Tandem duplications in animal mitochondrial DNAs: variation in incidence and gene content among lizards.

Moritz, Craig; Brown, Wesley M.

doi:10.1073/pnas.84.20.7183

Cited by 275 publications

(136 citation statements)

References 22 publications

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“…The ND5 gene accompanied with the LTPF cluster and located between the D-loop and 12S rRNA gene have been reported in B. buergeri mt genome. Gene rearrangement of mt genomes is generally believed to occur through tandem duplication of gene regions as a result of slippedstrand mispairing followed by multiple deletions of redundant genes (Moritz and Brown 1987;Boore and Brown 1998). According to the gene rearrangement mechanism, Sano et al (2004) presumed that minimal two duplicationdeletion events through an intermediate arrangement would be needed to generate this gene order from that of typical vertebrates.…”

Section: Two Tandem Trna-met Genes and Gene Rearrangementmentioning

confidence: 99%

Complete nucleotide sequence and gene rearrangement of the mitochondrial genome of Occidozyga martensii

et al. 2014

J Genet

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In this study, the complete nucleotide sequence (18,321 bp) of the mitochondrial (mt) genome of the round-tongued floating frog, Occidozyga martensii was determined. Although, the base composition and codon usage of O. martensii conformed to the typical vertebrate patterns, this mt genome contained 23 tRNAs (a tandem duplication of tRNA-Met gene). The LTPF tRNA-gene cluster, and the derived position of the ND5 gene downstream of the control region, were present in this mitogenome. Moreover, we found that in the WANCY tRNA-gene cluster, the tRNA-Asn gene was located between the tRNATyr and COI genes instead of between the tRNA-Ala and tRNA-Cys genes, which is a novel mtDNA gene rearrangement in vertebrates. Based on the concatenated nucleotide sequences of the 13 protein-coding genes, phylogenetic analysis (BI, ML, MP) was performed to further clarify the phylogenetic relations of this species within anurans.[Li E., Li X., Wu X., Feng G., Zhang M., Shi H., Wang L. and Jiang J. 2014 Complete nucleotide sequence and gene rearrangement of the mitochondrial genome of Occidozyga martensii. J. Genet. 93, [631][632][633][634][635][636][637][638][639][640][641]

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Section: Two Tandem Trna-met Genes and Gene Rearrangementmentioning

confidence: 99%

Complete nucleotide sequence and gene rearrangement of the mitochondrial genome of Occidozyga martensii

et al. 2014

J Genet

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“…Sequence similarity between the different copies of these tRNAs may be due to their recent duplication or may be maintained over longer time frames by concerted evolution. Under the widely accepted duplication-loss models of genome rearrangement (Moritz and Brown 1987;Macey et al 1997) it would be unusual to find such large distances between the duplicated genes (cf. the local tRNA duplications in wasps found by Dowton et al (2003)) as it would be considered unlikely that the loss of the intervening genes would occur faster than point mutations would accumulate within the duplicated tRNAs.…”

Section: Tψc Stem and Loop Acceptor Stemmentioning

confidence: 99%

The Mitochondrial Genome of the Screamer Louse Bothriometopus (Phthiraptera: Ischnocera): Effects of Extensive Gene Rearrangements on the Evolution of the Genome

2007

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Mitochondrial (mt) genome rearrangement has generally been studied with respect to the phenomenon itself, focusing on their phylogenetic distribution and causal mechanisms. Rearrangements have additional significance through effects on substitution, transcription, and mRNA processing. Lice are an ideal group in which to study the interactions between rearrangements and these factors due to the heightened rearrangement rate within this group. The entire mt genome of the screamer louse Bothriometopus was sequenced and compared to previously sequenced louse genomes. The mt genome is 15,564 bp, circular, and all genes are encoded on the same strand. The gene arrangement differs radically from both other louse species and the ancestral insect. Nucleotide composition is A+T biased, but there is no skew which may be due to reversal of replication direction or a transcriptional effect. Bothriometopus has both tRNA duplication and concerted evolution which has not been observed previously. Eleven of the 13 protein-coding genes have 3 0 end stem-loop structures which may allow mRNA processing without flanking tRNAs and so facilitate gene rearrangements. There are five candidate control regions capable of forming stem-loop structures. Two are structurally more similar to the control regions of other insect species than those of other lice. Analyses of Bothriometopus demonstrate that louse mt genomes, in addition to being extensively rearranged, differ significantly from most insect species in nucleotide composition biases, tRNA evolution, protein-coding gene structures and putative signaling sites such as the control region. These may be either a cause or a consequence of gene rearrangements.

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“…The tandem duplication of genes and subsequent (random) loss of one copy of each duplicate has been proposed as a mechanism of gene rearrangement in the mt genome (Moritz and Brown, 1987;Boore, 2000;Lavrov et al, 2002). This model predicts that one copy of each duplicated gene should disappear rapidly due to a loss of functionality caused by disruption of the secondary structure or anticodon (Moritz and Brown, 1986;Boore, 2000).…”

Section: Introductionmentioning

confidence: 99%

Mosaic gene conversion after a tandem duplication of mtDNA sequence in Diomedeidae (albatrosses)

Eda¹,

Kuro-o

Higuchi

et al. 2010

Genes Genet. Syst.

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Although the tandem duplication of mitochondrial (mt) sequences, especially those of the control region (CR), has been detected in metazoan species, few studies have focused on the features of the duplicated sequence itself, such as the gene conversion rate, distribution patterns of the variation, and relative rates of evolution between the copies. To investigate the features of duplicated mt sequences, we partially sequenced the mt genome of 16 Phoebastria albatrosses belonging to three species (P. albatrus, P. nigripes, and P. immutabilis). More than 2,300 base pairs of tandemly-duplicated sequence were shared by all three species. The observed gene arrangement was shared in the three Phoebastria albatrosses and suggests that the duplication event occurred in the common ancestor of the three species. Most of the copies in each individual were identical or nearly identical, and were maintained through frequent gene conversions. By contrast, portions of CR domains I and III had different phylogenetic signals, suggesting that gene conversion had not occurred in those sections after the speciation of the three species. Several lines of data, including the heterogeneity of the rate of molecular evolution, nucleotide differences, and putative secondary structures, suggests that the two sequences in CR domain I are maintained through selection; however, additional studies into the mechanisms of gene conversion and mtDNA synthesis are required to confirm this hypothesis.

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Tandem duplications in animal mitochondrial DNAs: variation in incidence and gene content among lizards.

Cited by 275 publications

References 22 publications

Complete nucleotide sequence and gene rearrangement of the mitochondrial genome of Occidozyga martensii

Complete nucleotide sequence and gene rearrangement of the mitochondrial genome of Occidozyga martensii

The Mitochondrial Genome of the Screamer Louse Bothriometopus (Phthiraptera: Ischnocera): Effects of Extensive Gene Rearrangements on the Evolution of the Genome

Mosaic gene conversion after a tandem duplication of mtDNA sequence in Diomedeidae (albatrosses)

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