The Lotus japonicus NPF3.1 Is a Nodule-Induced Gene That Plays a Positive Role in Nodule Functioning

Vittozzi, Ylenia; Nadzieja, Marcin; Rogato, Alessandra; Radutoiu, Simona; Valkov, Vladimir Totev; Chiurazzi, Maurizio

doi:10.3389/fpls.2021.688187

Cited by 7 publications

(11 citation statements)

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“…CoNPF3.1 (40839_c0_g1) is annotated into the nitrate transporter1/peptide transporter (NPF) family, and it has been described as transmembrane transporter, gibberellic acid homeostasis, and nitrate assimilation in Arabidopsis thaliana [ 21 ] . It may improve the development of buds and the growth of roots [ 22 ].…”

Section: Resultsmentioning

confidence: 99%

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

et al. 2022

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Background Camellia oleifera (C.oleifera) is one of the most important wood oil species in the world. C.oleifera was propagated by nurse seedling grafting. Since the morphology of rootstocks has a significant impact on grafting efficiency and seedling quality, it is necessary to understand the molecular mechanism of morphogenesis for cultivating high-quality and controllable rootstocks. However, the genomic resource for this species is relatively limited, which hinders us from fully understanding the molecular mechanisms of seed germination in C.oleifera. Results In this paper, using transcriptome sequencing, we measured the gene expression in the C.oleifera cotyledon in different stages of development and the global gene expression profiles. Approximately 45.4 gigabases (GB) of paired-end clean reads were assembled into 113,582 unigenes with an average length of 396 bp. Six public protein databases annotate 61.5% (68,217) of unigenes. We identified 11,391 differentially expressed genes (DEGs) throughout different stages of germination. Enrichment analysis revealed that DEGs were mainly involved in hormone signal transduction and starch sucrose metabolism pathways. The gravitropism regulator UNE10, the meristem regulators STM, KNAT1, PLT2, and root-specific transcription factor WOX11 all have higher gene expression levels in the CAM2 stage (seed soaking), which indicates that the cotyledon-regulated program for germination had initiated when the seeds were imbibition. Our data showed differentially reprogrammed to multiple hormone-related genes in cotyledons during C.oleifera seed germination. Conclusion Cotyledons play vital roles, both as the main nutrient provider and as one primary instructor for seed germination and seedling growth. Together, our study will significantly enrich the genomic resources of Camellia and help us understand the molecular mechanisms of the development in the seed germination and seedling growth of C.oleifera. It is helpful to culture standard and superior quality rootstock for C.oleifera breeding.

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Section: Resultsmentioning

confidence: 99%

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

et al. 2022

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“…In L. japonicus , an in silico analysis showed that the expression of eight LjNPF genes was upregulated in mature N 2 -fixing nodules [ 36 ]. Two of these eight NPFs, LjNPF8.6 and LjNPF3.1, were studied in depth [ 38 , 39 ]. LjNPF8.6 , whose expression is strongly induced in nodules compared to roots, is the first NPF for which a specific and positive role on nodule functioning has been shown [ 38 ].…”

Section: Npfs Playing a Role In Nodule Functioningmentioning

confidence: 99%

“…In addition, after inoculation of Ljnpf8.6 mutants by Mesorhizobium loti , an increase in nodular superoxide content in the nodules accompanied by a reduction in N-fixation activity was observed with an accumulation of anthocyanin in stems and roots [ 38 ]. Anthocyanin accumulation in stems has been reported as a phenotype associated with nitrogen starvation condition associated with impaired nodule function or lack of nodulation ([ 39 ] and references therein). These observations suggest that LjNPF8.6 plays a role in the control of nodule functioning rather than in development.…”

Section: Npfs Playing a Role In Nodule Functioningmentioning

confidence: 99%

“…Another interesting transporter in L. japonicus is LjNPF3.1 [ 36 ]. The LjNPF3 promoter was shown to be active in the cortical cells of inoculated hairy roots and at the base of the nodules [ 39 ]. Actually, its expression was more than 10-fold higher in nodules than in roots, while it was also expressed in leaves and mature flowers.…”

Section: Npfs Playing a Role In Nodule Functioningmentioning

confidence: 99%

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NPF and NRT2 from Pisum sativum Potentially Involved in Nodule Functioning: Lessons from Medicago truncatula and Lotus japonicus

