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Reens AL, Cosetta CM, Saur R, Trofimuk O, Brooker SL, Lee ML, Sun AK, McKenzie GJ, Button JE. Tunable control of B. infantis abundance and gut metabolites by co-administration of human milk oligosaccharides. Gut Microbes 2024; 16:2304160. [PMID: 38235736 PMCID: PMC10798361 DOI: 10.1080/19490976.2024.2304160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Accepted: 01/08/2024] [Indexed: 01/19/2024] Open
Abstract
Precision engineering of the gut microbiome holds promise as an effective therapeutic approach for diseases associated with a disruption in this microbial community. Engrafting a live biotherapeutic product (LBP) in a predictable, controllable manner is key to the consistent success of this approach and has remained a challenge for most LBPs under development. We recently demonstrated high-level engraftment of Bifidobacterium longum subsp. infantis (B. infantis) in adults when co-dosed with a specific prebiotic, human milk oligosaccharides (HMO). Here, we present a cellular kinetic-pharmacodynamic approach, analogous to pharmacokinetic-pharmacodynamic-based analyses of small molecule- and biologic-based drugs, to establish how HMO controls expansion, abundance, and metabolic output of B. infantis in a human microbiota-based model in gnotobiotic mice. Our data demonstrate that the HMO dose controls steady-state abundance of B. infantis in the microbiome, and that B. infantis together with HMO impacts gut metabolite levels in a targeted, HMO-dependent manner. We also found that HMO creates a privileged niche for B. infantis expansion across a 5-log range of bacterial inocula. These results demonstrate remarkable control of both B. infantis levels and the microbiome community metabolic outputs using this synbiotic approach, and pave the way for precision engineering of desirable microbes and metabolites to treat a range of diseases.
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Affiliation(s)
| | | | | | | | | | - Martin L. Lee
- Prolacta Bioscience, Duarte, CA, USA
- Department of Biostatistics, University of California Los Angeles Fielding School of Public Health, Los AngelesCA, USA
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2
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Button JE, Cosetta CM, Reens AL, Brooker SL, Rowan-Nash AD, Lavin RC, Saur R, Zheng S, Autran CA, Lee ML, Sun AK, Alousi AM, Peterson CB, Koh AY, Rechtman DJ, Jenq RR, McKenzie GJ. Precision modulation of dysbiotic adult microbiomes with a human-milk-derived synbiotic reshapes gut microbial composition and metabolites. Cell Host Microbe 2023; 31:1523-1538.e10. [PMID: 37657443 DOI: 10.1016/j.chom.2023.08.004] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Revised: 06/13/2023] [Accepted: 08/07/2023] [Indexed: 09/03/2023]
Abstract
Manipulation of the gut microbiome using live biotherapeutic products shows promise for clinical applications but remains challenging to achieve. Here, we induced dysbiosis in 56 healthy volunteers using antibiotics to test a synbiotic comprising the infant gut microbe, Bifidobacterium longum subspecies infantis (B. infantis), and human milk oligosaccharides (HMOs). B. infantis engrafted in 76% of subjects in an HMO-dependent manner, reaching a relative abundance of up to 81%. Changes in microbiome composition and gut metabolites reflect altered recovery of engrafted subjects compared with controls. Engraftment associates with increases in lactate-consuming Veillonella, faster acetate recovery, and changes in indolelactate and p-cresol sulfate, metabolites that impact host inflammatory status. Furthermore, Veillonella co-cultured in vitro and in vivo with B. infantis and HMO converts lactate produced by B. infantis to propionate, an important mediator of host physiology. These results suggest that the synbiotic reproducibly and predictably modulates recovery of a dysbiotic microbiome.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - Martin L Lee
- Prolacta Bioscience, Duarte, CA 91010, USA; Department of Biostatistics, University of California Los Angeles, Fielding School of Public Health, Los Angeles, CA 90095, USA
| | - Adam K Sun
- Prolacta Bioscience, Duarte, CA 91010, USA
