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Article

Full-Length SSU rRNA Gene Sequencing Allows Species-Level Detection of Bacteria, Archaea, and Yeasts Present in Milk

1
Core Facility Microbiome, ZIEL—Institute for Food & Health, Technische Universität München, 85354 Freising, Germany
2
Chair of Microbial Ecology, ZIEL—Institute for Food & Health, Technische Universität München, 85354 Freising, Germany
3
Bayerisches Landesamt für Gesundheit und Lebensmittelsicherheit LGL, 85764 Oberschleißheim, Germany
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Academic Editor: Chao-Nan Lin
Microorganisms 2021, 9(6), 1251; https://doi.org/10.3390/microorganisms9061251
Received: 17 May 2021 / Revised: 4 June 2021 / Accepted: 5 June 2021 / Published: 9 June 2021
(This article belongs to the Topic Veterinary Infectious Diseases)
Full-length SSU rRNA gene sequencing allows species-level identification of the microorganisms present in milk samples. Here, we used bulk-tank raw milk samples of two German dairies and detected, using this method, a great diversity of bacteria, archaea, and yeasts within the samples. Moreover, the species-level classification was improved in comparison to short amplicon sequencing. Therefore, we anticipate that this approach might be useful for the detection of possible mastitis-causing species, as well as for the control of spoilage-associated microorganisms. In a proof of concept, we showed that we were able to identify several putative mastitis-causing or mastitis-associated species such as Streptococcusuberis, Streptococcusagalactiae, Streptococcusdysgalactiae, Escherichiacoli and Staphylococcusaureus, as well as several Candida species. Overall, the presented full-length approach for the sequencing of SSU rRNA is easy to conduct, able to be standardized, and allows the screening of microorganisms in labs with Illumina sequencing machines. View Full-Text
Keywords: full-length sequencing; SSU rRNA gene sequencing; milk microbiota; LoopSeq full-length sequencing; SSU rRNA gene sequencing; milk microbiota; LoopSeq
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MDPI and ACS Style

Abellan-Schneyder, I.; Siebert, A.; Hofmann, K.; Wenning, M.; Neuhaus, K. Full-Length SSU rRNA Gene Sequencing Allows Species-Level Detection of Bacteria, Archaea, and Yeasts Present in Milk. Microorganisms 2021, 9, 1251. https://doi.org/10.3390/microorganisms9061251

AMA Style

Abellan-Schneyder I, Siebert A, Hofmann K, Wenning M, Neuhaus K. Full-Length SSU rRNA Gene Sequencing Allows Species-Level Detection of Bacteria, Archaea, and Yeasts Present in Milk. Microorganisms. 2021; 9(6):1251. https://doi.org/10.3390/microorganisms9061251

Chicago/Turabian Style

Abellan-Schneyder, Isabel, Annemarie Siebert, Katharina Hofmann, Mareike Wenning, and Klaus Neuhaus. 2021. "Full-Length SSU rRNA Gene Sequencing Allows Species-Level Detection of Bacteria, Archaea, and Yeasts Present in Milk" Microorganisms 9, no. 6: 1251. https://doi.org/10.3390/microorganisms9061251

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