The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region

Madeleine J H Van Oppen, Julian Catmull, Brenda J. McDonald, Nikki R. Hislop, Paul J Hagerman, David J. Miller

Research output: Contribution to journalArticle

83 Citations (Scopus)

Abstract

The complete nucleotide sequence of the mitochondrial genome of the coral Acropora tenuis has been determined. The 18,338 bp A. tenuis mitochondrial genome contains the standard metazoan complement of 13 protein-coding and two rRNA genes, but only the same two tRNA genes (trnM and trnW) as are present in the mtDNA of the sea anemone, Metridium senile. The A. tenuis nad5 gene is interrupted by a large group I intron which contains ten protein-coding genes and rns; M. senile has an intron at the same position but this contains only two protein-coding genes. Despite the large distance (about 11.5 kb) between the 5′-exon and 3′-exon boundaries, the A. tenuis nad5 gene is functional, as we were able to RT-PCR across the predicted intron splice site using total RNA from A. tenuis. As in M. senile, all of the genes in the A. tenuis mt genome have the same orientation, but their organization is completely different in these two zoantharians: The only common gene boundaries are those at each end of the group I intron and between trnM and rnl. Finally, we provide evidence that the rns-cox3 intergenic region in A. tenuis may correspond to the mitochondrial control region of higher animals. This region contains repetitive elements, and has the potential to form secondary structures of the type characteristic of vertebrate D-loops. Comparisons between a wide range of Acropora species showed that a long hairpin predicted in rns-cox3 is phylogenetically conserved, and allowed the tentative identification of conserved sequence blocks.

Original languageEnglish (US)
Pages (from-to)1-13
Number of pages13
JournalJournal of Molecular Evolution
Volume55
Issue number1
DOIs
StatePublished - 2002

Fingerprint

Acropora tenuis
Cnidaria
Mitochondrial Genome
Introns
introns
genome
Genes
gene
genes
Exons
Sea Anemones
Anthozoa
Intergenic DNA
Conserved Sequence
Nucleic Acid Repetitive Sequences
exons
protein
Transfer RNA
Mitochondrial DNA
rRNA Genes

Keywords

  • Acropora
  • Cnidaria
  • Control region
  • Group I intron
  • mtDNA

ASJC Scopus subject areas

  • Genetics
  • Biochemistry
  • Biochemistry, Genetics and Molecular Biology(all)
  • Genetics(clinical)
  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Agricultural and Biological Sciences(all)
  • Agricultural and Biological Sciences (miscellaneous)

Cite this

The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region. / Van Oppen, Madeleine J H; Catmull, Julian; McDonald, Brenda J.; Hislop, Nikki R.; Hagerman, Paul J; Miller, David J.

In: Journal of Molecular Evolution, Vol. 55, No. 1, 2002, p. 1-13.

Research output: Contribution to journalArticle

Van Oppen, Madeleine J H ; Catmull, Julian ; McDonald, Brenda J. ; Hislop, Nikki R. ; Hagerman, Paul J ; Miller, David J. / The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region. In: Journal of Molecular Evolution. 2002 ; Vol. 55, No. 1. pp. 1-13.
@article{f536e23c481c407cb5ad0ef1fd3f8190,
title = "The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region",
abstract = "The complete nucleotide sequence of the mitochondrial genome of the coral Acropora tenuis has been determined. The 18,338 bp A. tenuis mitochondrial genome contains the standard metazoan complement of 13 protein-coding and two rRNA genes, but only the same two tRNA genes (trnM and trnW) as are present in the mtDNA of the sea anemone, Metridium senile. The A. tenuis nad5 gene is interrupted by a large group I intron which contains ten protein-coding genes and rns; M. senile has an intron at the same position but this contains only two protein-coding genes. Despite the large distance (about 11.5 kb) between the 5′-exon and 3′-exon boundaries, the A. tenuis nad5 gene is functional, as we were able to RT-PCR across the predicted intron splice site using total RNA from A. tenuis. As in M. senile, all of the genes in the A. tenuis mt genome have the same orientation, but their organization is completely different in these two zoantharians: The only common gene boundaries are those at each end of the group I intron and between trnM and rnl. Finally, we provide evidence that the rns-cox3 intergenic region in A. tenuis may correspond to the mitochondrial control region of higher animals. This region contains repetitive elements, and has the potential to form secondary structures of the type characteristic of vertebrate D-loops. Comparisons between a wide range of Acropora species showed that a long hairpin predicted in rns-cox3 is phylogenetically conserved, and allowed the tentative identification of conserved sequence blocks.",
keywords = "Acropora, Cnidaria, Control region, Group I intron, mtDNA",
author = "{Van Oppen}, {Madeleine J H} and Julian Catmull and McDonald, {Brenda J.} and Hislop, {Nikki R.} and Hagerman, {Paul J} and Miller, {David J.}",
year = "2002",
doi = "10.1007/s00239-001-0075-0",
language = "English (US)",
volume = "55",
pages = "1--13",
journal = "Journal of Molecular Evolution",
issn = "0022-2844",
publisher = "Springer New York",
number = "1",

