ITS2

Names
More detailed information about this field from each metasource.

ITS2
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

its2
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

Other names: its2

Predicted structures of internal transcribed spacer 2 (ITS2)

Webpage:

http://its2.bioapps.biozentrum.uni-wuerzburg.de/cgi-bin/index.pl?about

Publications:

Publications
More detailed information about this field from each metasource.

A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota
PMID: 15769870
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

The ITS2 Database III--sequences and structures for phylogeny
PMID: 19920122
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures
PMID: 16244129
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses
PMID: 16845103
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota PubMed citations: 96.

96 articles citing: A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota

Hyaloscypha gabretae and Hyaloscypha gryndleri spp. nov. (Hyaloscyphaceae, Helotiales), two new mycobionts colonizing conifer, ericaceous and orchid roots. PMID:35028741
Gut Mycobiota Dysbiosis in Pulmonary Tuberculosis Patients Undergoing Anti-Tuberculosis Treatment. PMID:34908436
Truffle species strongly shape their surrounding soil mycobiota in a Pinus armandii forest. PMID:34652507
Explicating genetic diversity based on ITS characterization and determination of antioxidant potential in sea buckthorn (Hippophae spp.). PMID:34387804
Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study. PMID:34222209
Compensatory Base Changes Reveal Sexual Incompatibility among Members of the Anopheles subpictus Sensu Lato (Diptera: Culicidae) Species Complex in Sri Lanka. PMID:33800295
Phylogenetic Utility of rRNA ITS2 Sequence-Structure under Functional Constraint. PMID:32899108
Graph Theory-Based Sequence Descriptors as Remote Homology Predictors. PMID:31878100
Adenine·cytosine substitutions are an alternative pathway of compensatory mutation in angiosperm ITS2. PMID:31748405
IT'S 2 for the price of 1: Multifaceted ITS2 processing machines in RNA and DNA maintenance. PMID:31324529
Alternative analyses of compensatory base changes in an ITS2 phylogeny of Corydalis (Papaveraceae). PMID:31152554
Molecular characterization of Hymenolepis nana based on nuclear rDNA ITS2 gene marker. PMID:31148960
Molecular Authentication of the Medicinal Species of Ligusticum (Ligustici Rhizoma et Radix, "Gao-ben") by Integrating Non-coding Internal Transcribed Spacer 2 (ITS2) and Its Secondary Structure. PMID:31024595
Internal transcribed spacer 2 (ITS2) molecular morphometric analysis based species delimitation of foliar endophytic fungi from Aglaia elaeagnoidea, Flacourtia inermis and Premna serratifolia. PMID:30964914
Taxonomic re-examination of "Chloromonas nivalis (Volvocales, Chlorophyceae) zygotes" from Japan and description of C. muramotoi sp. nov. PMID:30677063
Phylogenetic analysis of Uncaria species based on internal transcribed spacer (ITS) region and ITS2 secondary structure. PMID:30392423
Internal transcribed spacer 2 (ITS2) barcodes: A useful tool for identifying Chinese Zanthoxylum. PMID:30131899
Bipolar dispersal of red-snow algae. PMID:30082897
Ten reasons why a sequence-based nomenclature is not useful for fungi anytime soon. PMID:30018878
Birth-and-Death Evolution and Reticulation of ITS Segments of Metschnikowia andauensis and Metschnikowia fructicola rDNA Repeats. PMID:29946303
Assessing universality of DNA barcoding in geographically isolated selected desert medicinal species of Fabaceae and Poaceae. PMID:29576968
Taxonomic revision of Chloromonas nivalis (Volvocales, Chlorophyceae) strains, with the new description of two snow-inhabiting Chloromonas species. PMID:29570718
Phylogenetic classification and generic delineation of Calyptosphaeria gen. nov., Lentomitella, Spadicoides and Torrentispora (Sordariomycetes). PMID:29367793
New specific primers for amplification of the Internal Transcribed Spacer region in Clitellata (Annelida). PMID:29238565
Barcoding the Dendrobium (Orchidaceae) Species and Analysis of the Intragenomic Variation Based on the Internal Transcribed Spacer 2. PMID:29181391
Taxonomic identification of the thermotolerant and fast-growing fungus Lichtheimia ramosa H71D and biochemical characterization of the thermophilic xylanase LrXynA. PMID:29098440
Chloropicophyceae, a new class of picophytoplanktonic prasinophytes. PMID:29070840
