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<p>The current ecological scenario necessitates the designing of crop genotypes with high NUE to mitigate the ecological damages caused by N overuse. Such an endeavour requires a clear understanding of the genetic factors influencing N-metabolism. We conducted a GWAS to investigate the genetic architecture of traits associated with N uptake and assimilation in <i>Brassica rapa</i> through evaluation of 195 diverse <i>B. rapa</i> genotypes across three critical growth stages-pre-anthesis, anthesis, and post-anthesis. These studies revealed significant diversity for N metabolism-related traits. GWAS led to the identification of 390 significant SNPs. Annotating the genomic regions surrounding peak SNPs facilitated the prediction of 16 genes putatively linked to various steps of the N assimilation pathway. Notable among these were the genes linked to glutamate production and signaling, such as <i>GLU1</i> (<i>AT5G04140</i>), <i>GAD</i> (<i>AT5G17330</i>), <i>GSR2</i> (<i>AT1G66200</i>), <i>GLR3.4</i> (<i>AT1G05200</i>), <i>NAC097</i> (<i>AT5G50820</i>), and <i>NRT2:1</i> (<i>AT1G08090</i>). Additionally, the auxin-responsive <i>GH3</i> family protein (<i>AT5G13360</i>) was identified. Further predictions included genes such as <i>AT2G28880-EMB1997</i> (associated with nitrite reductase), <i>AT1G70560-TAA1</i>, and the NAD (P)-binding Rossmann-fold superfamily protein (<i>AT5G10730</i>), linked to GDH enzyme. This study is the first effort to leverage GWAS for identifying specific enzymatic and non-enzymatic factors influencing N use in <i>B. rapa</i>. The functional validation of these candidate genes may confirm their roles in N uptake and assimilation, paving the way for the development of improved crop varieties through the introduction of favorable alleles associated with NUE traits.</p>

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Genome-wide association studies reveal the genetic factors influencing nitrogen assimilation in Brassica rapa L.

  • 期刊论文

  • 发表日期：

    2025年10月28日

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  • Sakshi Goyal,
  • Sanjula Sharma,
  • Anna Goyal,
  • Meenakshi Mittal,
  • Javed Akhtar,
  • Pooja Kanwar Shekhawat,
  • Chhaya Atri,
  • S. S. Banga

摘要

The current ecological scenario necessitates the designing of crop genotypes with high NUE to mitigate the ecological damages caused by N overuse. Such an endeavour requires a clear understanding of the genetic factors influencing N-metabolism. We conducted a GWAS to investigate the genetic architecture of traits associated with N uptake and assimilation in Brassica rapa through evaluation of 195 diverse B. rapa genotypes across three critical growth stages-pre-anthesis, anthesis, and post-anthesis. These studies revealed significant diversity for N metabolism-related traits. GWAS led to the identification of 390 significant SNPs. Annotating the genomic regions surrounding peak SNPs facilitated the prediction of 16 genes putatively linked to various steps of the N assimilation pathway. Notable among these were the genes linked to glutamate production and signaling, such as GLU1 (AT5G04140), GAD (AT5G17330), GSR2 (AT1G66200), GLR3.4 (AT1G05200), NAC097 (AT5G50820), and NRT2:1 (AT1G08090). Additionally, the auxin-responsive GH3 family protein (AT5G13360) was identified. Further predictions included genes such as AT2G28880-EMB1997 (associated with nitrite reductase), AT1G70560-TAA1, and the NAD (P)-binding Rossmann-fold superfamily protein (AT5G10730), linked to GDH enzyme. This study is the first effort to leverage GWAS for identifying specific enzymatic and non-enzymatic factors influencing N use in B. rapa. The functional validation of these candidate genes may confirm their roles in N uptake and assimilation, paving the way for the development of improved crop varieties through the introduction of favorable alleles associated with NUE traits.