Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Compost metagenome

ABSTRACT: Metagenomic analysis of a vermicomposting system in Uganda

PROVIDER: PRJNA311675 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR3203336.fastq.gz	Fastqsanger.gz
	SRR3203327.fastq.gz	Fastqsanger.gz
	SRR3203337.fastq.gz	Fastqsanger.gz
	SRR3203328.fastq.gz	Fastqsanger.gz
	SRR3203338.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

compost metagenome

Project description:16S metagenomic analysis of vermicomposting

| PRJDB18175 | ENA

compost metagenome

Project description:vermicomposting and control treatment Targeted Locus (Loci)

| PRJNA308649 | ENA

compost metagenome

Project description:16S metagenomic analysis of hyperthermophilic composting

| PRJDB13551 | ENA

compost metagenome

Project description:Persistence or attenuation of antibiotic resistance genes during full-scale swine manure vermicomposting via housefly larvae (Musca domestica)

| PRJDB2338 | ENA

compost metagenome

Project description:compost metagenome Metagenomic assembly

| PRJNA722803 | ENA

compost metagenome

Project description:Thermophilic Microbial Consortium Metagenomic assembly

| PRJNA316635 | ENA

Metagenome and Viral Interrogation of a Moose Rumen Microbial Community

Project description:Proteomic data from moose fistulated rumen; metagenomic and viral sequencing performed; metabolic pathways reconstructed

2018-07-03 | PXD008667 | Pride

compost metagenome

Project description:Nitrile-treated enrichment cultures (Metagenomic assembly)

| PRJNA488358 | ENA

Metagenome

Project description:Comparative analysis of fungal communities in a vermicomposting system amended with rabbit faeces

| PRJNA1077090 | ENA

Characterisation of three novel α-L-arabinofuranosidases from a compost metagenome.

Project description:BackgroundThe importance of the accessory enzymes such as α-L-arabinofuranosidases (AFases) in synergistic interactions within cellulolytic mixtures has introduced a paradigm shift in the search for hydrolytic enzymes. The aim of this study was to characterize novel AFase genes encoding enzymes with differing temperature optima and thermostabilities for use in hydrolytic cocktails.ResultsThree fosmids, pFos-H4, E3 and D3 were selected from the cloned metagenome of high temperature compost, expressed in Escherichia coli and subsequently purified to homogeneity from cell lysate. All the AFases were clustered within the GH51 AFase family and shared a homo-hexameric structure. Both AFase-E3 and H4 showed optimal activity at 60 °C while AFase-D3 had unique properties as it showed optimal activity at 25 °C as well as the ability to maintain substantial activity at temperatures as high as 90 °C. However, AFase-E3 was the most thermostable amongst the three AFases showing full activity even at 70 °C. The maximum activity was observed at a pH profile between pH 4.0-6.0 for all three AFases with optimal activity for AFase H4, D3 and E3 at pH 5.0, 4.5 and 4.0, respectively. All the AFases showed KM range between 0.31 mM and 0.43 mM, Kcat range between 131 s- 1 and 219 s- 1 and the specific activity for AFase-H4, AFases-E3 and was 143, 228 and 175 U/mg, respectively. AFases-E3 and D3 displayed activities against pNP-β-L-arabinopyranoside and pNP-β-L-mannopyranoside respectively, and both hydrolysed pNP-β-D-glucopyranoside.ConclusionAll three AFases displayed different biochemical characteristics despite all showing conserved overall structural similarity with typical domains of AFases belonging to GH51 family. The hydrolysis of cellobiose by a GH51 family AFase is demonstrated for the first time in this study.

| S-EPMC6472066 | biostudies-literature

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