-responsive and 301 GA-responsive genes, many of which had never before been annotated as ABA or GA responsive in other expression analysis. Comparison of these genes revealed antagonistic regulation of almost all by both hormones; these had previously been annotated as being responsible for protein storage and defense against pathogens. Comparison of the cis-elements of genes responsive to one or antagonistic to both hormones revealed that the antagonistic genes had cis-elements related to ABA and GA responses. The genes responsive to only one hormone were rich in cis-elements that supported ABA and GA responses. In a search for the phenotypes of mutants in which a retrotransposon was inserted in these hormone-responsive genes, we identified phenotypes related to seed formation or plant height, including sterility, vivipary, and dwarfism. In comparison of cis-elements for hormone response genes between rice and Arabidopsis thaliana, we identified cis-elements for dehydration-stress response as Arabidopsis specific and for protein storage as rice specific.

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Section: Rice Fl-cdna Clonesmentioning

confidence: 99%

Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice andArabidopsis

Yazaki

Shimatani²,

Hashimoto³

et al. 2004

Physiological Genomics

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“…Many of these products have sequence homology with proteins involved in desiccation tolerance or protection against various injuries and with storage proteins [9][10][11][12][13][14]. Identifying these functions is important for understanding the differences between the dormant and non-dormant states, but to date no 'switch' function that could be involved in the choice between maintenance and release of dormancy and germinating has been discovered by these approaches.…”

Section: The Physiology Of Seed Germinationmentioning

confidence: 99%

Untitled

Bove¹,

Jullien²,

Grappin³

2001

Genome Biol

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A recent proteomic analysis of germinating Arabidopsis thaliana seeds demonstrates the effectiveness of functional genomics for investigating the complexity of developmental regulatory networks, such as the development of the embryo into a young plant. The electronic version of this article is the complete one and can be found online at http://genomebiology.com/2001/3/1/reviews/1002 © BioMed Central Ltd (Print ISSN 1465-6906; Online ISSN 1465-6914) In flowering plant development, seed germination is the transition of the quiescent embryo, which has developed from the fertilized ovule, into a new photosynthetically active plant. The visible sign that germination has been completed is the protrusion of the radicle, the precursor of the root, through the seed coat; germination sensu stricto begins, however, with water uptake by the seed (imbibition) and ends with the start of elongation the embryonic axis inside the seed [1]. Germination results from a combination of many cellular and metabolic events, coordinated by a complex regulatory network that includes seed dormancy, an intrinsic ability to temporarily block radicle elongation in order to optimize the timing of germination [2]. In the field of seed biology, germination mechanisms and their control by dormancy have been investigated in a wide range of species. Nonetheless, how these processes are coordinated, how they contribute to germination, and the regulatory network leading to completion of germination remain poorly understood.The availability of the complete genome sequence of the model plant Arabidopsis thaliana [3], together with the development of high-throughput procedures for global analyses of gene function, has launched the 'post-genomic' era of plant biology. Systematic analyses of RNA and protein expression patterns, and of post-translational modifications, are now feasible for a large set of genes [4]. These can provide important clues about protein-protein interactions and gene functions in a complex developmental context. A recent proteome study of germinating Arabidopsis seeds [5] highlights the effectiveness of using this model organism to provide information on germination that may prove general to all plants. The physiology of seed germinationIn temperate climates, most mature seeds, consisting of an embryo surrounded by endosperm and a seed coat (testa), are dispersed from the mother plant in a state of low moisture content (5-15%) and with metabolic activity at a standstill. Some physiologists have hypothesized that with regard to their structure, genetic information and macromolecular content, dry seeds are in a state of readiness to resume metabolism [6]. For germination to occur, quiescent seeds need only be hydrated under conditions that encourage metabolism, such as a suitable temperature and the presence of oxygen (Figure 1). The uptake of water by the seed, which is considered to be a trigger for germination, and the metabolic processes that take place as a result, are described in Figure 1. Seed germination can be de...

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“…The first isolated plant AKR, the barley aldose reductase has been shown to provide osmoprotection during embryo development (Bartels et al 1991;Roncarati et al 1995). Similar proteins were found in wild oat (Avena fatua) (AKR4C3) (Li et al 1995) and in Xerophyta viscosa (AKR4C4) (Mundree et al 1995). The desiccation-protecting properties of the AKR4C1-AKR4C4 enzymes were manifested through the production of osmolytes (such as sorbitol) and thus had the ability to protect the cellular components in the maintenance of integrity under reduced water contents (Bartels et al 1991;Mundree et al 1995).…”

Section: CDmentioning

confidence: 94%

Improved reactive aldehyde, salt and cadmium tolerance of transgenic barley due to the expression of aldo–keto reductase genes

et al. 2016

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Under various stress conditions, plant cells are exposed to oxidative damage which triggers lipid peroxidation. Lipid peroxide breakdown products include protein crosslinking reactive aldehydes. These are highly damaging to living cells. Stress-protective aldo-keto reductase (AKR) enzymes are able to recognise and modify these molecules, reducing their toxicity.AKRs not only modify reactive aldehydes but may synthesize osmoprotective sugar alcohols as well. The role of these mixed function enzymes was investigated under direct reactive aldehyde, heavy metal and salt stress conditions. Transgenic barley (Hordeum vulgare L.) plants constitutively expressing AKR enzymes derived from either thale cress (Arabidopsis thaliana) (AKR4C9) or alfalfa (Medicago sativa) (MsALR) were studied. Not only AKR4C9 but MsALR expressing plants were also found to produce more sorbitol than the nontransgenic (WT) barley. Salinity tolerance of genetically modified (GM) plants improved, presumably as a consequence of the enhanced sorbitol content. The MsALR enzyme expressing line (called 51) exhibited almost no symptoms of salt stress. Furthermore, both transgenes were shown to increase reactive aldehyde (glutaraldehyde) tolerance. Transgenic plants also exhibited better cadmium tolerance compared to WT, which was considered to be an effect of the reduction of reactive aldehyde molecules. Transgenic barley expressing either thale cress or alfalfa derived enzyme showed improved heavy metal and salt tolerance. Both can be explained by higher detoxifying and sugar alcohol producing activity. Based on the presented data, we consider AKRs as very effective stress-protective enzymes and their genes provide promising tools in the improvement of crops through gene technology.Key words: transgenic plant, lipid peroxidation, sorbitol, heavy metal, salt stress 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64

show abstract

Cloning and characterization of differentially expressed genes in imbibed dormant and afterripened Avena fatua embryos

Cited by 72 publications

References 39 publications

Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice andArabidopsis

Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice andArabidopsis

Untitled

Improved reactive aldehyde, salt and cadmium tolerance of transgenic barley due to the expression of aldo–keto reductase genes

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