PSIA-CNCB-NGDC

Overview

Genus	Solanum
Species	scabrum
Common Name	African nightshade, garden huckleberry
Abbreviation	S. scabrum
Ploidy	-
Chromosome Number	x=12
Genome Size	3000 Mb
Genome Assemblies	1
Cross Reference	NCBI taxon: 795974

Organism Image

Description

Solanum scabrum, also known as garden huckleberry, is an annual or perennial plant in the nightshade family. The geographic origin of the species is uncertain; Linnaeus attributed it to Africa, but it also occurs in North America, and it is naturalized in many countries. In Africa it is cultivated as a leaf vegetable and for dye from the berries.

Whole Genomes

Whole Genome Sequences & Annotations for Solanum scabrum

Solanum scabrum gwh_assembly PI 643126 01

S genes

Solanum scabrum gwh_assembly PI 643126 01 S genes

Query	Contig	Size(bp)	Coordinates	BLASTn Hit	BLASTn %ID	Domain
SLF18	GWHBKCC00000122	742059	656892-658010	Solanum tuberosum DM8.1, SLF18	87.9	F-box domain
SLF19	GWHBKCC00000122	742059	699859-698759	Solanum tuberosum DM8.1, SLF19	90.8	F-box domain
SLF21Ψ	GWHBKCC00000125	1696573	1229261-1230474	Solanum tuberosum DM8.1, SLF21	87.0	-
SLF22Ψ	GWHBKCC00000383	2312416	142223-141087	Solanum tuberosum DM8.1, SLF22	86.7	-
SLF11	GWHBKCC00000488	3285942	744293-745462	Solanum tuberosum DM8.1, SLF11	88.9	F-box domain
SLF	GWHBKCC00000490	2906607	2803694-2804851	Solanum chilense KF475783.1, SLF-ZF5-1	87.2	F-box domain
SLF21-2Ψ	GWHBKCC00000800	949349	9441-10654	Solanum tuberosum DM8.1, SLF21	86.8	-
SLF5	GWHBKCC00000976	664347	223554-222385	Solanum tuberosum DM8.1, SLF5-2	87.2	F-box domain
SLF7	GWHBKCC00001039	4482429	3067016-3068185	Solanum tuberosum DM8.1, SLF7	88.2	F-box domain
SLF16Ψ	GWHBKCC00001053	257340	199317-200505	Solanum tuberosum DM8.1, SLF16	87.6	-
SLF19-2	GWHBKCC00001063	551132	27372-28469	Solanum tuberosum DM8.1, SLF19	88.6	F-box domain
SLF19-3	GWHBKCC00001063	551132	72181-73278	Solanum tuberosum DM8.1, SLF19	88.6	F-box domain
SLF19-4	GWHBKCC00001063	551132	116975-118072	Solanum tuberosum DM8.1, SLF19	88.6	F-box domain
SLF19-5	GWHBKCC00001063	551132	157539-158636	Solanum tuberosum DM8.1, SLF19	88.5	F-box domain
SLF18-2	GWHBKCC00001063	551132	204141-203026	Solanum lycopersicum SL2.31, SLF18	88.5	F-box domain
SLF22-2Ψ	GWHBKCC00001340	980973	343348-342212	Solanum tuberosum DM8.1, SLF22	87.3	-
SLF19-6Ψ	GWHBKCC00001432	479621	30966-29887	Solanum tuberosum DM8.1, SLF19	88.6	-
SLF15Ψ	GWHBKCC00001636	1250407	51886-53145	Solanum tuberosum DM8.1, SLF15	90.3	-
SLF16-2Ψ	GWHBKCC00001636	1250407	639089-637906	Solanum tuberosum DM8.1, SLF16	88.4	-
SLF19-7Ψ	GWHBKCC00001712	1025684	54219-55320	Solanum tuberosum DM8.1, SLF19	90.2	-
SLF18-3	GWHBKCC00001712	1025684	101373-100264	Solanum tuberosum DM8.1, SLF18	88.8	F-box domain
SLF11-2	GWHBKCC00002054	1127140	673008-671839	Solanum tuberosum DM8.1, SLF11	89.3	F-box domain
SLF22-3Ψ	GWHBKCC00002084	1268471	1119745-1120880	Solanum tuberosum DM8.1, SLF22	87.1	-
SLF19-8	GWHBKCC00002284	590647	8144-7047	Solanum tuberosum DM8.1, SLF19	88.6	F-box domain
SLF19-9	GWHBKCC00002284	590647	57021-55924	Solanum tuberosum DM8.1, SLF19	88.6	F-box domain
SLF19-10	GWHBKCC00002284	590647	158436-157339	Solanum tuberosum DM8.1, SLF19	88.0	F-box domain
SLF15-2	GWHBKCC00002430	913695	268218-269477	Solanum tuberosum DM8.1, SLF15	90.2	F-box domain
SLF15-3	GWHBKCC00002703	91833	55844-54585	Solanum tuberosum DM8.1, SLF15	90.3	F-box domain
SLF16-3	GWHBKCC00002711	751851	625331-624147	Solanum tuberosum DM8.1, SLF16	88.0	F-box domain

Downloads

The Solanum scabrum S gene sequences are available in FASTA format.

CDS and Protein (FASTA file)	S-gene_Solanum_scabrum

Publications

Wu Y, Li D, Hu Y, Li H, Ramstein GP, Zhou S, Zhang X, Bao Z, Zhang Y, Song B, Zhou Y, Zhou Y, Gagnon E, Särkinen T, Knapp S, Zhang C, Städler T, Buckler ES, Huang S. Phylogenomic discovery of deleterious mutations facilitates hybrid potato breeding. Cell. 2023 May 25;186(11):2313-2328.e15. doi: 10.1016/j.cell.2023.04.008.