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The Asian Rice Gall Midge (Orseolia oryzae) Mitogenome Has Evolved Novel Gene Boundaries and Tandem Repeats That Distinguish Its Biotypes.

Atray I, Bentur JS, Nair S - PLoS ONE (2015)

Bottom Line: All protein coding genes used conventional start codons and terminated with a complete stop codon.Rearrangements of the tRNAs and protein coding genes are explained on the basis of tandem duplication and random loss model and why intramitochondrial recombination is a better model for explaining rearrangements in the O. oryzae mitochondrial genome is discussed.Furthermore, we evaluated the number of iterations of the tandem repeat elements found in the mitogenome.

View Article: PubMed Central - PubMed

Affiliation: Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, 110067, India.

ABSTRACT
The complete mitochondrial genome of the Asian rice gall midge, Orseolia oryzae (Diptera; Cecidomyiidae) was sequenced, annotated and analysed in the present study. The circular genome is 15,286 bp with 13 protein-coding genes, 22 tRNAs and 2 ribosomal RNA genes, and a 578 bp non-coding control region. All protein coding genes used conventional start codons and terminated with a complete stop codon. The genome presented many unusual features: (1) rearrangement in the order of tRNAs as well as protein coding genes; (2) truncation and unusual secondary structures of tRNAs; (3) presence of two different repeat elements in separate non-coding regions; (4) presence of one pseudo-tRNA gene; (5) inversion of the rRNA genes; (6) higher percentage of non-coding regions when compared with other insect mitogenomes. Rearrangements of the tRNAs and protein coding genes are explained on the basis of tandem duplication and random loss model and why intramitochondrial recombination is a better model for explaining rearrangements in the O. oryzae mitochondrial genome is discussed. Furthermore, we evaluated the number of iterations of the tandem repeat elements found in the mitogenome. This led to the identification of genetic markers capable of differentiating rice gall midge biotypes and the two Orseolia species investigated.

No MeSH data available.


Related in: MedlinePlus

Location of the repeat region I (RR-I) in the Orseolia oryzae mitogenome.Arrows indicate change in repeat motifs in RR-I in different biotypes of O. oryzae.
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pone.0134625.g003: Location of the repeat region I (RR-I) in the Orseolia oryzae mitogenome.Arrows indicate change in repeat motifs in RR-I in different biotypes of O. oryzae.

Mentions: Tandem repeats were detected in the O. oryzae mitogenome at two different non-coding regions. One was observed between trnW and trnA (Repeat Region I) and the other between trnI and COI (Repeat Region II) (Figs 1 and 3)–a feature not reported in any other arthropod mitogenomes sequenced thus far.


The Asian Rice Gall Midge (Orseolia oryzae) Mitogenome Has Evolved Novel Gene Boundaries and Tandem Repeats That Distinguish Its Biotypes.

Atray I, Bentur JS, Nair S - PLoS ONE (2015)

Location of the repeat region I (RR-I) in the Orseolia oryzae mitogenome.Arrows indicate change in repeat motifs in RR-I in different biotypes of O. oryzae.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4520695&req=5

pone.0134625.g003: Location of the repeat region I (RR-I) in the Orseolia oryzae mitogenome.Arrows indicate change in repeat motifs in RR-I in different biotypes of O. oryzae.
Mentions: Tandem repeats were detected in the O. oryzae mitogenome at two different non-coding regions. One was observed between trnW and trnA (Repeat Region I) and the other between trnI and COI (Repeat Region II) (Figs 1 and 3)–a feature not reported in any other arthropod mitogenomes sequenced thus far.

Bottom Line: All protein coding genes used conventional start codons and terminated with a complete stop codon.Rearrangements of the tRNAs and protein coding genes are explained on the basis of tandem duplication and random loss model and why intramitochondrial recombination is a better model for explaining rearrangements in the O. oryzae mitochondrial genome is discussed.Furthermore, we evaluated the number of iterations of the tandem repeat elements found in the mitogenome.

View Article: PubMed Central - PubMed

Affiliation: Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, 110067, India.

ABSTRACT
The complete mitochondrial genome of the Asian rice gall midge, Orseolia oryzae (Diptera; Cecidomyiidae) was sequenced, annotated and analysed in the present study. The circular genome is 15,286 bp with 13 protein-coding genes, 22 tRNAs and 2 ribosomal RNA genes, and a 578 bp non-coding control region. All protein coding genes used conventional start codons and terminated with a complete stop codon. The genome presented many unusual features: (1) rearrangement in the order of tRNAs as well as protein coding genes; (2) truncation and unusual secondary structures of tRNAs; (3) presence of two different repeat elements in separate non-coding regions; (4) presence of one pseudo-tRNA gene; (5) inversion of the rRNA genes; (6) higher percentage of non-coding regions when compared with other insect mitogenomes. Rearrangements of the tRNAs and protein coding genes are explained on the basis of tandem duplication and random loss model and why intramitochondrial recombination is a better model for explaining rearrangements in the O. oryzae mitochondrial genome is discussed. Furthermore, we evaluated the number of iterations of the tandem repeat elements found in the mitogenome. This led to the identification of genetic markers capable of differentiating rice gall midge biotypes and the two Orseolia species investigated.

No MeSH data available.


Related in: MedlinePlus