Human body microbiome biogeography

Open paper intelligence

Healthy human body sites host distinct bacterial communities across a massive 16S survey.

Source

Biogeography of the ecosystems of the healthy human body

Zhou Y, Gao H, Mihindukulasuriya KA, et al. · Genome biology · 2013

doi.org/10.1186/gb-2013-14-1-r1 Read the full paper ↗425 citationscc by

Study at a glance

Design: Cross-sectional — Multi-habitat 16S analysis of HMP and related healthy cohorts
N: N=236 · 2,983 specimens from 236 HMP subjects (plus smaller urine/penis, preterm stool, conjunctiva sets); >24 million reads
Population: Healthy Human Microbiome Project subjects across body habitats
Outcome: Taxonomic biogeography of the healthy human microbiome

Structured fields used in claim comparison tables when every cited study has a complete layer.

Inspect source passages

Human body microbiome biogeography

These passages occur verbatim in the stored paper text. They support the points listed below; they do not verify every statement in the explanation.

Over 24 million 16S sequences.

Over 24 million, high-quality 16S rRNA gene sequences (generated on the Roche-454 Titanium FLX platform) were included in the analysis.

2,983 specimens from 236 HMP subjects.

The reads were from 2,983 specimens, sampled from 236 HMP healthy subjects at 15 (male) or 18 (female) body habitats, 18 subjects at urine and penis habitats, 10 preterm babies at the stool habitat, and 15 subjects at the conjunctiva (Table ).

Read passages in the original paper

What they did

Analyzed >24 million 16S reads from 2,983 specimens spanning HMP and related healthy cohorts across many body habitats.

What they found

30 phyla to 929 genera detected; habitats differ strongly; average V3–V5 depth ~8,167 reads.

The limits

What it doesn't show

Does not define disease causality for any taxon.

Key terms

Biogeography: Spatial patterns of organism diversity.
Body habitat: Anatomical niche sampled for microbes.
16S rRNA: Marker gene for bacterial community profiling.
HMP: Human Microbiome Project.
OTU/genus richness: Taxonomic diversity measures.
Endemic vs cosmopolitan: Habitat-restricted vs widespread taxa.

Flashcards

1 / 10

0 of 10 answers reviewed

Research intelligence for this paper

See its role on concept claims, tensions it is part of, placement history, and related discoveries.

Open paper intelligence

Quiz yourself

1 / 6

Specimens:

Common questions

Read count?

>24 million.

Specimens?

2,983.

HMP subjects?

236.

Genera found?

929.