Frequencies and variation in cytosine methylation patterns in diploid and tetraploid cytotypes of Paspalum notatum

Rodríguez, María Pía; Cervigni, Gerardo Domingo Lucio; Quarín, Camilo Luis; Ortiz, Juan Pablo Amelio

doi:10.1007/s10535-012-0047-9

Cited by 6 publications

(7 citation statements)

References 22 publications

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“…Moreover, an epigenetic similarity clustering analysis revealed that sexual genotypes grouped closer in comparison with apomictic ones. These results are in agreement with a previous work conducted in P. notatum , showing that apomictic tetraploids are epigenetically more variable than sexual diploids 29 and suggest an incomplete and rather disordered cytosine methylation reprogramming occurring in association with apomixis.…”

Section: Discussionsupporting

confidence: 93%

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The vesicle trafficking regulator PN_SCD1 is demethylated and overexpressed in florets of apomictic Paspalum notatum genotypes

Bocchini

Galla²,

Pupilli

et al. 2018

Sci Rep

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Apomixis (asexual reproduction through seeds) is considered a deviation of the sexual reproductive pathway leading to the development of clonal progenies genetically identical to the mother plant. Here we used the Methylation-Sensitive Amplification Polymorphism (MSAP) technique to characterize cytosine methylation patterns occurring in florets of sexual and aposporous Paspalum notatum genotypes, in order to identify epigenetically-controlled genes putatively involved in apomixis development. From twelve polymorphic MSAP-derived sequences, one (PN_6.6, later renamed PN_SCD1) was selected due to its relevant annotation and differential representation in apomictic and sexual floral transcriptome libraries. PN_SCD1 encodes the DENN domain/WD repeat-containing protein SCD1, which interacts with RAB GTPases- and/or MAPKs to promote specialized cell division, functions in clathrin-mediated membrane transport and acts as potential substrate receptor of CUL4 E3 ubiquitin ligases. Quantitative RT-PCR and comparative RNAseq analyses of laser microdissected nucellar cells confirmed PN_SCD1 upregulation in florets of apomictic plants and revealed that overexpression takes place just before the onset of apospory initials. Moreover, we found that several SCD1 molecular partners are expressed in P. notatum florets and upregulated in apomictic plants. Our results disclosed a specific vesicle trafficking molecular pathway epigenetically modulated during apomixis.

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Section: Discussionsupporting

confidence: 93%

“…Among many other applications, MSAP has already been used to study methylation changes during ploidy level conversions in apomictic and sexual Eragrostis curvula 28 and to estimate the cytosine methylation pattern frequencies and variation in diploid and tetraploid cytotypes of sexual and apomictic P . notatum 29 .…”

Section: Introductionmentioning

confidence: 99%

The vesicle trafficking regulator PN_SCD1 is demethylated and overexpressed in florets of apomictic Paspalum notatum genotypes

Bocchini

Galla²,

Pupilli

et al. 2018

Sci Rep

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“…The tetraploids T and C are autopolyploid (Cardone et al 2006, Diaz et al 2010. Genomic polymorphism arising during autotetraploidization was reported in the synthetic autotetraploid Paspalum notatum (Martelotto et al 2005), where repetitive elements can play an important role in the increment of variability and adaptation of polyploid accessions (Rodriguez et al 2012). Moreover, in the E. curvula 'back-and-forth' ploidy-altered system analyzed here, rapid epigenetic and expression changes associated with successive modifications of the ploidy level were shown (Mecchia et al 2007, Cervigni et al 2008b, Selva et al 2012.…”

Section: Discussionmentioning

confidence: 60%

Repetitive sequences in Eragrostis curvula cDNA EST libraries obtained from genotypes with different ploidy

Romero¹,

Selva²,

Pessino³

et al. 2016

Biol. plant.

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Eragrostis curvula (Schrad) Nees (weeping lovegrass) represents important cultivated forage in semiarid regions, and the most useful cultivars are tetraploid and reproduce by pseudogamous diplosporous apomixis. We previously produced a series of genetically related E. curvula lines that provide a suitable system for the identification of gene(s) involved in diplosporous apomixis and ploidy, including a natural apomictic tetraploid (T), a diploid sexual line (D), and a tetraploid sexual plant (C). A collection of expressed sequence tags (ESTs) was generated from cDNA libraries obtained from panicles of the D, T, and C, and leaves of the T. The present study aimed to analyze the repetitive content of these four cDNA libraries and further identify and characterize transposable element (TE)-related ESTs. Repetitive sequences were identified through the interface RepeatMasker (RM) using the database Repbase Update and further classification of TEs was performed manually from the RM output. The different contribution of ESTs with identity to TEs among libraries was further evaluated, and such differences were validated through RT-qPCR. We found that the percentage of repetitive content in the leaf cDNA library was almost double than in inflorescence libraries, with retrotransposons contributing mostly in all libraries. The expression of TE-related ESTs was compared in cDNA samples extracted from D, T, and C leaves or inflorescences revealing that seven mRNAs containing MuDR-like DNA transposons, Gypsy-like, and Copia-like retrotransposons were differentially represented according to tissue, reproductive mode, or ploidy. The euploid series of Eragrostis curvula is a useful model to the study of epigenomic changes produced after changes in ploidy. The present work constitutes the first detailed report on repetitive sequences of Eragrostis curvula at the transcriptome level.

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“…However, Rodriguez et al (2012) reported variation in the methylation patterns of diploid (sexual) and tetraploid (sexual and apomicts) races of P. notatum based on MSAP (methylation-sensitive amplification polymorphism) markers. Moreover, the inactivation of a DNA methylation pathway in maize reproductive organs resulted in apomixis-like phenotypes (Garcia-Aguilar et al , 2010).…”

Section: Discussionmentioning

confidence: 99%

Sequence characterization, in silico mapping and cytosine methylation analysis of markers linked to apospory in Paspalum notatum

et al. 2012

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In previous studies we reported the identification of several AFLP, RAPD and RFLP molecular markers linked to apospory in Paspalum notatum. The objective of this work was to sequence these markers, obtain their flanking regions by chromosome walking and perform an in silico mapping analysis in rice and maize. The methylation status of two apospory-related sequences was also assessed using methylation-sensitive RFLP experiments. Fourteen molecular markers were analyzed and several protein-coding sequences were identified. Copy number estimates and RFLP linkage analysis showed that the sequence PnMAI3 displayed 2–4 copies per genome and linkage to apospory. Extension of this marker by chromosome walking revealed an additional protein-coding sequence mapping in silico in the apospory-syntenic regions of rice and maize. Approximately 5 kb corresponding to different markers were characterized through the global sequencing procedure. A more refined analysis based on sequence information indicated synteny with segments of chromosomes 2 and 12 of rice and chromosomes 3 and 5 of maize. Two loci associated with apomixis locus were tested in methylation-sensitive RFLP experiments using genomic DNA extracted from leaves. Although both target sequences were methylated no methylation polymorphisms associated with the mode of reproduction were detected.

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Frequencies and variation in cytosine methylation patterns in diploid and tetraploid cytotypes of Paspalum notatum

Cited by 6 publications

References 22 publications

The vesicle trafficking regulator PN_SCD1 is demethylated and overexpressed in florets of apomictic Paspalum notatum genotypes

The vesicle trafficking regulator PN_SCD1 is demethylated and overexpressed in florets of apomictic Paspalum notatum genotypes

Repetitive sequences in Eragrostis curvula cDNA EST libraries obtained from genotypes with different ploidy

Sequence characterization, in silico mapping and cytosine methylation analysis of markers linked to apospory in Paspalum notatum

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