Oat phytochrome A mRNA degradation appears to occur via two distinct pathways.

Higgs, David A.; Colbert, James T.

doi:10.1105/tpc.6.7.1007

Cited by 39 publications

(18 citation statements)

References 56 publications

(97 reference statements)

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“…In a polysome-based in vitro degradation system the oat PHYA mRNA half-life is estimated to be 45 min, similar to the in vivo estimate, supporting the conclusion that the PHYA mRNA is degraded while associated with ribosomes [8]. In vivo the oat PHYA mRNA appears to be degraded by both polyadenylated and deadenylated degradation pathways [24], similar to the mechanisms of yeast PGK1 mRNA degradation induced by premature termination of translation [ 31 ].…”

Section: Introductionsupporting

confidence: 60%

“…3B). Previously, R N A gel blots with uniformly labeled antisense R N A probes, more sensitive than end-labeled DNA-oligonucleotide probes, were used to detect putative P H Y A m R N A degradation products in poly(A) + and total R N A samples, and these putative degradation products also decreased in abundance after a light treatment with a time course similar to the full-length P H Y A m R N A [8,24,41]. From these observations it would appear that in addition to P H Y A m R N A the DNA-oligonucleotide probes detected some n o n -P H Y A RNAs, including the 2.4 kb band detected with probe 3.…”

Section: Discussionmentioning

confidence: 99%

“…In addition to nucleotide sequence, the location of the PA3-2 sequence is conserved, between 47 and 128 nt 5' of the start of the poly(A) tail. The three conserved non-translated sequences (PA5, PA3-1, and PA3-2) might be involved in activating either of the proposed PHYA mRNA degradation pathways [24], causing the observed short mRNA half-life. It is also possible that these conserved sequences might be involved in other processes that regulate PHYA expression, such as transcription, RNA processing, RNA nuclear-cytoplasmic transport, or translation.…”

Section: Discussionmentioning

confidence: 99%

“…The partial PHYA5 cDNA clone does not include the 3' UTR [21]. Previous studies of oat PHYA mRNA expression and degradation have used antisense RNA probes derived from the highly conserved coding region and, therefore, would have detected all known oat PHYA mRNAs [8,13,20,24,41]. While the oat PHYA mRNA pool has an estimated half-life of ca.…”

Section: Introductionmentioning

confidence: 99%

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Abundance and half-life of the distinct oat phytochrome A3 and A4 mRNAs

1995

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Gene-preferential oligonucleotide probes were used to determined the relative abundance and half-lives of distinct oat phytochrome A (PHYA) mRNAs. Oat PHYA mRNAs are highly conserved in the 5'-untranslated region and the coding region, but the 3'-untranslated region has an overall lower sequence conservation and was the source of gene-preferential probes. PHYA3 mRNA was estimated to be ca. 61% of the oat PHYA mRNA pool present in poly(A)+ RNA from dark-grown seedlings. The half-lives for PHYA3 and PHYA4 mRNAs were both estimated to be ca. 30 min, and a similar short half-life was estimated for the average PHYA mRNA. Sequence comparisons of PHYA mRNAs from four grass species identified conserved sequences within the 5'- and 3'-untranslated regions that might be important for PHYA mRNA degradation.

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Section: Introductionsupporting

confidence: 60%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Abundance and half-life of the distinct oat phytochrome A3 and A4 mRNAs

1995

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“…Alternatively, these two mRNAs might be produced by differential processing or site-specific degradation of PHYF transcripts. The latter possibility seems unlikely since oat PHYA mRNA appears to be cleaved randomly during degradation [8]. While alternative splicing or different polyadenylation sites might produce P H Y F mRNAs of two different lengths, multiple transcription start sites have previously been reported for both pea PHYA [23] and Arabidopsis PHYA [4].…”

Section: Tomato Phytochrome Gene Expressionmentioning

confidence: 98%

The phytochrome gene family in tomato includes a novel subfamily

et al. 1995

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Data presented here define five tomato phytochrome genes (PHY) and indicate the existence of additional PHY in the tomato genome. Portions of each gene, encoding amino acids 203 through 315 in a consensus amino acid sequence, were amplified by polymerase chain reaction. Four of these genes, PHYA, PHYB1, PHYB2 and PHYE, are members of previously identified PHY subfamilies, while the fifth, PHYF, is identified as a member of a new PHY subfamily. PHYA, PHYB1, PHYB2 and PHYE fragments encode amino acid sequences that share 88% to 98% sequence identity with their Arabidopsis counterparts. The PHYF fragment, however, encodes a polypeptide that shares only 65% to 74% sequence identity with previously identified Arabidopsis phytochromes. A phylogenetic analysis suggests that PHYF arose soon after, or perhaps prior to, the origin of angiosperms. This analysis leads to the prediction that PHYF might be widespread among angiosperms, including both monocotyledons and dicotyledons. Each of the five tomato PHY is expressed as a transcript of sufficient size to encode a full-length phytochrome apoprotein. Two PHYF transcripts, 4.4 and 4.7 kb in length, have been detected in 9-day-old light-grown seedlings, consistent with either multiple transcription start sites or differential processing. Analyses of genomic Southern blots hybridized with radiolabelled RNA probes derived from the five tomato PHY, as well as Arabidopsis PHYC, indicate that the tomato genome contains as many as 9 to 13 PHY. The tomato PHY family is apparently not only different from, but also larger than, the PHY family presently described for Arabidopsis.

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Development in the Wild: Phenotypic Plasticity

Donohue

2012

Annual Plant Reviews Volume 45

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Oat phytochrome A mRNA degradation appears to occur via two distinct pathways.

Cited by 39 publications

References 56 publications

Abundance and half-life of the distinct oat phytochrome A3 and A4 mRNAs

Abundance and half-life of the distinct oat phytochrome A3 and A4 mRNAs

The phytochrome gene family in tomato includes a novel subfamily

Development in the Wild: Phenotypic Plasticity

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