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UniMoG specifications

Information


Unique identifier OMICS_24734
Name UniMoG
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some genomes.
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Source code URL https://bibiserv.cebitec.uni-bielefeld.de/applications/dcj/resources/downloads/UniMoG-Sources.zip
Maintained Yes

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Versioning


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Maintainer


  • person_outline Marilia Braga

Publication for UniMoG

UniMoG citations

 (7)
library_books

Plastid genome analysis of three Nemaliophycidae red algal species suggests environmental adaptation for iron limited habitats

2018
PLoS One
PMCID: 5940233
PMID: 29738547
DOI: 10.1371/journal.pone.0196995

[…] PCR amplification followed by Sanger sequencing. The annotated plastid genomes were visualized using OrganellarGenomeDraw v1.2 []. Comparative analysis of the genome structure was accomplished using UniMoG v1.0 [] and Mauve Genome Alignment v2.2.0 [, ] through the Geneious plug-in using the default setting []. […]

library_books

Large Diversity of Nonstandard Genes and Dynamic Evolution of Chloroplast Genomes in Siphonous Green Algae (Bryopsidales, Chlorophyta)

2018
Genome Biol Evol
PMCID: 5888179
PMID: 29635329
DOI: 10.1093/gbe/evy063

[…] e bryopsidalean phylogeny, the MGRA v.2 webserver was used (), using the phylogenomic topology and the collinear blocks generated with Mauve as inputs. Finally, the Double-cut-and-join (DCJ) model in UniMog () was used to calculate the number of rearrangements among the pairwise aligned sequences. […]

library_books

Plastid and mitochondrial genomes of Coccophora langsdorfii (Fucales, Phaeophyceae) and the utility of molecular markers

2017
PLoS One
PMCID: 5695614
PMID: 29095864
DOI: 10.1371/journal.pone.0187104

[…] or all plastid genomes. The ''backbone'' file produced by Mauve was used to compare synteny among the taxa using the R library genoPlotR []. Brown algal plastid genome distances were calculated using UniMoG []. For further analysis, only the double cut and join (DCJ) and Hannenhalli and Pevzner (HP) models were used, as their results were exactly identical to the restricted DJC and the inversion a […]

library_books

The Phylogeny of Rickettsia Using Different Evolutionary Signatures: How Tree Like is Bacterial Evolution?

2015
Syst Biol
PMCID: 4748751
PMID: 26559010
DOI: 10.1093/sysbio/syv084

[…] ore genes, we used only the completely assembled genomes (Supplementary Table S1). Inversions and translocations were identified by hand, or using the double cut and join metric of as implemented in UniMoG (). For the phylogenetic analysis of gene presence/absence, we treated truncated genes (see above) as absent, but all analyses were repeated with these genes scored as present.To identify “synt […]

library_books

The Complete Chloroplast and Mitochondrial Genomes of the Green Macroalga Ulva sp. UNA00071828 (Ulvophyceae, Chlorophyta)

2015
PLoS One
PMCID: 4388391
PMID: 25849557
DOI: 10.1371/journal.pone.0121020

[…] The double-cut-and-join (DCJ) [] genome distances were calculated with UniMoG [],[] to estimate the number of rearrangements between the selected genomes. The DCJ values were calculated with all genes, and a separate analysis was run without tRNAs ( and Tables). Genome […]

library_books

The chloroplast genomes of Bryopsis plumosa and Tydemania expeditiones (Bryopsidales, Chlorophyta): compact genomes and genes of bacterial origin

2015
BMC Genomics
PMCID: 4487195
PMID: 25879186
DOI: 10.1186/s12864-015-1418-3

[…] Mauve is a general-purpose genome aligner that identifies LCBs despite small rearrangements and reversals. Minimal histories of rearrangements among the pairwise aligned genomes were predicted using UniMoG [] under a double cut and join (DCJ) model [,], which allows for common rearrangement operations such as inversions, translocations, fusions, and fissions. […]

Citations

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UniMoG institution(s)
Technische Fakultät, Universität Bielefeld, Bielefeld, Germany

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