Open Access Highly Accessed Research article

Comparative analysis of complete mitochondrial genome sequences confirms independent origins of plant-parasitic nematodes

Tahera Sultana1, Jiyeon Kim2, Sang-Hwa Lee2, Hyerim Han3, Sanghee Kim4, Gi-Sik Min1, Steven A Nadler5 and Joong-Ki Park26*

Author Affiliations

1 Department of Biological Sciences, Inha University, Incheon, 402-751, Republic of Korea

2 Graduate Program in Cell Biology and Genetics, College of Medicine, Chungbuk National University, Cheongju 361-763, Republic of Korea

3 Division of Forest Insect Pests and Diseases, Korea Forest Research Institute, Seoul, 130-012, Republic of Korea

4 Korea Polar Research Institute, Songdo Techno Park, Yeonsu-gu, Incheon, 406-840, Republic of Korea

5 Department of Entomology and Nematology, University of California, Davis, CA, 95616, USA

6 Graduate Program in Cell Biology and Genetics and Department of Parasitology, College of Medicine, Chungbuk National University, Cheongju 361-763, Republic of Korea

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BMC Evolutionary Biology 2013, 13:12  doi:10.1186/1471-2148-13-12

Published: 18 January 2013

Additional files

Additional file 1:

The predicted secondary structures of 22 tRNAs for Bursaphelenchus xylophilus.

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Additional file 2:

The predicted secondary structures of 22 tRNAs for Pratylenchus vulnus.

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Additional file 3:

Single maximum likelihood tree with values from the separate bootstrap analysis shown at internal nodes when 70% or greater. Analysis of nucleotide sequences for 12 protein-coding genes with third codon positions excluded (7,856 characters) for 41 nematode mitochondrial genomes inferred using RAxML (see methods for analysis details).

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Additional file 4:

Phylogenetic tree from Bayesian analysis of nucleotide sequences for 12 protein-coding genes with third codon positions excluded (7,856 characters). The best-fit substitution model for each of 12 genes was estimated using the AIC criterion implemented in MrModeltest 2.3. The resulting best-fit model for each of 12 genes was then used for Bayesian analysis. Bayesian posterior probability values (BPP), shown above the nodes, were estimated after the initial 200 trees (the first 2x105 generations) was discarded as burn-in (see methods for analysis details).

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Additional file 5:

Nexus file descriptions for alternative topologies tested for results reported in Table 4.

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Additional file 6:

PCR primer information used in this study.

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Additional file 7:

The species, taxonomy, and GenBank accession numbers for nematode species used in phylogenetic analyses in this study.

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