Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children
Abstract Antibiotics may alter the gut microbiome, and this is one of the mechanisms by which antimicrobial resistance may be promoted. Suboptimal antimicrobial stewardship in Asia has been linked to antimicrobial resistance. We aim to examine the relationship between oral antibiotic use and composi...
| Main Authors: | , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2024-08-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-51326-5 |
| _version_ | 1827145610395910144 |
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| author | Andrew Baldi Sabine Braat Mohammed Imrul Hasan Cavan Bennett Marilou Barrios Naomi Jones Gemma Moir-Meyer Imadh Abdul Azeez Stephen Wilcox Mohammad Saiful Alam Bhuiyan Ricardo Ataide Danielle Clucas Leonard C. Harrison Shams El Arifeen Rory Bowden Beverley-Ann Biggs Aaron Jex Sant-Rayn Pasricha |
| author_facet | Andrew Baldi Sabine Braat Mohammed Imrul Hasan Cavan Bennett Marilou Barrios Naomi Jones Gemma Moir-Meyer Imadh Abdul Azeez Stephen Wilcox Mohammad Saiful Alam Bhuiyan Ricardo Ataide Danielle Clucas Leonard C. Harrison Shams El Arifeen Rory Bowden Beverley-Ann Biggs Aaron Jex Sant-Rayn Pasricha |
| author_sort | Andrew Baldi |
| collection | DOAJ |
| description | Abstract Antibiotics may alter the gut microbiome, and this is one of the mechanisms by which antimicrobial resistance may be promoted. Suboptimal antimicrobial stewardship in Asia has been linked to antimicrobial resistance. We aim to examine the relationship between oral antibiotic use and composition and antimicrobial resistance in the gut microbiome in 1093 Bangladeshi infants. We leverage a trial of 8-month-old infants in rural Bangladesh: 61% of children were cumulatively exposed to antibiotics (most commonly cephalosporins and macrolides) over the 12-month study period, including 47% in the first 3 months of the study, usually for fever or respiratory infection. 16S rRNA amplicon sequencing in 11-month-old infants reveals that alpha diversity of the intestinal microbiome is reduced in children who received antibiotics within the previous 7 days; these samples also exhibit enrichment for Enterococcus and Escherichia/Shigella genera. No effect is seen in children who received antibiotics earlier. Using shotgun metagenomics, overall abundance of antimicrobial resistance genes declines over time. Enrichment for an Enterococcus-related antimicrobial resistance gene is observed in children receiving antibiotics within the previous 7 days, but not earlier. Presence of antimicrobial resistance genes is correlated to microbiome composition. In Bangladeshi children, community use of antibiotics transiently reprofiles the gut microbiome. |
| first_indexed | 2025-03-20T20:17:20Z |
| format | Article |
| id | doaj.art-78dba4e80bf8401c952644d67ed85a89 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2025-03-20T20:17:20Z |
| publishDate | 2024-08-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-78dba4e80bf8401c952644d67ed85a892024-08-18T11:23:33ZengNature PortfolioNature Communications2041-17232024-08-0115111110.1038/s41467-024-51326-5Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi childrenAndrew Baldi0Sabine Braat1Mohammed Imrul Hasan2Cavan Bennett3Marilou Barrios4Naomi Jones5Gemma Moir-Meyer6Imadh Abdul Azeez7Stephen Wilcox8Mohammad Saiful Alam Bhuiyan9Ricardo Ataide10Danielle Clucas11Leonard C. Harrison12Shams El Arifeen13Rory Bowden14Beverley-Ann Biggs15Aaron Jex16Sant-Rayn Pasricha17Population Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchAdvanced Technology and Biology Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchAdvanced Technology and Biology Division, Walter and Eliza Hall Institute of Medical ResearchInternational Centre for Diarrhoeal Disease Research, Bangladesh (icddr, b)Population Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchInternational Centre for Diarrhoeal Disease Research, Bangladesh (icddr, b)Department of Medical Biology, The University of MelbourneDepartment of Infectious Diseases at the Peter Doherty Institute of Infection and Immunity, The University of MelbournePopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchPopulation Health and Immunity Division, Walter and Eliza Hall Institute of Medical ResearchAbstract Antibiotics may alter the gut microbiome, and this is one of the mechanisms by which antimicrobial resistance may be promoted. Suboptimal antimicrobial stewardship in Asia has been linked to antimicrobial resistance. We aim to examine the relationship between oral antibiotic use and composition and antimicrobial resistance in the gut microbiome in 1093 Bangladeshi infants. We leverage a trial of 8-month-old infants in rural Bangladesh: 61% of children were cumulatively exposed to antibiotics (most commonly cephalosporins and macrolides) over the 12-month study period, including 47% in the first 3 months of the study, usually for fever or respiratory infection. 16S rRNA amplicon sequencing in 11-month-old infants reveals that alpha diversity of the intestinal microbiome is reduced in children who received antibiotics within the previous 7 days; these samples also exhibit enrichment for Enterococcus and Escherichia/Shigella genera. No effect is seen in children who received antibiotics earlier. Using shotgun metagenomics, overall abundance of antimicrobial resistance genes declines over time. Enrichment for an Enterococcus-related antimicrobial resistance gene is observed in children receiving antibiotics within the previous 7 days, but not earlier. Presence of antimicrobial resistance genes is correlated to microbiome composition. In Bangladeshi children, community use of antibiotics transiently reprofiles the gut microbiome.https://doi.org/10.1038/s41467-024-51326-5 |
| spellingShingle | Andrew Baldi Sabine Braat Mohammed Imrul Hasan Cavan Bennett Marilou Barrios Naomi Jones Gemma Moir-Meyer Imadh Abdul Azeez Stephen Wilcox Mohammad Saiful Alam Bhuiyan Ricardo Ataide Danielle Clucas Leonard C. Harrison Shams El Arifeen Rory Bowden Beverley-Ann Biggs Aaron Jex Sant-Rayn Pasricha Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children Nature Communications |
| title | Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children |
| title_full | Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children |
| title_fullStr | Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children |
| title_full_unstemmed | Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children |
| title_short | Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children |
| title_sort | community use of oral antibiotics transiently reprofiles the intestinal microbiome in young bangladeshi children |
| url | https://doi.org/10.1038/s41467-024-51326-5 |
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