Ten new high-quality genome assemblies for diverse bioenergy sorghum genotypes

Voelker, William G, Krishnan, Krittika, Chougule, Kapeel, Alexander, Louie C, Lu, Zhenyuan, Olson, Andrew, Ware, Doreen, Songsomboon, Kittikun, Ponce, Cristian, Brenton, Zachary W, Boatwright, J Lucas, Cooper, Elizabeth A (2022) Ten new high-quality genome assemblies for diverse bioenergy sorghum genotypes. Frontiers in Plant Science, 13. p. 1040909. ISSN 1664-462X

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URL: https://www.ncbi.nlm.nih.gov/pubmed/36684744
DOI: 10.3389/fpls.2022.1040909


INTRODUCTION: Sorghum (Sorghum bicolor (L.) Moench) is an agriculturally and economically important staple crop that has immense potential as a bioenergy feedstock due to its relatively high productivity on marginal lands. To capitalize on and further improve sorghum as a potential source of sustainable biofuel, it is essential to understand the genomic mechanisms underlying complex traits related to yield, composition, and environmental adaptations. METHODS: Expanding on a recently developed mapping population, we generated de novo genome assemblies for 10 parental genotypes from this population and identified a comprehensive set of over 24 thousand large structural variants (SVs) and over 10.5 million single nucleotide polymorphisms (SNPs). RESULTS: We show that SVs and nonsynonymous SNPs are enriched in different gene categories, emphasizing the need for long read sequencing in crop species to identify novel variation. Furthermore, we highlight SVs and SNPs occurring in genes and pathways with known associations to critical bioenergy-related phenotypes and characterize the landscape of genetic differences between sweet and cellulosic genotypes. DISCUSSION: These resources can be integrated into both ongoing and future mapping and trait discovery for sorghum and its myriad uses including food, feed, bioenergy, and increasingly as a carbon dioxide removal mechanism.

Item Type: Paper
Subjects: bioinformatics
bioinformatics > genomics and proteomics
organism description > plant behavior
biotechnology > biofuel
organism description > plant behavior > crop yield improvement
CSHL Authors:
Communities: CSHL labs > Ware lab
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 2022
Date Deposited: 06 Feb 2023 21:26
Last Modified: 17 Jan 2024 15:53
PMCID: PMC9846640
URI: https://repository.cshl.edu/id/eprint/40836

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