Loading [Contrib]/a11y/accessibility-menu.js
Skip to main content
biogenomes
  • Menu
  • Articles
    • Genome Sequencing
    • All
  • For Authors
  • Editorial Board
  • About
  • Open Access
  • Peer Review
  • search

RSS Feed

Enter the URL below into your favorite RSS reader.

http://localhost:39802/feed
Genome Sequencing
April 28, 2023 EDT

The Complete Genome Sequence of Cymbopogon citratus (Poaceae, Poales), Lemon Grass

Navajeet Chakravartty, Laslo Randowski, Stacy Pirro,
lemongrassgenome
https://doi.org/10.56179/001c.74871
biogenomes
Chakravartty, Navajeet, Laslo Randowski, and Stacy Pirro. 2023. “The Complete Genome Sequence of Cymbopogon Citratus (Poaceae, Poales), Lemon Grass.” Biodiversity Genomes, April, 28–29. https:/​/​doi.org/​10.56179/​001c.74871.
Save article as...▾

View more stats

Abstract

Cymbopogon citratus, commonly known Lemon Grass, is a tropical plant native to Maritime Southeast Asia. The species has simple, bluish-green leaves with linear white margins. Cymbopogon citratus is abundant in the Philippines and Indonesia where it is traditionally used in cooking. The dried leaves can also be brewed into a tea, either alone or as a flavoring in other teas. We present the complete genome sequence of this species. The raw data and assembled sequences are available in Genbank.

Methods

A single cultivated plant was used for this study. DNA extraction was performed using the Qiagen DNAeasy genomic extraction kit using the standard process. A paired-end sequencing library was constructed using the Illumina TruSeq kit, according to the manufacturer’s instructions. The library was sequenced on an Illumina Hi-Seq platform in paired-end, 2 × 150bp format. The resulting fastq files were trimmed of adapter/primer sequence and low-quality regions with Trimmomatic v0.33 (Bolger, Lohse, and Usadel 2014). The trimmed sequence was assembled by SPAdes v2.5 (Bankevich et al. 2012) followed by a finishing step using Zanfona v1.0 (Kieras 2021) to make additional contig joins based on conserved regions in related species.

Results

Raw and assembled data is publicly available via GenBank:

Raw genome data

https://trace.ncbi.nlm.nih.gov/Traces/?view=run_browser&acc=SRR11229723

Assembled genome

https://www.ncbi.nlm.nih.gov/nuccore/JAOBBA000000000


Funding

Funding was provided by Iridian Genomes, grant# IRGEN_RG_2021-1345 Genomic Studies of Eukaryotic Taxa

Submitted: April 24, 2023 EDT

Accepted: April 28, 2023 EDT

References

Bankevich, Anton, Sergey Nurk, Dmitry Antipov, Alexey A. Gurevich, Mikhail Dvorkin, Alexander S. Kulikov, Valery M. Lesin, et al. 2012. “SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing.” Journal of Computational Biology 19 (5): 455–77. https:/​/​doi.org/​10.1089/​cmb.2012.0021.
Google ScholarPubMed CentralPubMed
Bolger, Anthony M., Marc Lohse, and Bjoern Usadel. 2014. “Trimmomatic: A Flexible Trimmer for Illumina Sequence Data.” Bioinformatics 30 (15): 2114–20. https:/​/​doi.org/​10.1093/​bioinformatics/​btu170.
Google ScholarPubMed CentralPubMed
Kieras, M. 2021. Zanfona, a genome finishing process for use with paired-end short reads. https:/​/​github.com/​zanfona734/​zanfona.
Google Scholar

This website uses cookies

We use cookies to enhance your experience and support COUNTER Metrics for transparent reporting of readership statistics. Cookie data is not sold to third parties or used for marketing purposes.

Powered by Scholastica, the modern academic journal management system