Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes

Casper Wilkens, Peter Kamp Busk, Bo Pilgaard, Rasmus Hansen Kirkegaard, Mads Albertsen, Per Halkjær Nielsen, Lene Lange

Research output: Contribution to conference without publisher/journalPosterResearch

Abstract

Anaerobic digesters (ADs) are one of several ways to produce renewable energy, which in the case of ADs is in the form of methane. Several microbial groups are involved in anaerobic degradation of organic wastes such as animal manures and wastewater, and solid organic wastes such as sludge, crop, and food wastes (Alvarado et al., 2014).
The processes and the roles of the microorganisms that are involved in biomass conversion and methane production in ADs are still not fully understood. We are investigating thermophilic and mesophilic ADs that use wastewater surplus sludge for methane production. To gain insight into both the degradation of the carbohydrates and the various roles of the microbes in the ADs we have mined metagenomes from both types of ADs for glycoside hydrolases, carbohydrate esterases, polysaccharide lyases, auxiliary activities, and carbohydrate binding modules. The mining was done with the Peptide Pattern Recognition (PPR) program (Busk and Lange, 2013), which is a novel non-alignment based approach that can predict function of e.g. CAZymes. PPR identifies a set of short conserved sequences, which can be used as a finger print when mining genomes for novel enzymes.
In both thermophilic and mesophilic ADs a wide variety of carbohydrate active enzyme functions were discovered in the metagenomic sequencing of the microbial consortia. The most dominating type of glycoside hydrolases were β-glucosidases (up to 27%), α-amylases (up to 10%), α-glucosidases (up to 8%), α-galactosidases (up to 9%) and β-galactosidases (up to 7%). For carbohydrate esterases the by far most dominating type was acetylxylan esterases (up to 59%) followed by feruloyl esterases (up to 16%). Less than 15 polysaccharide lyases were identified in the different metagenomes and not surprisingly no polysaccharide monooxygenases were identifed. For the carbohydrate binding modules one of the most dominating families were CBM48 (up to 16%).
Original languageEnglish
Publication date10 May 2015
Publication statusPublished - 10 May 2015
EventCarbohydrate Bioengineering Meeting 11 - Espoo, Finland
Duration: 10 May 201513 May 2015

Conference

ConferenceCarbohydrate Bioengineering Meeting 11
CountryFinland
CityEspoo
Period10/05/201513/05/2015

Cite this

Wilkens, C., Busk, P. K., Pilgaard, B., Kirkegaard, R. H., Albertsen, M., Nielsen, P. H., & Lange, L. (2015). Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes. Poster presented at Carbohydrate Bioengineering Meeting 11, Espoo, Finland.
Wilkens, Casper ; Busk, Peter Kamp ; Pilgaard, Bo ; Kirkegaard, Rasmus Hansen ; Albertsen, Mads ; Nielsen, Per Halkjær ; Lange, Lene. / Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes. Poster presented at Carbohydrate Bioengineering Meeting 11, Espoo, Finland.
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abstract = "Anaerobic digesters (ADs) are one of several ways to produce renewable energy, which in the case of ADs is in the form of methane. Several microbial groups are involved in anaerobic degradation of organic wastes such as animal manures and wastewater, and solid organic wastes such as sludge, crop, and food wastes (Alvarado et al., 2014). The processes and the roles of the microorganisms that are involved in biomass conversion and methane production in ADs are still not fully understood. We are investigating thermophilic and mesophilic ADs that use wastewater surplus sludge for methane production. To gain insight into both the degradation of the carbohydrates and the various roles of the microbes in the ADs we have mined metagenomes from both types of ADs for glycoside hydrolases, carbohydrate esterases, polysaccharide lyases, auxiliary activities, and carbohydrate binding modules. The mining was done with the Peptide Pattern Recognition (PPR) program (Busk and Lange, 2013), which is a novel non-alignment based approach that can predict function of e.g. CAZymes. PPR identifies a set of short conserved sequences, which can be used as a finger print when mining genomes for novel enzymes. In both thermophilic and mesophilic ADs a wide variety of carbohydrate active enzyme functions were discovered in the metagenomic sequencing of the microbial consortia. The most dominating type of glycoside hydrolases were β-glucosidases (up to 27{\%}), α-amylases (up to 10{\%}), α-glucosidases (up to 8{\%}), α-galactosidases (up to 9{\%}) and β-galactosidases (up to 7{\%}). For carbohydrate esterases the by far most dominating type was acetylxylan esterases (up to 59{\%}) followed by feruloyl esterases (up to 16{\%}). Less than 15 polysaccharide lyases were identified in the different metagenomes and not surprisingly no polysaccharide monooxygenases were identifed. For the carbohydrate binding modules one of the most dominating families were CBM48 (up to 16{\%}).",
author = "Casper Wilkens and Busk, {Peter Kamp} and Bo Pilgaard and Kirkegaard, {Rasmus Hansen} and Mads Albertsen and Nielsen, {Per Halkj{\ae}r} and Lene Lange",
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Wilkens, C, Busk, PK, Pilgaard, B, Kirkegaard, RH, Albertsen, M, Nielsen, PH & Lange, L 2015, 'Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes', Espoo, Finland, 10/05/2015 - 13/05/2015, .

Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes. / Wilkens, Casper; Busk, Peter Kamp; Pilgaard, Bo; Kirkegaard, Rasmus Hansen; Albertsen, Mads; Nielsen, Per Halkjær; Lange, Lene.

2015. Poster presented at Carbohydrate Bioengineering Meeting 11, Espoo, Finland.

Research output: Contribution to conference without publisher/journalPosterResearch

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T1 - Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes

AU - Wilkens, Casper

AU - Busk, Peter Kamp

AU - Pilgaard, Bo

AU - Kirkegaard, Rasmus Hansen

AU - Albertsen, Mads

AU - Nielsen, Per Halkjær

AU - Lange, Lene

PY - 2015/5/10

Y1 - 2015/5/10

N2 - Anaerobic digesters (ADs) are one of several ways to produce renewable energy, which in the case of ADs is in the form of methane. Several microbial groups are involved in anaerobic degradation of organic wastes such as animal manures and wastewater, and solid organic wastes such as sludge, crop, and food wastes (Alvarado et al., 2014). The processes and the roles of the microorganisms that are involved in biomass conversion and methane production in ADs are still not fully understood. We are investigating thermophilic and mesophilic ADs that use wastewater surplus sludge for methane production. To gain insight into both the degradation of the carbohydrates and the various roles of the microbes in the ADs we have mined metagenomes from both types of ADs for glycoside hydrolases, carbohydrate esterases, polysaccharide lyases, auxiliary activities, and carbohydrate binding modules. The mining was done with the Peptide Pattern Recognition (PPR) program (Busk and Lange, 2013), which is a novel non-alignment based approach that can predict function of e.g. CAZymes. PPR identifies a set of short conserved sequences, which can be used as a finger print when mining genomes for novel enzymes. In both thermophilic and mesophilic ADs a wide variety of carbohydrate active enzyme functions were discovered in the metagenomic sequencing of the microbial consortia. The most dominating type of glycoside hydrolases were β-glucosidases (up to 27%), α-amylases (up to 10%), α-glucosidases (up to 8%), α-galactosidases (up to 9%) and β-galactosidases (up to 7%). For carbohydrate esterases the by far most dominating type was acetylxylan esterases (up to 59%) followed by feruloyl esterases (up to 16%). Less than 15 polysaccharide lyases were identified in the different metagenomes and not surprisingly no polysaccharide monooxygenases were identifed. For the carbohydrate binding modules one of the most dominating families were CBM48 (up to 16%).

AB - Anaerobic digesters (ADs) are one of several ways to produce renewable energy, which in the case of ADs is in the form of methane. Several microbial groups are involved in anaerobic degradation of organic wastes such as animal manures and wastewater, and solid organic wastes such as sludge, crop, and food wastes (Alvarado et al., 2014). The processes and the roles of the microorganisms that are involved in biomass conversion and methane production in ADs are still not fully understood. We are investigating thermophilic and mesophilic ADs that use wastewater surplus sludge for methane production. To gain insight into both the degradation of the carbohydrates and the various roles of the microbes in the ADs we have mined metagenomes from both types of ADs for glycoside hydrolases, carbohydrate esterases, polysaccharide lyases, auxiliary activities, and carbohydrate binding modules. The mining was done with the Peptide Pattern Recognition (PPR) program (Busk and Lange, 2013), which is a novel non-alignment based approach that can predict function of e.g. CAZymes. PPR identifies a set of short conserved sequences, which can be used as a finger print when mining genomes for novel enzymes. In both thermophilic and mesophilic ADs a wide variety of carbohydrate active enzyme functions were discovered in the metagenomic sequencing of the microbial consortia. The most dominating type of glycoside hydrolases were β-glucosidases (up to 27%), α-amylases (up to 10%), α-glucosidases (up to 8%), α-galactosidases (up to 9%) and β-galactosidases (up to 7%). For carbohydrate esterases the by far most dominating type was acetylxylan esterases (up to 59%) followed by feruloyl esterases (up to 16%). Less than 15 polysaccharide lyases were identified in the different metagenomes and not surprisingly no polysaccharide monooxygenases were identifed. For the carbohydrate binding modules one of the most dominating families were CBM48 (up to 16%).

UR - http://www.cazy.org/11th-Carbohydrate-Bioengineering.html

M3 - Poster

ER -

Wilkens C, Busk PK, Pilgaard B, Kirkegaard RH, Albertsen M, Nielsen PH et al. Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes. 2015. Poster presented at Carbohydrate Bioengineering Meeting 11, Espoo, Finland.