| | - Amin M Alousi
- Department of Stem Cell Transplantation, Division of Cancer Medicine, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA
| | - Christine B Peterson
- Department of Biostatistics, The University of Texas M.D. Anderson Cancer Center, Houston, TX 77030, USA
| | - Andrew Y Koh
- Department of Pediatrics, Division of Hematology/Oncology, The University of Texas Southwestern Medical Center, Dallas, TX 75235, USA; Harold C. Simmons Comprehensive Cancer Center, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA; Department of Microbiology, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
| | | | - Robert R Jenq
- Department of Genomic Medicine, Division of Cancer Medicine, The University of Texas M.D. Anderson Cancer Center, Houston, TX 77030, USA
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3
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Williams JE, McGuire MK, Meehan CL, McGuire MA, Brooker SL, Kamau-Mbuthia EW, Kamundia EW, Mbugua S, Moore SE, Prentice AM, Otoo GE, Rodríguez JM, Pareja RG, Foster JA, Sellen DW, Kita DG, Neibergs HL, Murdoch BM. Key genetic variants associated with variation of milk oligosaccharides from diverse human populations. Genomics 2021; 113:1867-1875. [PMID: 33831438 DOI: 10.1016/j.ygeno.2021.04.004] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Revised: 03/20/2021] [Accepted: 04/04/2021] [Indexed: 11/30/2022]
Abstract
Human milk oligosaccharides (HMO), the third most abundant component of human milk, are thought to be important contributors to infant health. Studies have provided evidence that geography, stage of lactation, and Lewis and secretor blood groups are associated with HMO profile. However, little is known about how variation across the genome may influence HMO composition among women in various populations. In this study, we performed genome-wide association analyses of 395 women from 8 countries to identify genetic regions associated with 19 different HMO. Our data support FUT2 as the most significantly associated (P < 4.23-9 to P < 4.5-70) gene with seven HMO and provide evidence of balancing selection for FUT2. Although polymorphisms in FUT3 were also associated with variation in lacto-N-fucopentaose II and difucosyllacto-N-tetrose, we found little evidence of selection on FUT3. To our knowledge, this is the first report of the use of genome-wide association analyses on HMO.
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Affiliation(s)
- Janet E Williams
- Department of Animal, Veterinary, and Food Sciences, University of Idaho, Moscow, ID 83844, USA
| | - Michelle K McGuire
- Margaret Ritchie School of Family and Consumer Sciences, University of Idaho, Moscow, ID 83844, USA
| | - Courtney L Meehan
- Department of Anthropology, Washington State University, Pullman, WA 99164, USA
| | - Mark A McGuire
- Department of Animal, Veterinary, and Food Sciences, University of Idaho, Moscow, ID 83844, USA
| | - Sarah L Brooker
- Department of Animal, Veterinary, and Food Sciences, University of Idaho, Moscow, ID 83844, USA
| | | | | | - Samwel Mbugua
- Department of Human Nutrition, Egerton University, Nakuru, Kenya
| | - Sophie E Moore
- Department of Women and Children's Health, King's College London, London, United Kingdom; MRC Unit The Gambia at the London School of Hygiene and Tropical Medicine, Fajara, The Gambia
| | - Andrew M Prentice
- MRC Unit The Gambia at the London School of Hygiene and Tropical Medicine, Fajara, The Gambia
| | - Gloria E Otoo
- Department of Nutrition and Food Science, University of Ghana, Accra, Ghana
| | - Juan M Rodríguez
- Dpto. of Nutrition and Food Science, Complutense University of Madrid, Madrid, Spain
| | | | - James A Foster
- Department of Biological Sciences and Institute for Bioinformatics and Evolutionary Studies, University of Idaho, Moscow, ID, USA
| | - Daniel W Sellen
- Dalla Lana School of Public Health, University of Toronto, Toronto, Canada
| | - Debela G Kita
- Department of Anthropology, Hawassa University, Hawassa, Ethiopia
| | - Holly L Neibergs
- Department of Animal Sciences, Washington State University, Pullman, WA, USA
| | - Brenda M Murdoch
- Department of Animal, Veterinary, and Food Sciences, University of Idaho, Moscow, ID 83844, USA.
