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

doi:10.1016/j.mimet.2016.08.020

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

J Microbiol Methods. 2016 Nov:130:23-26. doi: 10.1016/j.mimet.2016.08.020. Epub 2016 Aug 21.

Authors

Fernanda S Nascimento¹, Yuping Wei-Pridgeon², Michael J Arrowood³, Delynn Moss⁴, Alexandre J da Silva⁵, Eldin Talundzic⁶, Yvonne Qvarnstrom⁷

Affiliations

¹ Parasitic 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: [email protected].
² Parasitic 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: [email protected].
³ Waterborne 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: [email protected].
⁴ Waterborne 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: [email protected].
⁵ Parasitic 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: [email protected].
⁶ Malaria 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: [email protected].
⁷ Parasitic 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: [email protected].

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.

Keywords: Angiostrongylus cantonensis; Cyclospora cayetanensis; Illumina; Library preparation; MiSeq; Next generation sequencing.

Published by Elsevier B.V.

Publication types

Research Support, U.S. Gov't, P.H.S.
Research Support, Non-U.S. Gov't

MeSH terms

Angiostrongylus cantonensis / genetics
Animals
Base Sequence
Cyclospora / genetics
DNA, Protozoan / analysis*
Food Parasitology
Foodborne Diseases / parasitology*
Gene Library*
Genes, Protozoan
Genome, Protozoan
High-Throughput Nucleotide Sequencing / instrumentation
High-Throughput Nucleotide Sequencing / methods*
Models, Biological
Parasites / genetics*

Substances

DNA, Protozoan

Grants and funding

CC999999/ImCDC/Intramural CDC HHS/United States