ITS2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics

scientific article published on August 2009

ITS2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

External links are
P356DOI10.1016/J.YMPEV.2009.01.008
P698PubMed publication ID19489124

P50authorJörg SchultzQ113487191
P2093author name stringMatthias Wolf
P2860cites workGenBankQ22065976
Gapped BLAST and PSI-BLAST: a new generation of protein database search programsQ24545170
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structureQ24562398
Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA foldingQ24563684
4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editingQ24671878
Ribosomal ITS sequences and plant phylogenetic inferenceQ29616340
WWW-query: an on-line retrieval system for biological sequence banksQ29617307
Resolution of phylogenetic conflict in large data sets by increased taxon samplingQ31049542
ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales).Q31165146
MARNA: multiple alignment and consensus structure prediction of RNAs based on sequence structure comparisons.Q33217668
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE.Q33375848
Modelling cross-hybridization on phylogenetic DNA microarrays increases the detection power of closely related speciesQ33896528
Increased taxon sampling is advantageous for phylogenetic inferenceQ34147941
ITS2 is a double-edged tool for eukaryote evolutionary comparisonsQ34212694
Better the devil you know? Guidelines for insightful utilization of nrDNA ITS in species-level evolutionary studies in plantsQ36769588
Is there a molecular key to the level of "biological species" in eukaryotes? A DNA guideQ37321129
The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analysesQ41816201
Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structuresQ41987599
Distinguishing speciesQ42216491
Exploring the phylogenetic utility of ITS sequences for animals: a test case for abalone (Haliotis).Q42516677
The ITS2 Database II: homology modelling RNA structure for molecular systematicsQ43032989
Using ITS2 secondary structure to create species-specific oligonucleotide probes for fungiQ43617142
ProfDistS: (profile-) distance based phylogeny on sequence--structure alignmentsQ46731521
5.8S-28S rRNA interaction and HMM-based ITS2 annotationQ48072223
Structural partitioning, paired-sites models and evolution of the ITS transcript in Syzygium and Myrtaceae.Q51930003
Fast folding and comparison of RNA secondary structuresQ56272105
Placozoa: at least twoQ56993704
The significance of a coincidence between evolutionary landmarks found in mating affinity and a DNA sequenceQ74005688
P433issue2
P921main subjectphylogeneticsQ171184
molecular phylogeneticsQ2007033
P304page(s)520-523
P577publication date2009-08-01
P1433published inMolecular Phylogenetics and EvolutionQ4248868
P1476titleITS2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics
P478volume52

