Document Type
Article
Publication Date
3-18-2022
Publication Title
STAR Protocols
Department
Geisel School of Medicine
Abstract
We describe environmental microbial eukaryotes (EMEs) sample collection, single-cell isolation, lysis, and genome amplification, followed by the rDNA amplification and OTU screening for recovery of high-quality species-specific genomes for de novo assembly. These protocols are part of our pipeline that also includes bioinformatic methods. The pipeline and its application on a wide range of phyla of different sample complexity are described in our complementary paper. In addition, this protocol describes optimized lysis, genome amplification, and OTU screening steps of the pipeline. For complete details on the use and execution of this protocol, please refer to Ciobanu et al. (2021).
DOI
10.1016/j.xpro.2021.100968
Dartmouth Digital Commons Citation
Ciobanu, Doina; Chan, Sandy; Ahrendt, Steven; Quandt, C. Alisha; Benny, Gerald L.; Smith, Matthew E.; James, Timothy Y.; and Cheng, Jan Fang, "Protocol for single-cell isolation and genome amplification of environmental microbial eukaryotes for genomic analysis" (2022). Dartmouth Scholarship. 4266.
https://digitalcommons.dartmouth.edu/facoa/4266