QTL-By-Environment Interaction in the Response of Maize Root and Shoot Traits to Different Water Regimes

Li, Pengcheng; Zhang, Yingying; Su, Yin; Zhu, Pengfei; Pan, Ting; Xu, Yongsheng; Wang, Jieyu; Hao, Dejun; Fang, Huiying; Xu, Chenwu; Yang, Zefeng

doi:10.3389/fpls.2018.00229

Cited by 45 publications

(36 citation statements)

References 42 publications

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“…Construction of an appropriate mapping population is a prerequisite for QTL analysis. In this study, a maize RIL population derived from two Chinese maize elite inbred lines, DH4866 and T877 with high recombination frequency [19] was employed to identify the genetic loci conferring resistance to GER.…”

Section: Discussionmentioning

confidence: 99%

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Identification of a major quantitative trait locus, qGER4.2, conferring resistance to Gibberella ear rot in maize using a Chinese recombination inbred line population

Zhou

et al. 2020

Preprint

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Background: Gibberella ear rot (GER), a prevalent disease caused by Fusarium graminearum, can result in yield loss and mycotoxin contamination in maize. Despite that several QTLs related to GER resistance have been reported previously, few of them was identified in Chinese maize inbred lines. In this study, we employed a Chinese recombination inbred line (RIL) population comprising of 204 lines, developed from a cross involving a resistant parent DH4866 and a susceptible line T877. The population was phenotypically evaluated at three field trial locations under artificial inoculation with F. graminearum and genotyped with an Affymetrix microarray CGMB56K SNP Array to detect the quantitative trait loci (QTLs) for resistance to GER. Results: Based on the genetic linkage map constructed using 1,868 bins as markers, a total of 15 QTLs were identified, and both DH4866 and T877 alleles at these QTLs contributed toward resistance. Of these QTLs, five were stably expressed across multiple locations, including three co-localized with previously reported genomic regions. The largest-effect QTL located on chromosome 4, qGER4.2, which accounted for 5.66~17.10% of the phenotypic variation, was detected at all locations. Based on the phenotypic values of the alleles corresponding to the five stable QTLs, a significant correlation (r2 = 0.45) between resistance to GER and the number of resistant alleles was observed. Conclusions: QTL mapping was successfully employed to identify genetic loci conferring resistance to GER by a high-density genetic map constructed from two Chinese maize germplasms. The five stable QTLs identified, especially the large-effect QTL, qGER4.2, will be useful in maize breeding programs aimed at improving GER resistance.

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Section: Discussionmentioning

confidence: 99%

“…The genetic linkage map contained 1,868 bin markers and spanned a total length of 3,081.8 cM, with a mean interval length of 1.65 cM. Detailed information on construction of the bin map has been reported previously [19].…”

Section: Plant Materials and Genotypingmentioning

confidence: 99%

Identification of a major quantitative trait locus, qGER4.2, conferring resistance to Gibberella ear rot in maize using a Chinese recombination inbred line population

Zhou

et al. 2020

Preprint

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“…CR number significantly varied among maize genotypes in a quantitative manner ( Burton et al, 2014 ) and it has been suggested that low CR numbers improve resource acquisition under drought ( Gao and Lynch, 2016 ). On the other hand, a recent study found non-significant genotype × environment (G × E) interaction between CR number and different water regimes in a recombinant inbred line (RIL) population of maize ( Li et al, 2018 ). Several QTLs associated with CR angle and CR length were identified instead as having antagonistic pleiotropic effects in response to water deficiency, a result that might be linked to the partially overlapping function of RCTS and RCTL ( Li et al, 2018 ).…”

Section: Role Of Shoot-borne Root Architecture In Nutrient Capture Anmentioning

confidence: 97%

“…On the other hand, a recent study found non-significant genotype × environment (G × E) interaction between CR number and different water regimes in a recombinant inbred line (RIL) population of maize ( Li et al, 2018 ). Several QTLs associated with CR angle and CR length were identified instead as having antagonistic pleiotropic effects in response to water deficiency, a result that might be linked to the partially overlapping function of RCTS and RCTL ( Li et al, 2018 ). Conversely, maize genotypes with large CR number have shallower rooting depth and improved phosphate acquisition from low-phosphate soils ( Sun et al, 2018 ).…”

Section: Role Of Shoot-borne Root Architecture In Nutrient Capture Anmentioning

confidence: 97%

Understanding of Adventitious Root Formation: What Can We Learn From Comparative Genetics?

