Genome-wide association studies of fruit quality traits in jujube germplasm collections using genotyping-by-sequencing

The Plant Genome
Lu HouYingyue Li

Abstract

Chinese jujube (Ziziphus jujuba Mill.) is an important fruit crop and harbors many highly diverse traits of potential economic importance. Fruit size, stone size, and fruit cracking have an important influence on the commercial value of jujube. This study is the first to conduct a genome-wide association study (GWAS) on 180 accessions of jujube and focuses on locating single-nucleotide polymorphisms (SNPs) associated with nine important fruit quality traits. Genotyping was performed using genotyping-by-sequencing and 4651 high-quality SNPs were identified. A genetic diversity analysis revealed the presence of three distinct groups, and rapid linkage disequilibrium decay was observed in this jujube population. Using a mixed linear model, a total of 45 significant SNP-trait associations were detected, among which 33 SNPs had associations with fruit size-related traits, nine were associated with stone size-related traits, and three with fruit cracking-related traits. In total, 21 candidate genes involved in cell expansion, abiotic stress responses, hormone signaling, and growth development were identified from the genome sequences of jujube. These results are useful as basic data for GWAS of other jujube traits, and these signific...Continue Reading

References

Jun 18, 2002·Plant Physiology·Joseph A Verica, Zheng-Hui He
May 29, 2004·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·B QuilotK Moreau
Nov 15, 2005·Journal of Plant Research·Gorou HoriguchiHirokazu Tsukaya
Jun 26, 2007·Bioinformatics·Peter J BradburyEdward S Buckler
Oct 20, 2007·Genetics·Kristie A MatherMichael D Purugganan
Jan 26, 2008·Molecular Genetics and Genomics : MGG·Kuniaki HigashiYuki Ichinose
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
Oct 23, 2009·The Plant Journal : for Cell and Molecular Biology·Jonathan T VogelHarry J Klee
Apr 17, 2010·Nature Reviews. Genetics·Noah A RosenbergMichael Boehnke
May 24, 2011·Plant Science : an International Journal of Experimental Plant Biology·Mei Guo, Carl R Simmons
Mar 20, 2012·Journal of Plant Physiology·L NitschI Rieu
May 23, 2012·Proceedings of the National Academy of Sciences of the United States of America·Christian RiedelsheimerAlbrecht E Melchinger
Oct 17, 2012·BMC Plant Biology·Marijn KnipPaul J J Hooykaas
Dec 26, 2012·Proceedings of the National Academy of Sciences of the United States of America·Geoffrey P MorrisStephen Kresovich
Mar 14, 2013·Journal of Agricultural and Food Chemistry·Qing-Han GaoMin Wang
Jul 24, 2013·Plant Methods·Arthur Korte, Ashley Farlow
Aug 27, 2013·Molecular Breeding : New Strategies in Plant Improvement·P De FranceschiA F Iezzoni
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
May 1, 1993·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·M SinghJ Hamblin
Nov 28, 2013·Annual Review of Plant Biology·Xuehui Huang, Bin Han
Oct 29, 2014·Nature Communications·Meng-Jun LiuLong-Hai Luo
Jun 13, 2015·The EMBO Journal·Kosuke KobayashiMasaki Ito
Sep 12, 2015·The Plant Journal : for Cell and Molecular Biology·Jia-Long YaoAndrew P Gleave
Jan 6, 2016·BMC Plant Biology·Martin BoeglinIsabelle Chérel
Apr 14, 2016·Breeding Science·Hiroyoshi IwataTakeshi Hayashi
Jun 14, 2016·Current Opinion in Plant Biology·Na Li, Yunhai Li
Oct 16, 2016·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Carmen CapelJuan Capel
Jun 18, 2017·Frontiers in Plant Science·Sanu AroraParveen Chhuneja
Dec 21, 2017·Frontiers in Plant Science·Xiliang QiMing Li
Jan 25, 2018·Plant Science : an International Journal of Experimental Plant Biology·Shaowei DuanMingxun Chen
Jun 8, 2018·Journal of Integrative Plant Biology·Chengqi LiJiafeng Song

❮ Previous
Next ❯

Citations


❮ Previous
Next ❯

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.