}

TY - JOUR

T1 - The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region

AU - Van Oppen, Madeleine J H

AU - Catmull, Julian

AU - McDonald, Brenda J.

AU - Hislop, Nikki R.

AU - Hagerman, Paul J

AU - Miller, David J.

PY - 2002

Y1 - 2002

N2 - The complete nucleotide sequence of the mitochondrial genome of the coral Acropora tenuis has been determined. The 18,338 bp A. tenuis mitochondrial genome contains the standard metazoan complement of 13 protein-coding and two rRNA genes, but only the same two tRNA genes (trnM and trnW) as are present in the mtDNA of the sea anemone, Metridium senile. The A. tenuis nad5 gene is interrupted by a large group I intron which contains ten protein-coding genes and rns; M. senile has an intron at the same position but this contains only two protein-coding genes. Despite the large distance (about 11.5 kb) between the 5′-exon and 3′-exon boundaries, the A. tenuis nad5 gene is functional, as we were able to RT-PCR across the predicted intron splice site using total RNA from A. tenuis. As in M. senile, all of the genes in the A. tenuis mt genome have the same orientation, but their organization is completely different in these two zoantharians: The only common gene boundaries are those at each end of the group I intron and between trnM and rnl. Finally, we provide evidence that the rns-cox3 intergenic region in A. tenuis may correspond to the mitochondrial control region of higher animals. This region contains repetitive elements, and has the potential to form secondary structures of the type characteristic of vertebrate D-loops. Comparisons between a wide range of Acropora species showed that a long hairpin predicted in rns-cox3 is phylogenetically conserved, and allowed the tentative identification of conserved sequence blocks.

AB - The complete nucleotide sequence of the mitochondrial genome of the coral Acropora tenuis has been determined. The 18,338 bp A. tenuis mitochondrial genome contains the standard metazoan complement of 13 protein-coding and two rRNA genes, but only the same two tRNA genes (trnM and trnW) as are present in the mtDNA of the sea anemone, Metridium senile. The A. tenuis nad5 gene is interrupted by a large group I intron which contains ten protein-coding genes and rns; M. senile has an intron at the same position but this contains only two protein-coding genes. Despite the large distance (about 11.5 kb) between the 5′-exon and 3′-exon boundaries, the A. tenuis nad5 gene is functional, as we were able to RT-PCR across the predicted intron splice site using total RNA from A. tenuis. As in M. senile, all of the genes in the A. tenuis mt genome have the same orientation, but their organization is completely different in these two zoantharians: The only common gene boundaries are those at each end of the group I intron and between trnM and rnl. Finally, we provide evidence that the rns-cox3 intergenic region in A. tenuis may correspond to the mitochondrial control region of higher animals. This region contains repetitive elements, and has the potential to form secondary structures of the type characteristic of vertebrate D-loops. Comparisons between a wide range of Acropora species showed that a long hairpin predicted in rns-cox3 is phylogenetically conserved, and allowed the tentative identification of conserved sequence blocks.

KW - Acropora

KW - Cnidaria

KW - Control region

KW - Group I intron

KW - mtDNA

UR - http://www.scopus.com/inward/record.url?scp=0036017377&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0036017377&partnerID=8YFLogxK

U2 - 10.1007/s00239-001-0075-0

DO - 10.1007/s00239-001-0075-0

M3 - Article

C2 - 12165838

AN - SCOPUS:0036017377

VL - 55

SP - 1

EP - 13

JO - Journal of Molecular Evolution

JF - Journal of Molecular Evolution

SN - 0022-2844

IS - 1

ER -