Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.)

Shi, Qi; Zhang, Yueya; To, Vinh-Trieu; Jin, Shi; Zhang, Dabing; Cai, Wenguo

doi:10.1038/s41598-020-66860-7

Cited by 26 publications

(19 citation statements)

References 102 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Most of the HvmTERFs were located at the distal ends of the chromosome, but they were absent from the short arm of chromosome 3 and the long arm of chromosome 5. Similar findings were reported in other barley gene families, such as the non-specific lipid transfer protein (LTP) gene family and auxin/indole-3-acetic acid (Aux/IAA) gene family (Zhang et al, 2019;Shi et al, 2020). A possible cause might be that the distal and proximal ends of chromosomes are more gene-rich than the middle regions of chromosomes in barley (Mayer et al, 2012).…”

Section: Characterization Of the Mterf Gene Family In Barleysupporting

confidence: 80%

See 1 more Smart Citation

Identification, Characterization, and Expression Profile Analysis of the mTERF Gene Family and Its Role in the Response to Abiotic Stress in Barley (Hordeum vulgare L.)

Pan

Yuan

et al. 2021

Front. Plant Sci.

View full text Add to dashboard Cite

Plant mitochondrial transcription termination factor (mTERF) family regulates organellar gene expression (OGE) and is functionally characterized in diverse species. However, limited data are available about its functions in the agriculturally important cereal barley (Hordeum vulgare L.). In this study, we identified 60 mTERFs in the barley genome (HvmTERFs) through a comprehensive search against the most updated barley reference genome, Morex V2. Then, phylogenetic analysis categorized these genes into nine subfamilies, with approximately half of the HvmTERFs belonging to subfamily IX. Members within the same subfamily generally possessed conserved motif composition and exon-intron structure. Both segmental and tandem duplication contributed to the expansion of HvmTERFs, and the duplicated gene pairs were subjected to strong purifying selection. Expression analysis suggested that many HvmTERFs may play important roles in barley development (e.g., seedlings, leaves, and developing inflorescences) and abiotic stresses (e.g., cold, salt, and metal ion), and HvmTERF21 and HvmTERF23 were significant induced by various abiotic stresses and/or phytohormone treatment. Finally, the nucleotide diversity was decreased by only 4.5% for HvmTERFs during the process of barley domestication. Collectively, this is the first report to characterize HvmTERFs, which will not only provide important insights into further evolutionary studies but also contribute to a better understanding of the potential functions of HvmTERFs and ultimately will be useful in future gene functional studies.

show abstract

Section: Characterization Of the Mterf Gene Family In Barleysupporting

confidence: 80%

“…Gene duplication contributes to the expansion and evolution of gene families (Shi et al, 2020). To reveal the expansion mechanism of HvmTERFs, segmental and tandem duplication events were investigated.…”

Section: Characterization Of the Mterf Gene Family In Barleymentioning

confidence: 99%

Identification, Characterization, and Expression Profile Analysis of the mTERF Gene Family and Its Role in the Response to Abiotic Stress in Barley (Hordeum vulgare L.)

Pan

Yuan

et al. 2021

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…In contrast, auxin-inducible gene HvIAA36 ( 18 ) showed a significant induction, both in Morex ( P value 0.0091) and TM194 mutant ( P value 0.0083) after 10 nM NAA treatment, suggesting that HvEGT1 expression is auxin-independent. Additionally, the transcription factor binding site prediction tool PlantRegMap ( 19 ) did not identify any auxin response elements (AuxRE), which are required for auxin-dependent expression regulation within the 2.5-kb promoter of HvEGT1 ( Dataset S2 ).…”

Section: Resultsmentioning

confidence: 86%

Root angle is controlled byEGT1in cereal crops employing an antigravitropic mechanism

Fusi

Rosignoli

Lou

et al. 2022

Proc. Natl. Acad. Sci. U.S.A.

View full text Add to dashboard Cite

Root angle in crops represents a key trait for efficient capture of soil resources. Root angle is determined by competing gravitropic versus antigravitropic offset (AGO) mechanisms. Here we report a root angle regulatory gene termed ENHANCED GRAVITROPISM1 ( EGT1 ) that encodes a putative AGO component, whose loss-of-function enhances root gravitropism. Mutations in barley and wheat EGT1 genes confer a striking root phenotype, where every root class adopts a steeper growth angle. EGT1 encodes an F-box and Tubby domain-containing protein that is highly conserved across plant species. Haplotype analysis found that natural allelic variation at the barley EGT1 locus impacts root angle. Gravitropic assays indicated that Hvegt1 roots bend more rapidly than wild-type. Transcript profiling revealed Hvegt1 roots deregulate reactive oxygen species (ROS) homeostasis and cell wall-loosening enzymes and cofactors. ROS imaging shows that Hvegt1 root basal meristem and elongation zone tissues have reduced levels. Atomic force microscopy measurements detected elongating Hvegt1 root cortical cell walls are significantly less stiff than wild-type. In situ analysis identified HvEGT1 is expressed in elongating cortical and stele tissues, which are distinct from known root gravitropic perception and response tissues in the columella and epidermis, respectively. We propose that EGT1 controls root angle by regulating cell wall stiffness in elongating root cortical tissue, counteracting the gravitropic machinery’s known ability to bend the root via its outermost tissues. We conclude that root angle is controlled by EGT1 in cereal crops employing an antigravitropic mechanism.

