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Protocols

mOTU specifications

Information


Unique identifier OMICS_08419
Name mOTU
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for mOTU

mOTU citations

 (10)
library_books

Similarity of the dog and human gut microbiomes in gene content and response to diet

2018
Microbiome
PMCID: 5907387
PMID: 29669589
DOI: 10.1186/s40168-018-0450-3

[…] by the figure-pcoa_boxplots.py script., to determine the total microbial species composition of each stool sample, for both taxa previously identified and those yet to be isolated and characterized, motu-lgs were constructed as described by []. in brief, a non-redundant database of single copy marker genes (mgs), extracted from reference genomes as well as those assembled from canine and human […]

library_books

Subspecies in the global human gut microbiome

2017
Mol Syst Biol
PMCID: 5740502
PMID: 29242367
DOI: 10.15252/msb.20177589

[…] ) protocols for speci clusters (mende et al, ). throughout the manuscript, we used speci clusters at the species level related via the ncbi taxonomy database as a taxonomic reference. additionally, motu abundances were also determined using standard mocat procedures (sunagawa et al, ), but exclusively used to estimate species diversity ()., for calling genomic variants, all metagenomic […]

library_books

Enhancing the Resolution of Rumen Microbial Classification from Metatranscriptomic Data Using Kraken and Mothur

2017
Front Microbiol
PMCID: 5725470
PMID: 29270165
DOI: 10.3389/fmicb.2017.02445

[…] () (e.g., clark – ; gottcha – ; kraken – ; mg-rast – ), and (2) programs that target a set of marker genes (), also known as clustering-first approaches () (e.g., qiime – ; mothur – ; metaphlan – ; motu – ). in the assignment-first tools, all reads are assigned to the lowest taxonomy unit (lower common ancestor-lca) within a reference database based on their annotations, […]

library_books

Bacteriophage Distributions and Temporal Variability in the Ocean’s Interior

2017
MBio
PMCID: 5705922
PMID: 29184020
DOI: 10.1128/mBio.01903-17

[…] a bacterium. to generate copy number per cellular genome, coverages of prophage and phage markers were normalized to the average coverage of 10 universal single-copy bacterial marker genes, called motu profiling (, )., sequence data are available at ncbi under bioproject no. prjna352737 and at https://www.imicrobe.us/#/projects/263., citation luo e, aylward fo, mende dr, delong ef. 2017. […]

library_books

Analyses of gut microbiota and plasma bile acids enable stratification of patients for antidiabetic treatment

2017
Nat Commun
PMCID: 5702614
PMID: 29176714
DOI: 10.1038/s41467-017-01682-2

[…] this observation, both gene count and shannon index decreased after acarbose treatment, but not after glipizide treatment (fig. ). analysis of species-level molecular operational taxonomic unit (motu) profiles demonstrated that acarbose led to significant changes in the relative abundances of 69 motus (paired wilcoxon rank-sum test, q < 0.01; fig. ; supplementary table ); glipizide […]

library_books

Functional implications of microbial and viral gut metagenome changes in early stage L DOPA naïve Parkinson’s disease patients

2017
Genome Med
PMCID: 5408370
PMID: 28449715
DOI: 10.1186/s13073-017-0428-y

[…] dividing each feature by the respective total sample sum and transformed with log10(x + 1), where x is the normalized feature coverage as calculated in the motus algorithm. for species and motu level analysis, we made the filtering options more explicit to exclude spurious correlations: from the abundance matrix features were removed that were absent in more than ten samples, had less […]


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mOTU institution(s)
European Molecular Biology Laboratory, Heidelberg, Germany

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