5 results on '"Julia K. Copeland"'
Search Results
2. Systematic profiling of the chicken gut microbiome reveals dietary supplementation with antibiotics alters expression of multiple microbial pathways with minimal impact on community structure
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Angela Zou, Kerry Nadeau, Xuejian Xiong, Pauline W. Wang, Julia K. Copeland, Jee Yeon Lee, James St. Pierre, Maxine Ty, Billy Taj, John H. Brumell, David S. Guttman, Shayan Sharif, Doug Korver, and John Parkinson
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Microbial ecology ,QR100-130 - Abstract
Abstract Background The emergence of antimicrobial resistance is a major threat to global health and has placed pressure on the livestock industry to eliminate the use of antibiotic growth promotants (AGPs) as feed additives. To mitigate their removal, efficacious alternatives are required. AGPs are thought to operate through modulating the gut microbiome to limit opportunities for colonization by pathogens, increase nutrient utilization, and reduce inflammation. However, little is known concerning the underlying mechanisms. Previous studies investigating the effects of AGPs on the poultry gut microbiome have largely focused on 16S rDNA surveys based on a single gastrointestinal (GI) site, diet, and/or timepoint, resulting in an inconsistent view of their impact on community composition. Methods In this study, we perform a systematic investigation of both the composition and function of the chicken gut microbiome, in response to AGPs. Birds were raised under two different diets and AGP treatments, and 16S rDNA surveys applied to six GI sites sampled at three key timepoints of the poultry life cycle. Functional investigations were performed through metatranscriptomics analyses and metabolomics. Results Our study reveals a more nuanced view of the impact of AGPs, dependent on age of bird, diet, and intestinal site sampled. Although AGPs have a limited impact on taxonomic abundances, they do appear to redefine influential taxa that may promote the exclusion of other taxa. Microbiome expression profiles further reveal a complex landscape in both the expression and taxonomic representation of multiple pathways including cell wall biogenesis, antimicrobial resistance, and several involved in energy, amino acid, and nucleotide metabolism. Many AGP-induced changes in metabolic enzyme expression likely serve to redirect metabolic flux with the potential to regulate bacterial growth or produce metabolites that impact the host. Conclusions As alternative feed additives are developed to mimic the action of AGPs, our study highlights the need to ensure such alternatives result in functional changes that are consistent with site-, age-, and diet-associated taxa. The genes and pathways identified in this study are therefore expected to drive future studies, applying tools such as community-based metabolic modeling, focusing on the mechanistic impact of different dietary regimes on the microbiome. Consequently, the data generated in this study will be crucial for the development of next-generation feed additives targeting gut health and poultry production. Video Abstract
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- 2022
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3. Oligosaccharides and Microbiota in Human Milk Are Interrelated at 3 Months Postpartum in a Cohort of Women with a High Prevalence of Gestational Impaired Glucose Tolerance
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Lauren LeMay-Nedjelski, James Butcher, Lars Bode, Sharon Unger, Michelle R Asbury, Julia K. Copeland, Deborah L O'Connor, Alain Stintzi, Alex Kiss, Pauline W. Wang, Sylvia H. Ley, Chloe Yonemitsu, and Anthony J. Hanley
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Nutrition and Disease ,human milk microbiota ,breastfeeding ,030309 nutrition & dietetics ,Breastfeeding ,microbiome ,Oligosaccharides ,Medicine (miscellaneous) ,Physiology ,lactation ,Biology ,Cohort Studies ,Impaired glucose tolerance ,AcademicSubjects/MED00060 ,03 medical and health sciences ,fluids and secretions ,Lactation ,Glucose Intolerance ,Prevalence ,medicine ,Humans ,Prospective Studies ,Microbiome ,Prospective cohort study ,030304 developmental biology ,2. Zero hunger ,0303 health sciences ,Nutrition and Dietetics ,Milk, Human ,Microbiota ,Postpartum Period ,secretor status ,human milk ,maternal BMI ,medicine.disease ,gestational glucose intolerance ,Gestational diabetes ,Breast Feeding ,medicine.anatomical_structure ,Cohort ,AcademicSubjects/SCI00960 ,human milk oligosaccharides ,Female ,gestational diabetes ,Postpartum period - Abstract