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Williams JE, Carrothers JM, Lackey KA, Beatty NF, Brooker SL, Peterson HK, Steinkamp KM, York MA, Shafii B, Price WJ, McGuire MA, McGuire MK. Strong Multivariate Relations Exist Among Milk, Oral, and Fecal Microbiomes in Mother-Infant Dyads During the First Six Months Postpartum. J Nutr 2019; 149:902-914. [PMID: 31063198 PMCID: PMC6543206 DOI: 10.1093/jn/nxy299] [Citation(s) in RCA: 81] [Impact Index Per Article: 16.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2018] [Revised: 05/15/2018] [Accepted: 11/12/2018] [Indexed: 12/14/2022] Open
Abstract
BACKGROUND Neonatal gastrointestinal (GI) bacterial community structure may be related to bacterial communities of the mother, including those of her milk. However, very little is known about the diversity in and relationships among complex bacterial communities in mother-infant dyads. OBJECTIVE Our primary objective was to assess whether microbiomes of milk are associated with those of oral and fecal samples of healthy lactating women and their infants. METHODS Samples were collected 9 times from day 2 to 6 mo postpartum from 21 healthy lactating women and their infants. Milk was collected via complete breast expression, oral samples via swabs, and fecal samples from tissue (mothers) and diapers (infants). Microbiomes were characterized using high-throughput sequencing of the 16S ribosomal RNA (rRNA) gene. Alpha and beta diversity indices were used to compare microbiomes across time and sample types. Membership and composition of microbiomes were analyzed using nonmetric multidimensional scaling and canonical correlation analysis (CCA). The contribution of various bacterial communities of the mother-infant dyad to both milk and infant fecal bacterial communities were estimated using SourceTracker2. RESULTS Bacterial community structures were relatively unique to each sample type. The most abundant genus in milk and maternal and infant oral samples was Streptococcus (47.1% ± 2.3%, 53.9% ± 1.3%, and 69.1% ± 1.8%, respectively), whereas Bacteroides were predominant in maternal and infant fecal microbiomes (22.9% ± 1.3% and 21.4% ± 2.4%, respectively). The milk microbiome was more similar to the infant oral microbiome than the infant fecal microbiome. However, CCA suggested strong associations between the complex microbial communities of milk and those of all other sample types collected. CONCLUSIONS These findings suggest complex microbial interactions between breastfeeding mothers and their infants and support the hypothesis that variation in the milk microbiome may influence the infant GI microbiome.
