Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Castanea crenata strain:breed

ABSTRACT: Detecting novel locus associated with pellicle peelability in Japanese chestnut

PROVIDER: PRJDB13670 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	DRR379141_1.fastq.gz	Fastqsanger.gz
	DRR379141_2.fastq.gz	Fastqsanger.gz
	DRR379142_1.fastq.gz	Fastqsanger.gz
	DRR379142_2.fastq.gz	Fastqsanger.gz
	DRR379143_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 1094

Similar Datasets

Castanea crenata

Project description:Genetic diversity and structure of cultivated and wild chestnut populations in Japan

| PRJDB15870 | ENA

Castanea henryi

Project description:Chinese chestnut

| PRJNA348778 | ENA

Castanea crenata

Project description:Castanea crenata Transcriptome or Gene expression

| PRJNA534190 | ENA

Castanea crenata

Project description:Castanea crenata overview

| PRJNA534346 | ENA

Castanea crenata

Project description:Genomes of Castanea crenata

| PRJDB11900 | ENA

Castanea crenata

Project description:Castanea crenata genome sequencing

| PRJDB4725 | ENA

Castanea crenata

Project description:Castanea crenata Raw sequence reads

| PRJNA700447 | ENA

Morphological observation and protein expression of fertilized and abortive ovules in Castanea mollissima

Project description:In this study, the Chinese chestnut ‘Huaihuang’ was used to explore the possible mechanisms of ovule abortion with respect to proteomics. The chestnut anthesis starts mid-June. The development of the burs of C. mollissima cv. ‘Huaihuang’ were monitored from 15 to 25 days after anthesis (DAA) And the burs for different times were collected from the Chestnut Experiment Station in Huairou District, Beijing, China. This experiment was conducted at the Beijing Protein Innovation Co., Ltd.

2021-01-20 | PXD021317 | Pride

The complete chloroplast genome of <i>Castanea crenata</i> Sieb. & Zucc.

Project description:The complete chloroplast genome sequence of Castanea crenata was sequenced and assembled using PacBio Sequel data. The cpDNA was 160,787?bp in length, containing a pair of inverted repeats (IRs) of 25,654?bp each separated by a large and small single copy (LSC and SSC) regions of 90,645?bp and 18,836?bp, respectively. The cpDNA contained 102 genes, including 65 protein-coding genes, 8 ribosomal RNA genes and 37 transfer RNA genes. Phylogenetic analysis indicated that C. crenata was closest to C. pumila var. pumila, which is known as a typical variety of American chinquapin or dwarf chestnut.

| S-EPMC7707651 | biostudies-literature

Identification of transcriptome-wide, nut weight-associated SNPs in Castanea crenata.

Project description:Nut weight is one of the most important traits that can affect a chestnut grower's returns. Due to the long juvenile phase of chestnut trees, the selection of desired characteristics at early developmental stages represents a major challenge for chestnut breeding. In this study, we identified single nucleotide polymorphisms (SNPs) in transcriptomic regions, which were significantly associated with nut weight in chestnuts (Castanea crenata), using a genome-wide association study (GWAS). RNA-sequencing (RNA-seq) data were generated from large and small nut-bearing trees, using an Illumina HiSeq. 2000 system, and 3,271,142 SNPs were identified. A total of 21 putative SNPs were significantly associated with chestnut weight (false discovery rate [FDR] < 10-5), based on further analyses. We also applied five machine learning (ML) algorithms, support vector machine (SVM), C5.0, k-nearest neighbour (k-NN), partial least squares (PLS), and random forest (RF), using the 21 SNPs to predict the nut weights of a second population. The average accuracy of the ML algorithms for the prediction of chestnut weights was greater than 68%. Taken together, we suggest that these SNPs have the potential to be used during marker-assisted selection to facilitate the breeding of large chestnut-bearing varieties.

| S-EPMC6739505 | biostudies-literature

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