Natural variation of an EF-hand Ca2+-binding-protein coding gene confers saline-alkaline tolerance in maize

Cao, Yibo; Zhang, Ming; Liang, Xiaoyan; Li, Fenrong; Shi, Yunlu; Yang, Xiaohong; Jiang, Caifu

doi:10.1038/s41467-019-14027-y

Cited by 99 publications

(87 citation statements)

References 59 publications

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“…Natural maize varieties confer a rich genetic diversity of salt tolerance, which is due mostly to the functional variation of genes mediating SIOS tolerance and Na + homeostasis (Saneoka et al ., 1995; Luo et al ., 2019; C. Zhang et al ., 2019; M. Zhang et al ., 2019; Sandhu et al ., 2020). Our previous studies showed that maize ZmNC1 ( Na + Content 1 ), ZmNC2 and ZmNSA1 ( Na + Content under Saline‐Alkaline Condition ) underlie the natural variation of the shoot Na + exclusion, a key process protecting shoot tissue from Na + toxicity (Zhang et al ., 2018; C. Zhang et al ., 2019; M. Zhang et al ., 2019; Cao et al ., 2020). In this study, we aimed to use metabolites as biomarkers to investigate the genetic basis underlying the natural variation of SIOS tolerance in maize (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…Meanwhile, future validation of the rest of the sulfotransferase ZmSOT candidates will facilitate the structural identification of these METOs as well as advance our understanding of the metabolomics and genetic basis underlying the natural variation of maize SIOS tolerance. In the long run, marker‐assisted breeding programs could introgress the SIOS‐tolerant alleles of ZmSOTs and previously identified genetic variants promoting Na + homeostasis into high‐yielding maize cultivars to develop commercial hybrids (Zhang et al ., 2018; C. Zhang et al ., 2019; M. Zhang et al ., 2019; Cao et al ., 2020).…”

Section: Discussionmentioning

confidence: 99%

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Metabolomics‐driven gene mining and genetic improvement of tolerance to salt‐induced osmotic stress in maize

et al. 2021

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Summary The farmland of the world’s main corn‐producing area is increasingly affected by salt stress. Therefore, the breeding of salt‐tolerant cultivars is necessary for the long‐term sustainability of global corn production. Previous studies have shown that natural maize varieties display a large diversity of salt tolerance, yet the genetic variants underlying such diversity remain poorly discovered and applied, especially those mediating the tolerance to salt‐induced osmotic stress (SIOS). Here we report a metabolomics‐driven understanding and genetic improvement of maize SIOS tolerance. Using a LC‐MS‐based untargeted metabolomics approach, we profiled the metabolomes of 266 maize inbred lines under control and salt conditions, and then identified 37 metabolite biomarkers of SIOS tolerance (METO1‐37). Follow‐up metabolic GWAS (mGWAS) and genotype‐to‐phenotype modeling identified 10 candidate genes significantly associating with the SIOS tolerance and METO abundances. Furthermore, we validated that a citrate synthase, a glucosyltransferase and a cytochrome P450 underlie the genotype–METO–SIOS tolerance associations, and showed that their favorable alleles additively improve the SIOS tolerance of elite maize inbred lines. Our study provides a novel insight into the natural variation of maize SIOS tolerance, which boosts the genetic improvement of maize salt tolerance, and demonstrates a metabolomics‐based approach for mining crop genes associated with this complex agronomic trait.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Metabolomics‐driven gene mining and genetic improvement of tolerance to salt‐induced osmotic stress in maize

et al. 2021

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“…S6, A and B). HKTs regulate long-distance Na 1 delivery, depending on root-toshoot Na 1 translocation and Na 1 exclusion from the reproductive organ (Cao et al, 2020). HvHKT1;5 negatively regulates salt tolerance in barley (Huang et al, 2020).…”

Section: Hvcam1 Regulates Na 1 Transport Via Preferential Transcriptimentioning

confidence: 99%

Calmodulin HvCaM1 Negatively Regulates Salt Tolerance via Modulation of HvHKT1s and HvCAMTA4

Shen

et al. 2020

Plant Physiol.

