2024-12-11
ENA first public
ERC000047
ENA-CHECKLIST
CMR
INSDC center name
public
INSDC status
ERS22431159
SRA accession
binchicken_co165_435
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
MEGAHIT;1.2.9;default
assembly software
coverage and kmer
binning parameters
VAMB;3.0.2;default
binning software
aquatic
broad-scale environmental context
not provided
collection date
90.93
%
completeness score
CheckM2;1.0.2;default
completeness software
0.09
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs SRR12685295,SRR9952630 of study SRP284337.
description
aquatic
environmental medium
not applicable
geographic location (country and/or sea)
not provided
DD
geographic location (latitude)
not provided
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
freshwater sediment metagenome
isolation_source
freshwater sediment biome
local environmental context
freshwater sediment metagenome
metagenomic source
uncultured Bifidobacteriaceae bacterium
organism
Microbially mediated sulfate reduction in aquatic sediments mineralizes organic carbon, generates hydrogen sulfide, and mediates the geochemical cycles of other elements, such as iron, phosphorus, and mercury. While organic matter contains a number of sulfur compounds, little is known of the fate of this organic sulfur pool during mineralization and more importantly its contribution to the inorganic sulfur cycle that fuels sulfate reduction. The current paradigm of sulfate reduction involves diffusion of sulfur from overlying water into the sediments where sulfur-reducing microorganisms are present. Contrary to the paradigm, modeling and preliminary results demonstrate that under low-sulfate conditions organic sulfur buried in sediment may be the dominant source of sulfur for sulfate reduction, and once mobilized, via microbial biotransformation, may be exported to the overlying water column. Contributions from organic sulfur may be pervasive in environments such as oligotrophic freshwater lakes or the oceans of the geologic past. By characterizing the organic sulfur transformations in sediments across a range of sulfate and organic carbon levels in Lake Superior and its largest American tributary, investigators will address the following questions under a range of environmental conditions: A. To what extent does organic sulfur contribute to the pool of sulfur that fuels sulfate reduction? B. Does organic sulfur undergo cryptic, microbially-mediated biogeochemical transformations, and what microorganisms are responsible for these transformations? They have assembled a multidisciplinary research team that combines expertise in sediment geochemistry, organic geochemistry, and geomicrobiology to address these objectives using sediment characterizations, rate measurements, molecular characterizations of microbial communities, and modeling. The results will quantify an important part of the diagenetic sulfur cycle that has received little attention despite its potential significance in environments such as freshwater lakes, deep subsurface, and the low sulfate oceans of the geological past. Verifying the proposed hypotheses may lead to reevaluation of the geochemical cycles of sulfur and associated elements such as iron and nitrogen, including cryptic reactions in the sulfate-methane transition zone reinterpretation of the origins of the isotopic signatures of sulfur preserved in both modern aquatic sediments and ancient sedimentary rocks and conservation and management practices in sulfide affected water bodies. The project will generate novel microbial and geochemical data that will be publicly available.
project name
SAMN16212730,SAMN12368158
sample derived from
uncultured Bifidobacteriaceae bacterium
scientific_name
Illumina NovaSeq 6000,Illumina HiSeq 2500
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: binchicken_co165_435
title