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ARS Home » Midwest Area » East Lansing, Michigan » Sugarbeet and Bean Research » Research » Publications at this Location » Publication #340389

Research Project: Genetic Dissection of Traits for Sugar Beet Improvement

Location: Sugarbeet and Bean Research

Title: A nine-scaffold genome assembly of the nine chromosome sugar beet

item Mcgrath, J Mitchell - Mitch
item Townsend, Belinda - Rothamsted Research
item Davenport, Karen - Los Alamos National Research Laboratory
item Daligault, Hajnalka - Los Alamos National Research Laboratory
item Johnson, Shannon - Los Alamos National Research Laboratory
item Hastie, Alex - Bionano Genomics, Inc
item Darracq, Aude - Sesvanderhave
item Willems, Glenda - Sesvanderhave
item Barnes, Steve - Sesvanderhave
item Galewski, Paul - Michigan State University

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 1/28/2017
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: Over the course of 20 months, we assembled a sugar beet genome (700 - 800 Mb) into a close representation of the nine haploid chromosomes of beet. This result was obtained by sequentially assembling sequences >40 kb in length, orienting these assemblies via optical mapping, and scaffolding with in vivo cross-linked, paired-end reads. Accurate and highly contiguous assemblies likely afford opportunities over their highly-fragmented counterparts, in part because they may better capture the organization of tandem-duplicated gene families. In this talk, we will walk through the steps used to achieve this reference assembly, relatively simply and inexpensively, and look towards some of the applications allowing facile discovery of trait genes.