Evidence map›Paper›PMID 27553132›Full record

ArticleJournal of microbiological methods2016

Evaluation of library preparation methods for Illumina next generation sequencing of small amounts of DNA from foodborne parasites.

Fernanda S Nascimento, Yuping Wei-Pridgeon, Michael J Arrowood, Delynn Moss, Alexandre J da Silva, Eldin Talundzic, Yvonne Qvarnstrom

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of microbiological methods, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

  1. Article
  2. Article
  3. Genotyping CanadianMicroorganisms · 2022
    Article
  4. Article
  5. Article
  6. Article
  7. Comparison of the sequencing bias of currently available library preparation kits for Illumina sequencing of bacterial genomes and metagenomes.DNA research : an international journal for rapid publication of reports on genes and genomes · 2019
    Article
  8. Microorganisms · 2019
    Review
  9. Article
  10. Article
  11. Purification ofGut pathogens · 2018
    Article
  12. Article
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

7 authors.

Fernanda S NascimentoParasitic Disease Branch, Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, United States. Electronic address: yeb7@cdc.gov.
Yuping Wei-PridgeonParasitic Disease Branch, Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, United States; IHRC Inc, 2 Ravinia Drive, Suite 1750, Atlanta, GA 30346, United States. Electronic address: saaspservices@gmail.com.
Michael J ArrowoodWaterborne Disease Prevention Branch, Division of Foodborne, Waterborne, and Environmental Diseases, National Center for Enteric and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA, 30329, United States. Electronic address: mja0@cdc.gov.
Delynn MossWaterborne Disease Prevention Branch, Division of Foodborne, Waterborne, and Environmental Diseases, National Center for Enteric and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA, 30329, United States. Electronic address: dmm3@cdc.gov.
Alexandre J da SilvaParasitic Disease Branch, Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, United States. Electronic address: Alexandre.DaSilva@fda.hhs.gov.
Eldin TalundzicMalaria Branch, Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, United States; Atlanta Research and Education Foundation, 1670 Clairmont Road, Suite 5A104, Decatur, GA 30033, United States.. Electronic address: wrj5@cdc.gov.
Yvonne QvarnstromParasitic Disease Branch, Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, United States. Electronic address: bvp2@cdc.gov.

Funding

Intramural CDC HHS CC999999
6 · The paper itself

Abstract

Illumina library preparation methods for ultra-low input amounts were compared using genomic DNA from two foodborne parasites (Angiostrongylus cantonensis and Cyclospora cayetanensis) as examples. The Ovation Ultralow method resulted in libraries with the highest concentration and produced quality sequencing data, even when the input DNA was in the picogram range.

Indexed as

Gene LibraryAngiostrongylus cantonensisAnimalsBase SequenceCyclosporaDNA, ProtozoanFoodborne DiseasesFood ParasitologyGenes, ProtozoanGenome, ProtozoanHigh-Throughput Nucleotide SequencingModels, BiologicalParasitesDNA, ProtozoanAngiostrongylus cantonensisCyclospora cayetanensisIlluminaLibrary preparationMiSeqNext generation sequencing

Identifiers

PMID27553132
PMCPMC10750217

What OpenQuestion holds

Textmetadata
LicenceTDM
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.