Population structure and association mapping studies for yield-related traits in Maize (Zea mays L.)

Sivakumar, S. D.; Dhasarathan, M.; Karthikeyan, Adhimoolam; Bharathi, P.; Vinodhana, N. Kumari; Senthil, N.

doi:10.1016/j.cpb.2019.04.001

Cited by 7 publications

(2 citation statements)

References 44 publications

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“…The main challenge in association study is to identify real and false relationships between the studied markers and traits according to the population structure and kinship relationships, although the influence of kinship relationships in providing false positive results is more than the population structure 58 – 60 . To compare the identified markers between the first and second years, as well as to detect the stable and true markers associated with traits in both experimental years to use them in breeding programs, an association study using GLM and MLM models was separately done for data of the first and second years.…”

Section: Resultsmentioning

confidence: 99%

Association study of morpho-phenological traits in quinoa (Chenopodium quinoa Willd.) using SSR markers

Souri Laki,

Rabiei,

Marashi

et al. 2024

Sci Rep

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In this study, the genetic and molecular diversity of 60 quinoa accessions was assessed using agronomically important traits related to grain yield as well as microsatellite (SSR) markers, and informative markers linked to the studied traits were identified using association study. The results showed that most of the studied traits had a relatively high diversity, but grain saponin and protein content showed the highest diversity. High diversity was also observed in all SSR markers, but KAAT023, KAAT027, KAAT036, and KCAA014 showed the highest values for most of the diversity indices and can be introduced as the informative markers to assess genetic diversity in quinoa. Population structure analysis showed that the studied population probably includes two subclusters, so that out of 60 quinoa accessions, 29 (48%) and 23 (38%) accessions were assigned to the first and second subclusters, respectively, and eight (13%) accessions were considered as the mixed genotypes. The study of the population structure using Structure software showed two possible subgroups (K = 2) in the studied population and the results of the bar plot confirmed it. Association study using the general linear model (GLM) and mixed linear model (MLM) identified the number of 35 and 32 significant marker-trait associations (MTAs) for the first year (2019) and 37 and 35 significant MTAs for the second year (2020), respectively. Among the significant MTAs identified for different traits, the highest number of significant MTAs were obtained for grain yield and 1000-grain weight with six and five MTAs, respectively.

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Section: Resultsmentioning

confidence: 99%

Association study of morpho-phenological traits in quinoa (Chenopodium quinoa Willd.) using SSR markers

Souri Laki,

Rabiei,

Marashi

et al. 2024

Sci Rep

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“…Thus, promising maize landrace(s) could be used in genome wide association mapping of thermotolerance targeted trait(s), and to identify potential QTLs with large effect size and further, the dominant gene(s) responsible for the trait(s) (Ahmed et al, 2022;Nelimor et al, 2019). Single nucleotide polymorphism (SNP) markers are mostly used as markers in association studies (Sivakumar et al, 2019). Ahmed et al (2022) sequenced 275 maize inbred lines, grown under two different temperature regimes including 35 and 45˚C, and identified 1,70,098 SNPs.…”

Section: Exploring Genetic Variation For Heat Stress Tolerancementioning

confidence: 99%

Maize and heat stress: Physiological, genetic, and molecular insights

Djalovic,

Kundu,

Bahuguna

et al. 2023

The Plant Genome

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Global mean temperature is increasing at a rapid pace due to the rapid emission of greenhouse gases majorly from anthropogenic practices and predicted to rise up to 1.5°C above the pre‐industrial level by the year 2050. The warming climate is affecting global crop production by altering biochemical, physiological, and metabolic processes resulting in poor growth, development, and reduced yield. Maize is susceptible to heat stress, particularly at the reproductive and early grain filling stages. Interestingly, heat stress impact on crops is closely regulated by associated environmental covariables such as humidity, vapor pressure deficit, soil moisture content, and solar radiation. Therefore, heat stress tolerance is considered as a complex trait, which requires multiple levels of regulations in plants. Exploring genetic diversity from landraces and wild accessions of maize is a promising approach to identify novel donors, traits, quantitative trait loci (QTLs), and genes, which can be introgressed into the elite cultivars. Indeed, genome wide association studies (GWAS) for mining of potential QTL(s) and dominant gene(s) is a major route of crop improvement. Conversely, mutation breeding is being utilized for generating variation in existing populations with narrow genetic background. Besides breeding approaches, augmented production of heat shock factors (HSFs) and heat shock proteins (HSPs) have been reported in transgenic maize to provide heat stress tolerance. Recent advancements in molecular techniques including clustered regularly interspaced short palindromic repeats (CRISPR) would expedite the process for developing thermotolerant maize genotypes.

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Genetic characterization and association mapping in near-isogenic lines of waxy maize using seed characteristics and SSR markers

Kim

Jin

Namgung³

et al. 2021

Genes Genom

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Population structure and association mapping studies for yield-related traits in Maize (Zea mays L.)

Cited by 7 publications

References 44 publications

Association study of morpho-phenological traits in quinoa (Chenopodium quinoa Willd.) using SSR markers

Association study of morpho-phenological traits in quinoa (Chenopodium quinoa Willd.) using SSR markers

Maize and heat stress: Physiological, genetic, and molecular insights

Genetic characterization and association mapping in near-isogenic lines of waxy maize using seed characteristics and SSR markers

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