| Analysis Name | Petunia axillaris subsp. axillaris 'N (cultivar)' v1.6.2 Assembly & Annotation |
| Sequencing technology | HiFi reads and Illumina reads |
| Assembly method | SOAPdenovo, AHA assembler |
| Release Date | 2016-05-27 |
Bombarely, A., Moser, M., Amrad, A. et al. Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida. Nature Plants 2, 16074 (2016). https://doi.org/10.1038/nplants.2016.74.
AbstractPetunia hybrida is a popular bedding plant that has a long history as a genetic model system. We report the whole-genome sequencing and assembly of inbred derivatives of its two wild parents, P. axillaris N and P. inflata S6. The assemblies include 91.3% and 90.2% coverage of their diploid genomes (1.4 Gb; 2n = 14) containing 32,928 and 36,697 protein-coding genes, respectively. The genomes reveal that the Petunia lineage has experienced at least two rounds of hexaploidization: the older gamma event, which is shared with most Eudicots, and a more recent Solanaceae event that is shared with tomato and other solanaceous species. Transcription factors involved in the shift from bee to moth pollination reside in particularly dynamic regions of the genome, which may have been key to the remarkable diversity of floral colour patterns and pollination systems. The high-quality genome sequences will enhance the value of Petunia as a model system for research on unique biological phenomena such as small RNAs, symbiosis, self-incompatibility and circadian rhythms.
Assembly statistics
| Genome size | 1.26G |
| Number of Scaffolds | 83,639 |
| Scaffold L50 | 309 |
| Scaffold N50 | 1,236.73kb |
| Number of Contigs | 109,892 |
| Contig L50 | 3,943 |
| Contig N50 | 95.17kb |
| Assembly level | Scaffold |
The Petunia axillaris subsp. axillaris 'N (cultivar)' v1.6.2 Assembly file is available in FASTA format.
Downloads
| Chromosomes (FASTA file) | Petunia_axillaris_v1.6.2_genome.fasta.gz |
The Petunia axillaris subsp. axillaris 'N (cultivar)' v1.6.2 genome gene prediction files are available in GFF3 and FASTA format.
Downloads
| Genes (GFF3 file) | Petunia_axillaris_v1.6.2_gene_models.gff.gz |
| CDS sequences (FASTA file) | Petunia_axillaris_v1.6.2_CDS.fasta.gz |
| Protein sequences (FASTA file) | Petunia_axillaris_v1.6.2_proteins.fasta.gz |
Functional annotation for the Petunia axillaris subsp. axillaris 'N (cultivar)' v1.6.2 is available for download below. The proteins were analyzed using InterProScan to assign InterPro domains(Pfam).
Downloads
| Domain from InterProScan | - |
Summary
| Query | Scaffold | Size(bp) | Coordinates | BLASTp Hit | BLASTp %ID | Domain |
| SLF1-1 | Peaxi162Scf00326 | 940666 | 508809-509978 | AGL76530, S5-SLF1 | 99 | F-box domain |
| SFL1-2 | Peaxi162Scf00715 | 718562 | 579572-578403 | ADD21612, S1-SLF1 | 99 | F-box domain |
| SLF2 | Peaxi162Scf00070 | 1471679 | 699640-700806 | BAJ24857, S19-SLF2 | 95 | F-box domain |
| SLF3 | Peaxi162Scf00326 | 940666 | 596118-597275 | BAJ24858, S5-SLF3 | 98 | F-box domain |
| SLF4 | Peaxi162Scf00671 | 726586 | 152315-153526 | BAJ24865, S7-SLF4 | 94 | F-box domain |
| SLF5 | Peaxi162Scf03085 | 28205 | 6171-7340 | BAJ24871, S7-SLF5 | 95 | F-box domain |
| SLF6 | Peaxi162Scf00172 | 1583766 | 619079-620257 | BAJ24881, S19-SLF6 | 96 | F-box domain |
| SLF8 | Peaxi162Scf00326 | 940666 | 464377-465552 | ABX82525, S2-SLF8 | 90 | F-box domain |
| SLF10 | Peaxi162Scf00336 | 1804933 | 636123-637262 | BAQ19011, SLF10-S22 | 100 | F-box domain |
| SLF11 | Peaxi162Scf00426 | 634794 | 185248-186405 | BAQ18962, SLF11-S10 | 95 | F-box domain |
| SLF12 | Peaxi162Scf00326 | 940666 | 531044-532225 | AIK66457, S3-SLF12 | 99 | F-box domain |
| SLF13 | Peaxi162Scf00326 | 940666 | 686239-687402 | AIK66461, S2-SLF13 | 98 | F-box domain |
| SLF14 | Peaxi162Scf00172 | 1583766 | 710039-708846 | AIK66466, S2-SLF14 | 98 | F-box domain |
| SLF15 | Peaxi162Scf01310 | 413452 | 332496-331303 | BAQ19016, SLF15-S22 | 99 | F-box domain |
| SLF16 | Peaxi162Scf01162 | 482111 | 154759-155919 | AIK66479, S6a-SLF16 | 99 | F-box domain |
| SLF18-1 | Peaxi162Scf00671 | 726586 | 550611-549469 | BAQ19002, S19-FBX2 | 84 | F-box domain |
| SLF18-2 | Peaxi162Scf00201 | 1576363 | 1309184-1308006 | BAQ18968, SLF18-S10 | 100 | F-box domain |
| SLF19-1 | Peaxi162Scf75437 | 1274 | 113-1273 | BAQ19002, S19-FBX2 | 80 | F-box domain |
| SLF19-2 | Peaxi162Scf01590 | 192725 | 31882-30722 | BAQ19002, S19-FBX2 | 80 | F-box domain |
| SLF20 | Peaxi162Scf01394 | 65038 | 63647-64564 | BAQ19002, S19-FBX2 | 80 | F-box domain |
| S-RNase | Peaxi162Scf00336 | 1804933 | 449266-449502,449621-450052 | AAA60465, S1-RNase | 100 | Ribonuclease T2 family |
Nucleotide
Protein