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Calcium (Ca 21) signaling modulates sodium (Na 1) transport in plants; however, the role of the Ca 21 sensor calmodulin (CaM) in salt tolerance is elusive. We previously identified a salt-responsive calmodulin (HvCaM1) in a proteome study of barley (Hordeum vulgare) roots. Here, we employed bioinformatic, physiological, molecular, and biochemical approaches to determine the role of HvCaM1 in barley salt tolerance. CaM1s are highly conserved in green plants and probably originated from ancestors of green algae of the Chlamydomonadales order. HvCaM1 was mainly expressed in roots and was significantly up-regulated in response to long-term salt stress. Localization analyses revealed that HvCaM1 is an intracellular signaling protein that localizes to the root stele and vascular systems of barley. After treatment with 200 mM NaCl for 4 weeks, HvCaM1 knockdown (RNA interference) lines showed significantly larger biomass but lower Na 1 concentration, xylem Na 1 loading, and Na 1 transportation rates in shoots compared with overexpression lines and wild-type plants. Thus, we propose that HvCaM1 is involved in regulating Na 1 transport, probably via certain class I high-affinity potassium transporter (HvHKT1;5 and HvHKT1;1)-mediated Na 1 translocation in roots. Moreover, we demonstrated that HvCaM1 interacted with a CaM-binding transcription activator (HvCAMTA4), which may be a critical factor in the regulation of HKT1s in barley. We conclude that HvCaM1 negatively regulates salt tolerance, probably via interaction with HvCAMTA4 to modulate the downregulation of HvHKT1;5 and/or the up-regulation of HvHKT1;1 to reduce shoot Na 1 accumulation under salt stress in barley.

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“…Allelic variations in untranslated region (UTR) also play a pivotal role in gene expression regulation. In maize, a naturally occurred 4‐bp deletion in the 3′UTR of ZmNSA1 ( Na + Content under Saline‐Alkaline Condition ) reduces the translation efficiency of ZmNSA1 and consequently promotes Na + homeostasis under saline‐alkaline condition (Cao et al ., 2020). UTRs are generally involved in post‐transcriptional regulation such as messenger RNA (mRNA) stability, mRNA transport, and translation efficiency (Srivastava et al ., 2018) and therefore have a larger role than transcript level control.…”

Section: Introductionmentioning

confidence: 99%

Polymorphisms in cis‐elements confer SAUR26 gene expression difference for thermo‐response natural variation in Arabidopsis

Wang

Yang

et al. 2020

New Phytologist

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Summary The SAUR26 subfamily genes play an important role in conferring variations of thermo‐responsiveness of growth architecture among natural accessions of Arabidopsis thaliana. The expression variations are critical for their activity variations, but how expression variations are generated is unknown. We identified genetic loci for gene expression variations through expression genome‐wide association study (eGWAS) and investigated their mechanisms through molecular analyses. We found that cis elements are the major determinants for expression variations of SAUR26, SAUR27, and SAUR28. Polymorphisms in the promoter region likely impact PIF4 regulation while those at the 3′UTR affect mRNA stability to generate variations in SAUR26 expression levels. These polymorphisms also differentially affect the mRNA stability of SAUR26 at two temperatures. This study reveals two mechanisms involving cis elements in generating gene expression diversity, which is likely important for local adaptations in Arabidopsis natural accessions.

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Natural variation of an EF-hand Ca2+-binding-protein coding gene confers saline-alkaline tolerance in maize

Cited by 99 publications

References 59 publications

Metabolomics‐driven gene mining and genetic improvement of tolerance to salt‐induced osmotic stress in maize

Metabolomics‐driven gene mining and genetic improvement of tolerance to salt‐induced osmotic stress in maize

Calmodulin HvCaM1 Negatively Regulates Salt Tolerance via Modulation of HvHKT1s and HvCAMTA4

Polymorphisms in cis‐elements confer SAUR26 gene expression difference for thermo‐response natural variation in Arabidopsis

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