Cloning of ribosomal ITS PCR products creates frequent, non-random chimeric sequences – a test involving heterozygotes between Gymnopus dichrous taxa I and II

scientific article

Cloning of ribosomal ITS PCR products creates frequent, non-random chimeric sequences – a test involving heterozygotes between Gymnopus dichrous taxa I and II is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.3897/MYCOKEYS.10.5126
P5875ResearchGate publication ID281544443

P2093author name stringKaren W. Hughes
Ana Reboredo Segovia
Samuel D. Morris
P2860cites workFive simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequencesQ22002421
Mfold web server for nucleic acid folding and hybridization predictionQ24498105
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for FungiQ24630304
Bellerophon: a program to detect chimeric sequences in multiple sequence alignmentsQ28255554
ITS primers with enhanced specificity for basidiomycetes--application to the identification of mycorrhizae and rustsQ29547621
UCHIME improves sensitivity and speed of chimera detectionQ29547664
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR ampliconsQ29614292
Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus speciesQ29615354
DECIPHER, a search-based approach to chimera identification for 16S rRNA sequencesQ29959356
Does host plant richness explain diversity of ectomycorrhizal fungi? Re-evaluation of Gao et al. (2013) data sets reveals sampling effectsQ30728326
Heteroduplexes in mixed-template amplifications: formation, consequence and elimination by 'reconditioning PCR'Q30833779
Soil fungal communities underneath willow canopies on a primary successional glacier forefront: rDNA sequence results can be affected by primer selection and chimeric dataQ31077093
Fungal community analysis by large-scale sequencing of environmental samplesQ33223029
At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomaliesQ33228706
New screening software shows that most recent large 16S rRNA gene clone libraries contain chimerasQ33256604
Mining metadata from unidentified ITS sequences in GenBank: a case study in Inocybe (Basidiomycota).Q33320210
Evaluation of PCR-generated chimeras, mutations, and heteroduplexes with 16S rRNA gene-based cloningQ33988942
Secondary structure of ITS2 rRNA provides taxonomic characters for systematic studies--a case in Lycoperdaceae (Basidiomycota).Q34010467
Sample richness and genetic diversity as drivers of chimera formation in nSSU metagenetic analysesQ34141458
Template-switching during DNA synthesis byThermus aquaticusDNA polymerase IQ34755753
Towards a unified paradigm for sequence-based identification of fungiQ35013467
A Comprehensive, Automatically Updated Fungal ITS Sequence Dataset for Reference-Based Chimera Control in Environmental Sequencing EffortsQ35717703
Stimulation and suppression of PCR-mediated recombinationQ39723457
Ribosomal internal transcribed spacer 2 (ITS2) exhibits a common core of secondary structure in vertebrates and yeastQ39729638
DNA recombination during PCR.Q40515497
Using heterozygosity to estimate a percentage DNA sequence similarity for environmental species' delimitation across basidiomycete fungiQ48070292
Reducing chimera formation during PCR amplification to ensure accurate genotyping.Q54411775
An open source software package for automated extraction of ITS1 and ITS2 from fungal ITS sequences for use in high-throughput community assays and molecular ecologyQ57055871
Intragenomic variation in the ITS rDNA region obscures phylogenetic relationships and inflates estimates of operational taxonomic units in genus LaetiporusQ83356123
The basidiomycete genusPolyporus- an emendation based on phylogeny and putative secondary structure of ribosomal RNA moleculesQ99850839
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P921main subjectGymnopus dichrousQ55840136
P304page(s)45-56
P577publication date2015-06-19
P1433published inMycoKeysQ21386351
P1476titleCloning of ribosomal ITS PCR products creates frequent, non-random chimeric sequences – a test involving heterozygotes between Gymnopus dichrous taxa I and II
P478volume10

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cites work (P2860)
Q101217357Distribution and biogeography of Sanguina snow algae: Fine-scale sequence analyses reveal previously unknown population structure
Q39255552ITS all right mama: investigating the formation of chimeric sequences in the ITS2 region by DNA metabarcoding analyses of fungal mock communities of different complexities
Q24202826Top 50 most wanted fungi
Q111741050Taxonomic study of Collybiopsis (Omphalotaceae, Agaricales) in the Republic of Korea with seven new species

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