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Affiliation(s)
- Janet E Williams
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
- Program in Bioinformatics and Computational Biology, University of Idaho, Moscow, ID
| | | | - Kimberly A Lackey
- School of Family and Consumer Sciences, University of Idaho, Moscow, ID
| | - Nicola F Beatty
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
| | - Sarah L Brooker
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
- Program in Bioinformatics and Computational Biology, University of Idaho, Moscow, ID
| | - Haley K Peterson
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
| | - Katelyn M Steinkamp
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
| | - Mara A York
- School of Biological Sciences, Washington State University, Pullman, WA
| | - Bahman Shafii
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - William J Price
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - Mark A McGuire
- Department of Animal and Veterinary Sciences, University of Idaho, Moscow, ID
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Williams JE, Carrothers JM, Lackey KA, Beatty NF, York MA, Brooker SL, Shafii B, Price WJ, Settles ML, McGuire MA, McGuire MK. Human Milk Microbial Community Structure Is Relatively Stable and Related to Variations in Macronutrient and Micronutrient Intakes in Healthy Lactating Women. J Nutr 2017; 147:1739-1748. [PMID: 28724659 PMCID: PMC5572491 DOI: 10.3945/jn.117.248864] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Revised: 03/13/2017] [Accepted: 06/19/2017] [Indexed: 12/31/2022] Open
Abstract
Background: The human milk microbiome has been somewhat characterized, but little is known about changes over time and relations with maternal factors such as nutrient intake.Objective: We sought to characterize the human milk microbiome and described associations with maternal nutrient intake, time postpartum, delivery mode, and body mass index (BMI; in kg/m2).Methods: Milk samples (n = 104) and 24-h diet recalls were collected 9 times from 21 healthy lactating women from day 2 to 6 mo postpartum. Women were classified by BMI as healthy weight (<25) or overweight or obese (≥25). Bacterial taxa were characterized with the use of the high-throughput sequencing of the 16S ribosomal RNA gene.Results: The milk microbiome was relatively constant over time, although there were small changes in some of the lesser-abundant genera. Relative abundances of several taxa were associated with BMI, delivery mode, and infant sex. For instance, overweight and obese mothers produced milk with a higher relative abundance of Granulicatella than did healthy-weight women (1.8% ± 0.6% compared with 0.4% ± 0.2%, respectively; P < 0.05). Relative abundances of several bacterial taxa were also associated with variations in maternal dietary intake. For example, intakes of saturated fatty acids (rs = -0.59; P = 0.005) and monounsaturated fatty acids (rs = -0.46; P = 0.036) were inversely associated with the relative abundance of Corynebacterium; total carbohydrates (rs = -0.54; P = 0.011), disaccharides (rs = -0.47; P = 0.031), and lactose (rs = -0.51; P = 0.018) were negatively associated with Firmicutes; and protein consumption was positively correlated with the relative abundance of Gemella (rs = 0.46; P = 0.037).Conclusions: Factors associated with variations in the human milk microbiome are complex and may include maternal nutrient intake, maternal BMI, delivery mode, and infant sex. Future studies designed to investigate the relation between maternal nutrient intake and the milk microbiome should strive to also evaluate dietary supplement usage and analyze the collected milk for its nutrient content.
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Affiliation(s)
- Janet E Williams
- Department of Animal and Veterinary Sciences, .,Program in Bioinformatics and Computational Biology, and
| | | | | | | | | | - Sarah L Brooker
- Department of Animal and Veterinary Sciences,,Program in Bioinformatics and Computational Biology, and
| | - Bahman Shafii
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - William J Price
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - Matthew L Settles
- Bioinformatics Core Facility in the Genome Center, University of California, Davis, Davis, CA
| | | | - Michelle K McGuire
- School of Biological Sciences and .,Paul G. Allen School of Global Animal Health, Washington State University, Pullman, WA; and
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6
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Lackey KA, Williams JE, Price WJ, Carrothers JM, Brooker SL, Shafii B, McGuire MA, McGuire MK. Comparison of commercially-available preservatives for maintaining the integrity of bacterial DNA in human milk. J Microbiol Methods 2017; 141:73-81. [PMID: 28802721 DOI: 10.1016/j.mimet.2017.08.002] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2017] [Revised: 08/08/2017] [Accepted: 08/09/2017] [Indexed: 11/17/2022]
Abstract
BACKGROUND Inhibiting changes to bacteria in human milk between sample collection and analysis is necessary for unbiased characterization of the milk microbiome. Although cold storage is considered optimal, alternative preservation is sometimes necessary. RESEARCH AIM/QUESTION The objective of this study was to compare the effectiveness of several commercially-available preservatives with regard to maintaining bacterial DNA in human milk for delayed microbiome analysis. Specifically, we compared Life Technologies' RNAlater® stabilization solution, Biomatrica's DNAgard® Saliva, Advanced Instruments' Broad Spectrum Microtabs II™, and Norgen Biotek Corporation's Milk DNA Preservation and Isolation Kit. METHODS Aliquots of 8 pools of human milk were treated with each preservative. DNA was extracted immediately and at 1, 2, 4, and 6wk, during which time milk was held at 37°C. The V1-V3 region of the bacterial 16S rRNA gene was amplified and sequenced. Changes in bacterial community structure and diversity over time were evaluated. RESULTS Comparable to other studies, the most abundant genera were Streptococcus (33.3%), Staphylococcus (14.0%), Dyella (6.3%), Pseudomonas (3.0%), Veillonella (2.5%), Hafnia (2.0%), Prevotella (1.7%), Rhodococcus (1.6%), and Granulicatella (1.4%). Overall, use of Norgen's Milk DNA Preservation and Isolation Kit best maintained the consistency of the bacterial community structure. Total DNA, diversity, and evenness metrics were also highest in samples preserved with this method. CONCLUSIONS When collecting human milk for bacterial community analysis in field conditions where cold storage is not available, our results suggest that Norgen's Milk DNA Preservation and Isolation Kit may be a useful method, at least for a period of 2weeks.
