Role of miniature inverted repeat transposable elements inserted into the promoter region of a carrot phenylalanine ammonia-lyase gene and its gene expression

Kimura, Soichi; Oyanagi, Mikiko; Fukuda, Takashi; Ohno, Yoshiyasu; Hongo, Chizuru; Itoh, Yoshio; Koda, Takatoshi; Ozeki, Yoshihiro

doi:10.5511/plantbiotechnology.25.473

Cited by 5 publications

(5 citation statements)

References 31 publications

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“…It has been demonstrated that among all kinds of TEs, MITEs are most closely associated with plant genes [ 6 - 9 ]. This, together with their propensity to accumulate to high-copy numbers (relative to other types of Class II or DNA transposons) in the process of transposition, has rendered MITEs as a major cause for natural allelic diversity within or adjacent to plant genes [ 39 , 46 ].…”

Section: Discussionmentioning

confidence: 99%

“…The possible roles of MITEs in the evolution of structure and function of plant genes were implicated by their preferential association with low-copy, genic regions [ 6 , 7 ], and shown by several documented cases wherein the presence vs . absence of a particular MITE being correlated with expression states of the genes in question [ 4 - 9 ].…”

Section: Introductionmentioning

confidence: 99%

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Tissue culture-induced transpositional activity of mPing is correlated with cytosine methylation in rice

Ngezahayo

Wang

et al. 2009

BMC Plant Biol

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Background: mPing is an endogenous MITE in the rice genome, which is quiescent under normal conditions but can be induced towards mobilization under various stresses. The cellular mechanism responsible for modulating the activity of mPing remains unknown. Cytosine methylation is a major epigenetic modification in most eukaryotes, and the primary function of which is to serve as a genome defense system including taming activity of transposable elements (TEs). Given that tissue-culture is capable of inducing both methylation alteration and mPing transposition in certain rice genotypes, it provides a tractable system to investigate the possible relationship between the two phenomena.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Tissue culture-induced transpositional activity of mPing is correlated with cytosine methylation in rice

Ngezahayo

Wang

et al. 2009

BMC Plant Biol

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“…Cardoso et al (2009) identified an indel in the third intron of the AOX2a gene which we found to be a DcSto . Kimura et al (2008) described an insertion of a 299 bp MITE in the promoter region of the phenylalanine ammonia-lyase gene ( DcPAL 3) close to another MITE element. The former MITE could be attributed to the DcSto group.…”

Section: Discussionmentioning

confidence: 99%

“…The effect of DcSto 8 on the expression of carrot phenylalanine ammonia-lyase gene ( DcPAL3 ) analyzed by Kimura et al (2008), showed that clustered insertion of DcSto 8 and another MITE significantly increased the transcription level. That effect may be one of the reasons for a relatively frequent occurrence of DcSto elements in clusters with other MITEs observed previously and confirmed in the present study.…”

Section: Discussionmentioning

confidence: 99%

DcSto: carrot Stowaway-like elements are abundant, diverse, and polymorphic

et al. 2013

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We investigated nine families of Stowaway-like miniature inverted-repeat transposable elements (MITEs) in the carrot genome, named DcSto1 to DcSto9. All of them were AT-rich and shared a highly conserved 6 bp-long TIR typical for Stowaways. The copy number of DcSto1 elements was estimated as ca. 5,000 per diploid genome. We observed preference for clustered insertions of DcSto and other MITEs. Distribution of DcSto1 hybridization signals revealed presence of DcSto1 clusters within euchromatic regions along all chromosomes. An arrangement of eight regions encompassing DcSto insertion sites, studied in detail, was highly variable among plants representing different populations of Daucus carota. All of these insertions were polymorphic which most likely suggests a very recent mobilization of those elements. Insertions of DcSto near carrot genes and presence of putative promoters, regulatory motifs, and polyA signals within their sequences might suggest a possible involvement of DcSto in the regulation of gene expression.Electronic supplementary materialThe online version of this article (doi:10.1007/s10709-013-9725-6) contains supplementary material, which is available to authorized users.

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“…In recent years many genes active in the secondary metabolite pathways have been studied (Reymond et al 2000). Among them, the three PAL genes from Daucus carota-PAL1, PAL3 and PAL4-were cloned and sequenced (Takeda et al 1997, Ozeki et al 2003, Kimura et al 2008. PAL-phenylalanine ammonia-lyase (EC 4.3.1.5) catalyzes the first reaction in the biosynthesis of many potentially protective secondary compounds such as flavonoides, lignins and phytoalexins.…”

Section: Introductionmentioning

confidence: 99%

Accumulation of selected phenolics and expression of PAL genes in carrots differing in their susceptibility to carrot fly (Psila rosae F.)

2012

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Three research problems were addressed in this work: an extent of root damage caused by carrot fly (Psila rosae) in a collection of carrot breeding accessions as well as correlation between resistance to this pest and accumulation of certain phenolics and mRNAs of the genes coding for phenylalanine ammonia-lyase (PAL). Differences in susceptibility between the studied accessions were statistically significant. The most resistant were lines 7262A and DC 96367. Moreover, no correlation was observed between accumulation of the specific metabolites and the extent of the root damage. However, proportion of certain phenolics exhibited positive correlation with the resistant phenotype. This was shown for the ratios of luteolin 7-O-glucoside to kaempferol 3-O-glucoside and methyluteolin 7-Oglucoside to kaempferol 3-O-glucoside. Susceptibility of roots to larval damage also correlated with semiquantitatively estimated accumulation of PAL1 and PAL3 mRNAs in leaves. Both PAL genes were expressed at the highest level in line DC 96367 and less strongly in line 7262A. Distinctly lower accumulation of the PAL transcripts was observed for the susceptible varieties: Dolanka and Karotan.

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Role of miniature inverted repeat transposable elements inserted into the promoter region of a carrot phenylalanine ammonia-lyase gene and its gene expression

Cited by 5 publications

References 31 publications

Tissue culture-induced transpositional activity of mPing is correlated with cytosine methylation in rice

Tissue culture-induced transpositional activity of mPing is correlated with cytosine methylation in rice

DcSto: carrot Stowaway-like elements are abundant, diverse, and polymorphic

Accumulation of selected phenolics and expression of PAL genes in carrots differing in their susceptibility to carrot fly (Psila rosae F.)

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