Genetic Dissection of Maize Embryonic Callus Regenerative Capacity Using Multi-Locus Genome-Wide Association Studies

Frontiers in Plant Science
Langlang MaYaou Shen

Abstract

The regenerative capacity of the embryonic callus, a complex quantitative trait, is one of the main limiting factors for maize transformation. This trait was decomposed into five traits, namely, green callus rate (GCR), callus differentiating rate (CDR), callus plantlet number (CPN), callus rooting rate (CRR), and callus browning rate (CBR). To dissect the genetic foundation of maize transformation, in this study multi-locus genome-wide association studies (GWAS) for the five traits were performed in a population of 144 inbred lines genotyped with 43,427 SNPs. Using the phenotypic values in three environments and best linear unbiased prediction (BLUP) values, as a result, a total of 127, 56, 160, and 130 significant quantitative trait nucleotides (QTNs) were identified by mrMLM, FASTmrEMMA, ISIS EM-BLASSO, and pLARmEB, respectively. Of these QTNs, 63 QTNs were commonly detected, including 15 across multiple environments and 58 across multiple methods. Allele distribution analysis showed that the proportion of superior alleles for 36 QTNs was <50% in 31 elite inbred lines. Meanwhile, these superior alleles had obviously additive effect on the regenerative capacity. This indicates that the regenerative capacity-related traits can...Continue Reading

References

Jun 10, 2000·The Plant Journal : for Cell and Molecular Biology·G C IngramP M Rogowsky
Feb 13, 2001·Plant Science : an International Journal of Experimental Plant Biology·V M. Jiménez, F Bangerth
Jul 3, 2002·Proceedings of the National Academy of Sciences of the United States of America·Harley M S SmithSarah Hake
Aug 11, 2005·Proceedings of the National Academy of Sciences of the United States of America·Asuka NishimuraMakoto Matsuoka
Aug 10, 2006·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·M D KrakowskyK Wang
Sep 15, 2006·Journal of Molecular Medicine : Official Organ of the Gesellschaft Deutscher Naturforscher Und Ärzte·Jan H SchefeHeiko Funke-Kaiser
Jun 26, 2007·Bioinformatics·Peter J BradburyEdward S Buckler
Sep 5, 2007·Molecular Biology and Evolution·Judith NardmannWolfgang Werr
Jul 24, 2013·Plant Methods·Arthur Korte, Ashley Farlow
Nov 5, 2013·Biochemical and Biophysical Research Communications·Yaou ShenGuangtang Pan
Feb 6, 2015·BMC Genomics·Jordon PaceThomas Lübberstedt
Mar 27, 2015·Journal of Plant Research·Akira IwaseKeiko Sugimoto
Mar 31, 2015·Current Biology : CB·Abdul KareemKalika Prasad
Sep 8, 2016·The Plant Cell·Keith LoweWilliam Gordon-Kamm
Mar 24, 2017·Briefings in Bioinformatics·Yang-Jun WenRongling Wu

❮ Previous
Next ❯

Citations

Dec 7, 2019·Molecular Genetics and Genomics : MGG·Xiaoxiang ZhangYaou Shen
Aug 13, 2020·International Journal of Molecular Sciences·Ali MuhammadLingqiang Wang
Oct 20, 2018·Frontiers in Plant Science·Gopal MisraNese Sreenivasulu
Aug 22, 2020·Plant Biotechnology·Yuji IshidaToshihiko Komari
Jan 22, 2019·Frontiers in Plant Science·Mingwei GuanCunmin Qu
Jul 1, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Xiaoxiang ZhangYaou Shen
Sep 30, 2020·Plants·Robin Lardon, Danny Geelen
Oct 14, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Demissew SertseSylvie Cloutier
May 25, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Jessica DelfiniLeandro Simões Azeredo Gonçalves
Jul 5, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Langlang MaYaou Shen
Oct 26, 2021·Frontiers in Plant Science·Jessica DelfiniLeandro Simões Azeredo Gonçalves

❮ Previous
Next ❯

Methods Mentioned

BETA
dissection
PCR
transgenic

Software Mentioned

pLARmEB
R heatmap package
FASTmrEMMA
GENE
GAPIT
MLM
ISIS EM
R package FarmCPU
STRUCTURE
- BLASSO

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.