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Affiliation(s)
- Kimberly A Lackey
- School of Biological Sciences, Washington State University, Pullman, WA, United States
| | - Janet E Williams
- Department and Animal and Veterinary Science, University of Idaho, Moscow, ID, United States
| | - William J Price
- Statistical Programs, University of Idaho, Moscow, ID, United States
| | - Janae M Carrothers
- School of Biological Sciences, Washington State University, Pullman, WA, United States
| | - Sarah L Brooker
- Department and Animal and Veterinary Science, University of Idaho, Moscow, ID, United States; Institute for Bioinformatics and Evolutionary Studies, Department of Biological Sciences, University of Idaho, Moscow, ID, United States
| | - Bahman Shafii
- Statistical Programs, University of Idaho, Moscow, ID, United States
| | - Mark A McGuire
- Department and Animal and Veterinary Science, University of Idaho, Moscow, ID, United States
| | - Michelle K McGuire
- School of Biological Sciences, Washington State University, Pullman, WA, United States; Paul G. Allen School for Global Animal Health, Washington State University, Pullman, WA, United States.
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7
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McGuire MK, Meehan CL, McGuire MA, Williams JE, Foster J, Sellen DW, Kamau-Mbuthia EW, Kamundia EW, Mbugua S, Moore SE, Prentice AM, Kvist LJ, Otoo GE, Brooker SL, Price WJ, Shafii B, Placek C, Lackey KA, Robertson B, Manzano S, Ruíz L, Rodríguez JM, Pareja RG, Bode L. What's normal? Oligosaccharide concentrations and profiles in milk produced by healthy women vary geographically. Am J Clin Nutr 2017; 105:1086-1100. [PMID: 28356278 PMCID: PMC5402033 DOI: 10.3945/ajcn.116.139980] [Citation(s) in RCA: 248] [Impact Index Per Article: 35.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2016] [Accepted: 02/13/2017] [Indexed: 12/16/2022] Open
Abstract
Background: Human milk is a complex fluid comprised of myriad substances, with one of the most abundant substances being a group of complex carbohydrates referred to as human milk oligosaccharides (HMOs). There has been some evidence that HMO profiles differ in populations, but few studies have rigorously explored this variability.Objectives: We tested the hypothesis that HMO profiles differ in diverse populations of healthy women. Next, we examined relations between HMO and maternal anthropometric and reproductive indexes and indirectly examined whether differences were likely related to genetic or environmental variations.Design: In this cross-sectional, observational study, milk was collected from a total of 410 healthy, breastfeeding women in 11 international cohorts and analyzed for HMOs by using high-performance liquid chromatography.Results: There was an effect of the cohort (P < 0.05) on concentrations of almost all HMOs. For instance, the mean 3-fucosyllactose concentration was >4 times higher in milk collected in Sweden than in milk collected in rural Gambia (mean ± SEM: 473 ± 55 compared with 103 ± 16 nmol/mL, respectively; P < 0.05), and disialyllacto-N-tetraose (DSLNT) concentrations ranged from 216 ± 14 nmol/mL (in Sweden) to 870 ± 68 nmol/mL (in rural Gambia) (P < 0.05). Maternal age, time postpartum, weight, and body mass index were all correlated with several HMOs, and multiple differences in HMOs [e.g., lacto-N-neotetrose and DSLNT] were shown between ethnically similar (and likely genetically similar) populations who were living in different locations, which suggests that the environment may play a role in regulating the synthesis of HMOs.Conclusions: The results of this study support our hypothesis that normal HMO concentrations and profiles vary geographically, even in healthy women. Targeted genomic analyses are required to determine whether these differences are due at least in part to genetic variation. A careful examination of sociocultural, behavioral, and environmental factors is needed to determine their roles in this regard. This study was registered at clinicaltrials.gov as NCT02670278.
