The Complete Genome Sequence of <i>Cymbopogon citratus</i> (Poaceae, Poales), Lemon Grass

Navajeet Chakravartty; Laslo Randowski; Stacy Pirro

doi:10.56179/001c.74871

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.

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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.

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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.

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Kieras, M. 2021. Zanfona, a genome finishing process for use with paired-end short reads. https://github.com/zanfona734/zanfona.

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