Co-transcription of orf25 and coxIII in rice mitochondria

Liu, Andrew W.; Narayanan, K. K.; André, Charles P.; Kaleikau, Edward K.; Walbot, Virginia

doi:10.1007/bf00351661

Cited by 29 publications

(13 citation statements)

References 29 publications

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“…Other examples are SSV-500/6, a 500-bp segment unique to 93-11, and a 6-bp sequence (GATCTC) characteristic of PA64S and Nipponbare-S (Table III). The 500-bp nucleotide segment was also found in a rice variety IR36 of indica cultivars (GenBank deposit M74241; Liu et al, 1992).…”

Section: Indels and Segmental Sequence Variationsmentioning

confidence: 95%

The Rice Mitochondrial Genomes and Their Variations

Tian

Zheng²,

Hu³

et al. 2005

Plant Physiology

108

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Based on highly redundant and high-quality sequences, we assembled rice (Oryza sativa) mitochondrial genomes for two cultivars, 93-11 (an indica variety) and PA64S (an indica-like variety with maternal origin of japonica), which are paternal and maternal strains of an elite superhybrid rice Liang-You-Pei-Jiu (LYP-9), respectively. Following up with a previous analysis on rice chloroplast genomes, we divided mitochondrial sequence variations into two basic categories, intravarietal and intersubspecific. Intravarietal polymorphisms are variations within mitochondrial genomes of an individual variety. Intersubspecific polymorphisms are variations between subspecies among their major genotypes. In this study, we identified 96 single nucleotide polymorphisms (SNPs), 25 indels, and three segmental sequence variations as intersubspecific polymorphisms. A signature sequence fragment unique to indica varieties was confirmed experimentally and found in two wild rice samples, but absent in japonica varieties. The intersubspecific polymorphism rate for mitochondrial genomes is 0.02% for SNPs and 0.006% for indels, nearly 2.5 and 3 times lower than that of their chloroplast counterparts and 21 and 38 times lower than corresponding rates of the rice nuclear genome, respectively. The intravarietal polymorphism rates among analyzed mitochondrial genomes, such as 93-11 and PA64S, are 1.26% and 1.38% for SNPs and 1.13% and 1.09% for indels, respectively. Based on the total number of SNPs between the two mitochondrial genomes, we estimate that the divergence of indica and japonica mitochondrial genomes occurred approximately 45,000 to 250,000 years ago.

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Section: Indels and Segmental Sequence Variationsmentioning

confidence: 95%

The Rice Mitochondrial Genomes and Their Variations

Tian

Zheng²,

Hu³

et al. 2005

Plant Physiology

108

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“…In addition to rice atp9, the 11 bp motif is also found at 5' termini for three other rice mitochondrial mRNAs (Fig. 4A): cob [7], dicistronic orf25/cox3 [8] and atp6 (M. Iwabuchi and K. Shimamoto, personal communication); based on these comparisons we propose the rice mitochondrial consensus promoter shown in Fig. 4A.…”

Section: '-End Mappingmentioning

confidence: 99%

“…A. 5' sequence comparison between mapped 5' ends of four rice mitochondrial genes: atp9 (this report), cob [7], orf25/cox3 [8], and atp6 (M. Iwabuchi and K. Shimamoto, personal communication); and proposed mitochondrial consensus promoters for maize [ 13], wheat [4], and soybean [3]. Also shown in the proposed rice consensus promoter.…”

Section: '-End Mappingmentioning

confidence: 99%

Transcription of the gene coding for subunit 9 of ATP synthase in rice mitochondria

1993

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Transcription of the single-copy rice mitochondrial atp9 gene has been analyzed. We propose that there is a 0.65 kb primary transcript that is processed to an abundant 0.45 kb mRNA; a sequence motif at the 5' terminus of the 0.65 kb transcript shares 9 out of 11 nucleotides homology to the consensus promoter proposed for maize. There are several 3' termini based on RNase protection, and these termini map within or just distal to inverted repeats that could fold into a double stem-loop structure.

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“…In contrast to the atp9-1 locus, the atp9-2 gene seemed to be transcribed into a stable 2.6 kb primary transcript or cotranscript, which is processed slowly. Alternatively, the complex pattern could result from multiple transcription initiation of various promoter regions as described for mitochondrial genes of maize and rice [11,15,16].…”

Section: B)mentioning

confidence: 99%

The Tokumasu radish mitochondrial genome contains two complete atp9 reading frames

et al. 1995

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Two copies of the gene atp9, encoding subunit 9 of the mitochondrial F1F0-ATPase, have been cloned from the Tokumasu radish (Raphanus sativus L.) cytoplasm. The genomic DNA and the corresponding cDNA sequences of the coding regions were determined. Both alleles contain a 222 bp long and well conserved atp9 reading frame, coding for a 74 amino acid polypeptide. The Tokumasu atp9-1 gene may have a unique N-terminal extension of 11 amino acid residue relative to other plant atp9 genes. In comparison of cDNA and genomic sequences four RNA editing events were found in both atp9 genes. Northern experiments indicate different transcription patterns for the two genes.

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Co-transcription of orf25 and coxIII in rice mitochondria

Cited by 29 publications

References 29 publications

The Rice Mitochondrial Genomes and Their Variations

The Rice Mitochondrial Genomes and Their Variations

Transcription of the gene coding for subunit 9 of ATP synthase in rice mitochondria

The Tokumasu radish mitochondrial genome contains two complete atp9 reading frames

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