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Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-25733
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dc.contributor.authorYoung, Diana-
dc.contributor.authorJoshi, Akshay-
dc.contributor.authorHuang, Liren-
dc.contributor.authorMunk, Bernhard-
dc.contributor.authorWurzbacher, Christian-
dc.contributor.authorYoussef, Noha H-
dc.contributor.authorElshahed, Mostafa S-
dc.contributor.authorMoon, Christina D-
dc.contributor.authorOchsenreither, Katrin-
dc.contributor.authorGriffith, Gareth W-
dc.contributor.authorCallaghan, Tony M-
dc.contributor.authorSczyrba, Alexander-
dc.contributor.authorLebuhn, Michael-
dc.contributor.authorFlad, Veronika-
dc.date.accessioned2022-09-30T14:39:59Z-
dc.date.available2022-09-30T14:39:59Z-
dc.date.issued2022-
dc.identifier.issn2076-2607de_CH
dc.identifier.urihttps://digitalcollection.zhaw.ch/handle/11475/25733-
dc.description.abstractAnaerobic fungi from the herbivore digestive tract (Neocallimastigomycetes) are primary lignocellulose modifiers and hold promise for biotechnological applications. Their molecular detection is currently difficult due to the non-specificity of published primer pairs, which impairs evolutionary and ecological research with environmental samples. We developed and validated a Neocallimastigomycetes-specific PCR primer pair targeting the D2 region of the ribosomal large subunit suitable for screening, quantifying, and sequencing. We evaluated this primer pair in silico on sequences from all known genera, in vitro with pure cultures covering 16 of the 20 known genera, and on environmental samples with highly diverse microbiomes. The amplified region allowed phylogenetic differentiation of all known genera and most species. The amplicon is about 350 bp long, suitable for short-read high-throughput sequencing as well as qPCR assays. Sequencing of herbivore fecal samples verified the specificity of the primer pair and recovered highly diverse and so far unknown anaerobic gut fungal taxa. As the chosen barcoding region can be easily aligned and is taxonomically informative, the sequences can be used for classification and phylogenetic inferences. Several new Neocallimastigomycetes clades were obtained, some of which represent putative novel lineages such as a clade from feces of the rodent Dolichotis patagonum (mara).de_CH
dc.language.isoende_CH
dc.publisherMDPIde_CH
dc.relation.ispartofMicroorganismsde_CH
dc.rightshttps://creativecommons.org/licenses/by/4.0/de_CH
dc.subjectNeocallimastigomycetesde_CH
dc.subjectQuantitative Real-Time PCRde_CH
dc.subjectAnaerobic gut fungide_CH
dc.subjectBarcodingde_CH
dc.subjectEnvironmental screeningde_CH
dc.subjectHigh-throughput sequencingde_CH
dc.subjectLarge ribosomal subunitde_CH
dc.subjectPhylogenetic analysisde_CH
dc.subject.ddc660.6: Biotechnologiede_CH
dc.titleSimultaneous metabarcoding and quantification of neocallimastigomycetes from environmental samples : insights into community composition and novel lineagesde_CH
dc.typeBeitrag in wissenschaftlicher Zeitschriftde_CH
dcterms.typeTextde_CH
zhaw.departementLife Sciences und Facility Managementde_CH
zhaw.organisationalunitInstitut für Chemie und Biotechnologie (ICBT)de_CH
dc.identifier.doi10.3390/microorganisms10091749de_CH
dc.identifier.doi10.21256/zhaw-25733-
dc.identifier.pmid36144352de_CH
zhaw.funding.euNode_CH
zhaw.issue9de_CH
zhaw.originated.zhawYesde_CH
zhaw.pages.start1749de_CH
zhaw.publication.statuspublishedVersionde_CH
zhaw.volume10de_CH
zhaw.publication.reviewPeer review (Publikation)de_CH
zhaw.webfeedUmweltbiotechnologie und Bioenergiede_CH
zhaw.funding.zhawEntfesselung des versteckten Potentials anaerober Pilze (Neocallimastigomycota)de_CH
zhaw.author.additionalYesde_CH
zhaw.display.portraitYesde_CH
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Young, D., Joshi, A., Huang, L., Munk, B., Wurzbacher, C., Youssef, N. H., Elshahed, M. S., Moon, C. D., Ochsenreither, K., Griffith, G. W., Callaghan, T. M., Sczyrba, A., Lebuhn, M., & Flad, V. (2022). Simultaneous metabarcoding and quantification of neocallimastigomycetes from environmental samples : insights into community composition and novel lineages. Microorganisms, 10(9), 1749. https://doi.org/10.3390/microorganisms10091749
Young, D. et al. (2022) ‘Simultaneous metabarcoding and quantification of neocallimastigomycetes from environmental samples : insights into community composition and novel lineages’, Microorganisms, 10(9), p. 1749. Available at: https://doi.org/10.3390/microorganisms10091749.
D. Young et al., “Simultaneous metabarcoding and quantification of neocallimastigomycetes from environmental samples : insights into community composition and novel lineages,” Microorganisms, vol. 10, no. 9, p. 1749, 2022, doi: 10.3390/microorganisms10091749.
YOUNG, Diana, Akshay JOSHI, Liren HUANG, Bernhard MUNK, Christian WURZBACHER, Noha H YOUSSEF, Mostafa S ELSHAHED, Christina D MOON, Katrin OCHSENREITHER, Gareth W GRIFFITH, Tony M CALLAGHAN, Alexander SCZYRBA, Michael LEBUHN und Veronika FLAD, 2022. Simultaneous metabarcoding and quantification of neocallimastigomycetes from environmental samples : insights into community composition and novel lineages. Microorganisms. 2022. Bd. 10, Nr. 9, S. 1749. DOI 10.3390/microorganisms10091749
Young, Diana, Akshay Joshi, Liren Huang, Bernhard Munk, Christian Wurzbacher, Noha H Youssef, Mostafa S Elshahed, et al. 2022. “Simultaneous Metabarcoding and Quantification of Neocallimastigomycetes from Environmental Samples : Insights into Community Composition and Novel Lineages.” Microorganisms 10 (9): 1749. https://doi.org/10.3390/microorganisms10091749.
Young, Diana, et al. “Simultaneous Metabarcoding and Quantification of Neocallimastigomycetes from Environmental Samples : Insights into Community Composition and Novel Lineages.” Microorganisms, vol. 10, no. 9, 2022, p. 1749, https://doi.org/10.3390/microorganisms10091749.


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