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From the genome to super-pangenome: a new paradigm for accelerated crop improvement
Journal article   Open access

From the genome to super-pangenome: a new paradigm for accelerated crop improvement

Ali Raza, Yiran Li, Farkhandah Jan, Cassandria Geraldine Tay Fernandez, Reyazul Rouf Mir, Zhangli Hu and Rajeev K. Varshney
npj Science of Plants, Vol.2, 4
2026
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Published1.87 MBDownloadView
Open Access CC BY-NC-ND V4.0

Abstract

631/114 631/181 631/208 631/449 Biomedical and Life Sciences Life Sciences Plant Anatomy/Development Plant Biochemistry Plant Pathology Plant Sciences Plant Systematics/Taxonomy/Biogeography Review Soil Science & Conservation
Super-pangenomes expand species-level pan-genomes to genus-wide frameworks, which integrate cultivated and wild genomes to capture hidden diversity. Super-pangenomes reduce reference bias, discover structural variations, rare alleles, and regulatory elements which drive stress adaptation and trait evolution. By leveraging QTL/GWAS and panomics, super-pangenomes fast-track breeding of stress-smart and high-yielding crops. This review highlights advances, challenges, and prospects, which position super-pangenomes as a “surprise package” for sustainable, food-secure agriculture.

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