Quantifying L. helveticus Populations

To determine L. helveticus populations, the culture-independent method described by Moser et al. (2017b (link)) was performed. Briefly, an approximately 1,000-bp region of the slpH gene was amplified by PCR and the derived amplicons were fragmented by sonication. The fragments were barcoded using the Ion Xpress Barcode Adapter 1–16 kit (Thermo Fisher Scientific), and the barcoded libraries were sequenced on an Ion 316^TM chip and the Ion PGM Hi-Q View Sequencing kit on an Ion Torrent sequencer (Thermo Fisher Scientific). On each chip, 16 barcoded libraries were sequenced.

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Moser A., Schafroth K., Meile L., Egger L., Badertscher R, & Irmler S. (2018). Population Dynamics of Lactobacillus helveticus in Swiss Gruyère-Type Cheese Manufactured With Natural Whey Cultures. Frontiers in Microbiology, 9, 637.

Publication 2018

Ion Xpress Barcode Adapter 1–16 kit Ion PGM Hi-Q View Sequencing kit Ion Torrent sequencer

Chip Culture method Gene Populations

Corresponding Organization :

Other organizations : ETH Zurich, Agroscope

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Variable analysis

independent variables

PCR amplification of approximately 1,000-bp region of the slpH gene
Fragmentation of the derived amplicons by sonication
Barcoding of the fragments using the Ion Xpress Barcode Adapter 1–16 kit
Sequencing of the barcoded libraries on an Ion 316TM chip using the Ion PGM Hi-Q View Sequencing kit on an Ion Torrent sequencer

dependent variables

L. helveticus population

control variables

Number of barcoded libraries sequenced per Ion 316TM chip (16)

controls

No positive or negative controls were explicitly mentioned in the provided information.

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