Table 9_Absolute abundance calculation enhances the significance of microbiome data in antibiotic treatment studies.xlsx by Stefanie Wagner (743707)

“…In another experimental setting with tulathromycin treatment, bacterial abundance quantification by flow cytometry and by a spike-in method yielded similar results only on the phylum level. Even though the spike-in method identified the decrease of four genera, analysis by fluorescence-activated cell sorting (FACS) uncovered eight significantly reduced genera, such as Prevotella and Paraprevotella upon antibiotic treatment. …”

Example of coloration measurement taken in ImageJ for <i>M</i>. <i>mercenaria</i> specimen w48 at the conclusion of the 20.5-week experiment. by Teagan McMahon (20108036)

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The top 10 putative metabolites with the largest negative fold change between normal and thin cows. by Bhuripit Saraphol (20855573)

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The proportional change in maximum height for the five study groups. by Teagan McMahon (20108036)

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Parameter estimates of linear mixed effects models for juvenile <i>M</i>. <i>mercenaria</i>, juvenile <i>M</i>. <i>arenaria</i> and juvenile <i>A</i>. <i>islandica</i> proportional... by Teagan McMahon (20108036)

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The top 10 putative metabolites with the largest positive fold change between normal and thin cows. by Bhuripit Saraphol (20855573)

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Subset of juvenile <i>M</i>. <i>arenaria</i> specimens at the end of the experiment. by Teagan McMahon (20108036)

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The principal component analysis (PCA) plot utilized in the quality assurance process. by Bhuripit Saraphol (20855573)

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Fig 6 - by Teagan McMahon (20108036)

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Growth and color data for all specimens and tank temperature and pH conditions. by Teagan McMahon (20108036)

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Diversity of the fecal microbiome in normal and thin cows according to 16S rRNA gene sequencing data. by Bhuripit Saraphol (20855573)

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Schematic of the experimental design of the pH and temperature-controlled culture experiment in Schiller Coastal Studies Center (SCSC; Bowdoin College, Orr’s Island, ME). by Teagan McMahon (20108036)

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Parameter estimates of linear mixed effects models for juvenile <i>M</i>. <i>mercenaria</i>, juvenile <i>M</i>. <i>arenaria</i> and juvenile <i>A</i>. <i>islandica</i> mean shell c... by Teagan McMahon (20108036)

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Average experimental conditions (± standard deviation) for each tank. by Teagan McMahon (20108036)

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The numbers of normal and thin cows from each farm. by Bhuripit Saraphol (20855573)

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Multivariate and clustering analysis of metabolomic data. by Bhuripit Saraphol (20855573)

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Visual examples of the change in maximum height measure. by Teagan McMahon (20108036)

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Results of the pathway analysis performed using the STITCH bioinformatics tool. by Bhuripit Saraphol (20855573)

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Raw metabolomic data. by Bhuripit Saraphol (20855573)

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Stacked bar plots illustrating the relative abundance distribution of fecal microbial communities in thin and normal cows. by Bhuripit Saraphol (20855573)

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