show abstract

“…The discovery of the nature of endogenous auxin receptors facilitated the determination of the mechanism of action for herbicides from the class of synthetic auxins (Kepinski S and Leyser O, 2005;Badescu GO and Napier RM, 2006;Guilfoyle T, 2007;Tan X et al, 2007;Сhapman EJ and Estelle M, 2009;Mithila J et al, 2011;Sauer M et al, 2013) and the presence of a stress component in the changes of expression for auxin-dependent genes was clearly defi ned (Shi Q et al, 2020). Nevertheless, the issues of the role of ROS in the development of phytotoxic effect of auxin-like herbicides (ALH) (Pazmiño DM et al, 2012;McCarthy-Suárez I., 2017) and the herbicides from other classes, including glyphosate, the inhibitor of enolpyruvylshikimate phosphate synthase (EPSPS) (Cobb AH and Reade PHR, 2010), are yet to be investigated.…”

Section: The Process Of Herbicide-induced Pathogenesis and Possible I...mentioning

confidence: 99%

Stress and use of herbicides in field crops

et al. 2021

View full text Add to dashboard Cite

When herbicides are combined under natural conditions or applied in stress conditions (drought, for instance), the efficiency of their action may decrease which results in considerable yield losses. The reason thereto is that another herbicide or stressor can trigger the adaptation mechanism in weed plants, and they survive, resulting in weed infestation. In particular, it applies to such herbicides as acetyl-CoA-carboxylase inhibitors or so- called graminicides, which are effective only for grass weeds control. The efficiency of this groups of herbi- cides is heavily dependent on the environment and often decreases when combined with herbicides, efficient against dicotyledon weeds. It turns out that this occurs due to the fact their final phytotoxicity is not determined at the level of the site of action (herbicide target) but depends on the stage of herbicide-induced pathogenesis – processes, occurring due to the interaction between the herbicide and its site of action. The stress response of the weeds may make its contribution into herbicide-induced pathogenesis. Plants are known to respond to the action of various abiotic stressors in the form of non-specific stress response and depending on the intensity and duration of the stressor’s action, a plant either adapts or dies. At present there are sufficient data, demonstrating that programmed cell death (PCD) is involved in the herbicide-induced pathogenesis. Reactive oxygen species (ROS) induce PCD in specific classes of herbicides. The participation of ROS and PCD in herbicide-induced pathogenesis allows for targeted effects on the phytotoxic action of herbicides, for instance, via combined application of herbicides with possible PCD inducers and prooxidants. The confirmation of the role of non- specific response in the development of phytotoxic action of herbicides is found in the phenomena of cross- adaptation (activation of antioxidant defense) and cross-synergism (activation of oxidative stress) under the application of herbicides. Based on our own research and literature data, the importance of cross-adaptation and cross-synergism in applying herbicides in drought conditions and to determine the nature of the interac- tion in herbicide complexes is discussed. In particular, the review discusses the reduction of phytotoxicity of the ACCase herbicides due to the phenomenon of cross-adaptation in drought conditions and in combination with herbicides, which are acetolactate synthase inhibitors. The results of investigations were presented about the reduction of antagonism in the mixtures of herbicides, which are ACCase and ALS inhibitors, because of the use of substances with prooxidant properties, as well as the inhibitor of the antioxidant enzyme superoxide dismutase. On the other hand, we analyzed the possibility of increasing the phytotoxic effect of herbicides, ACCase inhibitors, in combination with herbicides with prooxidant properties – inhibitors of electron transport in Photosystem 2 (FS 2) chloroplasts and protoporphyrinogen oxidase (PROTOX) inhibitors. It became the foundation for the elaboration of efficient herbicide compositions for wheat and onion fields. While combining herbicides, the issue of synergism is becoming relevant due to the problem of the spread of target-site resis- tance, since, to prevent this type of resistance, it is necessary to combine herbicides with different mechanisms of phytotoxicity. The presented data demonstrate that the increased activity of antioxidant defense systems, which is the result of a long process of evolutionary adaptation of weeds to the action of abiotic stressors, is an element of non-target-site-based resistance to herbicides. Possible ways to prevent the negative impact of non-specific stress response on the efficiency of herbicides, as well as the prospects of the chemical method of weeds control are discussed.

show abstract

Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.)

Cited by 26 publications

References 102 publications

Identification, Characterization, and Expression Profile Analysis of the mTERF Gene Family and Its Role in the Response to Abiotic Stress in Barley (Hordeum vulgare L.)

Identification, Characterization, and Expression Profile Analysis of the mTERF Gene Family and Its Role in the Response to Abiotic Stress in Barley (Hordeum vulgare L.)

Root angle is controlled byEGT1in cereal crops employing an antigravitropic mechanism

Stress and use of herbicides in field crops

Contact Info

Product

Resources

About