Early and delayed long-term transcriptional changes and short-term transient responses during cold acclimation in olive leaves

Leyva-Pérez, María de la O; Valverde-Corredor, Antonio; Valderrama, Raquel; Jiménez-Ruiz, Jaime; Muñoz‐Mérida, Antonio; Trelles, Oswaldo; Barroso, Juan B.; Mercado‐Blanco, Jesús; Luque, Francisco

doi:10.1093/dnares/dsu033

Cited by 60 publications

(70 citation statements)

References 47 publications

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“…It has been, in fact, reported that low temperatures increase the expression levels of FAD6 , FAD2-1 , and, mainly, FAD2-2 in the mesocarp of Picual and Arbequina [45], and an RNAseq analysis has shown that OeFAD2-2 increases its expression in response to cold also in the leaves of cv. Picual during early cold-exposure, being down-regulated under long-lasting cold exposure [46]. Taken together, independently of the differences among cultivars, it seems that OeFAD2.2 is the prevalent cold-response FAD -gene in olive trees.…”

Section: Cold Regulation Of Fad22 and Fad7 Expression In The Drupementioning

confidence: 99%

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Unsaturated Lipids Change in Olive Tree Drupe and Seed during Fruit Development and in Response to Cold-Stress and Acclimation

D’Angeli

Altamura

2016

IJMS

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The olive tree is a plant of economic value for the oil of its drupe. It is a cultigen complex composed of genotypes with differences in cold-hardiness. About 90% of the oil is stored in oil bodies (OBs) in the drupe during the oleogenic phase. Phenols and lipids contribute to oil quality, but the unsaturated fatty acid (FA) fraction is emerging as the most important for quality, because of the very high content in oleic acid, the presence of ω6-linoleic acid and ω3-linolenic acid, and the very low saturated FA content. Another 10% of oil is produced by the seed. Differences in unsaturated FA-enriched lipids exist among seed coat, endosperm, and embryo. Olive oil quality is also affected by the environmental conditions during fruit growth and genotype peculiarities. Production of linoleic and α-linolenic acids, fruit growth, fruit and leaf responses to low temperatures, including cuticle formation, and cold-acclimation are related processes. The levels of unsaturated FAs are changed by FA-desaturase (FAD) activities, involving the functioning of chloroplasts and endoplasmic reticulum. Cold induces lipid changes during drupe and seed development, affecting FADs, but its effect is related to the genotype capability to acclimate to the cold.

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Section: Cold Regulation Of Fad22 and Fad7 Expression In The Drupementioning

confidence: 99%

“…As also mentioned before, the same genes are active in the leaves of the cold-tolerant cv. Picual during early cold-exposure, but are down-regulated during long-lasting cold-exposure [46]. Moreover, increases in C18:3/C18:2 ratio in leaves and fruits are needed for enhancing cold tolerance [57].…”

Section: Oefad8 Expression Is a Determinant For Cold-acclimation Imentioning

confidence: 99%

Unsaturated Lipids Change in Olive Tree Drupe and Seed during Fruit Development and in Response to Cold-Stress and Acclimation

D’Angeli

Altamura

2016

IJMS

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“…8). These sequences were reported in association with the transcriptional changes occurring during cold acclimation in olive leaves (de la O Leyva-Pérez et al, 2014 andGuerra et al, 2015). This may elucidate the role of SCoT33 1000 sequence in the developmental stages of plants.…”

Section: Sequence Analysis Of Some Polymorphic Pcr Bandsmentioning

confidence: 70%

Selective Amplification of Start codon Polymorphic Loci (SASPL): a new PCR-based molecular marker in olive

