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Phragmites australis Transcriptome Assembly Optimization

Metadata Updated: July 6, 2024

Nonnative Phragmites australis (common reed) is widely distributed across North America and insufficient knowledge of P. australis has impeded the efficiency of management. To aid in Phragmites management and future studies, we used RNA-seq data from multiple types of plant tissue to construct forty-nine P. australis transcriptomes via different assembly tools and multiple parameter settings, resulting in seven assembled transcriptomes for further comprehensive assessments. The optimal transcriptome (“cd-hit”) was selected for functional annotation and downstream analyses. This data release contains the seven assembled transcriptomes, and data derived from the optimal transcriptome (functional annotations, tissue-specific expression patterns, putative transcription factors, and simple sequence repeats markers).

Access & Use Information

Public: This dataset is intended for public access and use. License: No license information was provided. If this work was prepared by an officer or employee of the United States government as part of that person's official duties it is considered a U.S. Government Work.

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Dates

Metadata Created Date June 1, 2023
Metadata Updated Date July 6, 2024

Metadata Source

Harvested from DOI EDI

Additional Metadata

Resource Type Dataset
Metadata Created Date June 1, 2023
Metadata Updated Date July 6, 2024
Publisher U.S. Geological Survey
Maintainer
@Id http://datainventory.doi.gov/id/dataset/0f90005644000367d65ef05148fcc91b
Identifier USGS:626ac368d34e76103cd180bf
Data Last Modified 20230323
Category geospatial
Public Access Level public
Bureau Code 010:12
Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
Metadata Catalog ID https://datainventory.doi.gov/data.json
Schema Version https://project-open-data.cio.gov/v1.1/schema
Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
Harvest Object Id 3dac9d93-1467-489d-8c0b-a02a57ee2e0b
Harvest Source Id 52bfcc16-6e15-478f-809a-b1bc76f1aeda
Harvest Source Title DOI EDI
Metadata Type geospatial
Old Spatial -83.080888,42.326221,-83.074536,42.330377
Publisher Hierarchy White House > U.S. Department of the Interior > U.S. Geological Survey
Source Datajson Identifier True
Source Hash 617c78b4cde31df63bbc900ced1ad2ad4a72dc7acde84912c834424d38753e1a
Source Schema Version 1.1
Spatial {"type": "Polygon", "coordinates": -83.080888, 42.326221, -83.080888, 42.330377, -83.074536, 42.330377, -83.074536, 42.326221, -83.080888, 42.326221}

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