Sequence of the<i>rbc</i>L gene for the large subunit of ribulose bisphosphate carboxylase-oxygenase from petunia

Aldrich, Jane; Cherney, Barry; Merlin, Ellis; Palmer, Jeff

doi:10.1093/nar/14.23.9534

Cited by 28 publications

(3 citation statements)

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“…First, we consider chloroplast and mitochondrial genes. In the comparisons between monocots and dicots the average numbers of nonsynonymous substitutions per site (KA) (11,12); atpBE (13,14); atpF (12); atpH (11,12); rbcL (15)(16)(17)(18); psaAB (19,20); psbA (21); psbB (22); psbCD (23); psbEF (24); psbG and ndhC (G. Zurawski, J. Mason, P. Whitfield, personal communication); psbH (22,25,26); petA (27,28); petB (22); petD (22,29); rpS4 (30); rpL16 (31); orJ62 (23,32). Mitochondrial: coxl (33,34); coxll (35); atp9 (36); atpA (37).…”

Section: Resultsmentioning

confidence: 99%

Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.

Wolfe

Li²,

Sharp³

1987

Proc. Natl. Acad. Sci. U.S.A.

2,033

1,497

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Comparison of plant mitochondrial (mt), chloroplast (cp) and nuclear (n) DNA sequences shows that the silent substitution rate in mtDNA is less than one-third that in cpDNA, which in turn evolves only half as fast as plant nDNA. The slower rate in mtDNA than in cpDNA is probably due to a lower mutation rate. Silent substitution rates in plant and mammalian mtDNAs differ by one or two orders of magnitude, whereas the rates in nDNAs may be similar. In cpDNA, the rate of substitution both at synonymous sites and in noncoding sequences in the inverted repeat is greatly reduced in comparison to single-copy sequences. The rate of cpDNA evolution appears to have slowed in some dicot lineages following the monocot/dicot split, and the slowdown is more conspicuous at nonsynonymous sites than at synonymous sites.Our current knowledge of the rates and mechanisms of molecular evolution has been derived largely from comparative studies of genes and proteins of animals (1, 2). Only recently has the study of the molecular biology of plants provided sufficient data to allow the evolution of plant genes to be investigated. Since the plant and animal kingdoms diverged about 1000 million years (Myr) ago, their patterns of evolution might have become very different. In fact, plants differ from animals in the organization oftheir organelle DNA by having a much larger and structurally more variable mitochondrial genome and by having a third (chloroplast) genome (3). So, do the rates of nucleotide substitution differ between animal and plant DNAs? Also, since in mammals mitochondrial DNA (mtDNA) evolves much faster than nuclear DNA (nDNA) (4), do the substitution rates vary greatly among the three plant genomes?Previous studies based on a few gene sequences or on restriction enzyme mapping have suggested that chloroplast genes have lower rates of nucleotide substitution than mammalian nuclear genes (3, 5) and that plant mtDNA evolves slowly in nucleotide sequence, though it undergoes frequent rearrangement (6). Restriction analysis (3, 7) has also suggested that the large inverted repeat (IR) sequences in chloroplast DNA (cpDNA) have lower rates of nucleotide substitution than the rest of the chloroplast genome. Available DNA sequence data from plants now allow a detailed investigation of the rates of nucleotide substitution in the three plant genomes, reconstruction of the phylogenetic relationships among some higher plants, and comparison of evolutionary rates among lineages.MATERIALS AND METHODS DNA sequences were taken from GenBank § and the literature; the sequences of liverwort and tobacco chloroplast genomes (8, 9) were kindly provided on disk by K. Ohyama and M. Sugiura.Numbers of nucleotide substitutions in noncoding sequences were calculated by the two-parameter method of Kimura (1); regions in which the correct alignment was not apparent were excluded from the analysis. Protein-coding genes were analyzed by the method of Li et al. (10) RESULTSRates of Evolution of the Three Plant Genomes. In Table 1 we compare the ...

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Section: Resultsmentioning

confidence: 99%

Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.

Wolfe

Li²,

Sharp³

1987

Proc. Natl. Acad. Sci. U.S.A.

2,033

1,497

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show abstract

“…In chloroplast genomes which have the typical inverted repeat structure, the rbcL gene is located in the large single copy region next to, and of opposite polarity from the polycistronic genes encoding the beta-and epsilon-subunits of the chloroplast ATPase (atpB/E). The rbcL gene has been sequenced in spinach (Zurawski et al 1981), petunia (Aldrich et al 1986a), alfalfa (Aldrich et al 1986b), maize (McIntosh et al 1980, pea (Zurawski et al 1986), tobacco (Shinozaki and Sugiura 1982), barley , Nicotiana otophora and N. acuminata (Lin et al 1986), and has been partially sequenced in tomato (Manzara, Chonoles-Imlay and Gruissem, unpublished). In all higher plants studied to date, the rbcL coding sequence is continuous, approximately 1.4 kb in length, and encodes a polypeptide of approximately 475 amino acids.…”

Section: Structure and Organization Of The Rbcl And Rbcs Genesmentioning

confidence: 99%

“…For example, the homology between the rbcL nucleotide sequences of maize versus spinach is 84%, while the homology between the corresponding amino acid sequences is 90% (Zurawski et al 1981). In closely related species, such as petunia and tobacco, the amino acid sequences are 97% conserved, and the nucleotide sequences of the 5' and 3' flanking regions are also highly homologous (Aldrich et al 1986a). In less related species, the nucleotide sequence conservation between the 5' and 3' flanking regions is considerably lower, although functional domains are conserved (Zurawski and Clegg 1987).…”

Section: Structure and Organization Of The Rbcl And Rbcs Genesmentioning

confidence: 99%

Organization and expression of the genes encoding ribulose-1,5-bisphosphate carboxylase in higher plants

1988

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Leaf protein for food use: potential of Rubisco

Douillard¹,

Mathan²

1994

New and Developing Sources of Food Proteins

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Sequence of therbcL gene for the large subunit of ribulose bisphosphate carboxylase-oxygenase from petunia

Abstract: The sequence of the chloroplast-encoded rbcL gene from Petunia hybrids cv. Mitchell is shown compared to tobacco (1). Petunia and tobacco share a remarkable 99.97% nuclootide sequence homology in the coding region as well as in the 3' and 5' flanking regions. Of the amino acid

Cited by 28 publications

References 3 publications

Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.

Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.

Organization and expression of the genes encoding ribulose-1,5-bisphosphate carboxylase in higher plants

Leaf protein for food use: potential of Rubisco

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