Gene expression in diplosporous and sexual Eragrostis curvula genotypes with differing ploidy levels

Cervigni, Gerardo Domingo Lucio; Paniego, Norma; Pessino, Silvina Claudia; Selva, Juan Pablo; Díaz, Marina Lucía; Spangenberg, Germán; Echenique, Viviana

doi:10.1007/s11103-008-9305-9

Cited by 38 publications

(51 citation statements)

References 31 publications

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“…Alike, whether the complex nature of apomictic loci or polyploidy, a usual feature of apomictic genomes, take part in the control of the trait is unknown. Fueling the debate, functional roles for polyploidy have been hypothesized, including epigenetic gene deregulation (Koltunow and Grossniklaus, 2003), ploidy-dependent gene expression (Cervigni et al, 2008, Quarin et al, 2001, or ectopic gene expression resulting from genome asynchrony (Carman, 1997). On the other hand, these complexities were proposed to have evolved once apomictic reproduction established, thus they may be secondary with regards to its genetic control (Ozias-Akins and van Dijk, 2007).…”

Section: Introductionmentioning

confidence: 99%

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Leblanc¹,

Grimanelli²,

Hernandez-Rodriguez³

et al. 2009

Int. J. Dev. Biol.

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Apomixis in plants covers a variety of cloning systems through seeds of great potential for plant breeding. Among long-standing approaches for crop improvement is the attempt to exploit wild relatives as natural, vast reservoirs for novel genetic variation. With regard to apomixis, maize possesses an apomictic wild relative, Tripsacum, which we used to produce advanced maize-Tripsacum hybrid generations. However, introgression of apomixis in maize has failed so far. In order to understand the how's and why's, we undertook characterization of seed development and inheritance studies in these materials. We show that apomictic seeds suffer from epigenetic loads. Both seed tissues, the endosperm and the embryo, displayed developmental defects resulting from imbalanced parental genomic contributions and aberrant methylation patterns, respectively. Progeny characterization of several maize-Tripsacum hybrid generations allowed significant progress toward the unraveling of the genetics of apomixis. First, chromosome deletion mapping showed that expression of apomixis requires one single Tripsacum chromosome. However, inheritance studies revealed that female gametes inheriting this segment were unequivalent carriers depending on their origin: unreduced gametes transmit a functional segment, whereas progeny derived from reduced ones reproduced sexually. Finally, chromosomal or genomic dosage variation barely affected the apomictic phenotype suggesting no dependency for ploidy in these materials. We conclude that epigenetic information imposes constraints for apomictic seed development and seems pivotal for transgenerational propagation of apomixis. The nature of the triggering mechanisms remains unknown as-yet, but it certainly explains the modest success relative to the development of apomictic maize thus far.

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Section: Introductionmentioning

confidence: 99%

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Leblanc¹,

Grimanelli²,

Hernandez-Rodriguez³

et al. 2009

Int. J. Dev. Biol.

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“…The differentially expressed sequences identified in this work as well as those reported previously [35] were mapped in silico onto maize chromosomes. This analysis was performed using the tools provided at the Maize sequence webpage (http://maizesequence.org/).…”

Section: In Silico Mapping Onto Maize Genomementioning

confidence: 95%

“…Changes in cytosine methylation were detected in plants of this series, with the diploid plant exhibiting a lower methylation level than that of the tetraploids [33]. To determine whether the genomic variation observed during polyploidization was associated with transcriptional re-patterning, a comparative expression analysis based on Expressed Sequence Tags (ESTs) was carried out [34,35]. The regulation of 112 genes was associated with the reproductive mode (apomictic vs. sexual) and/or the ploidy level [35].…”

Section: Introductionmentioning

confidence: 97%

“…To determine whether the genomic variation observed during polyploidization was associated with transcriptional re-patterning, a comparative expression analysis based on Expressed Sequence Tags (ESTs) was carried out [34,35]. The regulation of 112 genes was associated with the reproductive mode (apomictic vs. sexual) and/or the ploidy level [35]. However, we obtained only ~12,000 ESTs, which did not represent complete cover-age of the transcriptome.…”

Section: Introductionmentioning

confidence: 99%

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Identification of Candidate Genes Related to Polyploidy and/or Apomixis in <i>Eragrostis curvula</i>

Selva¹,

Pessino²,

Meier³

et al. 2012

AJPS

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This work was aimed at identifying genes that show altered expression profiles in response to changes in ploidy and/or reproductive mode (from sexual to apomictic) in the African grass Eragrostis curvula. A differential display analysis was performed on leaf and flower transcriptomes from a series of genetically related euploid plants, including tetraploid apomictic, diploid sexual, and tetraploid sexual plants. More than 100 primer combinations were used to generate 11,864 total markers, yielding 1293 differential bands. Of these bands, 11.84% to 6.74% were related to ploidy and 0.71% to 2.17% to the reproductive mode, depending on the tissue. A small percentage of bands showed similar expressions between the tetraploid apomictic and the diploid sexual plants. Expression-based similarity dendrograms were constructed. Our data suggested that ploidy is more decisive than tissue type in defining the transcriptome structure. Out of 102 fragments sequenced, 50 showed strong homology to known genes. The differentially expressed genes were mapped in silico onto maize chromosomes. Several candidates mapped within the linkage group syntenic to the Tripsacum dactyloides diplospory-governing region. The evidence indicates that expression of genes located around the diplospory-associated region may be strongly influenced by ploidy and may be silenced in the apomictic genotype. These findings are discussed in the context of diplospory molecular control and its connection with ploidy.

