Polymorphism of a new Ty1-copia retrotransposon in durum wheat under salt and light stresses

Woodrow, Pasqualina; Pontecorvo, Giovanni; Fantaccione, Stefania; Fuggi, Amodio; Kafantaris, Ioannis; Parisi, D; Carillo, Petronia

doi:10.1007/s00122-010-1311-z

Cited by 38 publications

(21 citation statements)

References 60 publications

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“…RT-PCR analysis was performed using gene-specific primers for Asn1, Asn2 , and Asn3 isoforms (Wang et al, 2005; Gao et al, 2016), NR (Carillo et al, 2005; Wang et al, 2005), and degenerate primers for P5CS (Woodrow et al, 2016) (Table S1). The amount of TdAsn1, TdAsn2, TdAsn3, TdNR , and TdP5CS templates mRNA levels were based on the comparison with the level of the 190 bp mRNA for actin (Woodrow et al, 2010), a constitutively expressed “house-keeping” gene. The semi-quantitative PCR was used to estimate the transcript levels.…”

Section: Methodsmentioning

confidence: 99%

Durum Wheat Roots Adapt to Salinity Remodeling the Cellular Content of Nitrogen Metabolites and Sucrose

et al. 2017

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Plants are currently experiencing increasing salinity problems due to irrigation with brackish water. Moreover, in fields, roots can grow in soils which show spatial variation in water content and salt concentration, also because of the type of irrigation. Salinity impairs crop growth and productivity by inhibiting many physiological and metabolic processes, in particular nitrate uptake, translocation, and assimilation. Salinity determines an increase of sap osmolality from about 305 mOsmol kg−1 in control roots to about 530 mOsmol kg−1 in roots under salinity. Root cells adapt to salinity by sequestering sodium in the vacuole, as a cheap osmoticum, and showing a rearrangement of few nitrogen-containing metabolites and sucrose in the cytosol, both for osmotic adjustment and oxidative stress protection, thus providing plant viability even at low nitrate levels. Mainly glycine betaine and sucrose at low nitrate concentration, and glycine betaine, asparagine and proline at high nitrate levels can be assumed responsible for the osmotic adjustment of the cytosol, the assimilation of the excess of ammonium and the scavenging of ROS under salinity. High nitrate plants with half of the root system under salinity accumulate proline and glutamine in both control and salt stressed split roots, revealing that osmotic adjustment is not a regional effect in plants. The expression level and enzymatic activities of asparagine synthetase and Δ1-pyrroline-5-carboxylate synthetase, as well as other enzymatic activities of nitrogen and carbon metabolism, are analyzed.

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Section: Methodsmentioning

confidence: 99%

Durum Wheat Roots Adapt to Salinity Remodeling the Cellular Content of Nitrogen Metabolites and Sucrose

et al. 2017

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“…Genomic shocks, including biological or abiological stresses, and polyploidization can induce the mobilization of both class I and class II TEs (McClintock 1984; reference). Woodrow et al (2010) demonstrated that the retrotransposition of Ty1-copia-like elements plays important roles in defense responses to environmental stresses in tetraploid wheat. Allopolyploidy is a major driving force in plant evolution, inducing rapid structural changes in hybrid genomes; TEs are major components of those changes (Liu and Wendel 2000;Kashkush et al 2002;Josefesson et al 2006;Parisod and Senerchia 2012).…”

Section: Sequence-specific Amplified Polymorphism (Ssap)mentioning

confidence: 99%

Marker utility of transposable elements for plant genetics, breeding, and ecology: a review

et al. 2014

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Variation is the primary source for plant and animal breeding and evolution, and hence, the detection of variation is an integral part of genetics, breeding, and ecology. Various molecular marker systems have been developed to detect genetic variation. They detect sequence variations (e.g., restriction fragment length polymorphism, randomly amplified polymorphic DNA, amplified fragment length polymorphism) or simple sequence motif variations. However, a large portion of genomic variation is derived from the transposition of transposable elements (TEs), which are major denizens of most eukaryote genomes. Therefore, molecular markers derived from TEs are valuable resources for dissecting genomes in plants and animals. Because class I retrotransposons transpose by a ''copy-and-paste'' semi-conservative manner, retrotransposon-based markers (e.g., Inter-retrotransposon amplified polymorphism, retrotransposon-microsatellite amplified polymorphism, sequence-specific amplified polymorphism) can reveal highly accurate phylogenetic relationships among related taxa as well as among accessions within a species. Transposon display based on class II DNA transposons has also been used in various genetics fields. A large amount of fairly accurate genome sequences are now being generated, and computational biology allows us to mine the TEs on a genome-wide scale. Thus, TE-based molecular markers are adding another venue to the other marker systems used for the molecular dissection of genomes.

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“…Most of the comparisons had relatively higher q‐values; thus, only one (Retrotransposon protein, putative, Ty1‐copia subclass) was included in our further exploration (Table 2). Studying Ttdla , a Ty1‐copia‐like retrotransposon, Woodrow et al (2010) found that the activation and mobilization of the transposon was influenced by environmental stress as part of a defense mechanism. Therefore, the high number of differentially expressed RTs related to retrotransposons found in this study might be due to a water stress response.…”

Section: Discussionmentioning

confidence: 99%

De Novo Assembly and Characterization of Tall Fescue Transcriptome under Water Stress

et al. 2015

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Water stress is a fundamental problem for tall fescue [Lolium arundinaceum (Schreb.) Darbysh.] cultivation in the south-central United States. Genetic improvement of tall fescue for water-stress tolerance is the key strategy for improving its persistence in the region. Genotypes with contrasting characteristics for relative water content and osmotic potential were identified from a tall fescue population. Transcriptome profiling between water-stresstolerant (B400) and water-stress-susceptible (W279) genotypes was performed to unravel the genetic regulatory mechanism of water-stress responses in tall fescue. RNA samples from leaf, shoot, root, and inflorescence were pooled and sequenced through Illumina paired-end sequencing. A total of 199,399 contigs were assembled with an average length of 585 bp. Between the two genotypes, 2986 reference transcripts (RTs) were significantly differentially expressed and 1048 of them could be annotated and found to associate with metabolic pathways and enzyme coding genes. In total, 175 differentially expressed RTs were reported for various stress-related functions. Among those, 65 encoded kinase proteins, 40 each encoded transposons, and transporter proteins were previously reported to be involved with abiotic stress responses. A total of 6348 simple sequence repeats and 6658 single-nucleotide polymorphisms were identified in the contig sequences. Primers were developed from the corresponding sequences, which might be used as candidate gene markers in tall fescue. This study will lead to identification of genes or transcription factors related to water-stress tolerance and development of a comprehensive molecular marker system to facilitate marker-assisted breeding in tall fescue.

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Polymorphism of a new Ty1-copia retrotransposon in durum wheat under salt and light stresses

Cited by 38 publications

References 60 publications

Durum Wheat Roots Adapt to Salinity Remodeling the Cellular Content of Nitrogen Metabolites and Sucrose

Durum Wheat Roots Adapt to Salinity Remodeling the Cellular Content of Nitrogen Metabolites and Sucrose

Marker utility of transposable elements for plant genetics, breeding, and ecology: a review

De Novo Assembly and Characterization of Tall Fescue Transcriptome under Water Stress

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