Journal: Nature

Article Title: Baby-to-baby strain transmission shapes the developing gut microbiome

doi: 10.1038/s41586-025-09983-z

Figure Lengend Snippet: ( a-b ) Validation of the chain of transmission of a strain of Akkermansia muciniphila SGB9226 (Fig. ) using a SGB-specific PCR assay; a , Sensitivity of the SGB9226-specific PCR assay, assessed by testing a SGB9226-negative human fecal DNA spiked with seven ten-fold dilutions of genomic DNA from A. muciniphila ATCC BAA-835, corresponding to an estimated 106 to 1 genome copies (“D1” to “D7”). Controls included the human fecal matrix alone (“Spike-in Matrix”) and a no-template control (NTC). b , Application of the SGB9226-specific PCR to fecal samples in Fig. . Sample IDs include the volunteer type and family number, while per volunteer longitudinal samples are identified by timepoint. Relative abundances according to MetaPhlAn 4 (“Rel. Abun., %”) and sample IDs are colored dark blue (positive) or grey (negative) based on strain identification according to StrainPhlAn (Fig. ). Genomic DNA from A. muciniphila ATCC BAA-835 is included as a positive control, alongside a NTC. ( c ) Phylogenetic tree of Alistipes finegoldii SGB2301 (left) and chain of transmission events of one strain in group 1 of nursery B (right). Participant types are identified by shape (educator, cross; baby, circle; mother, diamond) containing participant identifiers (with the initial identifying the participant type followed by specific family number). Familial relations are highlighted by same-color filling. Each circle represents a sample collected from participants depicted, with color filling indicating the identity of the strain of Alistipes finegoldii SGB2301 detected in the sample (except gray, used to indicate the SGB was not detected/typable) and arrows indicating the most likely transmission event. ( d-e ) Strain-sharing between pets ( n = 5) and human hosts within the same family (turquoise) and across different ones (gray). d , The average total number of strains shared between participant pairs across contemporaneous samples are reported above the connecting lines; in brackets are indicated the number of pet-human pairs with at least one strain shared over the total number of pet-human pairs. Statistical significance according to a two-sided Fisher’s exact test is depicted for the same family vs different family pet-baby comparison. All other comparisons are non significant. e , Average number shared strains between pet and human across contemporaneous samples, in different vs same family. In the box plots, box edges indicate the lower and upper quartiles, the center line represents the median, and whiskers extend to the most extreme data point within 1.5× the IQR. Statistical significance P -values refer to two-sided Mann-Whitney U tests, with n indicating the number of pet-human pairs. All other comparisons are non significant.

Article Snippet: Extended Data Fig. 6 Validation and dynamics of multi-host strain transmission. ( a-b ) Validation of the chain of transmission of a strain of Akkermansia muciniphila SGB9226 (Fig. ) using a SGB-specific PCR assay; a , Sensitivity of the SGB9226-specific PCR assay, assessed by testing a SGB9226-negative human fecal DNA spiked with seven ten-fold dilutions of genomic DNA from A. muciniphila ATCC BAA-835, corresponding to an estimated 106 to 1 genome copies (“D1” to “D7”).

Techniques: Biomarker Discovery, Transmission Assay, Control, Positive Control, Comparison, MANN-WHITNEY

Journal: Microorganisms

Article Title: Bacteriome Signature in SARS-CoV-2-Infected Patients Correlates with Increased Gut Permeability and Systemic Inflammatory Cytokines

doi: 10.3390/microorganisms13061407

Figure Lengend Snippet: Zonulin plasma concentrations ( A ), and fecal secretory IgA ( B ) in control subjects (CTL), acute COVID-19 patients, and post-COVID-19 condition (PCC) patients.

Article Snippet: Fecal secretory immunoglobulin A (sIgA) was quantified by the commercial Human IgA ELISA kit (Elabscience, Bethesda, MD, USA), according to the manufacturer’s protocol.

Techniques: Clinical Proteomics, Control

Journal: Microorganisms

Article Title: Bacteriome Signature in SARS-CoV-2-Infected Patients Correlates with Increased Gut Permeability and Systemic Inflammatory Cytokines

doi: 10.3390/microorganisms13061407

Figure Lengend Snippet: Correlations between taxonomic counts of the gut bacteriome and clinical and laboratory data in COVID-19 patients. ( A ) C-reactive protein with differentially increased genera. ( B , C ) Plasma zonulin levels with differentially increased families and genera. ( D , E ) Fecal sIgA levels with differentially increased Bacillota, Prevotellacea, and some genera. ( F – H ) Plasma concentrations of IL-6, IL-2 and IFN-γ with differentially increased taxa.

Article Snippet: Fecal secretory immunoglobulin A (sIgA) was quantified by the commercial Human IgA ELISA kit (Elabscience, Bethesda, MD, USA), according to the manufacturer’s protocol.

Techniques: Clinical Proteomics