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  • 1
    Electronic Resource
    Electronic Resource
    Molecular phylogeny of the genus Asparagus (Asparagaceae) inferred from plastid petB intron and petD–rpoA intergenic spacer sequences (2005)
    Melbourne, Australia : Blackwell Science Pty
    Plant species biology 20 (2005), S. 0 
    Details
    ISSN: 1442-1984
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: Asparagus (Asparagaceae) is a large genus that is widely distributed in arid and subarid regions of the Old World. To investigate the phylogenetic relationships within this genus, the intron of petB and the intergenic region between petD and rpoA of chloroplast DNA (cpDNA) were sequenced. A strict consensus tree resulting from the phylogenetic analysis indicates that southern African species comprise a potentially paraphyletic assemblage and that Eurasian species are monophyletic. This result suggests that the genus Asparagus originated in southern Africa, and that Eurasian species originated from a southern African progenitor. Moreover, extensive survey of the intergenic region between trnL and trnF and the intron of trnL of cpDNA in species of the genus Asparagus displayed no sequence differences despite the non-coding regions frequently used to reconstruct intrageneric phylogenies. Therefore, we hypothesized that rapid radiation of this genus might have been influenced by the gaining of unique characteristics, such as phylloclades, in order to adapt to the dry environment.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1111/j.1442-1984.2005.00131.x
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  • 2
    Electronic Resource
    Electronic Resource
    A transcription map of the chloroplast genome from rice (Oryza sativa) (1993)
    Springer
    Current genetics 23 (1993), S. 166-174 
    Details
    ISSN: 1432-0983
    Keywords: Rice ; Oryza sativa ; Chloroplast genome ; Transcription map
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The complete nucleotide sequence (134,525 bp) of the chloroplast genome from rice (Oryza sativa L.) contains four rRNA genes, 30 tRNA genes, and over 100 genes that encode proteins. However, expression of only a few of these genes, namely psbA, rbcL, and atpB/E, has been detected. We constructed the complete transcription map of rice chloroplast DNA by Northern hybridization of total RNA from rice seedlings, using subclones from a clone bank of rice chloroplast DNA as probes. Approximately 90% of the chloroplast genome was transcribed, as detected by a non-radioactive hybridization system. Most of the genes on the chloroplast DNA are organized as clusters and are co-transcribed as long primary transcripts. We identified 16 polycistronic transcripts from the rice chloroplast genome. Furthermore, the genes for components of photosystems I and II, the gene for the large subunit of RuBisCO, the genes for ATPase, the genes for components of the cytochrome complex, and the rRNA genes were expressed at the highest levels.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00352017
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  • 3
    Electronic Resource
    Electronic Resource
    Evolutionary variations in DNA sequences transferred from chloroplast genomes to mitochondrial genomes in the Gramineae (1994)
    Springer
    Current genetics 26 (1994), S. 512-518 
    Details
    ISSN: 1432-0983
    Keywords: Gramineae ; DNA transfer ; Organelle genomes ; Structural rearrangements
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The transfer of fragments of DNA from chloroplast genomes to mitochondrial genomes is considered to be a general phenomenon in higher plants. In the present study, Southern hybridization, together with amplification by PCR and DNA sequencing techniques, was used to examine the regions homologous to chloroplast rps19 in the mitochondrial genomes of several gramineous plants. In all the mitochondrial DNAs from the gramineous plants examined, except for that from wheat, the transferred fragments of chloroplast DNA were found to be maintained and the same junctions of mitochondrion-specific and chloroplast-like sequences were found at one terminus. This finding indicates that the transfer of the chloroplast sequence occurred in the distant past during the evolution of gramineous plants. Subsequent analysis revealed that the fragments had been variously rearranged among species with respect to the other terminus. Considering the current diversity of this one particular transferred fragment of chloroplast DNA, we propose that chloroplast-derived DNA sequences that have lost their original functions tend to be rearranged during evolution in mitochondrial genomes.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00309942
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  • 4
    Electronic Resource
    Electronic Resource
    A chloroplast derived trnH gene is expressed in the mitochondrial genome of gramineous plants (1997)
    Springer
    Plant molecular biology 34 (1997), S. 353-356 
    Details
    ISSN: 1573-5028
    Keywords: chloroplast-derived trnH ; chloroplast genome ; DNA transfer ; gene expression ; Gramineae ; mitochondrial genome
