Longitudinal genome-wide association study reveals early QTL that predict biomass accumulation under cold stress in sorghum

Agnew, Erica; Ziegler, Greg; Lee, Scott; Lizárraga, César; Fahlgren, Noah; Baxter, Ivan; Mockler, Todd C.; Shakoor, Nadia

doi:10.3389/fpls.2024.1278802

Longitudinal genome-wide association study reveals early QTL that predict biomass accumulation under cold stress in sorghum

Journal Article · Tue May 14 00:00:00 EDT 2024 · Frontiers in Plant Science

DOI:https://doi.org/10.3389/fpls.2024.1278802· OSTI ID:2345011

Agnew, Erica ^[1]; Ziegler, Greg ^[2]; Lee, Scott ^[2]; Lizárraga, César ^[2]; Fahlgren, Noah ^[2]; Baxter, Ivan ^[2]; Mockler, Todd C. ^[2]; Shakoor, Nadia ^[2]

Donald Danforth Plant Science Center, St. Louis, MO (United States); Donald Danforth Plant Science Center
Donald Danforth Plant Science Center, St. Louis, MO (United States)

Sorghum bicolor is a promising cellulosic feedstock crop for bioenergy due to its high biomass yields. However, early growth phases of sorghum are sensitive to cold stress, limiting its planting in temperate environments. Cold adaptability is crucial for cultivating bioenergy and grain sorghum at higher latitudes and elevations, or for extending the growing season. Identifying genes and alleles that enhance biomass accumulation under early cold stress can lead to improved sorghum varieties through breeding or genetic engineering. We conducted image-based phenotyping on 369 accessions from the sorghum Bioenergy Association Panel (BAP) in a controlled environment with early cold treatment. The BAP includes diverse accessions with dense genotyping and varied racial, geographical, and phenotypic backgrounds. Daily, non-destructive imaging allowed temporal analysis of growth-related traits and water use efficiency (WUE). A genome-wide association study (GWAS) was performed to identify genomic intervals and genes associated with cold stress response. The GWAS identified transient quantitative trait loci (QTL) strongly associated with growth-related traits, enabling an exploration of the genetic basis of cold stress response at different developmental stages. This analysis of daily growth traits, rather than endpoint traits, revealed early transient QTL predictive of final phenotypes. The study identified both known and novel candidate genes associated with growth-related traits and temporal responses to cold stress. The identified QTL and candidate genes contribute to understanding the genetic mechanisms underlying sorghum's response to cold stress. These findings can inform breeding and genetic engineering strategies to develop sorghum varieties with improved biomass yields and resilience to cold, facilitating earlier planting, extended growing seasons, and cultivation at higher latitudes and elevations.

View Accepted Manuscript (DOE)

Research Organization:: Donald Danforth Plant Science Center, St. Louis, MO (United States)

Sponsoring Organization:: USDOE Advanced Research Projects Agency - Energy (ARPA-E); USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AR0000594; SC0018277; SC0023160

OSTI ID:: 2345011

Journal Information:: Frontiers in Plant Science, Journal Name: Frontiers in Plant Science Vol. 15; ISSN 1664-462X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

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Longitudinal genome-wide association study reveals early QTL that predict biomass accumulation under cold stress in sorghum

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