characteristics: ERC000047
characteristics: ENA-CHECKLIST
characteristics: 2022-10-03T20:33:05Z
characteristics: ENA-FIRST-PUBLIC
characteristics: 2022-10-03T20:33:05Z
characteristics: ENA-LAST-UPDATE
characteristics: SAMEA111428924
characteristics: External Id
characteristics: EMG
characteristics: INSDC center name
characteristics: 2022-10-03T20:33:05Z
characteristics: INSDC first public
characteristics: 2022-10-03T20:33:05Z
characteristics: INSDC last update
characteristics: public
characteristics: INSDC status
characteristics: ERS13522599
characteristics: SRA accession
characteristics: SRR11742806_bin.2_metaWRAP_v1.3_MAG
characteristics: Submitter Id
characteristics: Many fragments with little to no review of assembly other than reporting of standard assembly statistics
characteristics: assembly quality
characteristics: metaSPAdes v3.15.3
characteristics: assembly software
characteristics: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.
characteristics: binning parameters
characteristics: metaWRAP v1.3
characteristics: binning software
characteristics: Human reproductive system
characteristics: broad-scale environmental context
characteristics: EBI-EMG
characteristics: broker name
characteristics: 2018-09-18
characteristics: collection date
characteristics: 98.63
characteristics: %
characteristics: completeness score
characteristics: CheckM
characteristics: completeness software
characteristics: 0.46
characteristics: %
characteristics: contamination score
characteristics: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR11742806 of study SRP260845.
characteristics: description
characteristics: Vagina
characteristics: environmental medium
characteristics: USA
characteristics: geographic location (country and/or sea)
characteristics: 46.7272
characteristics: DD
characteristics: geographic location (latitude)
characteristics: -117.0103
characteristics: DD
characteristics: geographic location (longitude)
characteristics: metagenome-assembled genome
characteristics: investigation type
characteristics: vaginal metagenome
characteristics: isolation_source
characteristics: Vagina
characteristics: local environmental context
characteristics: vaginal metagenome
characteristics: metagenomic source
characteristics: uncultured Bifidobacteriaceae bacterium
characteristics: organism
characteristics: Alpha-amylase is a key enzyme that is thought to depolymerize glycogen in the human vagina. The sugars that are produced are important resources for bacteria in the vaginal community. Humans produce two sources of alpha-amylase in the salivary glands and the pancreas. Bacteria can also produce different types of amylases in various habitats. However, it is unclear whether the alpha-amylase that has been detected in the vagina is produced by the human host, members of the bacterial community, or both. We collected cervicovaginal mucus samples from 23 reproductive age women to determine what amylases were present in the vagina and their likely source, when possible. Four samples were selected for metagenomics to identify putative amylase enzymes within the metagenome assembled genomes of bacteria residing the in the vaginal community.
characteristics: project name
characteristics: SAMN14733370
characteristics: sample derived from
characteristics: uncultured Bifidobacteriaceae bacterium
characteristics: scientific_name
characteristics: Illumina HiSeq 4000
characteristics: sequencing method
characteristics: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Actinobacteria;o__Bifidobacteriales;f__Bifidobacteriaceae;g__;s__
characteristics: taxonomic classification
characteristics: multi-marker approach
characteristics: taxonomic identity marker
characteristics: Metagenome-assembled genome: SRR11742806_bin.2_metaWRAP_v1.3_MAG
characteristics: title