Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Glycine max genome resequencing of UC153, i-i k3 black saddle mutation found in x-rayed Clark

PROVIDER: PRJNA505187 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8181669_1.fastq.gz	Fastqsanger.gz
	SRR8181669_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Mutations in Argonaute5 Illuminate Epistatic Interactions of the K1 and I Loci Leading to Saddle Seed Color Patterns in Glycine max

Project description:The soybean (Glycine max) seed coat has distinctive, genetically programmed patterns of pigmentation and the recessive k1 mutation can epistatically overcome the dominant I and i-i alleles, which inhibit seed color by producing small interfering RNAs (siRNAs) targeting chalcone synthase (CHS) mRNAs. Small RNA sequencing of dissected regions of immature seed coats demonstrated that CHS siRNA levels cause the patterns produced by the i-i and i-k alleles of the I locus, which restrict pigment to the hilum or saddle region of the seed coat, respectively. To identify the K1 locus, we compared RNA-Seq data from dissected regions of two Clark isolines having similar saddle phenotypes mediated by CHS siRNAs but different genotypes (homozygous i-k K1 versus homozygous i-i k1). By examining differentially expressed genes, mapping information, and genome resequencing, we identified a 129-bp deletion in Glyma.11G190900 encoding Argonaute5 (AGO5), a member of the Argonaute family. Amplicon sequencing of several independent saddle pattern mutants from different genetic backgrounds revealed independent lesions affecting AGO5, thus establishing Glyma.11G190900 as the K1 locus. Non-functional AGO5 from k1 alleles leads to altered distributions of CHS siRNAs, thus explaining how the k1 mutation reverses the phenotype of the seed coat regions from yellow to pigmented, even in the presence of the normally dominant I or i-i alleles.

2017-03-30 | GSE89126 | GEO

Mutations in Argonaute5 Illuminate Epistatic Interactions of the K1 and I Loci Leading to Saddle Seed Color Patterns in Glycine max

2017-03-30 | GSE43347 | GEO

Project description:Glycine max (Clark, UC9, i mutation) genome resequencing

| PRJNA503475 | ENA

Project description:Glycine max genome resequencing of UC3New, black seed coat mutation from Clark in 1954

| PRJNA505197 | ENA

Project description:Glycine max (Clark 63) genome resequencing

| PRJNA503477 | ENA

Glycine max isolate:Clark mutation UC3

Project description:Glycine max isolate:Clark mutation UC3 Genome sequencing

| PRJNA987730 | ENA

Project description:Glycine max genome resequencing of UC147, saddle mutation from Sprite in 1985

| PRJNA505191 | ENA

Project description:Glycine max genome resequencing of UC149, saddle mutation from Wayne in 1976

| PRJNA505193 | ENA

Glycine max cultivar:UC8, i-k black saddle isoline, PI 547450

Project description:Glycine max genome assembly of UC8 (PI 547450), a Clark isoline with the black saddle i-k allele

| PRJNA990476 | ENA

Project description:Glycine max genome resequencing of UC131, i (wild) black seed isoline in Clark

| PRJNA505196 | ENA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data