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  • 1
    ISSN: 1432-0983
    Keywords: Rice ; NADH dehydrogenase subunit 3 ; Mitochondrial DNA ; Ribosomal protein S12 ; tRNASer
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The nucleotide sequences of the tRNASer (trnS), pseudo-tRNA, NADH dehydrogenase subunit 3 (nad3), and ribosomal protein S12 (rps12) genes from rice mitochondrial DNA (mtDNA) were determined. Both trnS and nad3 were confirmed to be single copy genes by Southern blot analysis. The nad3 and rps12 genes were arranged in tandem, and the two were co-transcribed. The order of the above four genes in rice mtDNA differed from the linear order observed for the wheat and maize genes. In rice mitochondria, the trnS and pseudo-tRNA genes were found upstream of the cytochrome c oxidase subunit I gene, instead of the nad3 and rps12 genes as observed in maize and wheat. Additionally, while the rice nad3 and rps12 genes remain paired, they too are in a different sequence environment from the wheat and maize genes. The apparent split of the two pairs of genes indicates the occurrence of a mitochondrial intramolecular recombinational event. Another peculiarity is that the sequence upstream of the translational initiation codon of the rice nad3 gene is different from that of the wheat and maize versions. The ATG initiation codon of wheat and maize nad3 is replaced by TTG in the rice nad3. A subsequent deduction of the amino acid sequence, accompanied by a primer extension analysis, indicates that the predicted rice NAD3 protein has an additional 37 amino acid residues at its N-terminus compared to the wheat and maize NAD3 proteins. cDNA sequence analysis showed no introns or the occurrence of RNA editing at the newly replaced TTG codon.
    Type of Medium: Electronic Resource
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  • 2
    ISSN: 1432-0983
    Keywords: RNA editing ; Tomato mitochondria ; coxl gene ; Initiation codon
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Nucleotide-sequence analysis showed that the gene for cytochrome oxidase subunit I (coxl) from tomato mitochondrial DNA has an ACG codon at a conserved position corresponding to an ATG initiation codon in other higher-plant coxl genes. cDNA-sequence analysis of the coxl transcripts showed that 15 positions in the genomic DNA were converted from C to U in the transcripts by RNA editing. One of the editing events is observed at the indicated ACG codon, producing an ATG initiation codon. The nucleotide sequences of 37 cDNA clones showed that the initiation codon was created in 32 out of the 37 clones, while nucleotide positions 254 and 11 were edited in 37 and 34 of the 37 clones examined, respectively, suggesting that creation of the initiation codon is a post-transcriptional event. The BamHI site at nucleotide position 757–762 within the coxI genomic DNA was altered in all 97 cDNA clones examined, demonstrating that RNA editing at this site in the transcripts is very common. RNA editing takes place to a lesser extent at the initiation codon, compared with editing at internal position 254. This indicates that editing is either a random process or that it involves a mechanism favoring less RNA editing in the initiation codon than in internal sites.
    Type of Medium: Electronic Resource
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  • 3
    ISSN: 1617-4623
    Keywords: Key words Citrus unshiu ; Sucrose phosphate synthase ; Gene expression ; RT-PCR ; Fruit development
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Three partial cDNA clones (pSPS1, pSPS2 and pSPS3) encoding sucrose phosphate synthases (SPS) were isolated by Reverse Transcription (RT)-PCR using first-strand cDNA prepared from the leaf or fruit of citrus (Citrus unshiu Marc.). The nucleotide and deduced amino acid sequences of the three clones showed significant similarities to SPS previously isolated in other plants. A full-length, cDNA clone, CitSPS1, was isolated from a fruit (juice sacs and pulp segment) cDNA library using one (pSPS1) of the three partial clones as a probe. The 3539-bp CitSPS1 clone coded for a 1057-amino acid polypeptide with a predicted molecular mass of 117.8 kDa. The amino acid sequence deduced from the CitSPS1 clone showed homology with SPS from maize (55.8% identity) and spinach (74.0% identity). Genomic Southern blot analysis suggested that CitSPS1 clone represents a low-copy-number gene. RNA blot analysis of leaf, flower and fruit showed that CitSPS1 and pSPS2 were expressed in all organs. However, the levels of expression of CitSPS1 in young leaves, flowers and immature fruits were low, but high in mature leaves, and fruit. pSPS2 transcripts were barely detectable in young leaves and immature fruits, low in mature leaves, and high in flowers and mature fruits. pSPS3 transcripts were only detected in young and in mature leaves.
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  • 4
    ISSN: 1573-5028
    Keywords: AACA motif ; ACGT motif ; cis-regulatory elements ; endosperm expression ; GCN4 motif ; glutelin gene
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Rice storage protein glutelin genes are coordinately regulated during seed development. A previous 5′ deletion analysis using transgenic tobacco revealed that the minimum 5′ region necessary for endosperm specificity was within −245 bp of the transcription start site, and included the AACA and GCN4 motifs that are highly conserved in the 5′-flanking regions of all glutelin genes. In this paper, the sequence elements essential for endosperm-specific expression are characterized in stable transgenic tobacco plants by both loss-of-function and gain-of-function experiments using this minimum promoter. Base substitution analysis shows that the proximal AACA motif between −73 and −61, and the GCN4 motif between −165 and −158 act as critical elements. An ACGT motif between −81 and −75, and Skn-I-like elements between −173 and −169 also play important roles in controlling the seed-specific expression. When the distal region between −245 and −145 containing the AACA and the GCN4 motifs or the proximal region between −113 and −46 containing the ACGT and AACA motifs is fused to a truncated promoter (−90 to +9) of the CaMV 35S gene fused to the β-glucuronidase (GUS) reporter gene, high levels of seed-specific expression are observed in these fusions, thereby indicating that either pair of motifs is sufficient to confer seed expression in these fusions. However, when substituted for by the CaMV 35S core promoter (−46 to +1), seed expression is abolished, suggesting that the sequence between −90 and −46 of the CaMV 35S promoter containing G-box-like motif (as-1 element) is required for such specific expression in addition to AACA and GCN4 motifs. Therefore, we conclude that at least three cis-regulatory elements, the AACA motif, GCN4 motif and ACGT motif, are necessary to mediate endosperm expression of the GluB-1 glutelin gene.
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  • 5
    ISSN: 1573-5109
    Keywords: chloroplast DNA ; hybridization ; introgression ; Pyrus ; RFLP
    Source: Springer Online Journal Archives 1860-2000
    Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Abstract Polymorphism of chloroplast DNA of 106 accessions of Pyrus (mainly east Asian accessions) was examined. Four haplotypes were observed with the combination of three independent restriction site mutations digested by EcoO109 I, Sal I, and Xba I, respectively. In the occidental pear accessions only the most plesiomorphic type was observed, whereas all four types appeared in the oriental pear accessions. This suggests that the oriental species of Pyrus and occidental ones may have evolved independently. The distribution of four haplotypes in the east Asian pear was quite incongruent with the species or infrageneric classification using mainly morphological characters. Considering the high crossability and much occurrence of suspected interspecific hybrids in wild populations, this disaccord is inferred to be the results of the hybridization and introgression between species.
    Type of Medium: Electronic Resource
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