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Mining genomic regions associated with agronomic and biochemical traits in quinoa through GWAS

التفاصيل البيبلوغرافية
العنوان: Mining genomic regions associated with agronomic and biochemical traits in quinoa through GWAS
المؤلفون: Hifzur Rahman, Prashant Vikram, Yulan Hu, Sugandha Asthana, Abhinav Tanaji, Padmaktshni Suryanarayanan, Chris Quadros, Lovely Mehta, Mohammed Shahid, Anestis Gkanogiannis, Sumitha Thushar, Salma Balazadeh, Bernd Mueller-Roeber, Luis Augusto Becerra Lopez-Lavalle, Tong Wei, Rakesh Kumar Singh
المصدر: Scientific Reports, Vol 14, Iss 1, Pp 1-14 (2024)
بيانات النشر: Nature Portfolio, 2024.
سنة النشر: 2024
المجموعة: LCC:Medicine
LCC:Science
مصطلحات موضوعية: Quinoa, Abiotic stress, QTL, Saponin, Marginal environment, GWAS, Medicine, Science
الوصف: Abstract Quinoa (Chenopodium quinoa Willd.), an Andean crop, is a facultative halophyte food crop recognized globally for its high nutritional value and plasticity to adapt to harsh conditions. We conducted a genome-wide association study on a diverse set of quinoa germplasm accessions. These accessions were evaluated for the following agronomic and biochemical traits: days to 50% flowering (DTF), plant height (PH), panicle length (PL), stem diameter (SD), seed yield (SY), grain diameter (GD), and thousand-grain weight (TGW). These accessions underwent genotyping-by-sequencing using the DNBSeq-G400R platform. Among all evaluated traits, TGW represented maximum broad-sense heritability. Our study revealed average SNP density of ≈ 3.11 SNPs/10 kb for the whole genome, with the lowest and highest on chromosomes Cq1B and Cq9A, respectively. Principal component analysis clustered the quinoa population in three main clusters, one clearly representing lowland Chilean accessions, whereas the other two groups corresponded to germplasm from the highlands of Peru and Bolivia. In our germplasm set, we estimated linkage disequilibrium decay to be ≈ 118.5 kb. Marker-trait analyses revealed major and consistent effect associations for DTF on chromosomes 3A, 4B, 5B, 6A, 7A, 7B and 8B, with phenotypic variance explained (PVE) as high as 19.15%. Nine associations across eight chromosomes were also found for saponin content with 20% PVE by qSPN5A.1. More QTLs were identified for PL and TGW on multiple chromosomal locations. We identified putative candidate genes in the genomic regions associated with DTF and saponin content. The consistent and major-effect genomic associations can be used in fast-tracking quinoa breeding for wider adaptation across marginal environments.
نوع الوثيقة: article
وصف الملف: electronic resource
اللغة: English
تدمد: 2045-2322
Relation: https://doaj.org/toc/2045-2322
DOI: 10.1038/s41598-024-59565-8
URL الوصول: https://doaj.org/article/541b84215b0e442dac1151523ba68839
رقم الأكسشن: edsdoj.541b84215b0e442dac1151523ba68839
قاعدة البيانات: Directory of Open Access Journals
الوصف
تدمد:20452322
DOI:10.1038/s41598-024-59565-8