Type

Journal Article

Authors

Finn K Vogensen
Douwe van Sinderen
Knut J Heller
Søren J Sørensen
Dennis S Nielsen
Lars H Hansen
Lukasz Krych
Josué L Castro-Mejía
Jennifer Mahony
Horst Neve
and 2 others

Subjects

Biology

Topics
high throughput rapid methods cost control community development control strategies molecular biology lactococcus lactis relative abundance

Metagenomic Analysis of Dairy Bacteriophages: Extraction Method and Pilot Study on Whey Samples Derived from Using Undefined and Defined Mesophilic Starter Cultures. (2017)

Abstract Despite their huge potential for characterizing the biodiversity of phages, metagenomic studies are currently not available for dairy bacteriophages, partly due to the lack of a standard procedure for phage extraction. We optimized an extraction method that allows to remove the bulk protein from whey and milk samples with losses of less than 50% of spiked phages. The protocol was applied to extract phages from whey in order to test the notion that members of Lactococcus (Lc.) lactis 936 (now Sk1virus), P335, c2 (now C2virus) and Leuconostoc phage groups are the most frequently encountered in the dairy environment. The relative abundance and diversity of phages in eight and four whey mixtures from dairies using undefined mesophilic mixed-strain DL-starter cultures and defined cultures, respectively, was assessed. Results obtained from transmission electron microscopy and high-throughput sequence analyses revealed the dominance of Lc. lactis 936 phages (order Caudovirales, family Siphoviridae) in dairies using undefined DL-starter cultures and Lc. lactis c2 phages (order Caudovirales, family Siphoviridae) in dairies using defined cultures. The 936 and Leuconostoc phages demonstrated limited diversity. Possible co-induction of temperate P335 prophages and satellite phages in one of the whey mixtures was also observed.Importance The method optimized in this study could provide an important basis for understanding the dynamics of the phage community (abundance, development, diversity, evolution, etc.) in dairies of different sizes, locations and production strategies. It may also enable the discovery of previously unknown phages, which is crucial for the development of rapid molecular biology-based methods for phage-burden surveillance systems. The dominance of only a few phage groups in the dairy environment signifies the depth of knowledge gained over the past decades, which served as the basis for designing current phage control strategies. The presence of correlation between phages and the type of starter cultures being used in dairies might help to improve the selection and/or design of suitable, custom and cost-efficient phage control strategies.
Collections Ireland -> University College Cork -> PubMed

Full list of authors on original publication

Finn K Vogensen, Douwe van Sinderen, Knut J Heller, Søren J Sørensen, Dennis S Nielsen, Lars H Hansen, Lukasz Krych, Josué L Castro-Mejía, Jennifer Mahony, Horst Neve and 2 others

Experts in our system

1
Douwe van Sinderen
University College Cork
Total Publications: 144
 
2
Knut J Heller
University College Cork
 
3
Jennifer Mahony
University College Cork
Total Publications: 87
 
4
Horst Neve
University College Cork
Total Publications: 41