Identification of quantitative trait loci for related traits of stalk lodging resistance using genome-wide association studies in maize (Zea mays L.)

Wu, Lifen; Zheng, Yunxiao; Jiao, Fuchao; Wang, Ming; Zhang, Jing; Zhang, Zhongqin; Huang, Yaqun; Jia, Xiaoyun; Zhu, Linghua; Zhao, Yongjun; Guo, Jingheng; Chen, Jingtang

doi:10.1186/s12863-022-01091-5

Cited by 9 publications

(6 citation statements)

References 54 publications

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“…We have successfully identified and validated a middensity marker set for routine genotyping of pearl millet lines and its usefulness for various genomic studies. By Genetic diversity is the basis of evolution (Hughes et al, 2008) and provides the raw material for evolution of natural selection (Nevo, 1988;Zhang et al, 2022). Intraspecific genetic variation is the basis and most basic level of biodiversity (Pauls et al, 2013), and it is important for the evolution and conservation of species (Ellegren and Galtier, 2016).…”

Section: Discussionmentioning

confidence: 99%

Plant Genotyping: From Traditional Markers to Modern Technologies

2024

Frontiers Research Topics

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Frontiers is more than just an open access publisher of scholarly articles: it is a pioneering approach to the world of academia, radically improving the way scholarly research is managed. The grand vision of Frontiers is a world where all people have an equal opportunity to seek, share and generate knowledge. Frontiers provides immediate and permanent online open access to all its publications, but this alone is not enough to realize our grand goals. Frontiers journal seriesThe Frontiers journal series is a multi-tier and interdisciplinary set of openaccess, online journals, promising a paradigm shift from the current review, selection and dissemination processes in academic publishing. All Frontiers journals are driven by researchers for researchers; therefore, they constitute a service to the scholarly community. At the same time, the Frontiers journal series operates on a revolutionary invention, the tiered publishing system, initially addressing specific communities of scholars, and gradually climbing up to broader public understanding, thus serving the interests of the lay society, too. Dedication to qualityEach Frontiers article is a landmark of the highest quality, thanks to genuinely collaborative interactions between authors and review editors, who include some of the world's best academicians. Research must be certified by peers before entering a stream of knowledge that may eventually reach the public -and shape society; therefore, Frontiers only applies the most rigorous and unbiased reviews. Frontiers revolutionizes research publishing by freely delivering the most outstanding research, evaluated with no bias from both the academic and social point of view. By applying the most advanced information technologies, Frontiers is catapulting scholarly publishing into a new generation. What are Frontiers Research Topics?Frontiers Research Topics are very popular trademarks of the Frontiers journals series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area.

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Section: Discussionmentioning

confidence: 99%

Plant Genotyping: From Traditional Markers to Modern Technologies

2024

Frontiers Research Topics

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“…In particular, Zm00001d014449 is associated with LHP1 gene, which is involved in vascular bundle synthesis, and is important to maintain the specificity of cell and tissue structure; Zm00001d010201 expresses MYB6 transcription inhibitors related to the secondary wall. Previous studies [ 4 , 27 ] have confirmed that the MYB transcription factor family can be used as stalk strength related genes for in-depth research; Zm00001d029860 participates in the metabolism of 3-hydroxyisobutyl CoA hydrolase, which affects cell wall synthesis through biological processes such as lipid transport and metabolism. Further in-depth research is needed in the next step.…”

Section: Discussmentioning

confidence: 99%

Genome-wide association study for stalk lodging resistance related traits in maize (Zea mays L.)

