Genome-wide non-mendelian inheritance of extra-genomic information in Arabidopsis

Lolle, Susan J.; Victor, Jennifer L.; Young, Jessica Mercer; Pruitt, Robert E.

doi:10.1038/nature03380

Cited by 191 publications

(176 citation statements)

References 29 publications

Supporting

Mentioning

160

Contrasting

Unclassified

Order By: Relevance

“…Alternatively, each species of siRNA and heterochromatin transcripts may be differentially mediated by RNA polymerase IV machinery. (107,108) There is no reason to exclude other post-transcriptional regulatory mechanisms such as RNA stability, (109) alternative splicing, RNA processing and editing, and RNA cache (110) that may be involved in the differential accumulation of transcript levels in the allopolyploids. For example, the stability of mRNAs varied from species to species and the half-life of mRNAs produced from progenitors may be directly correlated with differential accumulation of transcripts in the allopolyploids.…”

Section: Transcriptional Regulation In Allopolyploidsmentioning

confidence: 99%

Mechanisms of genomic rearrangements and gene expression changes in plant polyploids

2006

View full text Add to dashboard Cite

SummaryPolyploidy is produced by multiplication of a single genome (autopolyploid) or combination of two or more divergent genomes (allopolyploid). The available data obtained from the study of synthetic (newly created or human-made) plant allopolyploids have documented dynamic and stochastic changes in genomic organization and gene expression, including sequence elimination, inter-chromosomal exchanges, cytosine methylation, gene repression, novel activation, genetic dominance, subfunctionalization and transposon activation. The underlying mechanisms for these alterations are poorly understood. To promote a better understanding of genomic and gene expression changes in polyploidy, we briefly review origins and forms of polyploidy and summarize what has been learned from genome-wide gene expression analyses in newly synthesized autoand allopolyploids. We show transcriptome divergence between the progenitors and in the newly formed allopolyploids. We propose models for transcriptional regulation, chromatin modification and RNA-mediated pathways in establishing locus-specific expression of orthologous and homoeologous genes during allopolyploid formation and evolution. Polyploidy and its formsPolyploidy occurs throughout the evolutionary history of all eukaryotes, (1,2) predominately in flowering plants (3,4) including many important agricultural crops. (5) Compared to plants, polyploidy occurs rarely in animals, but clearly exists in some invertebrates (e.g. insects) and vertebrates (e.g. fish, amphibians and reptiles). (4,6) The relative paucity of polyploidy in animals is attributed to the delicate schemes of sex determination and animal development, which are disrupted by polyploidization. (7,8) Therefore, polyploid animals rarely exist. (9) Moreover, aneuploid and polyploid cells in animals and human are often associated with malignant cell proliferation or carcinogenesis. (10) However, endopolyploidy (somatic polyploid cells within a diploid individual) appears to be a physiological response to developmental changes in plants and some animals, (11,12) indicating plasticity of plant and animal genomes. In the post-sequencing era, polyploidy is proving to be a fascinating and challenging field of plant biology, stimulating many research advances and insightful reviews. (2,13 -24) Here we attempt to update the views using genomic-scale results and provide new mechanistic insights.Historically, Winkler (1916) introduced the term polyploidy, (25) and Winge (1917) called attention to the general importance of polyploidy in the evolution of angiosperms. (26) At that time, research in polyploidy was somewhat limited by the plant and animal materials that were available in nature. In 1937, Blakeslee and Avery induced polyploidy in plants using colchicine, a chemical inhibitor of mitotic cell divisions. (27) The technique has been successfully used to induce chromosome doubling in meristemic cells of diploids and interspecific hybrids. Doubling a single 'diploid' genome results in an autotetraploid, while doubling c...

show abstract

Section: Transcriptional Regulation In Allopolyploidsmentioning

confidence: 99%

Mechanisms of genomic rearrangements and gene expression changes in plant polyploids

2006

View full text Add to dashboard Cite

show abstract

“…Recent studies have suggested the involvement of RNA components in rather unexpected cellular functions (Blower et al 2005;Lolle et al 2005;Rassoulzadegan et al 2006). Studies by Pruitt and colleagues (Lolle et al 2005) in Arabidopsis thaliana hypothesized the possibility of RNA as a messenger of non-Mendelian inheritance of extragenomic information.…”

Section: Rnas As Alternate Genome Cachementioning

confidence: 99%

Eukaryotic regulatory RNAs: an answer to the ‘genome complexity’ conundrum

Prasanth¹,

Spector²

2007

Genes Dev.

364

305

View full text Add to dashboard Cite

A large portion of the eukaryotic genome is transcribed as noncoding RNAs (ncRNAs). While once thought of primarily as "junk," recent studies indicate that a large number of these RNAs play central roles in regulating gene expression at multiple levels. The increasing diversity of ncRNAs identified in the eukaryotic genome suggests a critical nexus between the regulatory potential of ncRNAs and the complexity of genome organization. We provide an overview of recent advances in the identification and function of eukaryotic ncRNAs and the roles played by these RNAs in chromatin organization, gene expression, and disease etiology.

show abstract

“…13 Perhaps, the most basic question about these mysterious unannotated transcripts, termed TUFs (transcripts of unknown function), is whether or not they encode proteins. The cloning and sequencing of 178 TUFs reveals that most do not possess open-reading frames greater than 100 amino acids.…”

mentioning

confidence: 99%