KEY RESOURCE TABLE

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Biological Samples
Stool, mouth, and skin specimen from infants	This Study
Stool, mouth, skin, vagina, nasal specimen from mothers	This Study
Critical Commercial Assays
DNeasy PowerSoil HTP 96 Kit	Qiagen	12955-4
illumine MiSeq/HiSeq sequencing PE150	New York University Genome Technology Center, or UC San Diego Institute for Genomic Medicine Genomics Facility	-
Deposited Data
Raw sequencing data	European Bioinformatics Institute	ERP120105, ERP016173 and ERP120109
Raw sequencing data and processed data	Qiita	Study 10894, 10249, and 1718
Source codes, tests and notebooks to generate the figures	This study	https://github.com/knightlab-analyses/seeding-study
Oligonucleotides
515f forward primer: GTGYCAGCMGCCGCGGTAA	EMP protocol
806r reverse primer: GGACTACNVGGGTWTCTAAT	EMP protocol
Software and Algorithms
Qiime2-2019.8	Bolyen et al. (2019)
FEAST	Shenhav et al. (2019)	https://github.com/ETaSky/FEAST.gitbranch:removewritingfiles
BayestTime	Jiang et al. (2020)	https://github.com/biocore/bayestime
Gemelli	Martino et al. (2020)	https://github.com/biocore/gemelli
stepwise-rda.R	This study	https://github.com/knightlab-analyses/seeding-study
Songbird	Morton et al. (2019)	https://github.com/biocore/songbird