Oxford Nanopore long read-based shotgun metagenomic data sets of simulated bacterial communities originating from fresh spinach and surface water-Reference-Cited by-同舟云学术

Oxford Nanopore long read-based shotgun metagenomic data sets of simulated bacterial communities originating from fresh spinach and surface water

Published:2024-09-10 Issue:9 Volume:13 Page:
ISSN:2576-098X
Container-title:Microbiology Resource Announcements
language:en
Short-container-title:Microbiol Resour Announc

Author:

Chen Zhao¹^ORCID,Grim Christopher J.²,Ramachandran Padmini²^ORCID,Meng Jianghong¹³

Affiliation:

1. Joint Institute for Food Safety and Applied Nutrition, and Center for Food Safety and Security Systems, University of Maryland, College Park, Maryland, USA

2. Center for Food Safety and Applied Nutrition, United States Food and Drug Administration, College Park, Maryland, USA

3. Department of Nutrition and Food Science, University of Maryland, College Park, Maryland, USA

Abstract

ABSTRACT Oxford Nanopore long reads of simulated bacterial communities from fresh spinach and surface water were generated (R9.4.1+SQK-LSK109 and R10.4+SQK-LSK112; 0.5, one, and two million reads). Salmonella enterica serotype Heidelberg, Montevideo, or Typhimurium was included alone or in combination in the spinach community, while the water community harbored Pseudomonas aeruginosa .

Publisher

American Society for Microbiology

Link

https://journals.asm.org/doi/pdf/10.1128/mra.00586-24

Reference6 articles.

1. Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities

2. Advancing metagenome-assembled genome-based pathogen identification: unraveling the power of long-read assembly algorithms in Oxford Nanopore sequencing

3. Changes in spinach phylloepiphytic bacteria communities following minimal processing and refrigerated storage described using pyrosequencing of 16S rRNA amplicons

4. A Community Multi-Omics Approach towards the Assessment of Surface Water Quality in an Urban River System

5. NanoSim: nanopore sequence read simulator based on statistical characterization