RRC ID 36132
Author Sato K, Tanaka T, Shigenobu S, Motoi Y, Wu J, Itoh T.
Title Improvement of barley genome annotations by deciphering the Haruna Nijo genome.
Journal DNA Res
Abstract Full-length (FL) cDNA sequences provide the most reliable evidence for the presence of genes in genomes. In this report, detailed gene structures of barley, whole genome shotgun (WGS) and additional transcript data of the cultivar Haruna Nijo were quality controlled and compared with the published Morex genome information. Haruna Nijo scaffolds have longer total sequence length with much higher N50 and fewer sequences than those in Morex WGS contigs. The longer Haruna Nijo scaffolds provided efficient FLcDNA mapping, resulting in high coverage and detection of the transcription start sites. In combination with FLcDNAs and RNA-Seq data from four different tissue samples of Haruna Nijo, we identified 51,249 gene models on 30,606 loci. Overall sequence similarity between Haruna Nijo and Morex genome was 95.99%, while that of exon regions was higher (99.71%). These sequence and annotation data of Haruna Nijo are combined with Morex genome data and released from a genome browser. The genome sequence of Haruna Nijo may provide detailed gene structures in addition to the current Morex barley genome information.
Volume 23(1)
Pages 21-8
Published 2016-2-1
DOI 10.1093/dnares/dsv033
PII dsv033
PMID 26622062
PMC PMC4755524
MeSH Base Sequence DNA, Complementary Data Curation Genome, Plant* Genomics Hordeum / genetics* Molecular Sequence Annotation Sequence Homology, Nucleic Acid
IF 4.009
Times Cited 12
Barley Barley seed samples full length cDNA