Identification of Crocus sativus and its Adulterants from Chinese Markets by using DNA Barcoding Technique. PMID:28959279
Evaluation of ITS2 for intraspecific identification of Paeonia lactiflora cultivars. PMID:28765814
A new view on the morphology and phylogeny of eugregarines suggested by the evidence from the gregarine Ancora sagittata (Leuckart, 1860) Labbé, 1899 (Apicomplexa: Eugregarinida). PMID:28584702
Molecular phylogeny of Oncaeidae (Copepoda) using nuclear ribosomal internal transcribed spacer (ITS rDNA). PMID:28441395
Molecular phylogeny of 21 tropical bamboo species reconstructed by integrating non-coding internal transcribed spacer (ITS1 and 2) sequences and their consensus secondary structure. PMID:28439758
Secondary structure of nrDNA Internal Transcribed Spacers as a useful tool to align highly divergent species in phylogenetic studies. PMID:28199443
ITS2 secondary structure for species circumscription: case study in southern African Strychnos L. (Loganiaceae). PMID:27718041
Application of the Ribosomal DNA ITS2 Region of Physalis (Solanaceae): DNA Barcoding and Phylogenetic Study. PMID:27486467
Differential diagnosis and molecular characterization of Hymenolepis nana and Hymenolepis diminuta (Cestoda: Cyclophyllidea: Hymenolepididae) based on nuclear rDNA ITS2 gene marker. PMID:27473838
Utilizing ribosomal DNA gene marker regions to characterize the metacercariae (Trematoda: Digenea) parasitizing piscine intermediate hosts in Manipur, Northeast India. PMID:27413301
Molecular systematics of Barbatosphaeria (Sordariomycetes): multigene phylogeny and secondary ITS structure. PMID:26823626
Culture-Independent Study of the Late-Stage of a Bloom of the Toxic Dinoflagellate Ostreopsis cf. ovata: Preliminary Findings Suggest Genetic Differences at the Sub-Species Level and Allow ITS2 Structure Characterization. PMID:26134259
ITS2 Secondary Structure Improves Discrimination between Medicinal "Mu Tong" Species when Using DNA Barcoding. PMID:26132382
Phylogeny of anopheline (Diptera: Culicidae) species in southern Africa, based on nuclear and mitochondrial genes. PMID:26047180
ITS1, 5.8S and ITS2 secondary structure modelling for intra-specific differentiation among species of the Colletotrichum gloeosporioides sensu lato species complex. PMID:25512885
Molecular phylogenetics and systematics of the bivalve family Ostreidae based on rRNA sequence-structure models and multilocus species tree. PMID:25250663
DNA analyses of a private collection of microbial green algae contribute to a better understanding of microbial diversity. PMID:25182710
Phylogenetic reconstruction of endophytic fungal isolates using internal transcribed spacer 2 (ITS2) region. PMID:25097373
Mitochondrial and nuclear phylogenetic analysis with Sanger and next-generation sequencing shows that, in Área de Conservación Guanacaste, northwestern Costa Rica, the skipper butterfly named Urbanus belli (family Hesperiidae) comprises three morphologically cryptic species. PMID:25005355
Evolution of helix formation in the ribosomal Internal Transcribed Spacer 2 (ITS2) and its significance for RNA secondary structures. PMID:24908393
Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PMID:24883247
Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota). PMID:24663345
Secondary structure and phylogenetic utility of the ribosomal large subunit (28S) in monogeneans of the genus Thaparocleidus and Bifurcohaptor (Monogenea: Dactylogyridae). PMID:24431545
Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences--a proof of concept. PMID:23826120
Novel evolutionary lineages revealed in the Chaetothyriales (fungi) based on multigene phylogenetic analyses and comparison of its secondary structure. PMID:23723988
The short ITS2 sequence serves as an efficient taxonomic sequence tag in comparison with the full-length ITS. PMID:23484151
Structural characterization of the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) cluster in Calyptratae (Diptera: Schizophora) and its implications for molecular phylogenetic analyses. PMID:23420176
PCR-based molecular characterization, phylogenetic analysis and secondary structure of the 28S rDNA of Thaparocleidus wallagonius (Monogenea: Dactylogyridae) - the most primitive species of this genus from India. PMID:23139591
Pitfalls of establishing DNA barcoding systems in protists: the cryptophyceae as a test case. PMID:22970104