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Affiliation(s)
- Michelle K McGuire
- School of Biological Sciences, .,Paul G Allen School for Global Animal Health, and
| | - Courtney L Meehan
- Department of Anthropology, Washington State University, Pullman, WA
| | | | - Janet E Williams
- Department of Animal and Veterinary Science,,Program in Bioinformatics and Computational Biology
| | | | - Daniel W Sellen
- Dalla Lana School of Public Health, University of Toronto, Toronto, Canada
| | | | | | - Samwel Mbugua
- Department of Human Nutrition, Egerton University, Nakuru, Kenya
| | - Sophie E Moore
- Medical Research Council (MRC), Human Nutrition Research, Elsie Widdowson Laboratory, Cambridge, United Kingdom;,MRC Unit, Banjul, The Gambia
| | - Andrew M Prentice
- MRC International Nutrition Group, London School of Hygiene and Tropical Medicine, London, United Kingdom
| | | | - Gloria E Otoo
- Department of Nutrition and Food Science, University of Ghana, Accra, Ghana
| | - Sarah L Brooker
- Department of Animal and Veterinary Science,,Program in Bioinformatics and Computational Biology
| | - William J Price
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - Bahman Shafii
- Statistical Programs, College of Agricultural and Life Sciences, University of Idaho, Moscow, ID
| | - Caitlyn Placek
- Department of Anthropology, Washington State University, Pullman, WA
| | | | - Bianca Robertson
- Department of Pediatrics and,Mother Milk Infant Center of Research Excellence, University of California, San Diego, La Jolla, CA
| | - Susana Manzano
- Department of Nutrition, Food Science, and Food Technology, Complutense University of Madrid, Madrid, Spain; and
| | - Lorena Ruíz
- Department of Nutrition, Food Science, and Food Technology, Complutense University of Madrid, Madrid, Spain; and
| | - Juan M Rodríguez
- Department of Nutrition, Food Science, and Food Technology, Complutense University of Madrid, Madrid, Spain; and
| | | | - Lars Bode
- Department of Pediatrics and .,Mother Milk Infant Center of Research Excellence, University of California, San Diego, La Jolla, CA
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8
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Carrothers JM, York MA, Brooker SL, Lackey KA, Williams JE, Shafii B, Price WJ, Settles ML, McGuire MA, McGuire MK. Fecal Microbial Community Structure Is Stable over Time and Related to Variation in Macronutrient and Micronutrient Intakes in Lactating Women. J Nutr 2015; 145:2379-88. [PMID: 26311809 PMCID: PMC4580954 DOI: 10.3945/jn.115.211110] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2015] [Accepted: 07/30/2015] [Indexed: 01/04/2023] Open
Abstract
BACKGROUND The fecal microbiota has been characterized in some adult populations, but little is known about its community structure during lactation. OBJECTIVES We characterized the maternal fecal microbiome during lactation and explored possible mediating factors such as nutrition. METHODS Fecal samples were collected from 20 lactating women from 2 d to 6 mo postpartum, and bacterial taxa were characterized with the use of high-throughput sequencing. Bacterial community structure (at each taxonomic level) and relations between bacterial taxa and environmental and dietary variables were visualized and analyzed with the use of stacked bar charts, principal component analysis, and multivariate analyses such as nonmetric multidimensional scaling and canonical correlation analysis. RESULTS Complex bacterial community structure was somewhat similar to those previously published for other adult populations (although there were some notable differences), and there were no clear associations with time postpartum or anthropometric or environmental variables. However, Spearman rank correlations suggested that increased intake of pantothenic acid, riboflavin, vitamin B-6, and vitamin B-12 were related to increased relative abundance of Prevotella (r = 0.45, 