Intragenomic diversity of the V9 hypervariable domain in eukaryotes has little effect on metabarcoding
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60077344%3A_____%2F23%3A00575161" target="_blank" >RIV/60077344:_____/23:00575161 - isvavai.cz</a>
Alternative codes found
RIV/60076658:12310/23:43906683 RIV/61988987:17310/23:A2402MI2
Result on the web
<a href="https://www.sciencedirect.com/science/article/pii/S2589004223013688?via%3Dihub" target="_blank" >https://www.sciencedirect.com/science/article/pii/S2589004223013688?via%3Dihub</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1016/j.isci.2023.107291" target="_blank" >10.1016/j.isci.2023.107291</a>
Alternative languages
Result language
angličtina
Original language name
Intragenomic diversity of the V9 hypervariable domain in eukaryotes has little effect on metabarcoding
Original language description
Metabarcoding revolutionized our understanding of diversity and ecology of microorganisms in different habitats. However, it is also associated with several inherent biases, one of which is associated with intragenomic diversity of a molecular barcode. Here, we compare intragenomic variability of the V9 region of the 18S rRNA gene in 19 eukaryotic phyla abundant in marine plankton. The level of intragenomic variability is comparable across all the phyla, and in most genomes and transcriptomes one V9 sequence and one OTU is predominant. However, most of the variability observed at the barcode level is probably caused by sequencing errors and is mitigated by using a denoising tool, DADA2. The SWARM algorithm commonly used in metabarcoding studies is not optimal for collapsing genuine and erroneous sequences into a single OTU, leading to an overestimation of diversity in metabarcoding data. For an unknown reason, SWARM inflates diversity of eupelagonemids more than that of other eukaryotes.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10613 - Zoology
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2023
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
iScience
ISSN
2589-0042
e-ISSN
2589-0042
Volume of the periodical
26
Issue of the periodical within the volume
8
Country of publishing house
US - UNITED STATES
Number of pages
14
Pages from-to
107291
UT code for WoS article
001050845100001
EID of the result in the Scopus database
2-s2.0-85165896370