Create your own conference schedule! Click here for full instructions

Abstract Detail



Conference Wide

Jin, JianJun [1].

Disentanglement of rings: a practical introduction to assembling plastomes and mitogenomes from NGS and LRS data.

Organelle DNA markers and genome sequences are easily obtained and have been extensively used for systematics and DNA barcoding by botanists, taxonomists, ecologists, and geneticists. Due to the high copy numbers of organelle genome in a single cell, it is feasible to get enough reads from the low coverage whole genome sequencing (WGS) data to assemble complete organelle genomes. We developed GetOrganelle, a fast and versatile toolkit for accurate de novo assembly of organelle genomes. According to several benchmark tests of ours and others, GetOrganelle significantly outperforms other available organelle genome assemblers (previously mainly plastome-focused) in completeness, consistency and accuracy. In this hands-on workshop, I will first provide an overview of GetOrganelle toolkit and its applications, and then demonstrate assembling plastomes and mitogenomes from WGS dataset, as well as meta-genomic datasets. Participants will be able to process supplied datasets or their own datasets (plastome or fungal mitogenome preferred in a limited time). I will further interpret the results, and demonstrate a few downstream analysis such as isomer verification and marker recruitment.


Log in to add this item to your schedule

1 - Columbia University, Ecology, Evolution And Environmental Biology, 44 Morningside Dr, 10th Floor, New York, NY, 10025, United States

Keywords:
none specified

Presentation Type: Workshop
Session: TBA
Location: /
Date: Thursday, January 1st, 1970
Time: TBA
Number:
Abstract ID:19
Candidate for Awards:None


Copyright © 2000-2020, Botanical Society of America. All rights reserved