Looking for hidden enemies of metabarcoding: Species composition, habitat and management can strongly influence DNA extraction while examining grassland communities

Despite the raising preoccupation, the critical question of how the plant community is composed belowground still remains unresolved, particularly for the conservation priority types of vegetation. The usefulness of metabarcoding analysis of the belowground parts of the plant community is subjected...

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Bibliographic Details
Published in:Biomolecules Vol. 11, № 2. P. 318 (1-19)
Other Authors: Rucińska, Anna, Olszak, Marcin, Świerszcz, Sebastian, Nobis, Marcin, Zubek, Szymon, Kusza, Grzegorz, Boczkowska, Maja, Nowak, Arkadiusz
Format: Article
Language:English
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Online Access:http://vital.lib.tsu.ru/vital/access/manager/Repository/koha:000895497
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245 1 0 |a Looking for hidden enemies of metabarcoding: Species composition, habitat and management can strongly influence DNA extraction while examining grassland communities  |c A. Rucińska, M. Olszak, S. Świerszcz [et al.] 
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520 3 |a Despite the raising preoccupation, the critical question of how the plant community is composed belowground still remains unresolved, particularly for the conservation priority types of vegetation. The usefulness of metabarcoding analysis of the belowground parts of the plant community is subjected to a considerable bias, that often impedes detection of all species in a sample due to insufficient DNA quality or quantity. In the presented study we have attempted to find environmental factors that determine the amount and quality of DNA extracted from total plant tissue from aboveand belowground samples (1000 and 10,000 cm2 ). We analyzed the influence of land use intensity, soil properties, species composition, and season on DNA extraction. The most important factors for DNA quality were vegetation type, soil conductometry (EC), and soil pH for the belowground samples. The species that significantly decreased the DNA quality were Calamagrostis epigejos, Coronilla varia, and Holcus lanatus. For the aboveground part of the vegetation, the season, management intensity, and certain species-with the most prominent being Centaurea rhenana and Cirsium canum-have the highest influence. Additionally, we found that sample size, soil granulation, MgO, organic C, K2O, and total soil N content are important for DNA extraction effectiveness. Both low EC and pH reduce significantly the yield and quality of DNA. Identifying the potential inhibitors of DNA isolation and predicting difficulties of sampling the vegetation plots for metabarcoding analysis will help to optimize the universal, low-cost multi-stage DNA extraction procedure in molecular ecology studies. 
653 |a ДНК 
653 |a злаковая растительность 
653 |a Центральная Европа 
653 |a корнеплоды 
653 |a пастбищные сообщества 
653 |a видовой состав 
653 |a среда обитания 
653 |a метабаркодирование 
655 4 |a статьи в журналах  |9 879358 
700 1 |a Rucińska, Anna  |9 806166 
700 1 |a Olszak, Marcin  |9 806168 
700 1 |a Świerszcz, Sebastian  |9 804792 
700 1 |a Nobis, Marcin  |9 100171 
700 1 |a Zubek, Szymon  |9 806170 
700 1 |a Kusza, Grzegorz  |9 806171 
700 1 |a Boczkowska, Maja  |9 806172 
700 1 |a Nowak, Arkadiusz  |9 150690 
773 0 |t Biomolecules  |d 2021  |g Vol. 11, № 2. P. 318 (1-19)  |x 2218-273X 
852 4 |a RU-ToGU 
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