Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Uncultured fungus

ABSTRACT: Vine-Associated Yeast Metagenome

PROVIDER: PRJNA74779 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR330045.fastq.gz	Fastqsanger.gz
	SRR330046.fastq.gz	Fastqsanger.gz
	SRR330047.fastq.gz	Fastqsanger.gz
	SRR330048.fastq.gz	Fastqsanger.gz
	SRR330049.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 9

Similar Datasets

uncultured fungus

Project description:uncultured root-associated fungus overview

| PRJNA326990 | ENA

uncultured fungus

Project description:Root associated fungi Targeted loci environmental

| PRJNA395957 | ENA

uncultured fungus

Project description:AMF communities associated with Podocarpaceae in Mt. Kinabalu

| PRJDB4057 | ENA

uncultured fungus

Project description:Wuying Fungi Metagenome

| PRJNA399677 | ENA

uncultured fungus

Project description:Salt Marsh Fungi Metagenome

| PRJNA375785 | ENA

The curse of the uncultured fungus.

Project description:The international DNA sequence databases abound in fungal sequences not annotated beyond the kingdom level, typically bearing names such as "uncultured fungus". These sequences beget low-resolution mycological results and invite further deposition of similarly poorly annotated entries. What do these sequences represent? This study uses a 767,918-sequence corpus of public full-length fungal ITS sequences to estimate what proportion of the 95,055 "uncultured fungus" sequences that represent truly unidentifiable fungal taxa - and what proportion of them that would have been straightforward to annotate to some more meaningful taxonomic level at the time of sequence deposition. Our results suggest that more than 70% of these sequences would have been trivial to identify to at least the order/family level at the time of sequence deposition, hinting that factors other than poor availability of relevant reference sequences explain the low-resolution names. We speculate that researchers' perceived lack of time and lack of insight into the ramifications of this problem are the main explanations for the low-resolution names. We were surprised to find that more than a fifth of these sequences seem to have been deposited by mycologists rather than researchers unfamiliar with the consequences of poorly annotated fungal sequences in molecular repositories. The proportion of these needlessly poorly annotated sequences does not decline over time, suggesting that this problem must not be left unchecked.

| S-EPMC8828591 | biostudies-literature

uncultured fungus

Project description:Chromium contaminated soil fungi Metagenome

| PRJNA399327 | ENA

uncultured fungus

Project description:Bioreactor fungi metagenome Raw sequence reads

| PRJNA378603 | ENA

uncultured fungus

Project description:Fungal community compositions associated with roots of conifer and broadleaf seedlings in forest ecosystems

| PRJDB4837 | ENA

uncultured fungus

Project description:Endomycobiotas of the last four cohorts of Abies balsamea needles display relatively similar diversities but different compositions

| PRJNA549007 | ENA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data