Figure 1.

The Genome Assembly process. Sequence from pooled BACs, individual BACs and Whole Genome Shotgun was combined in a number of different ways as outlined here. At the top left, pooled BACs were deconvoluted and assembled as individual BACs. On the top right, individually sequenced BACs were also assembled as individual BACs. Overlapping WGS data was added to all BACs and each was assembled as an enriched BAC (eBAC) using three different assembly methods. The best assembly of each eBAC was used in the merging and scaffolding steps. On the left, WGS data was assembled as a WGS assembly to produce Btau_2.0. Contigs from this assembly that were not contained within the eBACs were used to fill gaps in the BAC assembly. The sequence scaffolds were placed on chromosomes using the composite map (Integrated Bovine Map) to produce Btau_3.1. Some scaffolds were split and a multi-step placement procedure described in the text was used to place scaffolds on chromosomes for version Btau_4.0. A more complete description can be found in the text.