Evolution of the cytochromeb gene of mammals

@article{Irwin2006EvolutionOT,
  title={Evolution of the cytochromeb gene of mammals},
  author={David M. Irwin and Thomas D. Kocher and Allan Charles Wilson},
  journal={Journal of Molecular Evolution},
  year={2006},
  volume={32},
  pages={128-144}
}
SummaryWith the polymerase chain reaction (PCR) and versatile primers that amplify the whole cytochromeb gene (∼ 1140 bp), we obtained 17 complete gene sequences representing three orders of hoofed mammals (ungulates) and dolphins (cetaceans). The fossil record of some ungulate lineages allowed estimation of the evolutionary rates for various components of the cytochromeb DNA and amino acid sequences. The relative rates of substitution at first, second, and third positions within codons are in… 
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References

SHOWING 1-10 OF 73 REFERENCES
Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers.
TLDR
The polymerase chain reaction is used to amplify homologous segments of mtDNA from more than 100 animal species, including mammals, birds, amphibians, fishes, and some invertebrates, and the unexpectedly wide taxonomic utility of these primers offers opportunities for phylogenetic and population research.
Mitochondrial DNA sequences of primates: Tempo and mode of evolution
TLDR
Genealogical analysis of the sequence differences supports the view that the human lineage branched off only slightly before the gorilla and chimpanzee lineages diverged and strengthens the hypothesis that humans are more related to gorillas and chimpanzees than is the orangutan.
Variation in salmonid mitochondrial DNA: Evolutioinary constraints and mechanisms of substitution
TLDR
Data from 2214 bp of mitochondrial DNA cloned from six Pacific salmonid species show an extremely high ratio of silent to replacement substitutions, consistent with a slower rate of amino acid substitution among the cold-blooded vertebrates when compared to mammals.
Origin of tetrapods inferred from their mitochondrial DNA affiliation to lungfish
TLDR
Besides supporting the theory that land vertebrates arose from an offshoot of the lineage leading to lungfishes, the molecular tree facilitates an evolutionary interpretation of the morphological differences among the living forms.
The complete nucleotide sequence of theRattus norvegicus mitochondrial genome: Cryptic signals revealed by comparative analysis between vertebrates
TLDR
The nucleotide sequence of rat mitochondrial DNA, only the fourth mammalian mitochondrial genome to be completely sequenced, is reported, shedding new light on the organization and evolution of the vertebrate mitochondrial genome and open up the way to clearly aimed experimental studies of the regulatory mechanisms in mitochondria.
Shifting constraints on tRNA genes during mitochondrial DNA evolution in animals.
TLDR
During the evolution of echinoderm mitochondrial (mt) DNA, a transfer RNA gene lost its tRNA function and became part of a protein-coding gene, which now is a 5' extension of the gene for NADH dehydrogenase subunit 5 (ND5).
Molecular phylogeny and evolution of primate mitochondrial DNA.
TLDR
A phylogenetic tree for the four groups of primates is constructed and suggests that the rate of nucleotide substitution for mtDNAs in hominines (human, chimpanzee, and gorilla) may have slowed down compared with that for old-world monkeys.
Human mitochondrial DNA variation and evolution: analysis of nucleotide sequences from seven individuals.
TLDR
Analysis of nucleotide sequence variation in an approximately 900-base pair region of the human mitochondrial DNA molecule encompassing the heavy strand origin of replication and the D-loop revealed several significant biases, most notably a strand dependence of substitution type and a 32-fold bias favoring transitions over transversions.
Molecular characterization of a cloned dolphin mitochondrial genome
TLDR
There is a general tendency throughout the sequenced regions for greater similarity between Dolphin and bovine mt genomes than between dolphin and rodent or human mt genomes.
Evolutionary and developmental aspects of two hemoglobin beta-chain genes (epsilon M and beta M) of opossum.
  • B. Koop, M. Goodman
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 1988
TLDR
Findings reported here indicate that two progenitors of the five linked genes existed by the time of the eutherian (placental mammal)-metatherian (marsupial mammal) split and that these two genes were already differentiated with respect to their promoter regions and developmental expression.
...
...