Microbiome

Note: Many pages still need to be moved from Antibiotics, probiotics

19 of the 106,000 studies which have Microbiome in the title

Google Scholar - Feb 2024

• The cancer microbiome - June 2019 PDF via Sci-Hub
• The Healthy Microbiome—What Is the Definition of a Healthy Gut Microbiome? - Jan 2021  PDF via Sci-Hub
• Current understanding of the human microbiome - April 2018  PDF
• The gut microbiome in neurological disorders - Feb 2020  PDF via Sci-Hub
• Emerging role of the host microbiome in neuropsychiatric disorders: overview and future directions - Oct 2023  PDF
• Understanding the role of the gut microbiome in gastrointestinal cancer: A review -Jan 2023 https://doi.org/10.3389/fphar.2023.1130562 FREE PDF
• The gut microbiome in Alzheimer’s disease: what we know and what remains to be explored - Feb 2023 https://doi.org/10.1186/s13024-023-00595-7 FREE PDF
• The human microbiome and COVID-19: A systematic review - June 2021 https://doi.org/10.1371/journal.pone.0253293 FREE PDF
• Interaction between drugs and the gut microbiome - July 2020 https://gut.bmj.com/content/69/8/1510 FREE PDF
• Role of the gut microbiome in chronic diseases: a narrative review - Sept 2021  PDF
• The Healthy Microbiome—What Is the Definition of a Healthy Gut Microbiome? - Jan 2021 - abstract plus snips of the PDF https://doi.org/10.1053/j.gastro.2020.09.057
• The human skin microbiome - Jan 2018 https://doi.org/10.1038/nrmicro.2017.157 FREE PDF
• Oral microbiome: Unveiling the fundamentals - Jan 2019 PDF
• Gut Microbiome: The Cornerstone of Life and Health - April 2022 https://doi.org/10.1155/2022/9894812 FREE PDF
• The microbiome in autoimmune diseases - Jan 2019 https://doi.org/10.1111/cei.13158 FREE PDF
• The Microbiome and Aging - Dec 2019 https://doi.org/10.1146/annurev-genet-112618-043650 FREE PDF
• The gut microbiome and metabolic syndrome - Oct 2019 https://doi.org/110.1172/JCI129194 FREE PDF
• The Brain-Gut-Microbiome Axis - 2018 https://doi.org/10.1016/j.jcmgh.2018.04.003 FREE PDF

The person-to-person transmission landscape of the gut and oral microbiomes - Jan 2023

Table of Contents of PDF

The human microbiome is an integral component of the human body and a co-determinant of several health conditions1,2. However, the extent to which interpersonal relations shape the individual genetic makeup of the microbiome and its transmission within and across populations remains largely unknown3,4.
Here, capitalizing on more than 9,700 human metagenomes and computational strain-level profiling, we detected extensive bacterial strain sharing across individuals (more than 10 million instances) with distinct mother-to-infant, intra-household and intra-population transmission patterns.
Mother-to-infant gut microbiome transmission was considerable and stable during infancy (around 50% of the same strains among shared species (strain-sharing rate)) and remained detectable at older ages.
By contrast, the transmission of the oral microbiome occurred largely horizontally and was enhanced by the duration of cohabitation.
There was substantial strain sharing among cohabiting individuals, with 12% and 32% median strain-sharing rates for the gut and oral microbiomes, and time since cohabitation affected strain sharing more than age or genetics did.
Bacterial strain sharing additionally recapitulated host population structures better than species-level profiles did. Finally, distinct taxa appeared as efficient spreaders across transmission modes and were associated with different predicted bacterial phenotypes linked with out-of-host survival capabilities. The extent of microorganism transmission that we describe underscores its relevance in human microbiome studies5, especially those on non-infectious, microbiome-associated diseases.
 Download the PDF from Vitamin D Life

Study was extensively reviewed in QuantaMagazine - March 2023

Unlocking the ‘gut microbiome’ – and its massive significance to our health - July 2021

The Guardian
Scientists are only just discovering the enormous impact of our gut health – and how it could hold the key to everything from tackling obesity to overcoming anxiety and boosting immunity

A few snips from their excellent overview

• "Your gut microbiome weighs about 2kg and is bigger than the average human brain. It’s a bustling community of trillions of bacteria, archaea, fungi and viruses, containing at least 150 times more genes than the human genome. We are filled to the brim with microbes, which form microbiomes on our skin, in our mouths, lungs, eyes, and reproductive systems. These have co-evolved alongside us since the beginning of human history. But the gut’s is the largest and most significant for our short- and long-term health. It is massively complex and its residents vary enormously from person to person. According to a study in 2020 by the European Bioinformatics Institute, which pooled more than 200,000 gut genomes to create a genetic database of human gut microbes, 70% of the microbial populations it listed – 2,000 species – hadn’t yet been cultured in a lab and were previously unknown."
• “Over the past 80 years and since the dawn of antibiotics, there has been multi-generational loss of microbes that appear to be important for human health,” he says. “They’re passed from mother to child [during birth, via breastmilk and skin contact] throughout the generations, but at some point in the last three or four generations, we lost some. We’re not entirely sure if the cause was our lifestyle, our diet, cleanliness in our homes or the use of antibiotics. We’re also missing certain immune stimulants that people in the developing world have plenty of.”
• To do this, microbes need about 30g of fibre a day, but the average intake in the UK is just 10-15g. Is this why modern, low fibre, ultra-processed, high-sugar diets seem so problematic for human gut health?
• The great opportunity – but also the great difficulty – of gut microbiome science is that poor gut health is associated with such a vast range of conditions, from obesity and degenerative brain diseases to depression, inflammatory bowel disease and chronic inflammation. “The microbiome is associated with everything,”
• "Spector’s 30-year-long study of 15,000 twins, TwinsUK, and his PREDICT studies have shown that even genetically identical people respond to the same foods very differently (our microbiomes are so variable that twins share only 30% of the same gut microbes)."
• "A very small Italian study using a similar commercial probiotic, Sivomixx, piqued his interest after it suggested acute Covid patients treated with it might be less likely to end up in ICU or to die, and eight times less likely to suffer respiratory failure. Bjarnason is hoping to start a larger study in the next few months."

How Your Microbiome Affects Your Emotions and Wellbeing - GrassrootsHealth Sept 2021

Short article and 7 min. video

Selected Microbiome items

• Nutrients, Microbiome, and Chronic Diseases - April 2023
• Fecal transplants - many studies
• Healthy microbiota might reduce COVID-19 – several studies
• Poor absorption of Vitamin D is strongly related to type of gut bacteria – Dec 2020
• Vitamin D and the Host-Gut Microbiome: A Brief Overview– June 2020
• Parkinson's Disease and gut microbiome - several studies
• Vitamin D levels change Gut Microbiota – 25 study review Sept 2021
• Gut Microbiota: improved by Vitamin D – narrative review – July 2021
• Gut microbiome massively changed by weekly vitamin D – July 2015

14 articles in both of the categories Microbiome and Gut

This list is automatically updated

Per mL: Mouth:100,000, Esophagus:10 Million, Stomach: 1,000, Small Intestine: 1,000 to 100 Million, Large Intestine: up to 1 Trillion

colony-forming units (CFU) per milliliter (mL)
What Lives in Your Gut? Mercola Feb 2024
 Download the PDF from Vitamin D Life

All 33 Microbiome articles

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All 91 Antibiotic - Probiotic articles

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