Reverse relations

cites work (P2860)
Q36331326A Comprehensive NGS Data Analysis of Differentially Regulated miRNAs, piRNAs, lncRNAs and sn/snoRNAs in Triple Negative Breast Cancer
Q34024574A close-up view on ITS2 evolution and speciation - a case study in the Ulvophyceae (Chlorophyta, Viridiplantae).
Q91179939A consensus secondary structure of ITS2 for the diatom Order Cymatosirales (Mediophyceae, Bacillariophyta) and reappraisal of the order based on DNA, morphology, and reproduction
Q21202146A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data
Q52323520A new diatom species P. hallegraeffii sp. nov. belonging to the toxic genus Pseudo-nitzschia (Bacillariophyceae) from the East Australian Current
Q31059650A non-toxigenic but morphologically and phylogenetically distinct new species of Pseudo-nitzschia, P. sabit sp. nov. (Bacillariophyceae).
Q51157838An ITS-based phylogenetic framework for the genus Vorticella: finding the molecular and morphological gaps in a taxonomically difficult group.
Q28829836Application of the Ribosomal DNA ITS2 Region of Physalis (Solanaceae): DNA Barcoding and Phylogenetic Study
Q33960265Barcoding a quantified food web: crypsis, concepts, ecology and hypotheses.
Q42011075Biogeography and systematics of Aricia butterflies (Lepidoptera, Lycaenidae).
Q47110914Characterization of Scenedesmus obtusiusculus AT-UAM for high-energy molecules accumulation: deeper insight into biotechnological potential of strains of the same species.
Q33813959Cleaning up the 'Bigmessidae': molecular phylogeny of scleractinian corals from Faviidae, Merulinidae, Pectiniidae and Trachyphylliidae
Q34029458Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants
Q44850243Compensatory base changes illuminate morphologically difficult taxonomy
Q30537633Congruence of chloroplast- and nuclear-encoded DNA sequence variations used to assess species boundaries in the soil microalga Heterococcus (Stramenopiles, Xanthophyceae).
Q110444744Coronacoccus hengyangensis gen. et sp. nov., a new member of Chlorellaceae (Trebouxiophyceae, Chlorophyta) with radiococcacean morphology
Q89701802Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approach
Q88129361DNA barcoding mosquitoes: advice for potential prospectors
Q37674875Distinct population structure for co-occurring Anopheles goeldii and Anopheles triannulatus in Amazonian Brazil
Q111629187Efficiency of DNA barcodes for species delimitation: A case in Pterygiella Oliv. (Orobanchaceae)
Q54553071Establishing criteria for higher-level classification using molecular data: the systematics of Polyommatus blue butterflies (Lepidoptera, Lycaenidae)
Q44464106Evolutionary diversification indicated by compensatory base changes in ITS2 secondary structures in a complex fungal species, Rhizoctonia solani
Q28728161Extensive pyrosequencing reveals frequent intra-genomic variations of internal transcribed spacer regions of nuclear ribosomal DNA
Q35198785Gorgonia mariae and Antillogorgia bipinnata populations inferred from compensatory base change analysis of the internal transcribed spacer 2.
Q56761720Hawaiian ant–flower networks: nectar-thieving ants prefer undefended native over introduced plants with floral defenses
Q31114024High diversity of Pseudo-nitzschia along the northern coast of Sarawak (Malaysian Borneo), with descriptions of P. bipertita sp. nov. and P. limii sp. nov. (Bacillariophyceae).
Q41684379ITS1, 5.8S and ITS2 secondary structure modelling for intra-specific differentiation among species of the Colletotrichum gloeosporioides sensu lato species complex
Q38876213ITS2 Database V: Twice as Much
Q83515139ITS2 database IV: interactive taxon sampling for internal transcribed spacer 2 based phylogenies
Q33520829ITS2 secondary structure improves phylogeny estimation in a radiation of blue butterflies of the subgenus Agrodiaetus (Lepidoptera: Lycaenidae: Polyommatus ).
Q33650399Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees
Q64947197Integrative rDNAomics-Importance of the Oldest Repetitive Fraction of the Eukaryote Genome.
Q35129326Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota).
Q64064919Internal transcribed spacer 2 (ITS2) molecular morphometric analysis based species delimitation of foliar endophytic fungi from Aglaia elaeagnoidea, Flacourtia inermis and Premna serratifolia
Q33828548Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life
Q52989433Intra-specific differentiation of fungal endosymbiont Alternaria longissima CLB44 using RNA secondary structure analysis and their anti-infective potential.
