ITS2 Database statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

ITS2 Database specifications

Information


Unique identifier OMICS_21091
Name ITS2 Database
Alternative name Internal Transcribed Spacer 2 Database
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes

Maintainers


  • person_outline Jörg Schultz
  • person_outline Matthias Wolf

Publications for Internal Transcribed Spacer 2 Database

ITS2 Database citations

 (41)
library_books

A new diatom species P. hallegraeffii sp. nov. belonging to the toxic genus Pseudo nitzschia (Bacillariophyceae) from the East Australian Current

2018
PLoS One
PMCID: 5896966
PMID: 29649303
DOI: 10.1371/journal.pone.0195622

[…] region from P. hallegraeffii strains were predicted using Mfold using the default parameters []. RNA transcript folding of ITS2 for the two Pseudo-nitzschia strains in this study was predicted by the ITS2 Database V using default settings (http://its2.bioapps.biozentrum.uni-wuerzburg.de/) with ITS2 PAM50 matrix chosen and the percentage of transfer helices at 75% similarity selected []. Structures […]

library_books

Molecular thresholds of ITS2 and their implications for molecular evolution and species identification in seed plants

2017
Sci Rep
PMCID: 5725418
PMID: 29229945
DOI: 10.1038/s41598-017-17695-2

[…] The ITS2 region was delimited based on the GenBank annotation or the ITS2 database web server (http://its2.bioapps.biozentrum.uni-wuerzburg.de.). The sequences of each genus were separately aligned with Clustal X and adjusted manually using BioEdit 7.0.5. The NJ tree r […]

call_split

Characterization of Scenedesmus obtusiusculus AT UAM for high energy molecules accumulation: deeper insight into biotechnological potential of strains of the same species

2017
PMCID: 5730379
PMID: 29276696
DOI: 10.1016/j.btre.2017.11.009
call_split See protocol

[…] d by Geneious program using the Jukes-Cantor model with 10,000 repetitions and the Neighbor-joining method. ITS sequence-structure analyses were carried out according to Schultz and Wolf [] using the ITS2 Database (http://its2.bioapps.biozentrum.uni-wuerzburg.de). A BLAST search in the web interface of the ITS2 database was performed to identify sequence-structure pairs []. Global multiple sequenc […]

call_split

Population genetic structure of the land snail Camaena cicatricosa (Stylommatophora, Camaenidae) in China inferred from mitochondrial genes and ITS2 sequences

2017
Sci Rep
PMCID: 5688059
PMID: 29142227
DOI: 10.1038/s41598-017-15758-y
call_split See protocol

[…] ugh 1.2% agarose gel electrophoresis.After sequencing, the raw sequences were proof-read in chromatograms and aligned into contigs using BioEdit 7.2. ITS2 sequences were annotated using HMMer and the ITS2 Database. The alignment of mitochondrial protein-coding genes was inferred from the amino acid alignment and examined for the presence of stop codons and other indicators. Sequence alignments wer […]

library_books

Chloropicophyceae, a new class of picophytoplanktonic prasinophytes

2017
Sci Rep
PMCID: 5656628
PMID: 29070840
DOI: 10.1038/s41598-017-12412-5

[…] obtained from the strains listed in Table . The ITS2 boundaries (5.8 and 28S rRNA flanking regions) were annotated using Hidden Markov Models (HMMs) and a Viridiplantae database as implemented in the ITS2 database annotation tool with the default parameters (http://its2.bioapps.biozentrum.uni-wuerzburg.de/). The partial B9 helix formed by the hybridization of 5.8 and 28S rRNA ITS2 flanking regions […]

library_books

Assessing intragenomic variation of the internal transcribed spacer two: Adapting the Illumina metagenomics protocol

2017
PLoS One
PMCID: 5515447
PMID: 28719667
DOI: 10.1371/journal.pone.0181491

[…] ence data from Gungnir neglectum and Chlamydomonas applanata [] were used to root the trees. Secondary structure for each haplotype sequence was determined by homology-modeling using the tools in the ITS2 Database V [–], in which a published XFASTA file [, ], corresponding to each isolate group, served as the template. Final alignment for ITS2 sequence-structure analysis was completed using 4Sale […]

Citations

Looking to check out a full list of citations?

ITS2 Database institution(s)
Department of Bioinformatics, Biocenter, University of Wurzburg, Wuerzburg, Germany
ITS2 Database funding source(s)
Supported by Deutsche Forschungsgemeinschaft (DFG) (grant Mu- 2831/1-1); BIGSS graduate school; Bundesministerium fur Bildung und Forschung (BMBF) (grant FUNCRYPTA).

ITS2 Database reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review ITS2 Database