QTL mapping and candidate gene analysis of ferrous iron and zinc toxicity tolerance at seedling stage in rice by genome-wide association study

BMC Genomics
Jian ZhangJian-Long Xu

Abstract

Ferrous iron (Fe) and zinc (Zn) at high concentration in the soil cause heavy metal toxicity and greatly affect rice yield and quality. To improve rice production, understanding the genetic and molecular resistance mechanisms to excess Fe and Zn in rice is essential. Genome-wide association study (GWAS) is an effective way to identify loci and favorable alleles governing Fe and Zn toxicty as well as dissect the genetic relationship between them in a genetically diverse population. A total of 29 and 31 putative QTL affecting shoot height (SH), root length (RL), shoot fresh weight (SFW), shoot dry weight (SDW), root dry weight (RDW), shoot water content (SWC) and shoot ion concentrations (SFe or SZn) were identified at seedling stage in Fe and Zn experiments, respectively. Five toxicity tolerance QTL (qSdw3a, qSdw3b, qSdw12 and qSFe5 / qSZn5) were detected in the same genomic regions under the two stress conditions and 22 candidate genes for 10 important QTL regions were also determined by haplotype analyses. Rice plants share partial genetic overlaps of Fe and Zn toxicity tolerance at seedling stage. Candidate genes putatively affecting Fe and Zn toxicity tolerance identified in this study provide valuable information for future...Continue Reading

References

Sep 21, 2000·Plant Science : an International Journal of Experimental Plant Biology·W Fang, C H Kao
Jul 4, 2002·Journal of Experimental Botany·Naimatullah BughioSatoshi Mori
May 18, 2004·The Plant Journal : for Cell and Molecular Biology·Andrea ChiniGary J Loake
Jul 3, 2004·Current Opinion in Plant Biology·Youssef BelkhadirJeffery L Dangl
Oct 19, 2004·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·H R LafitteB Courtois
Aug 16, 2005·Nature·UNKNOWN International Rice Genome Sequencing Project
Oct 4, 2005·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·J L XuZ K Li
Feb 13, 2007·Current Opinion in Plant Biology·James B Holland
Feb 3, 2009·Plant, Cell & Environment·Sichul Lee, Gynheung An
Dec 25, 2010·The New Phytologist·Pär K Ingvarsson, Nathaniel R Street
Nov 30, 2011·Plant & Cell Physiology·Namiko Satoh-NagasawaHiromori Akagi
Jul 17, 2012·Bioinformatics·Alexander E LipkaZhiwu Zhang
Jul 15, 2015·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Elsa MatthusMichael Frei
Feb 5, 2016·Nature Communications·Susan R McCouchJason Mezey
Oct 1, 2011·Functional Plant Biology : FPB·Abraham Blum

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Citations

Jan 11, 2019·Genes·Gwen Iris Descalsota-EmpleoB P Mallikarjuna Swamy
Jan 31, 2019·Plants·Anumalla MahenderJauhar Ali
Apr 24, 2018·Frontiers in Plant Science·Shalini Tiwari, Charu Lata
Jun 28, 2019·Frontiers in Plant Science·Ricardo José SteinJanette Palma Fett

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Methods Mentioned

BETA
PCA
atomic absorption spectrometry
genotyping
ubiquitination

Software Mentioned

R
Genome Association and Prediction Integrated Tool ( GAPIT )
SAS8

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