Evidence map›Paper›PMID 32095820›Full record

ArticleNucleic acids research2020

Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery.

Peng Xu, Cyrus Modavi, Benjamin Demaree, Frederick Twigg, Benjamin Liang, Chen Sun, Wenjun Zhang, Adam R Abate

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Article
  2. Review
  3. [Application of Droplet-Based Microfluidics in Microbial Research].Sichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition · 2023
    Review
  4. Article
  5. Article
  6. Review
  7. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Peng XuDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Cyrus ModaviDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Benjamin DemareeDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Frederick TwiggDepartment of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA, USA.
Benjamin LiangDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Chen SunDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.
Wenjun ZhangDepartment of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA, USA.
Adam R AbateDepartment of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA, USA.

Funding

Accurate and unbiased single cell sequencing with digital droplet MDAR01HG008978 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ABATE, ADAM R. · 2016 to 2018
$1.9M
NHGRI NIH HHS R01 HG008978
6 · The paper itself

Abstract

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.

Indexed as

Microfluidic Analytical TechniquesBiosynthetic PathwaysGenomic LibraryLab-On-A-Chip DevicesMetagenomicsPlasmidsPolyketide SynthasesSoil MicrobiologyWorkflowPolyketide Synthases

Identifiers

PMID32095820
PMCPMC7192590

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.