ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data
Metagenomic analysis of environmental samples provides deep insight into the enzymatic mixture of the corresponding niches, capable of revealing peptide sequences with novel functional properties exploiting the high performance of next-generation sequencing (NGS) technologies. At the same time due t...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2019-05-01
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| Series: | Frontiers in Genetics |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fgene.2019.00469/full |
| _version_ | 1819182702966865920 |
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| author | Theodoros Koutsandreas Theodoros Koutsandreas Efthymios Ladoukakis Efthymios Ladoukakis Eleftherios Pilalis Eleftherios Pilalis Dimitra Zarafeta Fragiskos N. Kolisis Fragiskos N. Kolisis Georgios Skretas Aristotelis A. Chatziioannou Aristotelis A. Chatziioannou |
| author_facet | Theodoros Koutsandreas Theodoros Koutsandreas Efthymios Ladoukakis Efthymios Ladoukakis Eleftherios Pilalis Eleftherios Pilalis Dimitra Zarafeta Fragiskos N. Kolisis Fragiskos N. Kolisis Georgios Skretas Aristotelis A. Chatziioannou Aristotelis A. Chatziioannou |
| author_sort | Theodoros Koutsandreas |
| collection | DOAJ |
| description | Metagenomic analysis of environmental samples provides deep insight into the enzymatic mixture of the corresponding niches, capable of revealing peptide sequences with novel functional properties exploiting the high performance of next-generation sequencing (NGS) technologies. At the same time due to their ever increasing complexity, there is a compelling need for ever larger computational configurations to ensure proper bioinformatic analysis, and fine annotation. With the aiming to address the challenges of such an endeavor, we have developed a novel web-based application named ANASTASIA (automated nucleotide aminoacid sequences translational plAtform for systemic interpretation and analysis). ANASTASIA provides a rich environment of bioinformatic tools, either publicly available or novel, proprietary algorithms, integrated within numerous automated algorithmic workflows, and which enables versatile data processing tasks for (meta)genomic sequence datasets. ANASTASIA was initially developed in the framework of the European FP7 project HotZyme, whose aim was to perform exhaustive analysis of metagenomes derived from thermal springs around the globe and to discover new enzymes of industrial interest. ANASTASIA has evolved to become a stable and extensible environment for diversified, metagenomic, functional analyses for a range of applications overarching industrial biotechnology to biomedicine, within the frames of the ELIXIR-GR project. As a showcase, we report the successful in silico mining of a novel thermostable esterase termed “EstDZ4” from a metagenomic sample collected from a hot spring located in Krisuvik, Iceland. |
| first_indexed | 2024-12-22T22:50:20Z |
| format | Article |
| id | doaj.art-222339b77c634d27950e282d8f5e596d |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-22T22:50:20Z |
| publishDate | 2019-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-222339b77c634d27950e282d8f5e596d2022-12-21T18:09:59ZengFrontiers Media S.A.Frontiers in Genetics1664-80212019-05-011010.3389/fgene.2019.00469434571ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing DataTheodoros Koutsandreas0Theodoros Koutsandreas1Efthymios Ladoukakis2Efthymios Ladoukakis3Eleftherios Pilalis4Eleftherios Pilalis5Dimitra Zarafeta6Fragiskos N. Kolisis7Fragiskos N. Kolisis8Georgios Skretas9Aristotelis A. Chatziioannou10Aristotelis A. Chatziioannou11Institute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, Greecee-NIOS Applications PC, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, GreeceLaboratory of Biotechnology, School of Chemical Engineering, National Technical University of Athens, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, Greecee-NIOS Applications PC, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, GreeceLaboratory of Biotechnology, School of Chemical Engineering, National Technical University of Athens, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, GreeceInstitute of Chemical Biology, Medicinal Chemistry and Biotechnology, National Hellenic Research Foundation, Athens, Greecee-NIOS Applications PC, Athens, GreeceMetagenomic analysis of environmental samples provides deep insight into the enzymatic mixture of the corresponding niches, capable of revealing peptide sequences with novel functional properties exploiting the high performance of next-generation sequencing (NGS) technologies. At the same time due to their ever increasing complexity, there is a compelling need for ever larger computational configurations to ensure proper bioinformatic analysis, and fine annotation. With the aiming to address the challenges of such an endeavor, we have developed a novel web-based application named ANASTASIA (automated nucleotide aminoacid sequences translational plAtform for systemic interpretation and analysis). ANASTASIA provides a rich environment of bioinformatic tools, either publicly available or novel, proprietary algorithms, integrated within numerous automated algorithmic workflows, and which enables versatile data processing tasks for (meta)genomic sequence datasets. ANASTASIA was initially developed in the framework of the European FP7 project HotZyme, whose aim was to perform exhaustive analysis of metagenomes derived from thermal springs around the globe and to discover new enzymes of industrial interest. ANASTASIA has evolved to become a stable and extensible environment for diversified, metagenomic, functional analyses for a range of applications overarching industrial biotechnology to biomedicine, within the frames of the ELIXIR-GR project. As a showcase, we report the successful in silico mining of a novel thermostable esterase termed “EstDZ4” from a metagenomic sample collected from a hot spring located in Krisuvik, Iceland.https://www.frontiersin.org/article/10.3389/fgene.2019.00469/fullmetagenomicsbioinformaticsnext generation sequencingautomated pipelinessystemic biologynovel enzymes |
| spellingShingle | Theodoros Koutsandreas Theodoros Koutsandreas Efthymios Ladoukakis Efthymios Ladoukakis Eleftherios Pilalis Eleftherios Pilalis Dimitra Zarafeta Fragiskos N. Kolisis Fragiskos N. Kolisis Georgios Skretas Aristotelis A. Chatziioannou Aristotelis A. Chatziioannou ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data Frontiers in Genetics metagenomics bioinformatics next generation sequencing automated pipelines systemic biology novel enzymes |
| title | ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data |
| title_full | ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data |
| title_fullStr | ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data |
| title_full_unstemmed | ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data |
| title_short | ANASTASIA: An Automated Metagenomic Analysis Pipeline for Novel Enzyme Discovery Exploiting Next Generation Sequencing Data |
| title_sort | anastasia an automated metagenomic analysis pipeline for novel enzyme discovery exploiting next generation sequencing data |
| topic | metagenomics bioinformatics next generation sequencing automated pipelines systemic biology novel enzymes |
| url | https://www.frontiersin.org/article/10.3389/fgene.2019.00469/full |
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