Genome-wide Association Study Reveals Genomic Loci Influencing Agronomic Traits in Ethiopian Sorghum ( (L.) Moench) Landraces

Overview

Journal Mol Breed

Specialties Biotechnology
Molecular Biology

Date 2023 Jun 14

PMID 37312746

Authors

Zeleke Wondimu

Hongxu Dong

Andrew H Paterson

Walelign Worku

Kassahun Bantte

Affiliations

Soon will be listed here.

Abstract

Supplementary Information: The online version contains supplementary material available at 10.1007/s11032-023-01381-5.

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References

Rama Reddy N, Ragimasalawada M, Sabbavarapu M, Nadoor S, Patil J . Detection and validation of stay-green QTL in post-rainy sorghum involving widely adapted cultivar, M35-1 and a popular stay-green genotype B35. BMC Genomics. 2014; 15:909. PMC: 4219115. DOI: 10.1186/1471-2164-15-909. View

Wu J, Wang L, Fu J, Chen J, Wei S, Zhang S . Resequencing of 683 common bean genotypes identifies yield component trait associations across a north-south cline. Nat Genet. 2019; 52(1):118-125. DOI: 10.1038/s41588-019-0546-0. View

Liu S, Zhong H, Meng X, Sun T, Li Y, Pinson S . Genome-wide association studies of ionomic and agronomic traits in USDA mini core collection of rice and comparative analyses of different mapping methods. BMC Plant Biol. 2020; 20(1):441. PMC: 7513512. DOI: 10.1186/s12870-020-02603-0. View

Zhao J, Mantilla Perez M, Hu J, Salas Fernandez M . Genome-Wide Association Study for Nine Plant Architecture Traits in Sorghum. Plant Genome. 2016; 9(2). DOI: 10.3835/plantgenome2015.06.0044. View

Crasta O, Xu W, Rosenow D, Mullet J, Nguyen H . Mapping of post-flowering drought resistance traits in grain sorghum: association between QTLs influencing premature senescence and maturity. Mol Gen Genet. 1999; 262(3):579-88. DOI: 10.1007/s004380051120. View

McCormick R, Truong S, Sreedasyam A, Jenkins J, Shu S, Sims D . The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization. Plant J. 2017; 93(2):338-354. DOI: 10.1111/tpj.13781. View

Fang C, Ma Y, Wu S, Liu Z, Wang Z, Yang R . Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean. Genome Biol. 2017; 18(1):161. PMC: 5571659. DOI: 10.1186/s13059-017-1289-9. View

Boyles R, Pfeiffer B, Cooper E, Rauh B, Zielinski K, Myers M . Genetic dissection of sorghum grain quality traits using diverse and segregating populations. Theor Appl Genet. 2016; 130(4):697-716. PMC: 5360839. DOI: 10.1007/s00122-016-2844-6. View

Boyles R, Cooper E, Myers M, Brenton Z, Rauh B, Morris G . Genome-Wide Association Studies of Grain Yield Components in Diverse Sorghum Germplasm. Plant Genome. 2016; 9(2). DOI: 10.3835/plantgenome2015.09.0091. View

10.

Korte A, Farlow A . The advantages and limitations of trait analysis with GWAS: a review. Plant Methods. 2013; 9:29. PMC: 3750305. DOI: 10.1186/1746-4811-9-29. View

11.

Li H, Zhang L, Hu J, Zhang F, Chen B, Xu K . Genome-Wide Association Mapping Reveals the Genetic Control Underlying Branch Angle in Rapeseed ( L.). Front Plant Sci. 2017; 8:1054. PMC: 5474488. DOI: 10.3389/fpls.2017.01054. View

12.

Zhang J, Feng J, Ni Y, Wen Y, Niu Y, Tamba C . pLARmEB: integration of least angle regression with empirical Bayes for multilocus genome-wide association studies. Heredity (Edinb). 2017; 118(6):517-524. PMC: 5436030. DOI: 10.1038/hdy.2017.8. View

13.

Saltz J, Hessel F, Kelly M . Trait Correlations in the Genomics Era. Trends Ecol Evol. 2017; 32(4):279-290. DOI: 10.1016/j.tree.2016.12.008. View

14.

Feltus F, Hart G, Schertz K, Casa A, Kresovich S, Abraham S . Alignment of genetic maps and QTLs between inter- and intra-specific sorghum populations. Theor Appl Genet. 2006; 112(7):1295-305. DOI: 10.1007/s00122-006-0232-3. View

15.

Saha G, Park J, Jung H, Ahmed N, Kayum M, Chung M . Genome-wide identification and characterization of MADS-box family genes related to organ development and stress resistance in Brassica rapa. BMC Genomics. 2015; 16:178. PMC: 4422603. DOI: 10.1186/s12864-015-1349-z. View

16.

Flint-Garcia S, Thornsberry J, Buckler 4th E . Structure of linkage disequilibrium in plants. Annu Rev Plant Biol. 2003; 54:357-74. DOI: 10.1146/annurev.arplant.54.031902.134907. View

17.

Sanchez A, Subudhi P, Rosenow D, Nguyen H . Mapping QTLs associated with drought resistance in sorghum (Sorghum bicolor L. Moench). Plant Mol Biol. 2002; 48(5-6):713-26. DOI: 10.1023/a:1014894130270. View

18.

Li H, Peng Z, Yang X, Wang W, Fu J, Wang J . Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels. Nat Genet. 2012; 45(1):43-50. DOI: 10.1038/ng.2484. View

19.

Tamba C, Ni Y, Zhang Y . Iterative sure independence screening EM-Bayesian LASSO algorithm for multi-locus genome-wide association studies. PLoS Comput Biol. 2017; 13(1):e1005357. PMC: 5308866. DOI: 10.1371/journal.pcbi.1005357. View

20.

Ramamoorthy R, Vishal B, Ramachandran S, Kumar P . The OsPS1-F gene regulates growth and development in rice by modulating photosynthetic electron transport rate. Plant Cell Rep. 2017; 37(2):377-385. DOI: 10.1007/s00299-017-2235-8. View