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oai:figshare.com:article/34070637 2026-10-05T15:51:30Z category_24484 item_type_3 month_year_10_2026

Early Postnatal Latamoxef Exposure Aggravates Gut Microbiota Dysbiosis and Is Independently Associated with Bronchopulmonary Dysplasia in Preterm Infants: A Nested Case-Control Study Yiliang Wu (25316373) Xueping Zhu (9033143) Clinical microbiology bronchopulmonary dysplasia preterm infants gut microbiota 16S rRNA latamoxef antibiotic exposure gut-lung axis <p dir="ltr">1. STUDY OVERVIEW</p><p dir="ltr">Design : Nested case-control study within a retrospective cohortPopulation : Preterm infants born at < 32 weeks of gestationBPD definition : 2018 NICHD criteria (treatment with invasive or non-invasive respiratory support, or supplemental oxygen, at 36 weeks of postmenstrual age); severity grading not appliedMatching : 1:1 on gestational age, birth weight and sexAnalysis set : 68 infants (34 BPD + 34 non-BPD) 258 faecal samples in totalSpecimens : Serial faecal samples on postnatal days 1, 4, 7, 14, 21 and 28Sequencing : 16S rDNA amplicon sequencing, V3-V4 region, Illumina MiSeqData type : Processed OTU-level data (raw FASTQ reads were NOT deposited)</p><p dir="ltr"> 2. SAMPLE PROVENANCE - TWO COLLABORATING SITES</p><p dir="ltr">Samples were collected at TWO collaborating tertiary neonatal intensive careunits in the same metropolitan region. Both sites used the SAME specimencollection protocol and the SAME subject inclusion criteria; collection andinclusion procedures were quality-controlled and harmonised, samples werecollected during the same study period, and the data were therefore pooled. The sample-ID prefix identifies the site of specimen collection: Prefix Site Infants ------------ ---------------------------------------- ------- PRS002xxxxxx Children's Hospital of Soochow University 37 PRS021xxxxxx Suzhou Municipal Hospital 31 ---------------------------------------- ------- Total 68 No infant contributed samples carrying both prefixes; every patient was admitted to one site only. CRITICAL NOTE ON SAMPLE IDs:The two prefixes share 238 identical numeric suffixes (e.g. PRS002190001 andPRS021190001 BOTH exist and are DIFFERENT samples). The full prefix is the ONLYvalid discriminator. Never strip the prefix or match samples on the numericsuffix alone, or specimens from the two sites will be confused. NOTE ON BETWEEN-CENTRE HETEROGENEITY:The two sites differed significantly on several baseline characteristics(gestational age, birth weight, CRIB-II score, weight-indexed red blood celltransfusion volume) and on BPD prevalence (35.1% at the Children's Hospital ofSoochow University vs 67.7% at Suzhou Municipal Hospital; P = 0.007). Centre ofspecimen collection was therefore retained as a covariate in all multivariablemodels, and centre-specific baseline distributions are reported in themanuscript . Users re-analysing these data are advised to includecentre as a covariate or to perform centre-stratified analyses.</p><p dir="ltr">3. METHODS SUMMARY</p><p dir="ltr">DNA extraction : E.Z.N.A. Soil DNA Kit (Omega Bio-tek, Norcross, GA, USA)</p><p dir="ltr">PCR primers : 338F / 806R, 16S rRNA V3-V4 region</p><p dir="ltr">Platform : Illumina MiSeq, paired-end 2 x 300 bp</p><p dir="ltr">Read processing : quality filtering (fastp), merging (FLASH), chimera removal (UCHIME)</p><p dir="ltr">OTU clustering : UPARSE, 97% similarity</p><p dir="ltr">Taxonomy : RDP Classifier against SILVA SSU v138, 70% confidence</p><p dir="ltr">Statistics : Mann-Whitney U / chi-square tests; multivariable logistic</p><p dir="ltr">regression (centre of specimen collection forced in);</p><p dir="ltr">random-effects GLS panel regression; Benjamini-Hochberg FDR</p><p><br></p><p dir="ltr">4. DATA PROCESSING NOTE</p><p dir="ltr">This deposit contains PROCESSED data (OTU count matrix and taxonomic assignments). Raw sequencing reads (FASTQ) were generated by a commercial sequencing service and were not retained by the authors in their original form.</p><p dir="ltr">The processed data deposited here are sufficient to reproduce all community-level analyses reported in the manuscript.</p><p dir="ltr"><br></p> 2026-10-05T15:51:30Z Dataset Dataset 10.6084/m9.figshare.34070637.v1 https://figshare.com/articles/dataset/Early_Postnatal_Latamoxef_Exposure_Aggravates_Gut_Microbiota_Dysbiosis_and_Is_Independently_Associated_with_Bronchopulmonary_Dysplasia_in_Preterm_Infants_A_Nested_Case-Control_Study/34070637 CC BY 4.0