Miniature Inverted-Repeat Transposable Elements ofStowawayAre Active in Potato

Momose, Masaki; Abe, Yutaka; Ozeki, Yoshihiro

doi:10.1534/genetics.110.117606

Cited by 52 publications

(34 citation statements)

References 42 publications

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“…Very few MITE families or full-length transposons are currently active in plant genomes (Jiang et al 2003;Momose et al 2010;Shirasawa et al 2012;Fattash et al 2013). The first confirmed active MITE was mPing.…”

Section: Currently Active Mitesmentioning

confidence: 99%

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Evolutionary Genomics of Miniature Inverted-Repeat Transposable Elements (MITEs) in Plants

Chen

et al. 2014

Evolutionary Biology: Genome Evolution, Speciation, Coevolution and Origin of Life

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More and more evidence has accumulated in the past 20 years suggesting that MITEs may have played important roles in plant gene and genome evolution. With a large number of plant genomes sequenced and the development of computational programs for de novo MITE identification, a massive number of MITEs have been identified from plant genomes. The number of MITEs in a genome varied dramatically among different plant species. There is significant correlation between the number of MITEs and genome size, though there are several prominent exceptions. Some MITE families have a high copy number in a genome, probably due to one or several rounds of amplification bursts. Different MITE families in the same genome may have experienced amplification burst at different times, suggesting that their amplifications were triggered by distinct environments (such as stress) or genetic events. However, very few MITEs in plant genomes are currently active. MITEs are often distributed in gene-rich regions, and may be inserted in genes' promoter regions or transcribed regions. They may affect (either upregulate or downregulate) the expression of nearby genes. MITEs may downregulate genes through small RNAs, which may be produced via NAT or double-stranded RNAs formed by transcribed MITE sequences. The presence/ absence of MITEs as well as their potential effects on expression of nearby genes suggests that MITE may provide considerable physiological and phenotypic

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Section: Currently Active Mitesmentioning

confidence: 99%

“…A purple-skinned somaclonal variant was obtained from a protoplast culture of a red-skinned potato (Momose et al 2010). The purple skin was due to the gain of function of flavonoid 3 0 ,5 0 -hydroxylase, which was silenced by an insertion of a Stowaway MITE in its first exon.…”

Section: Currently Active Mitesmentioning

confidence: 99%

Evolutionary Genomics of Miniature Inverted-Repeat Transposable Elements (MITEs) in Plants

Chen

et al. 2014

Evolutionary Biology: Genome Evolution, Speciation, Coevolution and Origin of Life

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“…Long-term repeated sub-culture results in the activation of transposable elements and progressive inactivation of host genes at the newly inserted site (Ozeki et al 1997). Potato somaclonal variants with purple tuber skin color generated from protoplast cultures of red-skinned potato (Momose et al 2010) and flower color variants of the African violet plant, Saintpaulia cultivar Thamires (Sato et al 2011a), were associated with excision and mobility of the transposons associated with the flavonoid 3 0 , 5 0 hydroxylase (F3 0 5 0 H) gene and promoter sequence, respectively, thereby affecting its functionality and pigment biosynthesis.…”

Section: Gene Amplification and Transpositionmentioning

confidence: 99%

Recent progress in the understanding of tissue culture-induced genome level changes in plants and potential applications

2011

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In vitro cell and tissue-based systems have tremendous potential in fundamental research and for commercial applications such as clonal propagation, genetic engineering and production of valuable metabolites. Since the invention of plant cell and tissue culture techniques more than half a century ago, scientists have been trying to understand the morphological, physiological, biochemical and molecular changes associated with tissue culture responses. Establishment of de novo developmental cell fate in vitro is governed by factors such as genetic make-up, stress and plant growth regulators. In vitro culture is believed to destabilize the genetic and epigenetic program of intact plant tissue and can lead to chromosomal and DNA sequence variations, methylation changes, transposon activation, and generation of somaclonal variants. In this review, we discuss the current status of understanding the genomic and epigenomic changes that take place under in vitro conditions. It is hoped that a precise and comprehensive knowledge of the molecular basis of these variations and acquisition of developmental cell fate would help to devise strategies to improve the totipotency and embryogenic capability in recalcitrant species and genotypes, and to address bottlenecks associated with clonal propagation.

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“…Although Stowaway elements are abundant in various plant genomes, very few Stowaway insertion mutations that affect the visible phenotype have been reported. In the potato, a Stowaway insertion within the gene that encodes flavonoid 3′,5′-hydroxylase resulted in alteration of the tuber anthocyanin coloration (Momose et al, 2010). These elements have a preference for insertion at the dinucleotide TA.…”

Section: Abstract: Anthocyanin Flower Pigmentation Ipomoea Nil Tcmentioning

confidence: 99%

A Stowaway transposon disrupts the InWDR1 gene controlling flower and seed coloration in a medicinal cultivar of the Japanese morning glory

2016

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Floricultural cultivars of the Japanese morning glory (Ipomoea nil) carry transposons of the Tpn1 family as active spontaneous mutagens. Half of the characterized mutations related to floricultural traits were caused by insertion of Tpn1 family elements. In addition, mutations comprising insertions of several bp, presumed to be footprints generated by transposon excisions, were also found. Among these, ca-1 and ca-2 are 7-bp insertions at the same position in the InWDR1 gene, which encodes a multifunctional transcription regulator. InWDR1 enhances anthocyanin pigmentation in blue flowers and red stems, and promotes dark brown seed pigmentation as well as seed-trichome formation. The recessive ca mutants show white flowers and whitish seeds. We characterized here a white flower and whitish seed line that is used as a medicinal herb. The mutant line carries a novel ca allele named ca-3, which is the InWDR1 gene carrying an insertion of a Stowaway-like transposon, InSto1. The ca-3 allele is the first example of a mutation induced by transposons other than those in the Tpn1 family in I. nil. Because InSto1 and the 7-bp putative footprints are inserted at identical positions in InWDR1, ca-3 is likely to be the ancestor of ca-1 and ca-2. According to Japanese historical records on whitish seeds of I. nil, putative ca mutants appeared at the end of the 17th century, at the latest. This is around one hundred years before the appearance of many floricultural mutants. This suggests that ca-3 is one of the oldest mutations, and that its origin is different from that of most floricultural mutations in I. nil.

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Miniature Inverted-Repeat Transposable Elements ofStowawayAre Active in Potato

Cited by 52 publications

References 42 publications

Evolutionary Genomics of Miniature Inverted-Repeat Transposable Elements (MITEs) in Plants

Evolutionary Genomics of Miniature Inverted-Repeat Transposable Elements (MITEs) in Plants

Recent progress in the understanding of tissue culture-induced genome level changes in plants and potential applications

A <i>Stowaway</i> transposon disrupts the <i>InWDR1</i> gene controlling flower and seed coloration in a medicinal cultivar of the Japanese morning glory

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