Background Human milk is a rich source of human milk oligosaccharides (HMOs) and bacteria. It is unclear how these components interact within the breast microenvironment. Objectives The objectives were first, to investigate the association between maternal characteristics and HMOs, and second, to assess the association between HMOs and microbial community composition and predicted function in milk from women with high rates of gestational glucose intolerance. Methods This was an exploratory analysis of a previously completed prospective cohort study (NCT01405547) where milk samples (n = 107) were collected at 3 mo postpartum. Milk microbiota composition was analyzed by V4-16S ribosomal RNA gene sequencing and HMOs by rapid high-throughput HPLC. Data were stratified and analyzed by maternal secretor status phenotype and associations between HMOs and microbiota were determined using linear regression models (ɑ-diversity), Adonis (B-diversity), Poisson regression models (differential abundance), and general linear models (predicted microbial function). Results Prepregnancy BMI, race, and frequency of direct breastfeeding, but not gestational glucose intolerance, were found to be significantly associated with a number of HMOs among secretors and non-secretors. Fucosyllacto-N-hexaose was negatively associated with microbial richness (Chao1) among secretors [B-estimate (SE): −9.3 × 102 (3.4 × 102); P = 0.0082] and difucosyllacto-N-hexaose was negatively associated with microbiota diversity (Shannon index) [−1.7 (0.78); P = 0.029] among secretors. Lacto-N-neotetraose (LNnT) was associated with both microbial B-diversity (weighted UniFrac R2 = 0.040, P = 0.036) and KEGG ortholog B-diversity (Bray-Curtis R2 = 0.039, P = 0.043) in secretors. Additionally, difucosyllactose in secretors and disialyllacto-N-hexaose and LNnT in non-secretors were associated with enrichment of predicted microbial genes encoding for metabolism- and infection-related pathways (P-false discovery rate
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- 2021
4. Invariant natural killer T cells minimally influence gut microbiota composition in mice
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Qiaochu Lin, Meggie Kuypers, Zhewei Liu, Julia K Copeland, Donny Chan, Susan J Robertson, Jean Kontogiannis, David S Guttman, E. Kate Banks, Dana J Philpott, and Thierry Mallevaey
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Microbiology (medical) ,Mice ,Infectious Diseases ,Microbiota ,Gastroenterology ,Animals ,Cytokines ,Natural Killer T-Cells ,Glycolipids ,Microbiology ,Gastrointestinal Microbiome - Abstract
Invariant Natural Killer T (iNKT) cells are unconventional T cells that respond to glycolipid antigens found in microbes in a CD1d-dependent manner. iNKT cells exert innate-like functions and produce copious amounts of cytokines, chemokines and cytotoxic molecules within only minutes of activation. As such, iNKT cells can fuel or dampen inflammation in a context-dependent manner. In addition, iNKT cells provide potent immunity against bacteria, viruses, parasites and fungi. Although microbiota-iNKT cell interactions are not well-characterized, mounting evidence suggests that microbiota colonization early in life impacts iNKT cell homeostasis and functions in disease. In this study, we showed that CD1d
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- 2022
5. Human milk nutrient fortifiers alter the developing gastrointestinal microbiota of very-low-birth-weight infants
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Michelle R. Asbury, Sara Shama, Jong Yup Sa, Nicole Bando, James Butcher, Elena M. Comelli, Julia K. Copeland, Victoria Forte, Alex Kiss, Philip M. Sherman, Alain Stintzi, Amel Taibi, Christopher Tomlinson, Sharon Unger, Pauline W. Wang, and Deborah L. O’Connor
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Milk, Human ,Infant, Newborn ,Infant ,Nutrients ,Microbiology ,Gastrointestinal Microbiome ,Virology ,Food, Fortified ,Animals ,Humans ,Infant, Very Low Birth Weight ,Cattle ,Parasitology ,Infant, Premature - Abstract
Nutrient fortifiers are added to human milk to support the development of very-low-birth-weight infants. Currently, bovine-milk-based fortifiers (BMBFs) are predominantly administered, with increasing interest in adopting human-milk-based fortifiers (HMBFs). Although beneficial for growth, their effects on the gastrointestinal microbiota are unclear. This triple-blind, randomized clinical trial (NCT02137473) tested how nutrient-enriching human milk with HMBF versus BMBF affects the gastrointestinal microbiota of infants born 1,250 g during hospitalization. HMBF-fed infants (n = 63, n = 269 stools) showed lower microbial diversity, altered microbial community structure, and changes in predicted microbial functions compared with BMBF-fed infants (n = 56, n = 239 stools). HMBF-fed infants had higher relative and normalized abundances of unclassified Enterobacteriaceae and lower abundances of Clostridium sensu stricto. Post hoc analyses identified dose-dependent relationships between individual feed components (volumes of mother's milk, donor milk, and fortifiers) and the microbiota. These results highlight how nutrient fortifiers impact the microbiota of very-low-birth-weight infants during a critical developmental window.
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- 2022
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