Association mapping in plants in the post-GWAS genomics era

PK Gupta, PL Kulwal, V Jaiswal - Advances in genetics, 2019 - Elsevier
With the availability of DNA-based molecular markers during early 1980s and that of
sophisticated statistical tools in late 1980s and later, it became possible to identify genomic …

Genome‐wide association studies on the phyllosphere microbiome: embracing complexity in host–microbe interactions

K Beilsmith, MPM Thoen, B Brachi, AD Gloss… - The Plant …, 2019 - Wiley Online Library
Environmental sequencing shows that plants harbor complex communities of microbes that
vary across environments. However, many approaches for mapping plant genetic variation …

Environment dominates over host genetics in shaping human gut microbiota

D Rothschild, O Weissbrod, E Barkan, A Kurilshikov… - Nature, 2018 - nature.com
Human gut microbiome composition is shaped by multiple factors but the relative
contribution of host genetics remains elusive. Here we examine genotype and microbiome …

Iterative usage of fixed and random effect models for powerful and efficient genome-wide association studies

X Liu, M Huang, B Fan, ES Buckler, Z Zhang - PLoS genetics, 2016 - journals.plos.org
False positives in a Genome-Wide Association Study (GWAS) can be effectively controlled
by a fixed effect and random effect Mixed Linear Model (MLM) that incorporates population …

Genome-and transcriptome-wide association studies provide insights into the genetic basis of natural variation of seed oil content in Brassica napus

S Tang, H Zhao, S Lu, L Yu, G Zhang, Y Zhang… - Molecular Plant, 2021 - cell.com
Seed oil content (SOC) is a highly important and complex trait in oil crops. Here, we
decipher the genetic basis of natural variation in SOC of Brassica napus by genome-and …

Sparse whole-genome sequencing identifies two loci for major depressive disorder

Nature, 2015 - nature.com
Major depressive disorder (MDD), one of the most frequently encountered forms of mental
illness and a leading cause of disability worldwide, poses a major challenge to genetic …

Whole-genome sequencing identifies common-to-rare variants associated with human blood metabolites

T Long, M Hicks, HC Yu, WH Biggs, EF Kirkness… - Nature …, 2017 - nature.com
Genetic factors modifying the blood metabolome have been investigated through genome-
wide association studies (GWAS) of common genetic variants and through exome …

A fast and agnostic method for bacterial genome-wide association studies: Bridging the gap between k-mers and genetic events

M Jaillard, L Lima, M Tournoud, P Mahé… - PLoS …, 2018 - journals.plos.org
Genome-wide association study (GWAS) methods applied to bacterial genomes have
shown promising results for genetic marker discovery or detailed assessment of marker …

Metabolite‐based genome‐wide association study enables dissection of the flavonoid decoration pathway of wheat kernels

J Chen, X Hu, T Shi, H Yin, D Sun… - Plant Biotechnology …, 2020 - Wiley Online Library
The marriage of metabolomic approaches with genetic design has proven a powerful tool in
dissecting diversity in the metabolome and has additionally enhanced our understanding of …

Natural selection of a GSK3 determines rice mesocotyl domestication by coordinating strigolactone and brassinosteroid signaling

S Sun, T Wang, L Wang, X Li, Y Jia, C Liu… - Nature …, 2018 - nature.com
Mesocotyl is the crucial organ for pushing buds out of deep water or soil after germination in
monocots. Deep direct seeding or mechanized dry seeding cultivation practice requires rice …