REAGENT or RESOURCE	SOURCE	IDENTIFIER
Bacterial strains
Lacticaseibacillus rhamnosus GG	Willem de Vos (Kankainen et al., 2009)	ATCC53103
Lactiplantibacillus plantarum WCFS1	Kleerebezem et al. (2003)	WCFS1
Lactiplantibacillus pentosus KCA1	Anukam et al. (2013)	KCA1
Lacticaseibacillus casei	American Type Culture Collection (ATCC)	ATCC334
Lacticaseibacillus casei shirota	Commercial probiotic product	N/A
Lacticaseibacillus casei DN-114001	Commercial probiotic product	DN-114001
Lactobacillus crispatus LMG12005	BCCM/LMG	LMG12005
Lactobacillus helveticus 1807	Commercial probiotic product	1807
Lacticaseibacillus paracasei LMG12586	BCCM/LMG	LMG12586
Lactiplantibacillus pentosus ATCC8041	BCCM/LMG	ATCC8041
Lactiplantibacillusplantarum ATCC8014	BCCM/LMG	ATCC8014
Lactiplantibacillusplantarum 5057	Yoon et. Al (2017)	5057
Limosilactobacillus reuteri RC14	ATCC	RC14
Lacticaseibacillus rhamnosus GR-1	Segers et al. (2014)	GR-1
Latilactobacillus sakei ATCC15521	ATCC	ATCC15521
Staphylococcus epidermidis ATCC12228	ATCC	ATCC12228
Cutibacterium acnes (previously known as Propionibacerium acnes)	ATCC	ATCC6919
Staphylococcus aureus	ATCC	ATCC29213
Biological samples
adult human skin swabs	University of Antwerp Universital Hospital Antwerp Allergisa, Brazil	N/A
Chemicals, peptides, and recombinant proteins
de Man, Rogosa and Sharpe (MRS)	Difco	BD288210
Mueller Hinton	LabM limited	LAB039-A
Reinforced clostridial broth	LabM Limited	LAB023
Tween 80 (polysorbate)	Carl Roth Belgium	9139.1
Keratinocyt Growth medium 2	Promocell	C-20111
2,3-Bis(2-methoxy-4-nitro-5-sulfophenyl)-2H-tetrazolium-5-carboxanilide (XTT)	Sigma Aldrich	X12223
FloqSwab	Copan	502CS01
BacSwab	DME	1028
Trizma base	Sigma Aldrich	77-86-1
Ethylenediaminetetraaceticacid (EDTA)	Sigma Aldrich	60-00-4
Tween-20	Biorad	170-6531
PBS	Gibco	14040-091
SeaKemR LE Agarose	Lonza	50004
1.0N NaOH	Illumina	NA
PhiX sequencing control v3	Illumina	FC-110-3001
Triton X-100	Sigma Aldrich	9036-19-5
Clindamycin	Sigma Aldrich	21462-39-5
PBS	Gibco	14040-091
4-methyl umbelliferyl oleate	Sigma Aldrich	75164-25MG
Tris-HCl	Roche	10812846001
NaCl	Carl Roth Belgium	3957.1
CaCl2	Carl Roth Belgium	A119.1
Sodium citrate	Carl Roth Belgium	2611.3
Critical commercial assays
QIAamp Powerfecal DNA kit	Qiagen	12830-50
Agencourt AMPure XP	Beckman Coulter	A63881
NucleoSpin 96 Tissue kit	Machery-Nagel	MN 740609.50
D-Lactic acid/L-lactic acid kit	R-biopharm	11112821035
Deposited data
DNA-Seq data	This paper	PRJEB27311 PRJEB44792
R code	This paper	https://github.com/LebeerLab/skin_acne_study
DNA-Seq data	The Human Microbiome Project Consortium (2012)	https://www.hmpdacc.org/
Experimental models: Cell lines
Normal Human Epidermal Keratinocytes (NHEK)	Promocell	C-12001
Oligonucleotides
Barcoded 515F primer (V4 primer) AAT GAT ACG GCG ACC ACC GAG ATC TAC ACA TCG TAC GTA TGG TAA TTG TGT GCC AGC MGC CGC GGT AA	Kozich et al. (2013)	N/A
Bacterial 16S rRNA gene V4 region (806R) GGA CTA CHV GGG TWT CTA AT	Kozich et al. (2013)	N/A
Barcoded 27F primer (V1V2 primer) AAT GAT ACG GCG ACC ACC GAG ATC TAC ACA AGC AGC ATA TGG TAA TTC GAG AGT TTG ATC MTG GCT CAG	Suzuki et al. (1996)	N/A
Barcoded 388R primer (V1V2 primer) CAA GCA GAA GAC GGC ATA CGA GAT ACC TAG TAA GTC AGT CAG CCG CTG CCT CCC GTA GGA GT	Suzuki et al. (1996)	N/A
Software and algorithms
GraphPad Prism	GraphPad Software	https://www.graphpad.com/
DADA2, version 1.6.0	Callahan et al. (2016)	https://benjjneb.github.io/dada2/index.html
R version 3.6.3 (R Core Team, 2020)	R Core Team (2020)	https://www.r-project.org/
Tidyamplicons	N/A	github.com/Swittouck/tidyamplicons
MicrobeDS R package	N/A	https://github.com/twbattaglia/MicrobeDS
curatedMetagenomicData R package	Pasolli, et al. (2017)	https://github.com/waldronlab/curatedMetagenomicData
Phyloseq	McMurdie & Holmes (2013)	https://github.com/joey711/phyloseq
EZBioCloud 16S database	Yoon et al. (2017)	https://www.ezbiocloud.net
Other
MiSeq Desktop sequencer	Illumina	(M00984, Illumina)
Synergy HTX multi-mode reader	Biotek	N/A
Take3	Biotek	N/A
StepOne Plus Real-Time PCR System (v.2.0)	Applied Biosystems	N/A
EVE™ Automatic cell counter	NanoEntek	EVE-MC
Qubit 3.0 Fluorometer	Life Technologies	Q33216
Corneometer MPA 5 CPU	Courage and Khazala	S/N 10359198; probe S/N 11284693