Genetic Architecture of Natural Variation in Rice Nonphotochemical Quenching Capacity Revealed by Genome-Wide Association Study

Frontiers in Plant Science
Quanxiu WangGongwei Wang

Abstract

The photoprotective processes conferred by nonphotochemical quenching (NPQ) serve fundamental roles in maintaining plant fitness and sustainable yield. So far, few loci have been reported to be involved in natural variation of NPQ capacity in rice (Oryza sativa), and the extents of variation explored are very limited. Here we conducted a genome-wide association study (GWAS) for NPQ capacity using a diverse worldwide collection of 529 O. sativa accessions. A total of 33 significant association loci were identified. To check the validity of the GWAS signals, three F2 mapping populations with parents selected from the association panel were constructed and assayed. All QTLs detected in mapping populations could correspond to at least one GWAS signal, indicating the GWAS results were quite reliable. OsPsbS1 was repeatedly detected and explained more than 40% of the variation in the whole association population in two years, and demonstrated to be a common major QTL in all three mapping populations derived from inter-group crosses. We revealed 43 single nucleotide polymorphisms (SNPs) and 7 insertions and deletions (InDels) within a 6,997-bp DNA fragment of OsPsbS1, but found no non-synonymous SNPs or InDels in the coding region, in...Continue Reading

References

Apr 12, 2001·Plant Physiology·P MüllerK K Niyogi
Jul 6, 2002·Science·Carsten KülheimStefan Jansson
Nov 6, 2002·Proceedings of the National Academy of Sciences of the United States of America·Xiao-Ping LiKrishna K Niyogi
Mar 23, 2004·The Journal of Biological Chemistry·Xiao-Ping LiKrishna K Niyogi
Oct 18, 2005·Photosynthesis Research·K K NiyogiO Björkman
Apr 3, 2009·Plant Physiology·Hou-Sung Jung, Krishna K Niyogi
Jul 7, 2009·Annual Review of Plant Biology·Zhirong LiKrishna K Niyogi
Dec 17, 2009·The Plant Journal : for Cell and Molecular Biology·Lei WangQifa Zhang
Mar 3, 2010·Annual Review of Plant Biology·Xin-Guang ZhuDonald R Ort
Mar 20, 2010·Biochemical Society Transactions·Silvia de BianchiRoberto Bassi
Oct 26, 2010·Nature Genetics·Xuehui HuangBin Han
Nov 19, 2010·Plant Physiology·Erik H Murchie, Krishna K Niyogi
Aug 2, 2011·Proceedings of the National Academy of Sciences of the United States of America·Ichiro KasajimaHirofumi Uchimiya
Sep 6, 2011·Nature Methods·Christoph LippertDavid Heckerman
Sep 12, 2015·Proceedings of the National Academy of Sciences of the United States of America·Weibo XieQifa Zhang

❮ Previous
Next ❯

Citations

Jan 8, 2020·The Plant Journal : for Cell and Molecular Biology·Yu WangStephen P Long
Mar 25, 2020·International Journal of Molecular Sciences·Amara CisseBaohua Feng
Aug 17, 2019·Frontiers in Plant Science·Jun LiuRobert L Last
Dec 15, 2018·The Plant Journal : for Cell and Molecular Biology·Roel F H M van BezouwMark G M Aarts
Jul 16, 2021·Transgenic Research·Jerlie Mhay MatresInez H Slamet-Loedin

❮ Previous
Next ❯

Methods Mentioned

BETA
PCR
transgenic

Software Mentioned

- LMM
FaST
Sequencher
SeqMan
DnaSP

Related Concepts

Related Feeds

CRISPR Ribonucleases Deactivation

CRISPR-Cas system enables the editing of genes to create or correct mutations. This feed focuses on mechanisms that underlie deactivation of CRISPR ribonucleases. Here is the latest research.

CRISPR (general)

Clustered regularly interspaced short palindromic repeats (CRISPR) are DNA sequences in the genome that are recognized and cleaved by CRISPR-associated proteins (Cas). CRISPR-Cas system enables the editing of genes to create or correct mutations. Discover the latest research on CRISPR here.

CRISPR for Genome Editing

Genome editing technologies enable the editing of genes to create or correct mutations. Clustered regularly interspaced short palindromic repeats (CRISPR) are DNA sequences in the genome that are recognized and cleaved by CRISPR-associated proteins (Cas). Here is the latest research on the use of CRISPR-Cas system in gene editing.