The tomato early fruit specific gene Lefsm1 defines a novel class of plant-specific SANT/MYB domain proteins

Barg, Rivka; Sobolev, Irina; Eilon, Tali; Gur, Amit; Chmelnitsky, Inna; Shabtai, Sara; Grotewold, Erich; Salts, Yehiam

doi:10.1007/s00425-004-1433-0

Cited by 39 publications

(55 citation statements)

References 51 publications

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“…However, both ends of this gene and some segments of the central region is highly conserved. However some parts of central regions vary (see screening of the alignment of orthologous genes in Figure S10) [56,57].…”

Section: Positively Selected Genes In M Oleifera Genomementioning

confidence: 99%

High quality reference genome of drumstick tree (Moringa oleifera Lam.), a potential perennial crop

Yang

Zeng

Zhang

et al. 2015

Sci. China Life Sci.

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The drumstick tree (Moringa oleifera Lam.) is a perennial crop that has gained popularity in certain developing countries for its high-nutrition content and adaptability to arid and semi-arid environments. Here we report a high-quality draft genome sequence of M. oleifera. This assembly represents 91.78% of the estimated genome size and contains 19,465 protein-coding genes. Comparative genomic analysis between M. oleifera and related woody plant genomes helps clarify the general evolution of this species, while the identification of several species-specific gene families and positively selected genes in M. oleifera may help identify genes related to M. oleifera's high protein content, fast-growth, heat and stress tolerance. This reference genome greatly extends the basic research on M. oleifera, and may further promote applying genomics to enhanced breeding and improvement of M. oleifera. genome, drumstick tree, Moringa oleiferaCitation:

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Section: Positively Selected Genes In M Oleifera Genomementioning

confidence: 99%

High quality reference genome of drumstick tree (Moringa oleifera Lam.), a potential perennial crop

Yang

Zeng

Zhang

et al. 2015

Sci. China Life Sci.

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“…9).Proteins with the domains of MYB or SANT were likely to participate in the regulation of plant flowering and early-fruit development (Barg et al, 2005;Choi et al, 2007). A highest percentage of identity (41%) and query coverage (27%) were detected between our sequence and the genes of both Trichorapa and Euphratica species.…”

Section: Sequence Analysis Of Some Polymorphic Pcr Bandsmentioning

confidence: 86%

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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“…Phylogenetic analysis of the deduced amino acid sequences of these genes and those of the orthologs in other plants showed that the torenia genes were highly similar to the orthologs of A. majus ( Fig. 3a, b; Barg et al, 2005;Baxter et al, 2007;Machemer et al, 2011;Martín-Trillo and Cubas, 2010). The TCP domain for DNA binding activity, R domain involved in the CYC/TB1 family of TCP genes, and ECE motif were conserved in TfCYC1, 2, and 3 ( Fig.…”

Section: Structure and Expression Analyses Of Floral Symmetry Associamentioning

confidence: 86%

“…In TfRAD1 and 2, structures characteristic of RAD were also conserved; thus, only the MYBI domain and the CREB motif for DNA binding activity at the C terminus were detected ( Fig. 4b; Barg et al, 2005).…”

Section: Structure and Expression Analyses Of Floral Symmetry Associamentioning

confidence: 99%

Conversion of Abaxial to Adaxial Petal in a Torenia (<i>Torenia fournieri</i> Lind. ex Fourn.) Mutant Appeared in Selfed Progeny of the Mutable Line “Flecked”

et al. 2016

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We isolated a torenia mutant "Begonia" from selfed progeny of the mutable line "Flecked," in which the ventral petal of the flower was converted into dorsal petal. In normal-type (NT) flowers, dorsal petals were pale violet and limbs of lateral and ventral petals were violet, whereas the ventral petal had a yellow nectar guide. In contrast, the ventral petal of mutant-type (MT) flowers changed to pale violet, and the nectar guide disappeared. These altered pigmentation patterns were observed from the early stage of corolla pigmentation. Expression analyses of the floral symmetry genes CYCLOIDEA (CYC), RADIALIS (RAD), and DIVARICATA (DIV) showed that TfCYC1, TfCYC2, TfCYC3, and TfRAD1 were mainly expressed in dorsal petals of NT flowers, but in the mutant, these genes were expressed in the ventral petal similar to dorsal ones. These results suggest that conversion of ventral to dorsal petal in the "Begonia" mutant is caused by high expression of TfCYC1, TfCYC2, TfCYC3, and TfRAD1 in the ventral petal, comparable to their expression in dorsal petals.

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The tomato early fruit specific gene Lefsm1 defines a novel class of plant-specific SANT/MYB domain proteins

Cited by 39 publications

References 51 publications

High quality reference genome of drumstick tree (Moringa oleifera Lam.), a potential perennial crop

High quality reference genome of drumstick tree (Moringa oleifera Lam.), a potential perennial crop

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

Conversion of Abaxial to Adaxial Petal in a Torenia (<i>Torenia fournieri</i> Lind. ex Fourn.) Mutant Appeared in Selfed Progeny of the Mutable Line “Flecked”

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