Molecular characterization of 'Bhut Jolokia' the hottest chilli. PMID:22922200
Genealogical analyses of multiple loci of litostomatean ciliates (Protista, Ciliophora, Litostomatea). PMID:22789763
Species identification of Rhododendron (Ericaceae) using the chloroplast deoxyribonucleic acid PsbA-trnH genetic marker. PMID:22438660
Application of deoxyribonucleic acid barcoding in Lauraceae plants. PMID:22438656
The ITS2 Database. PMID:22433429
Variation in number and formation of repeat sequences in the rDNA ITS2 region of five sibling species in the Anopheles barbirostris complex in Thailand. PMID:22233453
Evaluation of the internal transcribed spacer 2 (ITS2) as a molecular marker for phylogenetic inference using sequence and secondary structure information in blow flies (Diptera: Calliphoridae). PMID:22198224
Phylogenetic relationships in Myrceugenia (Myrtaceae) based on plastid and nuclear DNA sequences. PMID:22155422
An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference. PMID:22046320
Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2. PMID:22028463
A close-up view on ITS2 evolution and speciation - a case study in the Ulvophyceae (Chlorophyta, Viridiplantae). PMID:21933414
The ITS1-5.8S-ITS2 sequence region in the Musaceae: structure, diversity and use in molecular phylogeny. PMID:21445344
Identifying and searching for conserved RNA localisation signals. PMID:21431757
Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. PMID:21347329
A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data. PMID:21108782
Cryptic species of Euryakaina n. g. (Digenea: Cryptogonimidae) from sympatric lutjanids in the Indo-West Pacific. PMID:20960090
Use of ITS2 region as the universal DNA barcode for plants and animals. PMID:20957043
Folding and finding RNA secondary structure. PMID:20685845
Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PMID:20062805
ITS2 secondary structure improves phylogeny estimation in a radiation of blue butterflies of the subgenus Agrodiaetus (Lepidoptera: Lycaenidae: Polyommatus ). PMID:20035628
Phylogenetic reconstruction using secondary structures and sequence motifs of ITS2 rDNA of Paragonimus westermani (Kerbert, 1878) Braun, 1899 (Digenea: Paragonimidae) and related species. PMID:19958489
The ITS2 Database III--sequences and structures for phylogeny. PMID:19920122
Gynichthys diakidnus n. g., n. sp. (Digenea: Cryptogonimidae) from the grunt Plectorhinchus gibbosus (Lacépède, 1802) (Perciformes: Haemulidae) off the Great Barrier Reef, Australia. PMID:19731094
Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects. PMID:19626457
Evolutionary diversification indicated by compensatory base changes in ITS2 secondary structures in a complex fungal species, Rhizoctonia solani. PMID:19609478
Use of sequence motifs as barcodes and secondary structures of internal transcribed spacer 2 (ITS2, rDNA) for identification of the Indian liver fluke, Fasciola (Trematoda: Fasciolidae). PMID:19294000
An efficient genetic algorithm for structural RNA pairwise alignment and its application to non-coding RNA discovery in yeast. PMID:19061486
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. PMID:18854023
Molecular evolution and phylogenetic utility of the internal transcribed spacer 2 (ITS2) in Calyptratae (Diptera: Brachycera). PMID:18850061
Molecular identification of the Indian liver fluke, Fasciola (Trematoda: Fasciolidae) based on the ribosomal internal transcribed spacer regions. PMID:18696113
ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). PMID:18655698
The ITS2 Database II: homology modelling RNA structure for molecular systematics. PMID:17933769
Distinguishing species. PMID:17652131
Phylogenetic reconstruction using secondary structures of Internal Transcribed Spacer 2 (ITS2, rDNA): finding the molecular and morphological gap in Caribbean gorgonian corals. PMID:17562014
Pan-eukaryote ITS2 homologies revealed by RNA secondary structure. PMID:17459886
RNA localization signals: deciphering the message with bioinformatics. PMID:17452113
4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. PMID:17101042
XML schemas for common bioinformatic data types and their application in workflow systems. PMID:17087823
The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. PMID:16845103
Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. PMID:16244129
The ITS2 Database III--sequences and structures for phylogeny PubMed citations: 78.

