Project description:We used an approach combining PacBio data and published Illumina reads to de novo assemble D. busckii contigs. We generated Hi-C data from D. busckii embryos to order these contigs into chromosome-length scaffolds. For D. virilis we generated Hi-C data to order and orient the published Dvir_caf1 scaffolds into chromosome-length assemblies. Furthermore, we compared Hi-C matrices from these two new assemblies with D. melanogaster with respect to synteny blocks and dosage compensation as a chromosome-wide gene-regulatory mechanism.

2019-10-14 | GSE120750 | GEO

The genomes of the ancestral species of peanut - a remarkable case of living archaeology

Project description:Peanut (Arachis hypogaea) has a large (~2.7 Gbp) allotetraploid genome with closely related component genomes making its genome very challenging to assemble. Here we report genome sequences of its diploid ancestors (A. duranensis and A. ipaÃ«nsis). We show they are similar to the peanutâs A- and B-genomes and use them use them to identify candidate disease resistance genes, create improved tetraploid transcript assemblies, and show genetic exchange between peanutâs component genomes. Based on remarkably high DNA identity and biogeography, we conclude that A. ipaÃ«nsis may be a descendant of the very same population that contributed the B-genome to cultivated peanut. Whole Genome Bisulphite Sequencing of the peanut species Arachis duranensis and Arachis ipaensis.

2016-07-03 | E-GEOD-71357 | biostudies-arrayexpress

Brassica napus Genome Assemblies

Project description:Brassica napus Genome Assemblies

| PRJEB79568 | ENA

Amylase study hifiasm assemblies

Project description:Amylase study hifiasm assemblies

| PRJEB78558 | ENA

G2F assemblies

Project description:Genome assemblies of corn inbreds used by the G2F project

| PRJEB59044 | ENA