IMGD: An integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes

Wonhoon Lee, Jongsun Park, Jaeyoung Choi, Kyongyong Jung, Bongsoo Park, Donghan Kim, Jaeyoung Lee, Kyohun Ahn, Wonho Song, Seogchan Kang, Yong Hwan Lee, Seunghwan Lee

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Background: Sequences and organization of the mitochondrial genome have been used as markers to investigate evolutionary history and relationships in many taxonomic groups. The rapidly increasing mitochondrial genome sequences from diverse insects provide ample opportunities to explore various global evolutionary questions in the superclass Hexapoda. To adequately support such questions, it is imperative to establish an informatics platform that facilitates the retrieval and utilization of available mitochondrial genome sequence data. Results: The Insect Mitochondrial Genome Database (IMGD) is a newintegrated platform that archives the mitochondrial genome sequences from 25,747 hexapod species, including 112 completely sequenced and 20 nearly completed genomes and 113,985 partially sequenced mitochondrial genomes. The Species-driven User Interface (SUI) of IMGD supports data retrieval and diverse analyses at multi-taxon levels. The Phyloviewer implemented in IMGD provides three methods for drawing phylogenetic trees and displays the resulting trees on the web. The SNP database incorporated to IMGD presents the distribution of SNPs and INDELs in the mitochondrial genomes of multiple isolates within eight species. A newly developed comparative SNU Genome Browser supports the graphical presentation and interactive interface for the identified SNPs/INDELs. Conclusion: The IMGD provides a solid foundation for the comparative mitochondrial genomics and phylogenetics of insects.

Original languageEnglish (US)
Article number148
JournalBMC genomics
Volume10
DOIs
StatePublished - Apr 7 2009

Fingerprint

Insect Genome
Mitochondrial Genome
Genomics
Databases
Single Nucleotide Polymorphism
Insects
Genome
Informatics
Information Storage and Retrieval

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Genetics

Cite this

Lee, Wonhoon ; Park, Jongsun ; Choi, Jaeyoung ; Jung, Kyongyong ; Park, Bongsoo ; Kim, Donghan ; Lee, Jaeyoung ; Ahn, Kyohun ; Song, Wonho ; Kang, Seogchan ; Lee, Yong Hwan ; Lee, Seunghwan. / IMGD : An integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes. In: BMC genomics. 2009 ; Vol. 10.
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abstract = "Background: Sequences and organization of the mitochondrial genome have been used as markers to investigate evolutionary history and relationships in many taxonomic groups. The rapidly increasing mitochondrial genome sequences from diverse insects provide ample opportunities to explore various global evolutionary questions in the superclass Hexapoda. To adequately support such questions, it is imperative to establish an informatics platform that facilitates the retrieval and utilization of available mitochondrial genome sequence data. Results: The Insect Mitochondrial Genome Database (IMGD) is a newintegrated platform that archives the mitochondrial genome sequences from 25,747 hexapod species, including 112 completely sequenced and 20 nearly completed genomes and 113,985 partially sequenced mitochondrial genomes. The Species-driven User Interface (SUI) of IMGD supports data retrieval and diverse analyses at multi-taxon levels. The Phyloviewer implemented in IMGD provides three methods for drawing phylogenetic trees and displays the resulting trees on the web. The SNP database incorporated to IMGD presents the distribution of SNPs and INDELs in the mitochondrial genomes of multiple isolates within eight species. A newly developed comparative SNU Genome Browser supports the graphical presentation and interactive interface for the identified SNPs/INDELs. Conclusion: The IMGD provides a solid foundation for the comparative mitochondrial genomics and phylogenetics of insects.",
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Lee, W, Park, J, Choi, J, Jung, K, Park, B, Kim, D, Lee, J, Ahn, K, Song, W, Kang, S, Lee, YH & Lee, S 2009, 'IMGD: An integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes', BMC genomics, vol. 10, 148. https://doi.org/10.1186/1471-2164-10-148

IMGD : An integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes. / Lee, Wonhoon; Park, Jongsun; Choi, Jaeyoung; Jung, Kyongyong; Park, Bongsoo; Kim, Donghan; Lee, Jaeyoung; Ahn, Kyohun; Song, Wonho; Kang, Seogchan; Lee, Yong Hwan; Lee, Seunghwan.

In: BMC genomics, Vol. 10, 148, 07.04.2009.

Research output: Contribution to journalArticle

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AU - Lee, Wonhoon

AU - Park, Jongsun

AU - Choi, Jaeyoung

AU - Jung, Kyongyong

AU - Park, Bongsoo

AU - Kim, Donghan

AU - Lee, Jaeyoung

AU - Ahn, Kyohun

AU - Song, Wonho

AU - Kang, Seogchan

AU - Lee, Yong Hwan

AU - Lee, Seunghwan

PY - 2009/4/7

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N2 - Background: Sequences and organization of the mitochondrial genome have been used as markers to investigate evolutionary history and relationships in many taxonomic groups. The rapidly increasing mitochondrial genome sequences from diverse insects provide ample opportunities to explore various global evolutionary questions in the superclass Hexapoda. To adequately support such questions, it is imperative to establish an informatics platform that facilitates the retrieval and utilization of available mitochondrial genome sequence data. Results: The Insect Mitochondrial Genome Database (IMGD) is a newintegrated platform that archives the mitochondrial genome sequences from 25,747 hexapod species, including 112 completely sequenced and 20 nearly completed genomes and 113,985 partially sequenced mitochondrial genomes. The Species-driven User Interface (SUI) of IMGD supports data retrieval and diverse analyses at multi-taxon levels. The Phyloviewer implemented in IMGD provides three methods for drawing phylogenetic trees and displays the resulting trees on the web. The SNP database incorporated to IMGD presents the distribution of SNPs and INDELs in the mitochondrial genomes of multiple isolates within eight species. A newly developed comparative SNU Genome Browser supports the graphical presentation and interactive interface for the identified SNPs/INDELs. Conclusion: The IMGD provides a solid foundation for the comparative mitochondrial genomics and phylogenetics of insects.

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