78 articles citing: The ITS2 Database III--sequences and structures for phylogeny

Evolutionary dynamics of HIV-1 subtype C in Brazil. PMID:34845263
Bumble Bee Foraged Pollen Analyses in Spring Time in Southern Estonia Shows Abundant Food Sources. PMID:34680691
Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study. PMID:34222209
The role of internal transcribed spacer 2 secondary structures in classifying mycoparasitic Ampelomyces. PMID:34191835
Revealing the Characteristics of the Antarctic Snow Alga Chlorominima collina gen. et sp. nov. Through Taxonomy, Physiology, and Transcriptomics. PMID:34163502
ITS secondary structure reconstruction to resolve taxonomy and phylogeny of the Betula L. genus. PMID:33828907
Identification of Eukaryotic Microalgal Strains. PMID:33542589
Mycosynthesis of novel lactone in foliar endophytic fungus isolated from Bixa orellana L. PMID:33457167
Response of bacterial and fungal communities to high petroleum pollution in different soils. PMID:33420266
Descriptions of four new dextral land snails of the genus Camaena (Gastropoda, Eupulmonata, Camaenidae) from south China. PMID:33312045
Characterization of Chlorella sorokiniana and Chlorella vulgaris fatty acid components under a wide range of light intensity and growth temperature for their use as biological resources. PMID:32743091
Phylogenetic relationships of Pseudo-nitzschia subpacifica (Bacillariophyceae) from the Mexican Pacific, and its production of domoic acid in culture. PMID:32330168
Pediludiella daitoensis gen. et sp. nov. (Scenedesmaceae, Chlorophyceae), a large coccoid green alga isolated from a Loxodes ciliate. PMID:31959793
ITS2: An Ideal DNA Barcode for the Arid Medicinal Plant Rhazya Stricta. PMID:31933272
Optimisation and Benchmarking of Targeted Amplicon Sequencing for Mycobiome Analysis of Respiratory Specimens. PMID:31601001
Sanguina nivaloides and Sanguina aurantia gen. et spp. nov. (Chlorophyta): the taxonomy, phylogeny, biogeography and ecology of two newly recognised algae causing red and orange snow. PMID:31074825
Chloromonas nivalis subsp. tatrae, subsp. nov. (Chlamydomonadales, Chlorophyta): re-examination of a snow alga from the High Tatra Mountains (Slovakia). PMID:30976329
Ribosomal DNA internal transcribed spacer 2 sequence analysis and phylogenetic comparison of seven cockroach species in northwestern Iran. PMID:30674355
Bipolar dispersal of red-snow algae. PMID:30082897
Examination of novel Aureobasidium pullulans isolates dominating apple microflora and assessing their potential for apple juice spoilage. PMID:29998388
A mega-cryptic species complex hidden among one of the most common annelids in the North East Atlantic. PMID:29924805
Quality control of the traditional Chinese medicine Ruyi jinhuang powder based on high-throughput sequencing and real-time PCR. PMID:29844337
Identification of Three Kinds of Citri Reticulatae Pericarpium Based on Deoxyribonucleic Acid Barcoding and High-performance Liquid Chromatography-diode Array Detection-electrospray Ionization/Mass Spectrometry/Mass Spectrometry Combined with Chemometric Analysis. PMID:29576703
Population genetic structure of the land snail Camaena cicatricosa (Stylommatophora, Camaenidae) in China inferred from mitochondrial genes and ITS2 sequences. PMID:29142227
Molecular phylogeny of Anopheles hyrcanus group members based on ITS2 rDNA. PMID:28882174
Molecular Authentication of the Traditional Medicinal Plant "Lakshman Booti" (Smithia conferta Sm.) and Its Adulterants through DNA Barcoding. PMID:28808384
Aspergillus Secondary Metabolite Database, a resource to understand the Secondary metabolome of Aspergillus genus. PMID:28779078
Evaluation of ITS2 for intraspecific identification of Paeonia lactiflora cultivars. PMID:28765814
Molecular phylogeny of 21 tropical bamboo species reconstructed by integrating non-coding internal transcribed spacer (ITS1 and 2) sequences and their consensus secondary structure. PMID:28439758
Intraspecific Variation and Phylogenetic Relationships Are Revealed by ITS1 Secondary Structure Analysis and Single-Nucleotide Polymorphism in Ganoderma lucidum. PMID:28056060
Descriptions of two new species of the genus Camaena from Guangxi, China (Gastropoda, Stylommatophora, Camaenidae). PMID:27917048
ITS2 secondary structure for species circumscription: case study in southern African Strychnos L. (Loganiaceae). PMID:27718041
A Transcriptome-Targeting EcoChip for Assessing Functional Mycodiversity. PMID:27605333
DNA Barcoding Identification of Kadsurae Caulis and Spatholobi Caulis Based on Internal Transcribed Spacer 2 Region and Secondary Structure Prediction. PMID:27279702
Revision of sinistral land snails of the genus Camaena (Stylommatophora, Camaenidae) from China based on morphological and molecular data, with description of a new species from Guangxi, China. PMID:27199593
Genetic Characterization of Fasciola Isolates from West Azerbaijan Province Iran Based on ITS1 and ITS2 Sequence of Ribosomal DNA. PMID:27095969
