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A rarefaction of data was performed and gave adequate representation of the diversity of the gut microbial community (Tables S1, Table S2 and Figure S3 in the Supplementary File S1).
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The deficiency in vitamin B12, folate and vitamin B6 also produces a rarefaction of hippocampus microvasculature in adult mice [13].
A rarefaction curve, of the total number of reads obtained vs the total number of miRNA species, was plotted.
Fungal and bacterial rarefaction curves and Shannon curves depicting the effect of CS-1 and control treatments on the number of OTUs. a Rarefaction curves of bacteria from CS-1 and control treatments.
We set the rarefaction occurrence value at 75 because that occurrence value provided a large number of data points while at the same time eliminating points that were based on suspect, spotty data.
Analyses were performed using sequencing data for the 16S rDNA V3 and V4 regions, with a rarefaction depth of 10,000 reads per sample.
We also examined the fit of the state:step data to two alternative hypotheses about character-state acquisition: (i) a rarefaction model of character state saturation, expected if there was a ceiling in the number of character states; and (ii) a power function relating new states to steps, expected if only taxa possessing extreme morphology give rise to descendants with derived character states.
A rarefaction analysis of the detected miRNA population was carried out to assess the representativeness of the miRNA reads.
Type IV collagen labeling revealed an important rarefaction of brain vessels in the radiation target.
This novel pattern of labelling appears to correspond to a rarefaction or fine microvacuolation of neuropil as seen on standard HE stained sections.
Representativeness assessed through a rarefaction analysis [ 48] of the ZF miRNA population estimated a population size of 198 different miRNAs.
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