0.39, 0.34, and 0.24, respectively; P ≤ 0.01) and decreased relative abundance of Bacteroides (r = -0.55, -0.46, -0.32, and -0.35, respectively; P ≤ 0.01). Intakes of copper, magnesium, manganese, and molybdenum were positively associated with Firmicutes (r = 0.33, 0.38, 0.44, and 0.51, respectively; P ≤ 0.01) and negatively associated with Bacteroidetes (r = -0.38, -0.44, -0.48, and -0.53, respectively; P ≤ 0.01). Overall, data consistently suggest that increased consumption of a more nutrient- and calorie-rich diet was positively associated with relative abundance of Firmicutes. CONCLUSIONS The fecal microbiome of lactating women is relatively stable in the postpartum period and somewhat similar to that of other adult populations. Variation in dietary constituents may be related to that of relative abundance of individual bacterial taxa. Controlled dietary intervention studies will be required to determine whether these associations are causal in nature.
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Affiliation(s)
- Janae M Carrothers
- School of Biological Sciences, Washington State University, Pullman, WA; and
| | - Mara A York
- School of Biological Sciences, Washington State University, Pullman, WA; and
| | - Sarah L Brooker
- Department of Animal and Veterinary Science,,Program in Bioinformatics and Computational Biology
| | - Kimberly A Lackey
- School of Biological Sciences, Washington State University, Pullman, WA; and
| | - Janet E Williams
- Department of Animal and Veterinary Science,,Program in Bioinformatics and Computational Biology
| | - Bahman Shafii
- Statistical Programs, College of Agricultural and Life Sciences, and
| | - William J Price
- Statistical Programs, College of Agricultural and Life Sciences, and
| | - Matthew L Settles
- Institute for Bioinformatics and Evolutionary Studies, Department of Biological Sciences, University of Idaho, Moscow, ID
| | - Mark A McGuire
- Department of Animal and Veterinary Science,,Program in Bioinformatics and Computational Biology
| | - Michelle K McGuire
- School of Biological Sciences, Washington State University, Pullman, WA; and
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9
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Yahvah KM, Brooker SL, Williams JE, Settles M, McGuire MA, McGuire MK. Elevated dairy fat intake in lactating women alters milk lipid and fatty acids without detectible changes in expression of genes related to lipid uptake or synthesis. Nutr Res 2015; 35:221-8. [PMID: 25661476 DOI: 10.1016/j.nutres.2015.01.004] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2014] [Revised: 01/02/2015] [Accepted: 01/13/2015] [Indexed: 01/09/2023]
Abstract
Previous work has demonstrated that elevated maternal lipid intake (particularly from dairy products) is associated with increased lipids and altered fatty acid profile in milk produced by healthy lactating women. To investigate our primary hypothesis that a maternal diet rich in full-fat dairy products would simultaneously increase milk lipid percent and expression of genes related to the uptake and/or de novo biosynthesis of milk lipids, we provided 15 lactating women with diets enriched in full-fat or nonfat dairy products for 14 days each in a randomized, crossover study with a 2-week washout period. Milk fat (%) was lower when women consumed the low-fat compared with the full-fat dairy diet (2.41% ± 0.31% vs 3.35% ± 0.28%, respectively; P < .05); concentrations of more than 20 fatty acids also differed. However, neither conservatively evaluated microarray data nor quantitative real-time polymerase chain reaction analysis uncovered any treatment effects on expression of genes related to lipid synthesis or uptake. These data suggest that alteration in gene expression in the lactating human mammary gland is likely not the primary mechanism by which consumption of a high-fat diet affects milk fat percent in healthy, lactating women.
