Primula vulgaris Slocus Assembly & Annotation

Overview

Analysis Name Primula vulgaris Slocus Assembly & Annotation
Sequencing technology Illumia, Sanger sequencing
Assembly method -
Release Date 2016-12-02
Reference Publication(s)

Li J, Cocker JM, Wright J, Webster MA, McMullan M, Dyer S, Swarbreck D, Caccamo M, Oosterhout CV, Gilmartin PM. Genetic architecture and evolution of the S locus supergene in Primula vulgaris. Nat Plants. 2016 Dec 2;2(12):16188. doi: 10.1038/nplants.2016.188.

Abstract

Darwin's studies on heterostyly in Primula described two floral morphs, pin and thrum, with reciprocal anther and stigma heights that promote insect-mediated cross-pollination. This key innovation evolved independently in several angiosperm families. Subsequent studies on heterostyly in Primula contributed to the foundation of modern genetic theory and the neo-Darwinian synthesis. The established genetic model for Primula heterostyly involves a diallelic S locus comprising several genes, with rare recombination events that result in self-fertile homostyle flowers with anthers and stigma at the same height. Here we reveal the S locus supergene as a tightly linked cluster of thrum-specific genes that are absent in pins. We show that thrums are hemizygous not heterozygous for the S locus, which suggests that homostyles do not arise by recombination between S locus haplotypes as previously proposed. Duplication of a floral homeotic gene 51.7 million years (Myr) ago, followed by its neofunctionalization, created the current S locus assemblage which led to floral heteromorphy in Primula. Our findings provide new insights into the structure, function and evolution of this archetypal supergene.

Assembly statistics

Genome size (bp) 455881
Scaffold sequence No. 1

Assembly

The Primula vulgaris Slocus Assembly file is available in FASTA format.

Downloads

Chromosomes (FASTA file) s_loc_lh.fa.gz

Gene Predictions

The Primula vulgaris Slocus genome gene prediction files are not available.

Downloads

Genes (GFF3 file) -
CDS sequences (FASTA file) -
Protein sequences (FASTA file) -

Functional Analysis

Functional annotation for the Primula vulgaris Slocus is not available.

Downloads

Domain from InterProScan -

S genes

Summary

Gene nameScaffoldStartEnd
CcmTs_loc_lh1_assembly101482101949
GloTs_loc_lh1_assembly137687112874
CypTs_loc_lh1_assembly309600241498
PumTs_loc_lh1_assembly331312327038
KfbTs_loc_lh1_assembly344619345641

Primula vulgaris S genes Nucleotide

Primula vulgaris S genes Protein

© 2023 National Genomics Data Center, China National Center for Bioinformation / Beijing Institute of Genomics, Chinese Academy of Sciences