DNA Barcoding Green Microalgae Isolated from Neotropical Inland Waters. PMID:26900844
Molecular systematics of Barbatosphaeria (Sordariomycetes): multigene phylogeny and secondary ITS structure. PMID:26823626
Negligible uptake and transfer of diet-derived pollen microRNAs in adult honey bees. PMID:26680555
Three New Species of Cyphellophora (Chaetothyriales) Associated with Sooty Blotch and Flyspeck. PMID:26398347
Identification of commercial Ganoderma (Lingzhi) species by ITS2 sequences. PMID:26300957
Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach. PMID:26194794
Tree diversity and species identity effects on soil fungi, protists and animals are context dependent. PMID:26172210
DNA barcodes for the identification of Anoectochilus roxburghii and its adulterants. PMID:26105653
Complementary amplicon-based genomic approaches for the study of fungal communities in humans. PMID:25706290
ITS1, 5.8S and ITS2 secondary structure modelling for intra-specific differentiation among species of the Colletotrichum gloeosporioides sensu lato species complex. PMID:25512885
Formal revision of the Alexandrium tamarense species complex (Dinophyceae) taxonomy: the introduction of five species with emphasis on molecular-based (rDNA) classification. PMID:25460230
New insights into the molecular phylogeny of Balantidium (Ciliophora, Vetibuliferida) based on the analysis of new sequences of species from fish hosts. PMID:25339517
Heligmosomoides neopolygyrus Asakawa & Ohbayashi, 1986, a cryptic Asian nematode infecting the striped field mouse Apodemus agrarius in Central Europe. PMID:25303901
Phylogenetic reconstruction of endophytic fungal isolates using internal transcribed spacer 2 (ITS2) region. PMID:25097373
Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PMID:24883247
CloVR-ITS: Automated internal transcribed spacer amplicon sequence analysis pipeline for the characterization of fungal microbiota. PMID:24451270
Analysis of mammalian rDNA internal transcribed spacers. PMID:24260162
Meeting report: fungal its workshop (october 2012). PMID:23961317
Exploring the adenylation domain repertoire of nonribosomal peptide synthetases using an ensemble of sequence-search methods. PMID:23874386
Stability and accuracy assessment of identification of traditional Chinese materia medica using DNA barcoding: a case study on Flos Lonicerae Japonicae. PMID:23862147
Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences--a proof of concept. PMID:23826120
Quantification of rice sheath blight progression caused by Rhizoctonia solani. PMID:23812819
Novel evolutionary lineages revealed in the Chaetothyriales (fungi) based on multigene phylogenetic analyses and comparison of its secondary structure. PMID:23723988
A multi-locus approach to barcoding in the Anopheles strodei subgroup (Diptera: Culicidae). PMID:23597081
Fungal community analysis by high-throughput sequencing of amplified markers--a user's guide. PMID:23534863
Structural characterization of the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) cluster in Calyptratae (Diptera: Schizophora) and its implications for molecular phylogenetic analyses. PMID:23420176
Extensive pyrosequencing reveals frequent intra-genomic variations of internal transcribed spacer regions of nuclear ribosomal DNA. PMID:22952830
Molecular characterization of 'Bhut Jolokia' the hottest chilli. PMID:22922200
Genealogical analyses of multiple loci of litostomatean ciliates (Protista, Ciliophora, Litostomatea). PMID:22789763
Molecular taxonomy of Dunaliella (Chlorophyceae), with a special focus on D. salina: ITS2 sequences revisited with an extensive geographical sampling. PMID:22520929
The ITS2 Database. PMID:22433429
Evaluation of the internal transcribed spacer 2 (ITS2) as a molecular marker for phylogenetic inference using sequence and secondary structure information in blow flies (Diptera: Calliphoridae). PMID:22198224
An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference. PMID:22046320
Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2. PMID:22028463
Discordance in variation of the ITS region and the mitochondrial COI gene in the subterranean amphipod Crangonyx islandicus. PMID:21814841
Barcoding a quantified food web: crypsis, concepts, ecology and hypotheses. PMID:21754977
Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. PMID:21347329
Cleaning up the 'Bigmessidae': molecular phylogeny of scleractinian corals from Faviidae, Merulinidae, Pectiniidae and Trachyphylliidae. PMID:21299898
Structure, function, and phylogeny of the mating locus in the Rhizopus oryzae complex. PMID:21151560
A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data. PMID:21108782
Cryptic species of Euryakaina n. g. (Digenea: Cryptogonimidae) from sympatric lutjanids in the Indo-West Pacific. PMID:20960090
Use of ITS2 region as the universal DNA barcode for plants and animals. PMID:20957043
Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures PubMed citations: 52.

