2024-12-11
ENA first public
ERC000047
ENA-CHECKLIST
CMR
INSDC center name
public
INSDC status
ERS22456428
SRA accession
ERP119294_co1_325
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaSPAdes;3.15.4;default
assembly software
coverage and kmer
binning parameters
SemiBin2;2.0.2;default
binning software
terrestrial
broad-scale environmental context
not provided
collection date
98.65
%
completeness score
CheckM2;1.0.2;default
completeness software
1.19
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic runs ERR3804373,ERR3804374 of study ERP119294.
description
terrestrial
environmental medium
not provided
geographic location (country and/or sea)
not provided
DD
geographic location (latitude)
not provided
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
sediment metagenome
isolation_source
sediment biome
local environmental context
sediment metagenome
metagenomic source
uncultured Burkholderiaceae bacterium
organism
Lake sediments not only store the long-term ecological information, but are also a source of sedimentary ancient DNA (sedaDNA). Here, by combination of traditional multi-proxy paleolimnological methods with the whole-metagenome shotgun-sequencing of sedaDNA we were able to paint a comprehensive picture of the fluctuations in trophy and microbial diversity and metabolism of a small temperate lake in response to hemp retting, across the past 2000 years. Hemp retting (HR), a key step in hemp fibre production, was historically carried out in freshwater reservoirs and had a negative impact on the lake ecosystems. In Lake Slone, we identified two HR events, during the late stage of Roman and Early Medieval periods, and correlated these to increased trophy and imbalanced lake microbiome. The metagenomic analyses showed a higher abundance of Chloroflexi, Planctomycetes and Bacteroidetes and a functional shift towards anaerobic metabolism, including degradation of complex biopolymers such as pectin and cellulose, during HR episodes. The lake eutrophication during HR was linked to the allochthonous, rather than autochthonous carbon supply – hemp straws. We also showed that the identification of HR based on the palynological analysis of hemp pollen may be inconclusive and we suggest employment of the fibre count analysis as an additional and independent proxy.
project name
SAMEA6464978,SAMEA6464979
sample derived from
uncultured Burkholderiaceae bacterium
scientific_name
NextSeq 500
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: ERP119294_co1_325
title