mOTU protocols

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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 in pipeline

2017
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 […]


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mOTU in publications

 (10)
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 […]

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 […]

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, […]

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. […]

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 […]


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

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