Questions tagged [microbiome]
Tag for questions related to the collection of all the microorganisms living in association with the body of a multicellular organism, such as the human microbiome, or the full collection of genes of all the microbes in a community, such as all of the organisms that form the human microbiome.
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Is it possible to improve metabolic rate through quorum sensing?
I am building a microbial fuel cell unit using mint plant and soil microbes. My goal is to power a LED light using the electricity but the electrify that microbes are so little so I am thinking of ...
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Can saltwater bacteria grow in petri-dish using the same agar nutrient media?
I am planning on growing bacteria from a seawater sample to do a research project on the relationship between pH (lowered using sulfuric acid) and the bacterial concentration of the water sample (...
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How to Resuspend cells at cell density of 8 log CFU/ml of bacterial culture whose CFU/ml i don't know at 600nm, also it doesn't grow well on MRS agar?
According to procedure after 24 hr growth of Lactobacillus delbruckii subsp lactis in MRS broth, I have to resuspend it at 10 raise to power 8 CFU/ml and then inoculate it further. But it doesn't grow ...
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Doesn't pasteurization kill gut bacteria such as Akkermansia muciniphila?
I've recently watched two presentations on YouTube (this and this) about Akkermansia municiphila, a commensal bacteria that feeds on the mucus of the gut.
What I find confusing is their claim about ...
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If we cloned an extinct animal, what would become of its gut biome?
If we cloned an extinct animal like the mammoth, what would become of its gut biome?
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Why does low redox potential mean less oxygen?
I often see statements about adding reducing agents like cysteine to anaerobic medium to decrease the amount of the dissolved oxygen.
However, I am not sure why.
I am wondering if it is because under ...
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RNA sequencing and taxonomic analysis of gut microbiome
I've been searching for methods of RNA sequencing, and I always find that the step of rRNA removal is emphasized. However, in my research, I need to analyze both functional and taxonomic data from the ...
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Limitations of 16S rRNA sequencing
Looking at the microbiome analysis literature there seems to have been a shift away from 16S rRNA sequencing analysis toward shotgun sequencing of the whole genome. While the motivation given is ...
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Extrapolating rarefaction curves
I am interested in methods for extrapolating rarefaction curves and/or estimating the true species richness. The ecosystem of interest is the gut microbiome and extrapolation is to higher sequencing.
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What are the considerations for studying population genetics of bacterial pan-genomes?
I am beginning to work in the field of human gut microbiome, and wondering how (and if) the concepts of population genetics could be applied there.
Considering the competition between the species ...
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Can we apply NGS (next generation sequencing) on DNA extracted from formalin fixed paraffin embedded tissues (FFPE)?
I'm working on the microbiome and I can only use tissues which are fixed with formalin and embedded in paraffin. Is it possible to apply NGS (next generation sequencing) on FFPE (formalin fixed ...
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16S sequencing: pooled or individual samples?
I am planning to run 16S sequencing on a set of individuals to explore microbial diversity. The question I am facing is: should I sequence them individually or I pool them (for example 5 individuals = ...
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Is Klebsiella pneumoniae found in the throat of healthy people? [closed]
Is Klebsiella pneumoniae found in the throat of healthy people?
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Does animal based food contain molecules that behave like dietary fiber for humans?
I have read that dietary fiber is beneficial to human health in many ways, for example that it can help to reduce risk of colorectal cancer. However, when I look at nutrition labels on food it seems ...
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identifying OTU interactions / hubs
I would like to know how can i run a network analysis for identifying major OTUs hubs. I wish to build a network of co-occurring OTUs found in different soils samples.
I've started going through the ...
