Short communication: Milk microbiota profiling on water buffalo with full-length 16S rRNA using nanopore sequencing

Carlotta Catozzi*, Fabrizio Ceciliani, Cristina Lecchi, Andrea Talenti, Domenico Vecchio, Esterina De Carlo, Carlo Grassi, Armand Sánchez, Olga Francino, Anna Cuscó

*Corresponding author for this work

Research output: Contribution to journalArticleResearchpeer-review

1 Citation (Scopus)

Abstract

The identification of milk microbial communities in ruminants is relevant for understanding the association between milk microbiota and health status. The most common approach for studying the microbiota is amplifying and sequencing specific hypervariable regions of the 16S rRNA gene using massive sequencing techniques. However, the taxonomic resolution is limited to family and, in some cases, genus level. We aimed to improve taxonomic classification of the water buffalo milk microbiota by amplifying and sequencing the full-length 16S rRNA gene (1,500 bp) using Nanopore sequencing (single-molecule sequencing). When comparing with short-read results, we improved the taxonomic classification, reaching species level. We identified the main microbial agents of subclinical mastitis at the species level that were in accordance with the microbiological culture results. These results confirm the potential of single-molecule sequencing for in-depth analysis of microbial populations in dairy animals.

Original languageEnglish
Pages (from-to)2693-2700
Number of pages8
JournalJOURNAL OF DAIRY SCIENCE
Volume103
Issue number3
DOIs
Publication statusPublished - Mar 2020

Keywords

  • milk microbiota
  • nanopore sequencing
  • water buffalo

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