Mhimdi

Pérez-Pérez

2020

Front. Plant Sci.

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Adventitious root (AR) formation is a complex developmental process controlled by a plethora of endogenous and environmental factors. Based on fossil evidence and genomic phylogeny, AR formation might be considered the default state of plant roots, which likely evolved independently several times. The application of next-generation sequencing techniques and bioinformatics analyses to non-model plants provide novel approaches to identify genes putatively involved in AR formation in multiple species. Recent results uncovered that the regulation of shoot-borne AR formation in monocots is an adaptive response to nutrient and water deficiency that enhances topsoil foraging and improves plant performance. A hierarchy of transcription factors required for AR initiation has been identified from genetic studies, and recent results highlighted the key involvement of additional regulation through microRNAs. Here, we discuss our current understanding of AR formation in response to specific environmental stresses, such as nutrient deficiency, drought or waterlogging, aimed at providing evidence for the integration of the hormone crosstalk required for the activation of root competent cells within adult tissues from which the ARs develop.

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“…Quantitative trait locus (QTL) analysis provides an effective means of dissecting the genetic basis of complex trait in plants and animals (Zeng 1994;Alonso-Blanco et al 2009). Marker-assisted selection (MAS) based on QTLs can greatly facilitate crop improvement (Prasanna et al 2010;Li et al 2018).…”

Section: Introductionmentioning

confidence: 99%

Identification of quantitative trait loci and the exploration of candidate genes for the tolerance to Zn deficiency in maize

Jian-qin¹,

Zhu²,

Fu³

et al. 2019

Preprint

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Background Zn is essential for plants and Zn deficiency leads to great reduction in quality and quantity of crops. Maize, as one of the most important main staple crops worldwide, is more susceptible to Zn deficiency than any other cereal crops. Therefore, understanding the functional mechanisms in tolerance to Zn deficiency in maize is urgent but is still lacking. In this study, quantitative trait loci (QTL) analysis in K22 and By815 RIL population with high-density bin map was conducted to investigate genetic basis of the mechanisms in maize to tolerate Zn deficiency, subsequently some candidate genes were identified and considered as being associated with Zn metabolisms in plants. Results 21 QTLs were detected and accounted for 5.9% - 16.6% of phenotypic variations. Based on the co-localization in this study and the comparisons with previous studies in different RIL and GWAS populations, 223 candidate genes were identified inside the reduced QTL peak intervals on chromosome 1, 2, 6, 7 and 9. Furthermore, 9 genes detected within the peak bins of valuable genomic regions are suggested to be associated with ions transportation and some redox processes affected by Zn deficiency. Additionally, 5 genes, including ZmIRT1, ZmNRAMP6, ZmEIN2 and ZmHMAs, whose homologous gene have been studied and considered to be responsible for metal cations transportation and ethylene-signaling pathway requiring a transition metal were discovered in 5 loci we mapped. Conclusions 14 target genes identified in 9 loci we mapped in this work were explored to elucidate the potential functions in Zn homeostasis and the direct or indirect effects on mechanisms in Zn deficiency tolerance in maize. It is the first time that ZmIRT1, ZmNRAMP6, ZmHMAs were identified using linkage analysis under Zn deficiency in maize, providing genetic evidence and foundation for further gene functional characterization. Our findings have assisted us untangling the genetic basis of possible mechanisms in response to Zn deficiency in maize.

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QTL-By-Environment Interaction in the Response of Maize Root and Shoot Traits to Different Water Regimes

Cited by 45 publications

References 42 publications

Identification of a major quantitative trait locus, qGER4.2, conferring resistance to Gibberella ear rot in maize using a Chinese recombination inbred line population

Identification of a major quantitative trait locus, qGER4.2, conferring resistance to Gibberella ear rot in maize using a Chinese recombination inbred line population

Understanding of Adventitious Root Formation: What Can We Learn From Comparative Genetics?

Identification of quantitative trait loci and the exploration of candidate genes for the tolerance to Zn deficiency in maize

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