Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery.
Microbial biosynthetic gene clusters are a valuable source of bioactive molecules. However, because they typically represent a small fraction of genomic material in most metagenomic samples, it remains challenging to deeply sequence them. We present an approach to isolate and sequence gene clusters...
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2020
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ftcdlib:oai:escholarship.org/ark:/13030/qt2rc6v620 2023-05-15T14:04:02+02:00 Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. Xu, Peng Modavi, Cyrus Demaree, Benjamin Twigg, Frederick Liang, Benjamin Sun, Chen Zhang, Wenjun Abate, Adam R e48 2020-05-01 application/pdf https://escholarship.org/uc/item/2rc6v620 unknown eScholarship, University of California qt2rc6v620 https://escholarship.org/uc/item/2rc6v620 public Nucleic acids research, vol 48, iss 8 Polyketide Synthases Microfluidic Analytical Techniques Soil Microbiology Genomic Library Plasmids Biosynthetic Pathways Metagenomics Lab-On-A-Chip Devices Workflow Developmental Biology Environmental Sciences Biological Sciences Information and Computing Sciences article 2020 ftcdlib 2021-05-08T18:03:16Z Microbial biosynthetic gene clusters are a valuable source of bioactive molecules. However, because they typically represent a small fraction of genomic material in most metagenomic samples, it remains challenging to deeply sequence them. We present an approach to isolate and sequence gene clusters in metagenomic samples using microfluidic automated plasmid library enrichment. Our approach provides deep coverage of the target gene cluster, facilitating reassembly. We demonstrate the approach by isolating and sequencing type I polyketide synthase gene clusters from an Antarctic soil metagenome. Our method promotes the discovery of functional-related genes and biosynthetic pathways. Article in Journal/Newspaper Antarc* Antarctic University of California: eScholarship Antarctic |
institution |
Open Polar |
collection |
University of California: eScholarship |
op_collection_id |
ftcdlib |
language |
unknown |
topic |
Polyketide Synthases Microfluidic Analytical Techniques Soil Microbiology Genomic Library Plasmids Biosynthetic Pathways Metagenomics Lab-On-A-Chip Devices Workflow Developmental Biology Environmental Sciences Biological Sciences Information and Computing Sciences |
spellingShingle |
Polyketide Synthases Microfluidic Analytical Techniques Soil Microbiology Genomic Library Plasmids Biosynthetic Pathways Metagenomics Lab-On-A-Chip Devices Workflow Developmental Biology Environmental Sciences Biological Sciences Information and Computing Sciences Xu, Peng Modavi, Cyrus Demaree, Benjamin Twigg, Frederick Liang, Benjamin Sun, Chen Zhang, Wenjun Abate, Adam R Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
topic_facet |
Polyketide Synthases Microfluidic Analytical Techniques Soil Microbiology Genomic Library Plasmids Biosynthetic Pathways Metagenomics Lab-On-A-Chip Devices Workflow Developmental Biology Environmental Sciences Biological Sciences Information and Computing Sciences |
description |
Microbial biosynthetic gene clusters are a valuable source of bioactive molecules. However, because they typically represent a small fraction of genomic material in most metagenomic samples, it remains challenging to deeply sequence them. We present an approach to isolate and sequence gene clusters in metagenomic samples using microfluidic automated plasmid library enrichment. Our approach provides deep coverage of the target gene cluster, facilitating reassembly. We demonstrate the approach by isolating and sequencing type I polyketide synthase gene clusters from an Antarctic soil metagenome. Our method promotes the discovery of functional-related genes and biosynthetic pathways. |
format |
Article in Journal/Newspaper |
author |
Xu, Peng Modavi, Cyrus Demaree, Benjamin Twigg, Frederick Liang, Benjamin Sun, Chen Zhang, Wenjun Abate, Adam R |
author_facet |
Xu, Peng Modavi, Cyrus Demaree, Benjamin Twigg, Frederick Liang, Benjamin Sun, Chen Zhang, Wenjun Abate, Adam R |
author_sort |
Xu, Peng |
title |
Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
title_short |
Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
title_full |
Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
title_fullStr |
Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
title_full_unstemmed |
Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
title_sort |
microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery. |
publisher |
eScholarship, University of California |
publishDate |
2020 |
url |
https://escholarship.org/uc/item/2rc6v620 |
op_coverage |
e48 |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_source |
Nucleic acids research, vol 48, iss 8 |
op_relation |
qt2rc6v620 https://escholarship.org/uc/item/2rc6v620 |
op_rights |
public |
_version_ |
1766274972902227968 |