Morère-Le Paven,

Clochard,

Limami

2024

Plants

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In addition to absorbing nitrogen from the soil, legumes have the ability to use atmospheric N2 through symbiotic nitrogen fixation. Therefore, legumes have developed mechanisms regulating nodulation in response to the amount of nitrate in the soil; in the presence of high nitrate concentrations, nodulation is inhibited, while low nitrate concentrations stimulate nodulation and nitrogen fixation. This allows the legumes to switch from soil nitrogen acquisition to symbiotic nitrogen fixation. Recently, particular interest has been given to the nitrate transporters, such as Nitrate Transporter1/Peptide transporter Family (NPF) and Nitrate Transporter 2 (NRT2), having a role in the functioning of nodules. Nitrate transporters of the two model plants, Lotus japonicus and Medicago truncatula, shown to have a positive and/or a negative role in nodule functioning depending on nitrate concentration, are presented in this article. In particular, the following transporters were thoroughly studied: (i) members of NPF transporters family, such as LjNPF8.6 and LjNPF3.1 in L. japonicus and MtNPF1.7 and MtNPF7.6 in M. truncatula, and (ii) members of NRT2 transporters family, such as LjNRT2.4 and LjNRT2.1 in L. japonicus and MtNRT2.1 in M. truncatula. Also, by exploiting available genomic and transcriptomic data in the literature, we have identified the complete PsNPF family in Pisum sativum (69 sequences previously described and 21 new that we have annotated) and putative nitrate transporters candidate for playing a role in nodule functioning in P. sativum.

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“…CoNPF3.1 (40839_c0_g1) was annotated to nitrate transporter1/peptide transporter (NPF) family, and it has been described as transmembrane transporter, gibberellic acid homeostasis and nitrate assimilation in Arabidopsis thaliana [21].. It may be improve development of bud and growth of root [22].…”

Section: Coexpression Network Analysis With Wgcnamentioning

confidence: 99%

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

Wei

Yao

Wang

et al. 2022

Preprint

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Background: Camellia oleifera (C. oleifera) is one of the most important wood oil species in the world. It was propagated by nurse seedling graft in C.oleifera. Since morphology of rootstock has a significant impact on grafting efficiency and seedling quality, it is necessary to have a clear understanding molecular mechanism of morphogenesis for cultivating high quality and controllable rootstocks,. However, the genomic resource for this species is relatively limited, thus hampering our understanding of the molecular mechanisms of seed germination in C.oleifera. Results: In this paper, we measured the gene expression in the C.oleifera cotyledon in different development stages and the global gene expression profiles through transcriptome sequencing. Approximately 45.4 gigabases (GB) paired-end clean reads were obtained and assembled into 113,582 unigenes with an average length of 396 bp. 61.5% (68,217) of the unigenes were annotated in six public protein databases. We identified 11,391 differentially expressed genes (DEGs) between the different stages in the germination process. Enrichment analysis revealed that the DEGs were mainly involved in hormone signal transduction and starch sucrose metabolism pathways. The gravitropism regulator UNE10, the meristem regulator STM, KNAT1, PLT2, and root-specific transcription factor WOX11 has higher expression level in the CAM2 stage (seed soaking), indicating the cotyledon-regulated program upon seed germination has been initiated to establish in early imbibition. Our data showed that multiple hormone-related genes in cotyledons were differentially reprogrammed during C. oleifera seed germination.Conclusion: The cotyledons play key roles, both as the main nutrient provider and as one of the main instructors for seed germination and seedling growth. Together, our study will remarkably enrich the genomic resources of Camellia and contribute to our understanding of the molecular mechanisms of the development in the seed germination and seedling growth of C.oleifera. It is helpful to culture in standardizing and superior quality rootstock for C. oleifera breeding.

show abstract

The Lotus japonicus NPF3.1 Is a Nodule-Induced Gene That Plays a Positive Role in Nodule Functioning

Cited by 7 publications

References 78 publications

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

NPF and NRT2 from Pisum sativum Potentially Involved in Nodule Functioning: Lessons from Medicago truncatula and Lotus japonicus

De novo transcriptome assembly of the cotyledon of Camellia oleifera for discovery of genes regulating seed germination

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