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PacBio sequencing of Glomeromycota rDNA: a novel amplicon covering all widely used ribosomal barcoding regions and its applicability in taxonomy and ecology of arbuscular mycorrhizal fungi
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SYSNO ASEP 0545683 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title PacBio sequencing of Glomeromycota rDNA: a novel amplicon covering all widely used ribosomal barcoding regions and its applicability in taxonomy and ecology of arbuscular mycorrhizal fungi Author(s) Kolaříková, Zuzana (BU-J) ORCID, RID
Slavíková, Renata (BU-J)
Krüger, Claudia (BU-J) ORCID
Krüger, Manuela (BU-J) ORCID
Kohout, Petr (BU-J) ORCIDSource Title New Phytologist - ISSN 0028-646X
Roč. 231, č. 1 (2021), s. 490-499Number of pages 10 s. Language eng - English Country GB - United Kingdom Keywords Archaeosporales ; long-read metabarcoding ; PacBio Subject RIV EF - Botanics OECD category Mycology R&D Projects GA17-03921S GA ČR - Czech Science Foundation (CSF) Method of publishing Limited access Institutional support BU-J - RVO:67985939 UT WOS 000645953600001 EID SCOPUS 85105234417 DOI 10.1111/nph.17372 Annotation Using a nested PCR approach specific to AMF, we amplified a part (c. 2.5 kb) of the rDNA spanning the majority of the small subunit rRNA (SSU) gene, the complete internal transcribed spacer (ITS) region and a part of the large subunit (LSU) rRNA gene. The PCR products were sequenced on the PacBio platform utilizing Single Molecule Real Time (SMRT) sequencing. Employing this method for selected environmental DNA samples, we were able to describe complex AMF communities consisting of various glomeromycotan lineages. We demonstrate the applicability of this new 2.5 kb approach to provide robust phylogenetic assignment of AMF lineages without known sequences from pure cultures and to consolidate information about AMF taxon distributions coming from three widely used barcoding regions into one integrative dataset. Workplace Institute of Botany Contact Martina Bartošová, martina.bartosova@ibot.cas.cz, ibot@ibot.cas.cz, Tel.: 271 015 242 ; Marie Jakšová, marie.jaksova@ibot.cas.cz, Tel.: 384 721 156-8 Year of Publishing 2022 Electronic address https://doi.org/10.1111/nph.17372
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