Authors
Benjamin D Rosen, Derek M Bickhart, Robert D Schnabel, Sergey Koren, Christine G Elsik, Elizabeth Tseng, Troy N Rowan, Wai Y Low, Aleksey Zimin, Christine Couldrey, Richard Hall, Wenli Li, Arang Rhie, Jay Ghurye, Stephanie D McKay, Françoise Thibaud-Nissen, Jinna Hoffman, Brenda M Murdoch, Warren M Snelling, Tara G McDaneld, John A Hammond, John C Schwartz, Wilson Nandolo, Darren E Hagen, Christian Dreischer, Sebastian J Schultheiss, Steven G Schroeder, Adam M Phillippy, John B Cole, Curtis P Van Tassell, George Liu, Timothy PL Smith, Juan F Medrano
Publication date
2020/3
Journal
Gigascience
Volume
9
Issue
3
Pages
giaa021
Publisher
Oxford University Press
Description
Background
Major advances in selection progress for cattle have been made following the introduction of genomic tools over the past 10–12 years. These tools depend upon the Bos taurus reference genome (UMD3.1.1), which was created using now-outdated technologies and is hindered by a variety of deficiencies and inaccuracies.
Results
We present the new reference genome for cattle, ARS-UCD1.2, based on the same animal as the original to facilitate transfer and interpretation of results obtained from the earlier version, but applying a combination of modern technologies in a de novo assembly to increase continuity, accuracy, and completeness. The assembly includes 2.7 Gb and is >250× more continuous than the original assembly, with contig N50 >25 Mb and L50 of 32. We also greatly expanded supporting RNA-based data for annotation that identifies 30,396 total …
Scholar articles
BD Rosen, DM Bickhart, RD Schnabel, S Koren… - Gigascience, 2020