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. 2016 Apr 5;11(4):e0152937.
doi: 10.1371/journal.pone.0152937. eCollection 2016.

Mitochondrial Genome Analysis of Wild Rice (Oryza minuta) and Its Comparison with Other Related Species

Sajjad Asaf  1 , Abdul Latif Khan  2 , Abdur Rahim Khan  1 , Muhammad Waqas  1   3 , Sang-Mo Kang  1 , Muhammad Aaqil Khan  1 , Raheem Shahzad  1 , Chang-Woo Seo  1 , Jae-Ho Shin  1 , In-Jung Lee  1
Affiliations

Mitochondrial Genome Analysis of Wild Rice (Oryza minuta) and Its Comparison with Other Related Species

Sajjad Asaf et al. PLoS One. .

Abstract

Oryza minuta (Poaceae family) is a tetraploid wild relative of cultivated rice with a BBCC genome. O. minuta has the potential to resist against various pathogenic diseases such as bacterial blight (BB), white backed planthopper (WBPH) and brown plant hopper (BPH). Here, we sequenced and annotated the complete mitochondrial genome of O. minuta. The mtDNA genome is 515,022 bp, containing 60 protein coding genes, 31 tRNA genes and two rRNA genes. The mitochondrial genome organization and the gene content at the nucleotide level are highly similar (89%) to that of O. rufipogon. Comparison with other related species revealed that most of the genes with known function are conserved among the Poaceae members. Similarly, O. minuta mt genome shared 24 protein-coding genes, 15 tRNA genes and 1 ribosomal RNA gene with other rice species (indica and japonica). The evolutionary relationship and phylogenetic analysis revealed that O. minuta is more closely related to O. rufipogon than to any other related species. Such studies are essential to understand the evolutionary divergence among species and analyze common gene pools to combat risks in the current scenario of a changing environment.

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Conflict of interest statement

Competing Interests: The authors have declared that no competing interests exist.

Figures

Fig 1
Fig 1. Mitochondria genome map of O. minuta.
Features on the clockwise- and counter-clockwise transcribed strands are drawn on the inside and outside of the circle, respectively.
Fig 2
Fig 2. Dot matrix alignment of the O. minuta (x-axis) with other mitochondrial genomes of Poaceae members (y-axis).
(A) O. rufipogon, (B) O. sativa japonica, (C) O. sativa indica, (D) S. bicolor, (E) T. aestivum, (F) Z. mays spp. parviglumis and (G) Z. mays spp. mays.
Fig 3
Fig 3. Phylogeny of the O. minuta mitogenome with seven other Poaceae members.
The phylogenetic tree was inferred using the neighbor-joining method based on 20 conserved genes.
See this image and copyright information in PMC

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