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 language | English (US) |
|---|---|
| Article number | 148 |
| Journal | BMC genomics |
| Volume | 10 |
| DOIs | |
| State | Published - Apr 7 2009 |
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All Science Journal Classification (ASJC) codes
- Biotechnology
- Genetics
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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 journal › Article
TY - JOUR
T1 - IMGD
T2 - An integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes
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
Y1 - 2009/4/7
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.
AB - 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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UR - http://www.scopus.com/inward/citedby.url?scp=65649090614&partnerID=8YFLogxK
U2 - 10.1186/1471-2164-10-148
DO - 10.1186/1471-2164-10-148
M3 - Article
C2 - 19351385
AN - SCOPUS:65649090614
VL - 10
JO - BMC Genomics
JF - BMC Genomics
SN - 1471-2164
M1 - 148
ER -