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“…These studies allow gene characterization and evaluation of transcript expression levels in relation to extrinsic factors. Therefore, it is possible to compare samples isolated at different developing stages, collected from different environments, or from different tissues or genders (Cervigni et al, 2008;Elis et al, 2008;Kavar et al, 2008;Alves-Costa and Wasko, 2010;Woo and Yum, 2011;Kumar et al, 2013;Dhorne-Pollet et al, 2013).…”

Section: Introductionmentioning

confidence: 99%

DDRT-PCR approaches applied for preeminent results in the isolation of DETs from fish brain tissues

Alves-Costa

Wasko

2015

Braz. J. Biol.

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Differential Display (DD) is a technique widely used in studies of differential expression. Most of these analyses, especially those involving fish species, are restricted to species from North America and Europe or to commercial species, as salmonids. Studies related to South American fish species are underexplored. Thus, the present work aimed to describe DD technique modifications in order to improve outcomes related to the isolation of DETs (Differentially Expressed Transcripts), using Leporinus macrocephalus, a large commercially exploited South American species, as a fish design. Different DDRT-PCR approaches were applied to brain samples and the products of the reactions were analyzed on 6% polyacrylamide gels stained with 0.17% Silver Nitrate (AgNO 3 ). The use of PCR reactions under high stringency conditions and longer oligonucleotides based on VNTR (Variable Number of Tandem Repeats) core sequences led to better results when compared to low stringency PCR conditions and the use of decamer oligonucleotides. The improved approach led to the isolation of differentially expressed transcripts on adult males and females of L. macrocephalus. This study indicates that some modifications on the DDRT-PCR method can ensure isolation of DETs from different fish tissues and the development of robust data related to this approach.Keywords: Leporinus macrocephalus, differentially expressed transcripts, VNTR. Aplicação de abordagens de DDRT-PCR para aprimoramento de resultados no isolamento de DETs a partir de tecido cerebral de peixes ResumoDisplay Diferencial (DD) é uma técnica amplamente utilizada em estudos de expressão diferencial. A maioria desses estudos envolvendo espécies de peixes está restrita a espécies da América do Norte e Europa ou a espécies comerciais, como os salmoniformes. Estudos relacionados a peixes da América do Sul são ainda pouco explorados. Desse modo, o presente trabalho teve como objetivo descrever modificações na técnica de DD, a fim de melhorar os resultados relacionados ao isolamento de DETs (Transcritos Diferencialmente Expressos), utilizando Leporinus macrocephalus, peixe explorado comercialmente na América do Sul, como espécie para tal delineamento. Diferentes abordagens de DDRT-PCR foram desenvolvidas a partir de amostras de tecido cerebral e os produtos das reações foram analisados em gel de poliacrilamida 6% corados com 0,17% de nitrato de Prata (AgNO 3 ). A utilização de reações de PCR sob condições de elevada estringência e oligonucleotídeos mais longos, com base em sequências cerne de VNTR (Número Variável de Repetições em Tandem), mostrou melhores resultados quando comparada a condições de baixa estringência e ao uso de oligonucleotídeos decâmeros. A estratégia empregada permitiu o isolamento de transcritos diferencialmente expressos em machos e fêmeas adultos de L. macrocephalus. Este estudo evidencia que modificações no método de DDRT-PCR garantem o melhor isolamento de DETs a partir de diferentes tecidos de peixes e asseguram a obtenção de dados mais sólidos relacio...

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Gene expression in diplosporous and sexual Eragrostis curvula genotypes with differing ploidy levels

Cited by 38 publications

References 31 publications

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Identification of Candidate Genes Related to Polyploidy and/or Apomixis in <i>Eragrostis curvula</i>

DDRT-PCR approaches applied for preeminent results in the isolation of DETs from fish brain tissues

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Gene expression in diplosporous and sexual Eragrostis curvula genotypes with differing ploidy levels

Cited by 38 publications

References 31 publications

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Seed development and inheritance studies in apomictic maize-Tripsacum hybrids reveal barriers for the transfer of apomixis into sexual crops

Identification of Candidate Genes Related to Polyploidy and/or Apomixis in &lt;i&gt;Eragrostis curvula&lt;/i&gt;

DDRT-PCR approaches applied for preeminent results in the isolation of DETs from fish brain tissues

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Identification of Candidate Genes Related to Polyploidy and/or Apomixis in <i>Eragrostis curvula</i>