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract We reported previously that the mitochondrial sequence that contains the chloroplast-derived trnH gene has been highly conserved in the region around one terminus of the junction between chloroplast-derived and mitochondrion-specific sequences in most of the gramineous plants analyzed [15]. The results of RT-PCR, northern hybridization, in vitro capping and ribonuclease protection experiments show that the chloroplast-derived trnH gene is transcribed from a putative promoter that is located in the mitochondrion-specific sequence. Gene expression in this region seems to be correlated with the conservation of the sequence at the junction between the chloroplast-derived fragment and the mitochondrion-specific sequence.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1023/A:1005828728036
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  • 5
    Electronic Resource
    Electronic Resource
    Palindromic repeated sequences (PRSs) in the mitochondrial genome of rice: evidence for their insertion after divergence of the genus Oryza from the other Gramineae (1994)
    Springer
    Plant molecular biology 24 (1994), S. 273-281 
    Details
    ISSN: 1573-5028
    Keywords: insertion ; mitochondrial DNA ; mobile elements ; Oryza sativa ; palindromic repeated sequences
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract We have identified a family of small repeated sequences (from 60 to 66 bp in length) in the mitochondrial genome of rice (Oryza sativa cv. Nipponbare). There are at least ten copies of these sequences and they are distributed throughout the mitochondrial genome. Each is potentially capable of forming a stem-and-loop structure and we have designated them PRSs (palindromic repeated sequences). Their features are reminiscent of the small dispersed repeats in the mitochondrial DNA (mtDNA) of some lower eukaryotes, such as Saccharomyces cerevisiae, Neurospora crassa and Chlamydomonas reinhardtii. Some of the PRSs of rice mtDNA are located in the intron of the gene for ribosomal protein S3 (rps3) and in the flanking sequence of the gene for chloroplast-like tRNAAsn (trnN). An analysis of PCR-amplified fragments of these regions from the DNA of some Gramineae suggests that the PRSs were inserted into these regions of the Oryza mtDNA after the divergence of Oryza from the other Gramineae.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00020167
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  • 6
    Electronic Resource
    Electronic Resource
    The complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals (1989)
    Springer
    Molecular genetics and genomics 217 (1989), S. 185-194 
    Details
    ISSN: 1617-4623
    Keywords: Conserved open reading frames ; Monocots ; Chloroplast DNA ; Sequence duplication ; Multimer formation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The entire chloroplast genome of the monocot rice (Oryza sativa) has been sequenced and comprises 134525 bp. Predicted genes have been identified along with open reading frames (ORFs) conserved between rice and the previously sequenced chloroplast genomes, a dicot, tobacco (Nicotiana tabacum), and a liverwort (Marchantia polymorpha). The same complement of 30 tRNA and 4 rRNA genes has been conserved between rice and tobacco. Most ORFs extensively conserved betweenN. tabacum andM. polymorpha are also conserved intact in rice. However, several such ORFs are entirely absent in rice, or present only in severely truncated form. Structural changes are also apparent in the genome relative to tobacco. The inverted repeats, characteristic of chloroplast genome structure, have expanded outward to include several genes present only once per genome in tobacco and liverwort and the large single copy region has undergone a series of inversions which predate the divergence of the cereals. A chimeric tRNA pseudogene overlaps an apparent endpoint of the largest inversion, and a model invoking illegitimate recombination between tRNA genes is proposed which accounts simultaneously for the origin of this pseudogene, the large inversion and the creation of repeated sequences near the inversion endpoints.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF02464880
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  • 7
    Electronic Resource
    Electronic Resource
    A short history of MADS-box genes in plants (2000)
    Springer
    Plant molecular biology 42 (2000), S. 115-149 
    Details
    ISSN: 1573-5028
    Keywords: angiosperm ; development ; evolution ; fern ; gymnosperm ; MADS-box gene
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Evolutionary developmental genetics (evodevotics) is a novel scientific endeavor which assumes that changes in developmental control genes are a major aspect of evolutionary changes in morphology. Understanding the phylogeny of developmental control genes may thus help us to understand the evolution of plant and animal form. The principles of evodevotics are exemplified by outlining the role of MADS-box genes in the evolution of plant reproductive structures. In extant eudicotyledonous flowering plants, MADS-box genes act as homeotic selector genes determining floral organ identity and as floral meristem identity genes. By reviewing current knowledge about MADS-box genes in ferns, gymnosperms and different types of angiosperms, we demonstrate that the phylogeny of MADS-box genes was strongly correlated with the origin and evolution of plant reproductive structures such as ovules and flowers. It seems likely, therefore, that changes in MADS-box gene structure, expression and function have been a major cause for innovations in reproductive development during land plant evolution, such as seed, flower and fruit formation.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1023/A:1006332105728
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