Dataset of the first de novo transcriptome assembly of Rhizome in Curcuma aeruginosa Roxb.

Name: Dataset of the first de novo transcriptome assembly of Rhizome in Curcuma aeruginosa Roxb.
Creator: devit purwoko
Published: 2023-03-16T08:44:46.762Z
Keywords: Curcumin, RNA Sequencing, Transcriptomics, Medicinal and Aromatic Plant Breeding

purwoko, devit; Civi Cartealy, Imam; Zulaeha, Siti; Tajuddin, Teuku; Rahmadara, Gemilang; Fitri Hanifah, Nurul; Dwi Hartuti, Endah; Khairiyah, Hayat; Pramisandi , Amila; Sigit Ahmad Fauzan, Yusuf; Suparjo, Suparjo; Reninta, Rikania; Safarrida, Anna; Sobir, Sobir

doi:10.17632/79gzvszgjm.1

Dataset of the first de novo transcriptome assembly of Rhizome in Curcuma aeruginosa Roxb.

Published: 16 March 2023| Version 1 | DOI: 10.17632/79gzvszgjm.1

Contributors:

devit purwoko,

,

Description

The RNA-seq data was obtained from 3 bulk parts of the rhizome of the temu ireng (C. aeruginosa) representing a complete set of transcriptome data from primary, secondary and tertiary rhizomes produced from 6-month-old plants.

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Steps to reproduce

SRR22995961 reads were submitted to Galaxy (https://usegalaxy.org/) and Trimmomatic 0.38.0 (toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.38.0) used to trim adapters and low quality bases (slidingwindow, 4 bases, 20 average quality). Paired trimmed reads were submitted to an assembly step via rnaSPAdes 3.15.3 (toolshed.g2.bx.psu.edu/repos/iuc/rnaspades/rnaspades/3.15.3+galaxy2) using default parameters (select k-mer detection option: auto).

Institutions

Badan Pengkajian da Penerapan Teknologi, Institut Pertanian Bogor Sekolah Pascasarjana

Dataset of the first de novo transcriptome assembly of Rhizome in Curcuma aeruginosa Roxb.

Description

Files

Steps to reproduce

Institutions

Categories

Licence