Frontiers in plant science · 2026
Post-hoc permutation GWAS refinement reveals robust marker-trait associations in faba bean.
СтатьяНазвание и аннотация: Перевод в очереди
Обработка статьи · этапы, ошибки и управление
Загрузка состояния…
Ошибки и ограничения
История · было → стало
Состояние обновляется каждые 5 секунд, пока блок открыт. Процент показывается только там, где известен объём работы. Пауза останавливает продолжение этапа; текущий запрос к источнику может завершиться.
Mouritzen Troels W, Bornhofen Elesandro, Jayakody Thilani, Skovbjerg Cathrine Kiel, Kærgaard Nielsen Linda, Schiemann Andrea, Knudsen Jens Christen Nørgaard, Füchtbauer Winnie S, Orabi Jihad, Janss Luc, Andersen Stig U
Аннотация
INTRODUCTION: Faba bean (Vicia faba L.) is a high-yielding, protein-rich grain legume with considerable potential for sustainable cropping systems. However, its genetic improvement has been constrained by a large, complex genome and historically limited genomic resources. We aimed to identify agronomically relevant QTLs in a diverse faba bean panel using genome-wide associations studies (GWAS) with rigorous control of false positives due to model violations.
METHODS: The NORFAB faba bean diversity panel was evaluated for agronomic traits over four years (2018-2021) at two locations in Denmark. GWAS were conducted using three complementary methods, incorporating a standard predictor-permutation test, novel in a GWAS context, for the top associations post-hoc to rigorously control false positives due to model violations.
RESULTS: This approach identified 13 QTLs associated with nine agronomic traits. Several QTLs colocalized with genes previously associated with similar traits, such as the flowering time regulator FLOWERING LOCUS T. Incorporating a permutation step consistently discovered more internally consistent QTLs compared to using only parametric p-values, with each QTL detected by more GWAS methods and associated with a greater number of SNPs, traits and trials.
DISCUSSION: Our results add interesting QTLs and biologically plausible candidate genes for multiple agronomic traits for incorporation into the faba bean molecular breeding toolkit and suggest that SNP-level post-hoc permutation testing can improve GWAS reliability.
METHODS: The NORFAB faba bean diversity panel was evaluated for agronomic traits over four years (2018-2021) at two locations in Denmark. GWAS were conducted using three complementary methods, incorporating a standard predictor-permutation test, novel in a GWAS context, for the top associations post-hoc to rigorously control false positives due to model violations.
RESULTS: This approach identified 13 QTLs associated with nine agronomic traits. Several QTLs colocalized with genes previously associated with similar traits, such as the flowering time regulator FLOWERING LOCUS T. Incorporating a permutation step consistently discovered more internally consistent QTLs compared to using only parametric p-values, with each QTL detected by more GWAS methods and associated with a greater number of SNPs, traits and trials.
DISCUSSION: Our results add interesting QTLs and biologically plausible candidate genes for multiple agronomic traits for incorporation into the faba bean molecular breeding toolkit and suggest that SNP-level post-hoc permutation testing can improve GWAS reliability.