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Number of citations per year for the bioinformatics software tool OGDRAW
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Protocols

OGDRAW specifications

Information


Unique identifier OMICS_06235
Name OGDRAW
Alternative name OrganellarGenomeDraw
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Information


Unique identifier OMICS_06235
Name OGDRAW
Alternative name OrganellarGenomeDraw
Interface Web user interface
Restrictions to use None
Programming languages Perl
Computer skills Basic
Stability Stable
Maintained Yes

Publication for OrganellarGenomeDraw

OGDRAW citations

 (216)
library_books

Re exploration of U’s Triangle Brassica Species Based on Chloroplast Genomes and 45S nrDNA Sequences

2018
Sci Rep
PMCID: 5943242
PMID: 29743507
DOI: 10.1038/s41598-018-25585-4

[…] information from the close relative A. thaliana. The complete structure of tRNA genes was validated using tRNAscan-SE v1.2.1. The systematic circular view of the chloroplast genome was created using OGDRAW and in-house customized perl script. Comparative syntenic maps were generated using circos following the BlastZ annotation. A chloroplast-based browser was developed for systematic analysis of […]

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

[…] [] and Rfam cmscan v1.1 []. Several important genes and ambiguous sequences were re-confirmed with 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 s […]

library_books

The Complete Plastome Sequences of Seven Species in Gentiana sect. Kudoa (Gentianaceae): Insights Into Plastid Gene Loss and Molecular Evolution

2018
Front Plant Sci
PMCID: 5938401
PMID: 29765380
DOI: 10.3389/fpls.2018.00493

[…] or intron/exon junctions of the PCGs, were manually corrected using a BLAST search against reported cp genomes of other closely related species. The cp gene maps of the seven species were drawn using OGDraw V. 1.2 (). […]

call_split

The chloroplast genome of Cerasus humilis: Genomic characterization and phylogenetic analysis

2018
PLoS One
PMCID: 5919044
PMID: 29694421
DOI: 10.1371/journal.pone.0196473
call_split See protocol

[…] iu et al [] (http://www.herbalgenomics.org/0506/cpgavas/analyzer/annotate). TRNAscan-SE was used in tRNA confirmation []; http://lowelab.ucsc.edu/tRNAscan-SE/). Genomic circle graphs were drawn using OGDRAW [] (http://ogdraw.mpimp-golm.mpg.de/). The complete C. humilis chloroplast genome was submitted to GenBank, as Accession Number MF405921. […]

library_books

The chloroplast genome sequence of bittersweet (Solanum dulcamara): Plastid genome structure evolution in Solanaceae

2018
PLoS One
PMCID: 5919006
PMID: 29694416
DOI: 10.1371/journal.pone.0196069

[…] s manually and by comparison to RNA-seq data. For each gene we inspected gene length based on amino acid translations and reconfirmed any internal stop codons. The resulting genome map was drawn with OGDraw v.1.2 []. The annotated bittersweet plastid genome was further used as a reference to revise all Solanaceae plastid genomes (deposited by 16.8.2016). Reannotation followed the two-step protocol […]

library_books

The Gastrodia elata genome provides insights into plant adaptation to heterotrophy

2018
Nat Commun
PMCID: 5915607
PMID: 29691383
DOI: 10.1038/s41467-018-03423-5

[…] f for tRNAs; the GENEIOUS annotation tool was used to determine the plastomes of C. triplicata and Oncidium Gower Ramsey (GenBank ID: NC_014056.1) as references. Linear plastome maps were drawn using OGDRAW. […]


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OGDRAW institution(s)
Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany

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