Table 6 Summary of four published microbiome studies included in meta-analysis
Published study | Data origin (study population) | Study design/ Data used in meta-analysis | Sample size (for only infants ≤ 6 months of age) | Clinical variables used in meta-analysis | Target region of 16S rRNA genes /sequence platform | Starting files used and data processing done in this project |
|---|---|---|---|---|---|---|
Subramanian et al. (2014). Persistent gut microbiota immaturity in malnourished Bangladeshi children [14] | Bangladeshb | Longitudinal gut microbiome data from stool samples collected monthly from birth to 6 months of age of 50 healthy Bangladeshi infants (25 singletons, 11 twin pairs, 1 set of triplets).a | Number of samples: 322 (female =180, male =142) | Gender, feeding status (EBF, non-EBF, non-BF), infant age at sample collection | V4 /Illumina MiSeq | Assembled 16S reads used for OTU picking (.fna file), mapping and meta-data files. - Open OTU picking with UCLUST with 97% similarity using the Greengenes database (version 13.8) |
Bender et al. (2016). Maternal HIV infection influences the microbiome of HIV- uninfected infants [11] | Haiti | One time gut microbiome data from stool samples of 48 HIV negative infants with age varied from 0 to 6 months whose mothers were HIV negative (n = 25) or HIV positive (n = 23). | Number of samples: 48 (female =25, male =21) | Gender, feeding status (EBF, non-EBF), infant age at sample collection | V4 /Illumina MiSeq | |
Pannaraj et al. (2017). Association Between Breast Milk Bacterial Communities and Establishment and Development of the Infant Gut Microbiome [12] | USA (California and Florida) | Longitudinal gut microbiome data from stool samples of 113 healthy full-term infants collected at 0 to 7 days, 8 to 30 days, 31 to 90 days, 91 to 180 days. | Number of samples: 221 (female = 120, male = 101) | Gender, feeding status (EBF, non-EBF, non-BF), infant age at sample collection | V4 /Illumina MiSeq | |
Thompson et al. (2015). Milk- and solid-feeding practices and daycare attendance are associated with differences in bacterial diversity, predominant communities, and metabolic and immune function of the infant gut microbiome [35] | USA (North Carolina) | Longitudinal gut microbiome data from stool samples of 6 healthy full term infants with age varied from 0 to 6 months. | Number of samples: 21 (female = 14, male = 7) | Gender, feeding status (EBF, non-EBF, non-BF), infant age at sample collection | V1–2 /Roche GS FLX Titanium |