Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Persea americana cultivar:Hass

ABSTRACT: Persea americana cv. 'Hass' genome sequencing

PROVIDER: PRJNA564097 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10727792_1.fastq.gz	Fastqsanger.gz
	SRR10727792_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Persea americana cultivar:Hass

Project description:Persea americana cv. Hass project

| PRJNA872195 | ENA

Persea americana cultivar:Hass

Project description:Persea americana cultivar:Hass Genome sequencing and assembly

| PRJNA412302 | ENA

Persea americana strain:Hass

Project description:Persea americana Transcriptome references for variant detection

| PRJNA258225 | ENA

High-throughput sequencing of small RNAs in Persea americana

Project description:Small RNAs (21-24 nt) are pivotal regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in diverse eukaryotes, including most if not all plants. MicroRNAs (miRNAs) and short interfering RNAs (siRNAs) are the two major types, both of which have a demonstrated and important role in plant development, stress responses and pathogen resistance. In this work, we used a deep sequencing approach (Sequencing-By-Synthesis, or SBS) to develop sequence resources of small RNAs from Persea americana tissues (including leaves, flowers and fruit). The high depth of the resulting datasets enabled us to examine in detail critical small RNA features as size distribution, tissue-specific regulation and sequence conservation between different organs in this species. We also developed database resources and a dedicated website (http://smallrna.udel.edu/) with computational tools for allowing other users to identify new miRNAs or siRNAs involved in specific regulatory pathways, verify the degree of conservation of these sequences in other plant species and map small RNAs on genes or larger regions of the maize genome under study. Small RNA libraries were derived from leaves, flowers and fruit of Persea americana. Total RNA was isolated using the Plant RNA Purification Reagent (Invitrogen), and submitted to Illumina (Hayward, CA, http://www.illumina.com) for small RNA library construction using approaches described in (Lu et al., 2007) with minor modifications. The small RNA libraries were sequenced with the Sequencing-By-Synthesis (SBS) technology by Illumina. PERL scripts were designed to remove the adapter sequences and determine the abundance of each distinct small RNA. We thank Doug Soltis for providing the plant material as well as Kan Nobuta and Gayathri Mahalingam for assistance with the computational methods.

2011-05-09 | E-GEOD-28981 | biostudies-arrayexpress

Persea americana

Project description:Persea americana Assembly

| PRJNA398349 | ENA

Persea americana

Project description:Persea americana alternate pseudohaplotype genome sequencing

| PRJNA818812 | ENA

Persea americana

Project description:Persea americana principal pseudohaplotype genome sequencing

| PRJNA818814 | ENA

Persea americana

Project description:Persea americana principal pseudohaplotype genome sequencing