Wang,

Yang,

Guo

et al. 2024

BMC Genomics

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Background The stalk traits stalk diameter, stalk length, rind penetrometer resistance and dry matter content are important indicators for measuring lodging resistance. Results In this study, 377 inbred lines were used as the basic materials, and four stalk-related traits including stalk diameter, stalk length, rind penetrometer resistance and dry matter content of the third segment of maize, were investigated at the tasseling, grain filling, and maturity stages. 461,053 high-quality SNPs which were obtained by whole genome resequencing were used for genome-wide association study. As a result of mixed linear model analysis (P < 9.77 × 10–6), 29 significant SNPs related to traits were detected, accounting for 7.19% -15.03% of phenotypic variation, among which 4, 1, 4 and 20 SNPs were found related to rind penetrometer resistance, stalk diameter, stalk length, and dry matter content respectively. Most candidate genes are related to plant element structure, signal transduction mechanisms, inorganic ion transport and metabolism, nucleotide transport and metabolism, and transporter enzyme families. Comparing mixed linear model with generalized linear model, a total of 12 candidate genes were detected repeatedly, during which the candidate gene Zm00001d014449 were detected 5 times, with a phenotypic variation interpretation rate of 9.95% -10.84%. This gene is mainly expressed in cells with active cell division and tissue differentiation, and is involved in the formation of stalk vascular bundles and the synthesis of cell walls. Another candidate gene, Zm00001d005300, encodes the transcription factor MYB44, which regulates the dependence of salt stress signal phosphorylation, can effectively inhibit the accumulation of destructive reactive oxygen species, and has a certain resistance to non-biotic stress. In addition, this study also found that 10 unknown functional genes can be further Functional verification. Conclusions This study helps to deepen the understanding of the genetic basis of traits related to maize stalk lodging resistance, and provides theoretical guidance for future maize lodging resistance breeding.

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“…In particular, Zm00001d014449 is associated with LHP1 gene, which is involved in vascular bundle synthesis, and is important to maintain the speci city of cell and tissue structure, Zm00001d010201 expresses MYB6 transcription inhibitors related to the secondary wall. Previous studies [4,23] have con rmed that the MYB transcription factor family can be used as stalk strength related genes for indepth research, Zm00001d029860 participates in the metabolism of 3-hydroxyisobutyl CoA hydrolase, which affects cell wall synthesis through biological processes such as lipid transport and metabolism.…”

Section: Analysis Of Genes Associated With Corn Stalk Related Traitsmentioning

confidence: 99%

Genome-wide Association Study for Stalk Lodging Resistance Related Traits in Maize(Zea mays L.)

Wang¹,

Yang²,

Hua³

et al. 2023

Preprint

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Background The stalk traits (stalk diameter (SD), stalk length (SL), rind penetrometer resistance (RPR), and dry matter content (DMC)) are important indicators for measuring lodging resistance. Results In this study, 377 inbred lines were used as four stalk-related traits, including SD, SL, RPR and DMC, were investigated at the tasseling, grain filling, and maturity stages in the third segment of maize. 461053 high-quality SNPs which were obtained by whole genome resequencing was used for genome-wide association study. The results showed that 29 significant SNPs related to traits were detected by MLM analysis (P < 9.77×10− 6), related to stalk correlation explaining 7.19% -15.03% of phenotypic variation, among which 4, 1, 4 and 20 SNPs were found related to RPR, SD, SL, and DMC respectively. Most candidate genes are related to plant element structure, signal transduction mechanisms, inorganic ion transport and metabolism, nucleotide transport and metabolism, and transporter enzyme families. Comparing MLM and GLM statistical models, a total of 12 candidate genes were detected repeatedly, with candidate gene Zm00001d014449 being detected 5 times, with a phenotypic variation interpretation rate of 9.95% -10.84%. This gene is mainly expressed in cells with active cell division and tissue differentiation, and is involved in the formation of stalk vascular bundles and the synthesis of cell walls. Another candidate gene Zm00001d005300 encodes the transcription factor MYB44, which regulates the dependence of salt stress signal phosphorylation, can effectively inhibit the accumulation of destructive reactive oxygen species, and has a certain resistance to non-Biotic stress. In addition, this study also found that 10 unknown functional genes can be further Functional verification. Conclusions This study helps to deepen the understanding of the genetic basis of maize stalk lodging resistance related traits, and provides theoretical guidance for future maize lodging resistance breeding.

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Identification of quantitative trait loci for related traits of stalk lodging resistance using genome-wide association studies in maize (Zea mays L.)

Cited by 9 publications

References 54 publications

Plant Genotyping: From Traditional Markers to Modern Technologies

Plant Genotyping: From Traditional Markers to Modern Technologies

Genome-wide association study for stalk lodging resistance related traits in maize (Zea mays L.)

Genome-wide Association Study for Stalk Lodging Resistance Related Traits in Maize(Zea mays L.)

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