A genome-wide association and meta-analysis reveal regions associated with seed size in cowpea [Vigna unguiculata (L.) Walp].

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
Sassoum LoTimothy J Close

Abstract

This paper combined GWAS, meta-analysis and sequence homology comparison with common bean to identify regions associated with seed size variation in domesticated cowpea. Seed size is an important trait for yield and commercial value in dry-grain cowpea. Seed size varies widely among different cowpea accessions, and the genetic basis of such variation is not yet well understood. To better decipher the genetic basis of seed size, a genome-wide association study (GWAS) and meta-analysis were conducted on a panel of 368 cowpea diverse accessions from 51 countries. Four traits, including seed weight, length, width and density were evaluated across three locations. Using 51,128 single nucleotide polymorphisms covering the cowpea genome, 17 loci were identified for these traits. One locus was common to weight, width and length, suggesting pleiotropy. By integrating synteny-based analysis with common bean, six candidate genes (Vigun05g036000, Vigun05g039600, Vigun05g204200, Vigun08g217000, Vigun11g187000, and Vigun11g191300) which are implicated in multiple functional categories related to seed size such as endosperm development, embryo development, and cell elongation were identified. These results suggest that a combination of GWAS m...Continue Reading

References

Jan 1, 1995·Genes & Development·T TakahashiN H Chua
May 28, 1996·Proceedings of the National Academy of Sciences of the United States of America·N OhadR L Fischer
Feb 15, 2005·Proceedings of the National Academy of Sciences of the United States of America·K Diane JofukuJack K Okamuro
Dec 17, 2008·Nature·Magnus Nordborg, Detlef Weigel
Mar 9, 2010·Nature Genetics·Zhiwu ZhangEdward S Buckler
Jun 16, 2010·The Plant Journal : for Cell and Molecular Biology·Aihua WangMing Luo
Apr 19, 2013·Frontiers in Plant Science·Mitchell R LucasTimothy J Close
May 10, 2013·Nature Reviews. Genetics·Evangelos Evangelou, John P A Ioannidis
Jun 9, 2014·Nature Genetics·Jeremy SchmutzScott A Jackson
Oct 21, 2015·Plant Molecular Biology·Baotian ZhaoXianzhong Feng
Oct 25, 2016·The Plant Journal : for Cell and Molecular Biology·María Muñoz-AmatriaínTimothy J Close
Nov 20, 2016·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·James D BurridgeJonathan P Lynch
Jan 23, 2018·The Plant Journal : for Cell and Molecular Biology·Bao-Lam HuynhPhilip A Roberts
Apr 25, 2019·The Plant Journal : for Cell and Molecular Biology·Stefano LonardiTimothy J Close

❮ Previous
Next ❯

Citations

Nov 25, 2020·Proceedings of the National Academy of Sciences of the United States of America·Adam D SteinbrennerEric A Schmelz
Jul 4, 2020·Current Opinion in Plant Biology·Rajneesh PaliwalOyatomi Olaniyi
Jul 10, 2021·Frontiers in Genetics·Papias H BinagwaConrad Bonsi
Jul 19, 2021·The Plant Genome·Frejus Ariel Kpedetin SodedjiHo-Youn Kim

❮ Previous
Next ❯

Methods Mentioned

BETA
genotyping
Assay

Software Mentioned

Genome Context Viewer ( GCV )
CES
hmmsearch
R
UCR
SAS
GenomeStudio
TASSEL
CVARS

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.