Developing gene-tagged molecular marker for functional analysis of <i>OsZIP10</i> metal transporter gene in rice

Maurya, Shrinkhla; Vishwakarma, Ajeet Kumar; Dubey, Monika; Shrivastava, Pankaj; Shrivastava, Rajeev; Chandel, Girish

doi:10.5958/0975-6906.2018.00023.8

Cited by 5 publications

(5 citation statements)

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“…OsZIP8 gene is involved in Zn uptake and transport in rice (Lee et al, 2010). And the expression of OsZIP10 gene correlated with high iron (Lee et al, 2009) and Zn (Maurya et al, 2018) concentrations in rice seeds. Apart from ZIP genes, OsHMA2 and OsHMA3 have also been experimentally validated.…”

Section: Discussionmentioning

confidence: 96%

Identification of potential Zinc deficiency responsive genes and regulatory pathways in rice genotypes by Weighted Gene Co-expression Network Analysis

Muvunyi

et al. 2021

Preprint

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BackgroundZinc (Zn) malnutrition has been linked to serious health concerns in humans. Targeting genetic biofortification of rice grain Zn can efficiently improve the global Zn nutritional status. To genetically enhance rice grain Zn content, the genetic and molecular mechanisms of Zn deficiency response need to be elucidated. Here, Differential Gene Expression Analysis (DGEA) and Weighted Gene Coexpression Analysis (WGCNA) were established to identify modules of coexpressed genes, the most preserved genes and molecular pathways regulating Zn deficiency response in rice varieties. ResultsTwelve modules of coexpressed genes were obtained by WGCNA using 1649 differentially expressed genes (DEGs) from our DGEA and 2121 Zn genes from earlier studies. Three modules (TTA-M, TRA-M and CA-M) were judged the most relevant for Zn deficiency based on their richness in the well-recognized Zn deficiency responsive (ZDR) genes and molecular pathways. 96 (17%), 188 (47.6%) and 96 (24%) genes from TTA-M, TRA-M and CA-M modules respectively, were significantly expressed in the DGEA. These coexpressed DEGs (CoDEGs) were considered as the most preserved Zn deficiency responsive genes. Of the well-known ZDR genes, only OsZIP8, OsZIP10, OsMT1a and OsNAAT1 were preserved. Functional annotations for all CoDEGs from the identified ZDR modules showed that glutathione metabolism and biosynthesis of secondary metabolites were the most quickly upregulated molecular pathways. Lastly, a biology-informed gene-gene interaction network analysis (GGIN) indicated that CoDEGs including OsLSI3, OsWOX11, OsNRT1.1B, OsPSK5, OsSWN6 and OsMID1 strongly interact with the recognized ZDR genes in the ZDR modules. Curiously, these CoDEGs were previously validated for other economic traits in rice. ConclusionFindings from this study provide comprehensive insights into the molecular mechanisms of Zn deficiency response in rice and may facilitate gene and pathway prioritization, to enhance Zn use efficiency (ZUE) and Zn biofortification in rice.

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Section: Discussionmentioning

confidence: 96%

Identification of potential Zinc deficiency responsive genes and regulatory pathways in rice genotypes by Weighted Gene Co-expression Network Analysis

Muvunyi

et al. 2021

Preprint

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“…In clade I, six TdZIPs were closely related to OsZIP10 , AtZIP4 , AtZIP9 , ZmZIP5 , and ZmZIP7 . The OsZIP10 was found to be associated with grain Zn content in rice [ 20 ]. A previous study had shown that AtZIP9 complemented a yeast Mn uptake-deficient mutant, while it did not complement the Zn uptake-deficient mutant [ 29 ].…”

Section: Discussionmentioning

confidence: 99%

“…A total of 14 TdZIPs in clade III were clustered together with OsZIP3 , OsZIP4 , OsZIP5 , OsZIP8 , OsZIP9 , ZmZIP3 , ZmZIP4 , ZmZIP8 , AtZIP1 , AtZIP3 , AtZIP5 , AtZIP7 , and AtZIP12 . The OsZIP3 , OsZIP4 , OsZIP5 , OsZIP8 , AtZIP1 , AtZIP3 , AtZIP7 , and AtZIP12 had been verified to have ability to transport Zn in plants [ 11 , 12 , 20 , 29 , 32 , 33 ], while the ZmZIPs could complement the transport of Zn and Fe in yeast mutants [ 34 ]. Taken together, these data indicate that the TdZIPs closely related to OsZIP , ZmZIP , and AtZIP genes are likely to have the ability to absorb and transport Zn and Mn and respond to Zn deficiency.…”

