Pseudemcibacter sp.
16S recovery software
PROKKA (version 1.14.6)
16s recovered
Yes
ENA first public
2025-03-23
GAL
Queen Mary University of London
GAL_sample_id
NOT PROVIDED
INSDC center name
Tree of Life Programme
INSDC status
public
MAG coverage software
Minimap2 (version 2.24-r1122)
Submitter Id
5b5cba6b-cf4f-4895-9a59-1714b723f2d2
assembly quality
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software
metaMDBG (version 0.3)
barcoding center
NOT PROVIDED
binning parameters
coverage; graph
binning software
MetaBat (version 2.15); DASTOOL (version 1.1.5)
broad-scale environmental context
aquatic biome
collected_by
ROBERT VRIJENHOEK
collecting institution
MONTEREY BAY AQUARIUM RESEARCH INSTITUTE
collection date
1999-01-03
completeness score
55.75
completeness software
checkM (version 1.2.2); checkM_DB (release 2015-01-16)
contamination score
0.43
depth
2599
environmental medium
adult annelid tissue
geographic location (country and/or sea)
Pacific Ocean
geographic location (latitude)
-17.57
geographic location (longitude)
-113.24
geographic location (region and locality)
Southern East Pacific Rise | 17S site
habitat
hydrothermal vent
host life stage
not collected
host scientific name
Alvinella caudata
host sex
not collected
host taxid
36105
identified_by
ROBERT VRIJENHOEK
identifier_affiliation
MONTEREY BAY AQUARIUM RESEARCH INSTITUTE
investigation type
metagenome-assembled genome
isolation_source
Annelid: Alvinella caudata
local environmental context
marine biome
metagenomic source
annelid metagenome
number of standard tRNAs extracted
20
organism part
WHOLE ORGANISM
project name
ASG
proxy voucher
SIO:BIC:A10948
proxy voucher url
https://sioapps.ucsd.edu/collections/bi/catalog/A10948/
sample collection method
collected by the Human Operated Vehicle Alvin
sample derived from
SAMEA117852490
sample name
5b5cba6b-cf4f-4895-9a59-1714b723f2d2
scientific_name
Pseudemcibacter sp.
sequencing method
Pacbio Sequel II
specimen_id
QMOUL0000286
specimen_voucher
NOT_APPLICABLE
tRNA extraction software
PROKKA (version 1.14.6)
taxonomic classification
GTDB-TK (version 2.4.0); GTDB (release 214)
taxonomic identity marker
taxonomic classification defined by topology and ANI
tolid
wtAlvCaud1.Pseudemcibacter_sp_2
voucher institution url
https://ror.org/04v7hvq31