Genetic diversity and trait genomic prediction in a pea diversity panel

BMC Genomics
Judith BurstinGérard Duc

Abstract

Pea (Pisum sativum L.), a major pulse crop grown for its protein-rich seeds, is an important component of agroecological cropping systems in diverse regions of the world. New breeding challenges imposed by global climate change and new regulations urge pea breeders to undertake more efficient methods of selection and better take advantage of the large genetic diversity present in the Pisum sativum genepool. Diversity studies conducted so far in pea used Simple Sequence Repeat (SSR) and Retrotransposon Based Insertion Polymorphism (RBIP) markers. Recently, SNP marker panels have been developed that will be useful for genetic diversity assessment and marker-assisted selection. A collection of diverse pea accessions, including landraces and cultivars of garden, field or fodder peas as well as wild peas was characterised at the molecular level using newly developed SNP markers, as well as SSR markers and RBIP markers. The three types of markers were used to describe the structure of the collection and revealed different pictures of the genetic diversity among the collection. SSR showed the fastest rate of evolution and RBIP the slowest rate of evolution, pointing to their contrasted mode of evolution. SNP markers were then used to ...Continue Reading

References

Jan 17, 2004·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·A BarangerJ Burstin
Oct 6, 2004·Genome Biology·Robert C GentlemanJianhua Zhang
Sep 1, 2005·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·K LoridonJ Burstin
Apr 25, 2006·Biostatistics·W Evan JohnsonAriel Rabinovic
Aug 11, 2006·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·V Le ClercF Boulineau
Jan 24, 2007·Genetics·John P Huelsenbeck, Peter Andolfatto
Mar 9, 2007·Bioinformatics·Wolfram StackliesJoachim Selbig
Dec 13, 2007·Genetics·Runchun JingAndrew J Flavell
Mar 1, 2008·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Louis JestinGilles Charmet
May 28, 2008·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Petr SmýkalMiroslav Griga
Sep 26, 2008·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Xuxiao ZongRebecca Ford
Oct 24, 2008·Journal of Dairy Science·P M VanRaden
Feb 17, 2010·Briefings in Functional Genomics·Jean-Luc JanninkHiroyoshi Iwata
Jan 14, 2011·Trends in Genetics : TIG·Martha T HamblinJean-Luc Jannink
Oct 4, 2011·Analytica Chimica Acta·Animesh AcharjeeChris Maliepaard
Apr 3, 2012·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·R JingT H N Ellis
Apr 13, 2012·BMC Genetics·Stéphane De Mita, Mathieu Siol
Jun 30, 2012·Genetics·Gustavo de Los CamposMario P L Calus
Jan 24, 2013·Proceedings of the National Academy of Sciences of the United States of America·Caroline RoullierVincent Lebot
Aug 3, 2013·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·M GouyL Costet
Jul 11, 2014·Genetics·Paulino Pérez, Gustavo de los Campos
Aug 15, 2014·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Anoop SindhuAndrew G Sharpe

❮ Previous
Next ❯

Citations

Feb 22, 2016·BMC Genomics·Aurore DesgrouxMarie-Laure Pilet-Nayel
Dec 8, 2015·Frontiers in Plant Science·Nadim TayehJudith Burstin
Nov 9, 2016·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Sebastian MichelHermann Buerstmayr
Jun 21, 2016·PloS One·Charles-Elie RabierBrigitte Mangin
Mar 2, 2019·G3 : Genes - Genomes - Genetics·Osval A Montesinos-LópezJosé Crossa
Jun 15, 2017·G3 : Genes - Genomes - Genetics·Mathieu SiolJudith Burstin
Sep 23, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·William R RollingLeah K McHale
Jul 21, 2017·The Plant Genome·Paolo AnnicchiaricoE Charles Brummer
Nov 16, 2017·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·M Ben HassenN Ahmadi
Apr 5, 2020·International Journal of Molecular Sciences·Paolo AnnicchiaricoLuciano Pecetti
May 26, 2017·Frontiers in Plant Science·Paolo AnnicchiaricoEdward C Brummer
Dec 7, 2016·Frontiers in Plant Science·Manish RoorkiwalRajeev K Varshney
Jan 9, 2019·Frontiers in Plant Science·Margaret A CarpenterGail M Timmerman-Vaughan
Nov 9, 2018·Genes·Oldřich TrněnýPetr Smýkal
Dec 19, 2019·Frontiers in Plant Science·Krishna Kishore GaliThomas D Warkentin
Feb 7, 2019·Scientific Reports·Deniz Akdemir, Julio Isidro-Sánchez
Aug 17, 2019·Frontiers in Plant Science·Md Shahin Uz ZamanWilliam Erskine
Jul 25, 2019·BMC Genomics·Paolo AnnicchiaricoLuigi Russi
Feb 22, 2021·Genomics·Gopalareddy KrishnappaGyanendra Pratap Singh

❮ Previous
Next ❯

Methods Mentioned

BETA
genotyping
PCR
electrophoresis
PCA

Software Mentioned

R package adegenet
pcaMethods
R
mixOmics
BGLR R - package
rrBLUP R - package
gplots R package
GeneMapper
GBLUP
DAPC

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.