دورية أكاديمية
Whole genome enrichment approach for genomic surveillance of Toxoplasma gondii.
| العنوان: | Whole genome enrichment approach for genomic surveillance of Toxoplasma gondii. |
|---|---|
| المؤلفون: | Sundararaman B; Department of Biomolecular Engineering, UC Santa Cruz, USA. Electronic address: bsundara@ucsc.edu., Shapiro K; One Health Institute, UC Davis, USA; Department of Pathology, Microbiology, and Immunology, UC Davis, USA. Electronic address: kshapiro@ucdavis.edu., Packham A; One Health Institute, UC Davis, USA., Camp LE; Department of Pathology, Microbiology, and Immunology, UC Davis, USA., Meyer RS; Department of Ecology and Evolutionary Biology, UC Santa Cruz, USA., Shapiro B; Department of Ecology and Evolutionary Biology, UC Santa Cruz, USA; Howard Hughes Medical Institute, UC Santa Cruz, USA., Green RE; Department of Biomolecular Engineering, UC Santa Cruz, USA. |
| المصدر: | Food microbiology [Food Microbiol] 2024 Apr; Vol. 118, pp. 104403. Date of Electronic Publication: 2023 Oct 18. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Elsevier Country of Publication: England NLM ID: 8601127 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1095-9998 (Electronic) Linking ISSN: 07400020 NLM ISO Abbreviation: Food Microbiol Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: London : Elsevier Original Publication: London ; Orlando : Academic Press, c1984- |
| مواضيع طبية MeSH: | Toxoplasma*/genetics , Nucleic Acids*, Animals ; Nucleic Acid Amplification Techniques/methods ; Genomics ; Water ; Oocysts |
| مستخلص: | Pathogenic bacteria, viruses, fungi, and protozoa can cause food and waterborne diseases. Surveillance methods must therefore screen for these pathogens at various stages of water distribution and of food from production to consumption. Detection using nucleic acid amplification methods offer rapid identification, but such methods have limited utility for characterizing populations, variant types or virulence traits of pathogens. Whole genome sequencing (WGS) can be used to determine this information. However, pathogens must be isolated and cultured to yield sufficient DNA for WGS, which is laborious or not feasible for certain stages of parasites like oocysts of Toxoplasma gondii. We previously developed the Circular Nucleic acid Enrichment Reagent (CNER) method to make whole genome enrichment (WGE) baits for difficult-to-grow bacterial pathogens. WGE using CNERs facilitates direct sequencing of pathogens from samples without the need to isolate and grow them. Here, we made WGE-CNERs for T. gondii to demonstrate the use of the CNER method to make baits to enrich the large genomes of water and foodborne protozoan pathogens. By sequencing, we detected as few as 50 parasites spiked in an oyster hemolymph matrix. We discuss the use of WGE-CNERs for genomic surveillance of food and waterborne pathogens. Competing Interests: Declaration of competing interest B Sundararaman and RE Green are listed as co-inventors in a PCT application filed by the UCSC describing some of the methods presented here. B Sundararaman is founder and shareholder of GenZ Genomics Private Limited in Chennai, India. (Copyright © 2023 The Authors. Published by Elsevier Ltd.. All rights reserved.) |
| فهرسة مساهمة: | Keywords: Genomic epidemiology; One health; Pathogen surveillance; Shellfish; Toxoplasmosis; Whole genome enrichment |
| المشرفين على المادة: | 059QF0KO0R (Water) 0 (Nucleic Acids) |
| تواريخ الأحداث: | Date Created: 20231204 Date Completed: 20231206 Latest Revision: 20231206 |
| رمز التحديث: | 20240628 |
| DOI: | 10.1016/j.fm.2023.104403 |
| PMID: | 38049278 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 1095-9998 |
|---|---|
| DOI: | 10.1016/j.fm.2023.104403 |