Q46607585Molecular Characterization and Antimicrobial Activity of an Endolichenic Fungus, Aspergillus sp. Isolated from Parmelia caperata of Similipal Biosphere Reserve, India
Q36184192Molecular Identification of Dendrobium Species (Orchidaceae) Based on the DNA Barcode ITS2 Region and Its Application for Phylogenetic Study
Q92275877Molecular characterization of leaf spot fungi using internal transcribed spacer (ITS) based phylogenetic inference
Q35273238Molecular phylogenetics and systematics of the bivalve family Ostreidae based on rRNA sequence-structure models and multilocus species tree
Q44518031Molecular phylogenetics in 2D: ITS2 rRNA evolution and sequence-structure barcode from Veneridae to Bivalvia.
Q46537695Molecular phylogeny and species delimitation within the ciliate genus Spirostomum (Ciliophora, Postciliodesmatophora, Heterotrichea), using the internal transcribed spacer region.
Q33602599Molecular phylogeny of Oncaeidae (Copepoda) using nuclear ribosomal internal transcribed spacer (ITS rDNA).
Q55953022Molecular taxonomy in 2D: a novel ITS2 rRNA sequence-structure approach guides the description of the oysters' subfamily Saccostreinae and the genus Magallana (Bivalvia: Ostreidae)
Q34240823Molecular taxonomy of Dunaliella (Chlorophyceae), with a special focus on D. salina: ITS2 sequences revisited with an extensive geographical sampling
Q34990781Non-coding RNA gene families in the genomes of anopheline mosquitoes.
Q28608150Origin and higher-level diversification of acariform mites - evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment
Q41823053Phylogenetic reconstruction of endophytic fungal isolates using internal transcribed spacer 2 (ITS2) region
Q83911529Phylogenetic relationships among the Caribbean members of the Cliona viridis complex (Porifera, Demospongiae, Hadromerida) using nuclear and mitochondrial DNA sequences
Q46272746Phylogenic Diversity and Taxonomic Problems of the Dictyosphaerium Morphotype within the Parachlorella Clade (Chlorellaceae, Trebouxiophyceae).
Q35620752Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2
Q38380224Reinforcement and a cline in mating behaviour evolve in response to secondary contact and hybridization in shield-back katydids (Orthoptera: Tettigoniidae).
Q58048253Revisiting the taxonomic significance of aplanozygote morphologies of two cosmopolitan snow species of the genusChloromonas(Volvocales, Chlorophyceae)
Q56993646Ribosomal RNA phylogenetics: the third dimension
Q31064080SSU rRNA GENE PHYLOGENY OF MORPHOSPECIES AFFILIATED TO THE BIOASSAY ALGA "SELENASTRUM CAPRICORNUTUM" RECOVERED THE POLYPHYLETIC ORIGIN OF CRESCENT-SHAPED CHLOROPHYTA(1).
Q91914391Sanguina 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
Q42276553Seborrheic dermatitis: predisposing factors and ITS2 secondary structure for Malassezia phylogenic analysis
Q64230175Small Non-Coding RNAs Derived From Eukaryotic Ribosomal RNA
Q93033747Species identification of poisonous medicinal plant using DNA barcoding
Q42182023Stability and accuracy assessment of identification of traditional Chinese materia medica using DNA barcoding: a case study on Flos Lonicerae Japonicae
Q36922769Structural diversity of eukaryotic 18S rRNA and its impact on alignment and phylogenetic reconstruction
Q39884809TRUE IDENTITY OF THE EUROPEAN FRESHWATER ULVA (CHLOROPHYTA, ULVOPHYCEAE) REVEALED BY A COMBINED MOLECULAR AND MORPHOLOGICAL APPROACH(1).
Q61810763Taxonomic re-examination of "Chloromonas nivalis (Volvocales, Chlorophyceae) zygotes" from Japan and description of C. muramotoi sp. nov
Q52640440Taxonomic revision of Chloromonas nivalis (Volvocales, Chlorophyceae) strains, with the new description of two snow-inhabiting Chloromonas species.
Q42161153The ITS2 Database
Q42067439The ITS2 Database III--sequences and structures for phylogeny
Q51702416The analysis of rRNA sequence-structure in phylogenetics: An application to the family Pectinidae (Mollusca: Bivalvia).
Q24605439The atypical mechanosensitive microRNA-712 derived from pre-ribosomal RNA induces endothelial inflammation and atherosclerosis
Q110444756Two newDictyosphaerium-morphotype lineages of the Chlorellaceae (Trebouxiophyceae):Heynigiagen. nov. andHindakiagen. nov.
Q31064396UPDATING THE GENUS DICTYOSPHAERIUM AND DESCRIPTION OF MUCIDOSPHAERIUM GEN. NOV. (TREBOUXIOPHYCEAE) BASED ON MORPHOLOGICAL AND MOLECULAR DATA(1).
Q92658769Untangling a mess of worms: Species delimitations reveal morphological crypsis and variability in Southeast Asian semi-aquatic earthworms (Almidae, Glyphidrilus)
Q27318707Use of ITS2 Region as the Universal DNA Barcode for Plants and Animals
Q33523040Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species

Search more.