Analysis Name | Papaver atlanticum Yrk_Patl_10X_1 Assembly & Annotation |
Sequencing technology | Illumina NovaSeq |
Assembly method | supernova v. 2.0 |
Release Date | 2022-05-23 |
Catania T, Li Y, Winzer T, Harvey D, Meade F, Caridi A, Leech A, Larson TR, Ning Z, Chang J, Van de Peer Y, Graham IA. A functionally conserved STORR gene fusion in Papaver species that diverged 16.8 million years ago. Nat Commun. 2022 Jun 7;13(1):3150. doi: 10.1038/s41467-022-30856-w.
AbstractThe STORR gene fusion event is considered essential for the evolution of the promorphinan/morphinan subclass of benzylisoquinoline alkaloids (BIAs) in opium poppy as the resulting bi-modular protein performs the isomerization of (S)- to (R)-reticuline essential for their biosynthesis. Here, we show that of the 12 Papaver species analysed those containing the STORR gene fusion also contain promorphinans/morphinans with one important exception. P. californicum encodes a functionally conserved STORR but does not produce promorphinans/morphinans. We also show that the gene fusion event occurred only once, between 16.8-24.1 million years ago before the separation of P. californicum from other Clade 2 Papaver species. The most abundant BIA in P. californicum is (R)-glaucine, a member of the aporphine subclass of BIAs, raising the possibility that STORR, once evolved, contributes to the biosynthesis of more than just the promorphinan/morphinan subclass of BIAs in the Papaveraceae.
Assembly statistics
Genome size | 938.1 Mb |
Number of scaffolds | 18,265 |
Scaffold N50 | 3.6 Mb |
Scaffold L50 | 69 |
Number of contigs | 32,788 |
Contig N50 | 111.4 kb |
Contig L50 | 2,439 |
Assembly level | Scaffold |
The Papaver atlanticum Yrk_Patl_10X_1 Assembly file is available in FASTA format.
Downloads
Chromosomes (FASTA file) | GCA_023531105.1_Yrk_Patl_10X_1_genomic.fna.gz |
The Papaver atlanticum Yrk_Patl_10X_1 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
Genes (GFF3 file) | GCA_023531105.1_Yrk_Patl_10X_1_genomic.gff.gz |
CDS sequences (FASTA file) | GCA_023531105.1_Yrk_Patl_10X_1_rna_from_genomic.fna.gz |
Protein sequences (FASTA file) | GCA_023531105.1_Yrk_Patl_10X_1_protein.faa.gz |
Functional annotation for the Papaver atlanticum Yrk_Patl_10X_1 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
Domain from InterProScan | Papaver_atlanticum_Yrk_Patl_10X_1.Pfam.tsv.gz |
Summary
Query | Scaffold | Size(bp) | Coordinates | BLASTn Hit | BLASTn %ID |
S1-like-3 | JAJJMB010001184.1 | 4128780 | 899248-899718 | Papaver somniferum XM_026527103.1, S1-like-3 | 94.692 |
S1-like-1 | JAJJMB010003633.1 | 10064921 | 7767539-7766991 | Papaver somniferum XM_026594847.1, S1-like-1 | 94.565 |
Nucleotide
Protein