52 articles citing: Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures

LaRA 2: parallel and vectorized program for sequence-structure alignment of RNA sequences. PMID:34991448
Efficacy of DNA barcode internal transcribed spacer 2 (ITS 2) in phylogenetic study of Alpinia species from Peninsular Malaysia. PMID:32943824
Phylogenetic Utility of rRNA ITS2 Sequence-Structure under Functional Constraint. PMID:32899108
Sexual reproduction and genetic polymorphism within the cosmopolitan marine diatom Pseudo-nitzschia pungens. PMID:32606343
Phylogenetic relationships of Pseudo-nitzschia subpacifica (Bacillariophyceae) from the Mexican Pacific, and its production of domoic acid in culture. PMID:32330168
Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approach. PMID:32054950
Deciphering species relationships and evolution in Chenopodium through sequence variations in nuclear internal transcribed spacer region and amplified fragment-length polymorphism in nuclear DNA. PMID:31204696
Birth-and-Death Evolution and Reticulation of ITS Segments of Metschnikowia andauensis and Metschnikowia fructicola rDNA Repeats. PMID:29946303
Taxonomic identification of the thermotolerant and fast-growing fungus Lichtheimia ramosa H71D and biochemical characterization of the thermophilic xylanase LrXynA. PMID:29098440
Assessing intragenomic variation of the internal transcribed spacer two: Adapting the Illumina metagenomics protocol. PMID:28719667
Molecular phylogeny of Oncaeidae (Copepoda) using nuclear ribosomal internal transcribed spacer (ITS rDNA). PMID:28441395
Molecular phylogeny of 21 tropical bamboo species reconstructed by integrating non-coding internal transcribed spacer (ITS1 and 2) sequences and their consensus secondary structure. PMID:28439758
ITS2 secondary structure for species circumscription: case study in southern African Strychnos L. (Loganiaceae). PMID:27718041
Utilizing ribosomal DNA gene marker regions to characterize the metacercariae (Trematoda: Digenea) parasitizing piscine intermediate hosts in Manipur, Northeast India. PMID:27413301
The Chemical and Genetic Characteristics of Szechuan Pepper (Zanthoxylum bungeanum and Z. armatum) Cultivars and Their Suitable Habitat. PMID:27148298
Diversity and Inheritance of Intergenic Spacer Sequences of 45S Ribosomal DNA among Accessions of Brassica oleracea L. var. capitata. PMID:26633391
Identification of Hippophae species (Shaji) through DNA barcodes. PMID:26468319
Culture-Independent Study of the Late-Stage of a Bloom of the Toxic Dinoflagellate Ostreopsis cf. ovata: Preliminary Findings Suggest Genetic Differences at the Sub-Species Level and Allow ITS2 Structure Characterization. PMID:26134259
Phylogeny of anopheline (Diptera: Culicidae) species in southern Africa, based on nuclear and mitochondrial genes. PMID:26047180
Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PMID:24883247
Deep-sequencing method for quantifying background abundances of symbiodinium types: exploring the rare symbiodinium biosphere in reef-building corals. PMID:24728373
Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota). PMID:24663345
Molecular characterization of the Indian poultry nodular tapeworm, Raillietina echinobothrida (Cestoda: Cyclophyllidea: Davaineidae) based on rDNA internal transcribed spacer 2 region. PMID:24505172
Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences--a proof of concept. PMID:23826120
Structural characterization of the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) cluster in Calyptratae (Diptera: Schizophora) and its implications for molecular phylogenetic analyses. PMID:23420176
Congruence of chloroplast- and nuclear-encoded DNA sequence variations used to assess species boundaries in the soil microalga Heterococcus (Stramenopiles, Xanthophyceae). PMID:23402662
Extensive pyrosequencing reveals frequent intra-genomic variations of internal transcribed spacer regions of nuclear ribosomal DNA. PMID:22952830
Molecular characterization of 'Bhut Jolokia' the hottest chilli. PMID:22922200
Genealogical analyses of multiple loci of litostomatean ciliates (Protista, Ciliophora, Litostomatea). PMID:22789763
Molecular taxonomy of Dunaliella (Chlorophyceae), with a special focus on D. salina: ITS2 sequences revisited with an extensive geographical sampling. PMID:22520929
The ITS2 Database. PMID:22433429
Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2. PMID:22028463
A close-up view on ITS2 evolution and speciation - a case study in the Ulvophyceae (Chlorophyta, Viridiplantae). PMID:21933414
The ITS1-5.8S-ITS2 sequence region in the Musaceae: structure, diversity and use in molecular phylogeny. PMID:21445344
Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. PMID:21347329
A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data. PMID:21108782
A PCR based SNPs marker for specific characterization of English walnut (Juglans regia L.) cultivars. PMID:20577817
Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. PMID:20078867
ITS2 secondary structure improves phylogeny estimation in a radiation of blue butterflies of the subgenus Agrodiaetus (Lepidoptera: Lycaenidae: Polyommatus ). PMID:20035628
Evolutionary diversification indicated by compensatory base changes in ITS2 secondary structures in a complex fungal species, Rhizoctonia solani. PMID:19609478
Ribosomal ITS sequences allow resolution of freshwater sponge phylogeny with alignments guided by secondary structure prediction. PMID:19009316
Molecular evolution and phylogenetic utility of the internal transcribed spacer 2 (ITS2) in Calyptratae (Diptera: Brachycera). PMID:18850061
ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). PMID:18655698
ConStruct: Improved construction of RNA consensus structures. PMID:18442401
Strategies for measuring evolutionary conservation of RNA secondary structures. PMID:18302738
The ITS2 Database II: homology modelling RNA structure for molecular systematics. PMID:17933769
Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization. PMID:17662141
Distinguishing species. PMID:17652131
Pan-eukaryote ITS2 homologies revealed by RNA secondary structure. PMID:17459886
4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. PMID:17101042
XML schemas for common bioinformatic data types and their application in workflow systems. PMID:17087823
The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. PMID:16845103
The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses PubMed citations: 47.