Alsamman¹,

Adawy²,

Ibrahim³

et al. 2017

Plant Omics

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The Selective Amplification of Start Codon Polymorphic Loci (SASPL) has been developed as a new PCR-based molecular marker. SASPL was validated for the analysis of varietal diversity on ten olive varieties. Validation included in vitro comparison against RAPD, SCoT and SAMPL markers. Assessment of these techniques included primer selectivity, genome coverage and the ability to target genic regions through in silico PCR analysis. Candidate PCR fragments were further sequenced to annotate non-identified genes in olive. Eight SASPL primers were compared to 24 RAPD, 39 SCoT and 12 SAMPL primers. The TA produced by the RAPD, SCoT, SAMPL and the eight SASPL primers were 359, 642, 571 and 269 amplicons, respectively. The highest average number of TA was revealed by SAMPL (47.6), average of PA (18.1) and genetic similarity (GS) (96%) among the olive varieties. On the other hand, SASPL analysis provided higher average number of TA (33.6), average of PA (16.2) and GS (93%) than SCoT and RAPD. The highest average of (PIC) (0.2909) was exhibited by SASPL analysis and the lowest average (0.2038) was revealed by SCoT. The highest number of UB (111) was revealed by SCoT and the lowest UB (43) was obtained by SASPL. Across the four marker types, variety Maraki was characterized by the highest number of unique markers (74). Meanwhile, the variety Manzanillo was characterized by the lowest number of unique markers (8). In addition, in the in silico analysis SASPL exhibited the highest chromosomal coverage (0.59%) and targeted genes (1090) using the lowest number of primers. Additionally, the average area covered by the SASPL primers (354kb) was larger than SCoT and SAMPL. RAPD analysis provided the lowest potential, chromosomal coverage (0.04%) and number of targeted genes (17) compared to SASPL, SCoT and SAMPL analysis. The total coverage of the genome, revealed by combined data was higher (1.21%) than that of each technique separately. Meanwhile, the difference between the actual and the total genomic regions covered by the combined data was about 652kb. Our results suggested that the newly developed SASPL marker is the most adequately and each of the studied marker target different genomic areas, while some areas are shared. Two SCoT and one RAPD fragment were sequenced and showed a high similarity to genes of high physiological functions; such as cyclic plant-specific DNA-binding transcription factor, SANT domain and Copia-type retrotransposon.

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“…Our transcriptome template was generated using SeqMan NGen software (DNAStar v.11.0; Madison, WI) optimized for use with our 50-bp, unpaired read sets. We utilized the RPKM method to evaluate differential expression, which has been previously performed using the same software programs employed in this report [Leyva-Pérez et al 2014; Guaiquil et al 2014; Youngblood et al 2014]. Expression differences were subsequently evaluated using quantitative PCR (see below).…”

Section: Methodsmentioning

confidence: 99%

Alterations in Mc1r gene expression are associated with regressive pigmentation in Astyanax cavefish

Stahl

Gross

2015

Dev Genes Evol

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Diverse changes in coloration across distant taxa are mediated through alterations in certain highly conserved pigmentation genes. Among these genes, Mc1r is a frequent target for mutation, and many documented alterations involve coding sequence changes. We investigated whether regulatory mutations in Mc1r may also contribute to pigmentation loss in the blind Mexican cavefish, Astyanax mexicanus. This species comprises multiple independent cave populations that have evolved reduced (or absent) melanic pigmentation as a consequence of living in darkness for millions of generations. Among the most salient cave-associated traits, complete absence (albinism) or reduced levels of pigmentation (brown), have long been the focus of degenerative pigmentation research in Astyanax. These two Mendelian traits have been linked to specific coding mutations in Oca2 (albinism) and Mc1r (brown). However, four of the seven caves harboring the brown phenotype exhibit unaffected coding sequences compared to surface fish. Thus, diverse genetic changes involving the same genes likely impact reduced pigmentation among cavefish populations. Using both sequence and expression analyses, we show that certain cave-dwelling populations harboring the brown mutation have substantial alterations to the putative Mc1r cis-regulatory region. Several of these sequence mutations in the Mc1r 5′ region were present across multiple, independent cave populations. This study suggests that pigmentation reduction in Astyanax cavefish evolves through a combination of both coding and cis-regulatory mutations. Moreover, this study represents one of the first attempts to identify regulatory alterations linked to regressive changes in cave-dwelling populations of Astyanax mexicanus.

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Early and delayed long-term transcriptional changes and short-term transient responses during cold acclimation in olive leaves

Cited by 60 publications

References 47 publications

Unsaturated Lipids Change in Olive Tree Drupe and Seed during Fruit Development and in Response to Cold-Stress and Acclimation

Unsaturated Lipids Change in Olive Tree Drupe and Seed during Fruit Development and in Response to Cold-Stress and Acclimation

Selective Amplification of Start codon Polymorphic Loci (SASPL): a new PCR-based molecular marker in olive

Alterations in Mc1r gene expression are associated with regressive pigmentation in Astyanax cavefish

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