Secondary structure prediction of ITS rRNA region and molecular phylogeny: an integrated approach for the precise speciation of Muscodor species

No abstract is available for this paper.

• Publication year

  2018

• Venue

  Annals of Microbiology

• Publication date

  2018-09-29

• Fields of study

  Biology, Environmental Science

• Identifiers
  DOI 10.1007/s13213-018-1381-8
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

• No claims are published for this paper.

• No concepts are published for this paper.

• Mycofumigation through production of the volatile DNA-methylating agent N-methyl-N-nitrosoisobutyramide by fungi in the genus Muscodor

  2017cited by this paper
• Bioprospecting—fuels from fungi

  2015influential reference
• Muscodor tigerii sp. nov.-Volatile antibiotic producing endophytic fungus from the Northeastern Himalayas

  2014cited by this paper
• ITS1, 5.8S and ITS2 secondary structure modelling for intra-specific differentiation among species of the Colletotrichum gloeosporioides sensu lato species complex

  2014cited by this paper
• Internal Transcribed Spacer 1 Secondary Structure Analysis Reveals a Common Core throughout the Anaerobic Fungi (Neocallimastigomycota)

  2014cited by this paper
• Evaluation of the authenticity of a highly novel environmental sequence from boreal forest soil using ribosomal RNA secondary structure modeling.

  2013cited by this paper
• Molecular and morphological evidence support four new species in the genus Muscodor from northern Thailand

  2013cited by this paper
• Species of Lasiodiplodia associated with mango in Brazil

  2013cited by this paper
• In This Issue

  2012cited by this paper
• Phylogenetic diversity of insecticolous fusaria inferred from multilocus DNA sequence data and their molecular identification via FUSARIUM-ID and Fusarium MLST

  2012cited by this paper
• Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

  2012cited by this paper
• LocARNA-P: accurate boundary prediction and improved detection of structural RNAs.

  2012cited by this paper
• Phylogeny of Oedogoniales, Chaetophorales and Chaetopeltidales (Chlorophyceae): inferences from sequence-structure analysis of ITS2.

  2012cited by this paper
• Nucleotide polymorphism in the 5.8S nrDNA gene and internal transcribed spacers in Phakopsora pachyrhizi viewed from structural models.

  2012cited by this paper
• Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences.

  2012cited by this paper
• UCHIME improves sensitivity and speed of chimera detection

  2011cited by this paper
• Distinctive endophytic fungal assemblage in stems of wild rice (Oryza granulata) in China with special reference to two species of Muscodor (xylariaceae)

  2011cited by this paper
• MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.

  2011cited by this paper
• Molecular phylogeny and RNA secondary structure of Fusarium species with different lifestyles

  2011cited by this paper
• Secondary structure models for the internal transcribed spacer (ITS) region 1 from symbiotic dinoflagellates.

  2010cited by this paper
• An open source chimera checker for the fungal ITS region

  2010cited by this paper
• Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees

  2010cited by this paper
• Freiburg RNA Tools: a web server integrating IntaRNA, ExpaRNA and LocARNA

  2010cited by this paper
• The impact of rRNA secondary structure consideration in alignment and tree reconstruction: simulated data and a case study on the phylogeny of hexapods.

  2010cited by this paper
• Evolution of rDNA ITS1 and ITS2 sequences and RNA secondary structures within members of the fungal genera Grosmannia and Leptographium.

  2009cited by this paper
• ITS2 sequence-structure analysis in phylogenetics: a how-to manual for molecular systematics.

  2009cited by this paper
• Secondary structural modeling of the second internal transcribed spacer (ITS2) from Pfiesteria-like dinoflagellates (Dinophyceae).

  2009cited by this paper
• ITS2 secondary structure and phylogeny of cyst-forming nematodes of the genus Heterodera (Tylenchida: Heteroderidae)

  2008cited by this paper
• Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE

  2008cited by this paper
• ProfDistS: (profile-) distance based phylogeny on sequence - structure alignments

  2008cited by this paper
• The Vienna RNA Websuite

  2008cited by this paper
• 5.8S motifs for the identification of pseudogenic ITS regions

  2008cited by this paper
• Clustal W and Clustal X version 2.0

  2007influential reference
• Evolution of ITS Ribosomal RNA Secondary Structures in Fungal and Algal Symbionts of Selected Species of Cladonia sect. Cladonia (Cladoniaceae, Ascomycotina)

  2007cited by this paper
• Pan-eukaryote ITS 2 homologies revealed by RNA secondary structure

  2007cited by this paper
• STRUCTURE AND EVOLUTION OF THE RDNA INTERNAL TRANSCRIBED SPACER (ITS) REGION 2 IN THE SYMBIOTIC DINOFLAGELLATES (SYMBIODINIUM, DINOPHYTA) 1

  2007cited by this paper
• Pan-eukaryote ITS2 homologies revealed by RNA secondary structure

  2007cited by this paper
• 4SALE – A tool for synchronous RNA sequence and secondary structure alignment and editing

  2006cited by this paper
• Nuclear ribosomal DNA internal transcribed spacer 1 (ITS1) in Picea (Pinaceae): sequence divergence and structure.

  2005cited by this paper
• Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures.

  2005cited by this paper
• A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota.

  2005influential reference
• ProfDist: a tool for the construction of large phylogenetic trees based on profile distances

  2005cited by this paper
• Unusual compact rDNA gene arrangements within some members of the Ascomycota: evidence for molecular co-evolution between ITS1 and ITS2.

  2005cited by this paper
• Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.

  2004cited by this paper
• Secondary structure models of the nuclear internal transcribed spacer regions and 5.8S rRNA in Calciodinelloideae (Peridiniaceae) and other dinoflagellates.

  2004cited by this paper
• RNA Secondary Structure Analysis Using the Vienna RNA Package

  2003cited by this paper
• Secondary Structure of the ITS1 Transcript and its Application in a Reconstruction of the Phylogeny of Boraginales

  2001cited by this paper
• Conserved core structure in the internal transcribed spacer 1 of the Schizosaccharomyces pombe precursor ribosomal RNA.

  1998cited by this paper
• A Conserved Motif in the 5.8S Ribosomal RNA (rRNA) Gene is a Useful Diagnostic Marker for Plant Internal Transcribed Spacer (ITS) Sequences

  1997cited by this paper
• The neighbor-joining method: a new method for reconstructing phylogenetic trees.

  1987influential reference
• CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP

  1985cited by this paper

• Exploring unique sequence repeat patterns and secondary structures in rDNA internal transcribed spacers ITS1 and ITS2 for characterization of catfish species

  2024cites this paper
• Endophytic Fungal Diversity in Hardwickia binata: Bridging the Gap between Traditional and Modern Techniques

  2024cites this paper
• ITS2 secondary structure data improves authentication of Moringa oleifera tea products when using with DNA barcoding

  2023cites this paper
• Optimisation of the production of a selenium-enriched polysaccharide from Cordyceps cicadae S1 and its structure and antioxidant activity

  2022cites this paper
• Methods used for the study of endophytic fungi: a review on methodologies and challenges, and associated tips

  2022cites this paper
• Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study

  2021cites this paper
• Nucleotide composition bias of rDNA sequences as a source of phylogenetic artifacts in Basidiomycota—a case of a new lineage of a uredinicolous Ramularia-like anamorph with affinities to Ustilaginomycotina

  2021cites this paper