47 articles citing: The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses

Characterization of clopyralid resistance in lawn burweed (Soliva sessilis). PMID:34191837
Revealing the Characteristics of the Antarctic Snow Alga Chlorominima collina gen. et sp. nov. Through Taxonomy, Physiology, and Transcriptomics. PMID:34163502
Terrestrial Green Algae Show Higher Tolerance to Dehydration than Do Their Aquatic Sister-Species. PMID:33502573
Phylogenetic relationships of Pseudo-nitzschia subpacifica (Bacillariophyceae) from the Mexican Pacific, and its production of domoic acid in culture. PMID:32330168
Development of a DNA-Based Detection Method for Cocos Nucifera Using TaqMan™ Real-Time PCR. PMID:32178274
SEM and molecular approaches to identify Calicophoron clavula in Saudi Arabia. PMID:32174730
Phylogenetic analysis of Uncaria species based on internal transcribed spacer (ITS) region and ITS2 secondary structure. PMID:30392423
Identification of Three Kinds of Citri Reticulatae Pericarpium Based on Deoxyribonucleic Acid Barcoding and High-performance Liquid Chromatography-diode Array Detection-electrospray Ionization/Mass Spectrometry/Mass Spectrometry Combined with Chemometric Analysis. PMID:29576703
New specific primers for amplification of the Internal Transcribed Spacer region in Clitellata (Annelida). PMID:29238565
Barcoding the Dendrobium (Orchidaceae) Species and Analysis of the Intragenomic Variation Based on the Internal Transcribed Spacer 2. PMID:29181391
Evaluation of ITS2 for intraspecific identification of Paeonia lactiflora cultivars. PMID:28765814
ITS2 secondary structure for species circumscription: case study in southern African Strychnos L. (Loganiaceae). PMID:27718041
DNA Barcoding Identification of Kadsurae Caulis and Spatholobi Caulis Based on Internal Transcribed Spacer 2 Region and Secondary Structure Prediction. PMID:27279702
Molecular systematics of Barbatosphaeria (Sordariomycetes): multigene phylogeny and secondary ITS structure. PMID:26823626
Authentication of commercial processed Glehniae Radix (Beishashen) by DNA barcodes. PMID:26628908
Reassessment of morphological diagnostic characters and species boundaries requires taxonomical changes for the genus orthopyxis L. Agassiz, 1862 (campanulariidae, hydrozoa) and some related campanulariids. PMID:25723572
Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PMID:24883247
Insect barcode information system. PMID:24616562
Multiple ITS copies reveal extensive hybridization within Rheum (Polygonaceae), a genus that has undergone rapid radiation. PMID:24587023
Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences--a proof of concept. PMID:23826120
Novel evolutionary lineages revealed in the Chaetothyriales (fungi) based on multigene phylogenetic analyses and comparison of its secondary structure. PMID:23723988
Structural characterization of the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) cluster in Calyptratae (Diptera: Schizophora) and its implications for molecular phylogenetic analyses. PMID:23420176
Molecular characterization of 'Bhut Jolokia' the hottest chilli. PMID:22922200
Molecular taxonomy of Dunaliella (Chlorophyceae), with a special focus on D. salina: ITS2 sequences revisited with an extensive geographical sampling. PMID:22520929