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Affiliation(s)
- Katherine M Yahvah
- Department of Animal and Veterinary Science, University of Idaho, Moscow, ID, USA; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow, ID, USA
| | - Sarah L Brooker
- Department of Animal and Veterinary Science, University of Idaho, Moscow, ID, USA; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow, ID, USA
| | - Janet E Williams
- Department of Animal and Veterinary Science, University of Idaho, Moscow, ID, USA; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow, ID, USA; School of Biological Sciences, Washington State University, Pullman, WA, USA
| | - Matthew Settles
- Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow, ID, USA
| | - Mark A McGuire
- Department of Animal and Veterinary Science, University of Idaho, Moscow, ID, USA; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow, ID, USA
| | - Michelle K McGuire
- School of Biological Sciences, Washington State University, Pullman, WA, USA.
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10
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Williams JE, Riley MA, Brooker SL, Hunt KM, Szyszka A, Bode L, McGuire MK, McGuire MA. Relationship between human milk oligosaccharides and fecal microbiome of breastfed infants. FASEB J 2013. [DOI: 10.1096/fasebj.27.1_supplement.45.5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Janet E Williams
- Bioinformatics and Computational BiologyUniversity of IdahoMoscowID
| | - Mara A Riley
- School of Biological SciencesWashington State UniversityPullmanWA
| | | | | | | | - Lars Bode
- Dept of PediatricsUniversity of CaliforniaSan DiegoCA
| | | | - Mark A McGuire
- Animal and Veterinary ScienceUniversity of IdahoMoscowID
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11
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Hunt KM, Brooker SL, Sanz‐Fernandez MV, Gabler NK, Baumgard LH, McGuire MA. The effects of heat stress and Zn intake on the microbial communities in the stomach, ileum, colon and feces of pigs. FASEB J 2013. [DOI: 10.1096/fasebj.27.1_supplement.356.7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Katherine M Hunt
- Department of Animal and Veterinary SciencesUniversity of IdahoMoscowID
| | - Sarah L Brooker
- Department of Animal and Veterinary SciencesUniversity of IdahoMoscowID
| | | | | | | | - Mark A. McGuire
- Department of Animal and Veterinary SciencesUniversity of IdahoMoscowID
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12
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Williams J, Wilcox J, Meehan CL, Brooker SL, Hunt KM, McGuire MA, McGuire MK. Macronutrient composition of milk produced by Ngandu and Aka women in the Central African Republic. FASEB J 2012. [DOI: 10.1096/fasebj.26.1_supplement.624.5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Janet Williams
- Animal and Veterinary ScienceUniversity of IdahoMoscowID
- School of Biological SciencesWashington State UniversityPullmanWA
| | | | | | | | | | - Mark A McGuire
- Animal and Veterinary ScienceUniversity of IdahoMoscowID
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13
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Hunt KM, Brooker SL, Williams JE, McGuire MK, McGuire MA. Elevated dairy fat intake by lactating women increases milk fat and alters fatty acid profile, but does not change gene expression in the milk fat globule transcriptome. FASEB J 2012. [DOI: 10.1096/fasebj.26.1_supplement.390.4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | | | - Janet E Williams
- Animal and Veterinary SciencesUniversity of IdahoMoscowID
- Biological SciencesWashington State UniversityPullmanWA
| | | | - Mark A McGuire
- Animal and Veterinary SciencesUniversity of IdahoMoscowID
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