Section: Discussionmentioning

confidence: 99%

“…In barley, six HvZIP genes were highly induced by Zn deficiency, which is associated with enhanced uptake and root-to-shoot translocation of Zn under low Zn conditions [ 8 ]. The OsZIP1 , OsZIP3 , OsZIP4 , OsZIP5 , and OsZIP8 were shown to transport of Zn and three of them ( OsZIP4 , OsZIP5 , and OsZIP8 ) were involved in response to Zn-deficiency in rice [ 12 , 16 , 19 , 20 ]. Evens et al (2017) identified 14 ZIPs in hexaploid wheat and verified five members ( TaZIP3 , TaZIP6 , TaZIP7 , TaZIP9 , and TaZIP13 ) as functional Zn transporters [ 21 ].…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Investigation and Functional Verification of the ZIP Family Transporters in Wild Emmer Wheat

Gong

Qi²,

Hu³

et al. 2022

IJMS

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The zinc/iron-regulated transporter-like protein (ZIP) family has a crucial role in Zn homeostasis of plants. Although the ZIP genes have been systematically studied in many plant species, the significance of this family in wild emmer wheat (Triticum turgidum ssp. dicoccoides) is not yet well understood. In this study, a genome-wide investigation of ZIPs genes based on the wild emmer reference genome was conducted, and 33 TdZIP genes were identified. Protein structure analysis revealed that TdZIP proteins had 1 to 13 transmembrane (TM) domains and most of them were predicted to be located on the plasma membrane. These TdZIPs can be classified into three clades in a phylogenetic tree. They were annotated as being involved in inorganic ion transport and metabolism. Cis-acting analysis showed that several elements were involved in hormone, stresses, grain-filling, and plant development. Expression pattern analysis indicated that TdZIP genes were highly expressed in different tissues. TdZIP genes showed different expression patterns in response to Zn deficiency and that 11 genes were significantly induced in either roots or both roots and shoots of Zn-deficient plants. Yeast complementation analysis showed that TdZIP1A-3, TdZIP6B-1, TdZIP6B-2, TdZIP7A-3, and TdZIP7B-2 have the capacity to transport Zn. Overexpression of TdZIP6B-1 in rice showed increased Zn concentration in roots compared with wild-type plants. The expression levels of TdZIP6B-1 in transgenic rice were upregulated in normal Zn concentration compared to that of no Zn. This work provides a comprehensive understanding of the ZIP gene family in wild emmer wheat and paves the way for future functional analysis and genetic improvement of Zn deficiency tolerance in wheat.

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“…The suppression of OsHMA2 increases Zn concentration in roots but reduces Zn and Cd concentrations in grain [ 23 ]. OsZIP10 is a functional Zn transporter in yeast [ 20 ] and is associated with rice grain Zn content [ 24 ]. The loss-of-function of OsZIP10 decreases grain Zn and Fe concentration in rice [ 25 ].…”

Section: Introductionmentioning

confidence: 99%

OsNAC15 Regulates Tolerance to Zinc Deficiency and Cadmium by Binding to OsZIP7 and OsZIP10 in Rice

Zhan

Zou

et al. 2022

IJMS

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Zinc (Zn) deficiency and cadmium (Cd) stress are severe threats to the growth and development of plants. Increasing Zn content and/or decreasing Cd content in grain are also important objectives of rice breeding. However, the molecular mechanisms of Zn deficiency tolerance (ZDT) and Cd stress tolerance (CDT) are largely unknown in rice. Here, we report that a NAM/CUC2-like transcription factor, OsNAC15, contributes to ZDT and CDT in rice. Knockout of OsNAC15 reduced ZDT and CDT at the vegetative stage. OsNAC15 expresses in all tissues of different developmental stages, and is repressed by Zn deficiency and induced by Cd stress. OsNAC15 is a functional transcription factor with transactivation and DNA binding activities. Expression analysis of rice ZIP family genes suggested that the knockout of OsNAC15 activates or inhibits their transcriptions under Zn deficiency or Cd stress conditions. The yeast one-hybrid assay, transient transcriptional activity assay using the dual-luciferase reporter system and electrophoretic mobility shift assay demonstrated that OsNAC15 directly binds to the zinc deficiency-responsive element motifs in the promoters of OsZIP7 and OsZIP10 to repress their transcriptions. The OsNAC15–OsZIP7/10 module is an essential foundation for further study on the regulatory mechanisms of ZDT and CDT in rice.

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Developing gene-tagged molecular marker for functional analysis of OsZIP10 metal transporter gene in rice

Cited by 5 publications

References 0 publications

Identification of potential Zinc deficiency responsive genes and regulatory pathways in rice genotypes by Weighted Gene Co-expression Network Analysis

Identification of potential Zinc deficiency responsive genes and regulatory pathways in rice genotypes by Weighted Gene Co-expression Network Analysis

Genome-Wide Investigation and Functional Verification of the ZIP Family Transporters in Wild Emmer Wheat

OsNAC15 Regulates Tolerance to Zinc Deficiency and Cadmium by Binding to OsZIP7 and OsZIP10 in Rice

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