Evaluation of the internal transcribed spacer 2 (ITS2) as a molecular marker for phylogenetic inference using sequence and secondary structure information in blow flies (Diptera: Calliphoridae). PMID:22198224
An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference. PMID:22046320
Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2. PMID:22028463
A close-up view on ITS2 evolution and speciation - a case study in the Ulvophyceae (Chlorophyta, Viridiplantae). PMID:21933414
Identifying and searching for conserved RNA localisation signals. PMID:21431757
Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. PMID:21347329
Variation in Symbiodinium ITS2 sequence assemblages among coral colonies. PMID:21246044
A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data. PMID:21108782
Use of ITS2 region as the universal DNA barcode for plants and animals. PMID:20957043
Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. PMID:20078867
ITS2 secondary structure improves phylogeny estimation in a radiation of blue butterflies of the subgenus Agrodiaetus (Lepidoptera: Lycaenidae: Polyommatus ). PMID:20035628
Generalist dinoflagellate endosymbionts and host genotype diversity detected from mesophotic (67-100 m depths) coral Leptoseris. PMID:19747389
Gynichthys diakidnus n. g., n. sp. (Digenea: Cryptogonimidae) from the grunt Plectorhinchus gibbosus (Lacépède, 1802) (Perciformes: Haemulidae) off the Great Barrier Reef, Australia. PMID:19731094
Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects. PMID:19626457
Evolutionary diversification indicated by compensatory base changes in ITS2 secondary structures in a complex fungal species, Rhizoctonia solani. PMID:19609478
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. PMID:18854023
ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). PMID:18655698
The ITS2 Database II: homology modelling RNA structure for molecular systematics. PMID:17933769
Distinguishing species. PMID:17652131
Pan-eukaryote ITS2 homologies revealed by RNA secondary structure. PMID:17459886
RNA localization signals: deciphering the message with bioinformatics. PMID:17452113
4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. PMID:17101042
XML schemas for common bioinformatic data types and their application in workflow systems. PMID:17087823

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rna sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

structure databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

nucleic acid structure
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

structure prediction
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

nucleic acid structure analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

rna
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

protein secondary structure
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:26.634110

rna sequence structure nucleic acid structure structure prediction nucleic acid structure analysis rna protein secondary structure

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Eukaryotic Ribosomal Internal Transcribed Spacer 1 Database

RNA Characterization of Secondary Structure Motifs

RNA FRABASE

Vir-Mir db

NNDB

RNA SSTRAND

Nucleic Acids Database

RNABPDB

RNA Bricks

RNAapt3D

InterRNA

SMMRNA

rPredictor

PTGL

Molecular Modeling Database

SCOR

Nucleic Acid Phylogenetic Profile

Voronoia4RNA

MINAS - A Database of Metal Ions in Nucleic AcidS

MolMovDB