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Compost metagenome

ABSTRACT: eukaryotic community analysis

PROVIDER: PRJDB2331 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR003887.fastq.gz	Fastqsanger.gz
	DRR003888.fastq.gz	Fastqsanger.gz
	DRR003889.fastq.gz	Fastqsanger.gz
	DRR003890.fastq.gz	Fastqsanger.gz
	DRR003891.fastq.gz	Fastqsanger.gz

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compost metagenome

Project description:structural analysis of microbial community for feild soil and compost made from coffee lees

| PRJDB3929 | 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

compost metagenome

Project description:metagenome of compost fungal community Metagenome

| PRJNA288412 | ENA

soil metagenome

Project description:wetland eukaryotic community

| PRJDB8317 | ENA

aquatic metagenome

Project description:Eukaryotic community Metagenome

| PRJNA178302 | ENA

eukaryotic metagenome

Project description:airborne eukaryotic community

| PRJDB10030 | ENA

compost metagenome

Project description:Bacterial community during oyster mushroom (Pleurotus ostreatus) production

| PRJNA630385 | ENA

lake water metagenome

Project description:Lake eukaryotic community

| PRJDB7420 | ENA

compost metagenome

Project description:Bacterial community changes during substrate preparation for oyster mushroom cultivation

| PRJNA397447 | ENA

Characterization of a novel ?-glucosidase from a compost microbial metagenome with strong transglycosylation activity.

Project description:The ?-glucosidase encoded by the td2f2 gene was isolated from a compost microbial metagenomic library by functional screening. The protein was identified to be a member of the glycoside hydrolase family 1 and was overexpressed in Escherichia coli, purified, and biochemically characterized. The recombinant ?-glucosidase, Td2F2, exhibited enzymatic activity with ?-glycosidic substrates, with preferences for glucose, fucose, and galactose. Hydrolysis occurred at the nonreducing end and in an exo manner. The order of catalytic efficiency for glucodisaccharides and cellooligosaccharides was sophorose > cellotetraose > cellotriose > laminaribiose > cellobiose > cellopentaose > gentiobiose, respectively. Intriguingly, the p-nitrophenyl-?-D-glucopyranoside hydrolysis activity of Td2F2 was activated by various monosaccharides and sugar alcohols. At a D-glucose concentration of 1000 mM, enzyme activity was 6.7-fold higher than that observed in the absence of D-glucose. With 31.3 mM D-glucose, Td2F2 catalyzed transglycosylation to generate sophorose, laminaribiose, cellobiose, and gentiobiose. Transglycosylation products were detected under all activated conditions, suggesting that the activity enhancement induced by monosaccharides and sugar alcohols may be due to the transglycosylation activity of the enzyme. These results show that Td2F2 obtained from a compost microbial metagenome may be a potent candidate for industrial applications.

| S-EPMC3689974 | biostudies-literature

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