Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Evolution in duckweed Spirodela polyrhiza via direct and indirect ecological effects

PROVIDER: PRJNA1196832 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR31677300_1.fastq.gz	Fastqsanger.gz
	SRR31677300_2.fastq.gz	Fastqsanger.gz
	SRR31677301_1.fastq.gz	Fastqsanger.gz
	SRR31677301_2.fastq.gz	Fastqsanger.gz
	SRR31677302_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 76

Similar Datasets

A Spirodela polyrhiza genome and proteome reveal conserved chromosomal structure and translation favoring energy production

Project description:Duckweeds are a monophyletic group of rapidly reproducing aquatic monocots in the Lemnaceae family. Spirodela polyrhiza, the Greater Duckweed, has the largest body plan yet the smallest genome size in the family (1C = 150 Mb). Given their clonal, exponentially fast reproduction, a key question is whether genome structure is conserved across the species in the absence of meiotic recombination. We generated a highly contiguous, chromosome-scale assembly of Spirodela polyrhiza line Sp7498 using Oxford Nanopore plus Hi-C scaffolding (Sp7498_HiC) that is highly syntenic with a related line (Sp9509). Both the Sp7498_HiC and Sp9509 genome assemblies reveal large chromosomal misorientations in a recent PacBio assembly of Sp7498, highlighting the necessity of orthogonal long-range scaffolding techniques like Hi-C and BioNano optical mapping. Proteome analysis of Sp7498 verified the expression of nearly 2,250 proteins and revealed a high level of proteins involved in photosynthesis and carbohydrate metabolism among other functions. In addition, a strong increase in chloroplast proteins was observed that correlated to chloroplast density. This Sp7498_HiC genome was generated cheaply and quickly with a single Oxford Nanopore MinION flow cell and one Hi-C library in a classroom setting. Combining these data with a mass spectrometry-generated proteome, demonstrates that duckweed is a model for genomics- and proteomics-based education.

2022-10-26 | PXD017093 | Pride

Project description:Duckweed mutation accumulation lines (Spirodela polyrhiza)

| PRJNA659313 | ENA

Spirodela polyrhiza root and frond phosphate starvation RNA-Seq

Project description:Spirodela polyrhiza (9509) was grown under replete conditions for 10d, subject to media without phosphate or control for 24h, and then sequenced.

2023-03-05 | GSE226143 | GEO

Project description:Biodegradation of microcystins by microbiota of duckweed Spirodela polyrhiza

| PRJNA1066609 | ENA

Project description:transcriptome of duckweed (Spirodela polyrhiza) under different lights treatment

| PRJNA760549 | ENA

Spirodela polyrhiza

Project description:Spirodela polyrhiza overview

| PRJNA46627 | ENA

Project description:Transcriptome of Spirodela polyrhiza strain 7498 (duckweed) in 1/5 Hoagland medium.

| PRJNA670784 | ENA

Spirodela polyrhiza strain:7498

Project description:Spirodela polyrhiza mitochondrial genome