Cluster Roots Of White Lupin Research Articles

Soilborne bacterium Klebsiella pneumoniae promotes cluster root formation in white lupin through ethylene mediation.

Cluster roots of white lupin are induced by low phosphorus (LP) to efficiently access unavailable P, but how soilborne microbes are associated with cluster root formation (CRF) is unclear. We investigated the roles of soilborne bacteria in CRF response to LP by high-throughput sequencing and root-bacteria interactions. Cluster root number was significantly decreased in plants grown in sterilized soil compared with nonsterilized soil. Proteobacteria was enriched in CR, as shown by microbiome analysis of soil (bulk, rhizosphere, and rhizosheath) and roots (main, lateral, and CR). Large-scale gene expression level implicated ethylene mediation in CRF. Klebsiella pneumoniae (P7), a soilborne bacterium belonging to Proteobacteria, was isolated from CR. Among 11 isolated strains, P7 exhibited the highest 1-aminocyclopropane-1-carboxylate deaminase (ACCD) activity; this enzyme inhibits the biosynthesis of ethylene in plants by the cleavage of the ethylene precursor 1-aminocyclopropane-1-carboxylic acid and promotes CRF under LP. We constructed an ACCD-deficit mutant accd in the P7 genetic background. The loss-of-function mutation failed to promote CRF under LP conditions. Also, auxin responses may be involved in K. pneumoniae-ethylene-mediated CRF. Overall, we propose that the soilborne bacterium K. pneumoniae promotes CRF of white lupin in response to LP by ethylene mediation.

Expression of plasma membrane H+‐ATPase in cluster roots of white lupin under phosphorus deficiency

AbstractIt was previously shown that plasma membrane (PM) H+‐ATPases of active cluster roots are acclimated to phosphorus (P) deficiency. In the present study, we followed the question whether the qualitative acclimation of PM H+‐ATPase is based on isoform‐specific expression. Therefore, three different PM H+‐ATPase isoforms (LHA1–LHA3) were investigated at the transcriptional level. Our data indicate that LHA1 may play a key role in the qualitative acclimation of PM H+‐ATPase in cluster roots to P deficiency.

The LaCEP1 peptide modulates cluster root morphology in Lupinus albus.

White lupin cluster roots are specialized brush-like root structures that are formed in some species under phosphorus (P)-deficient conditions. They intensely secrete protons and organic acid anions for solubilization and acquisition of sparingly soluble phosphates. Phytohormones and sucrose modulate cluster root number, but the molecular mechanisms of cluster root formation have been elusive. Here, a novel peptide phytohormone was identified that affects cluster root development. It belongs to the C-TERMINALLY-ENCODED PEPTIDE (CEP) family. Members of that family arrest root growth and modulate branching in model species. LaCEP1 was highly expressed in the pre-emergence zone of clusters. Over-expression of the gene encoding the LaCEP1 propeptide resulted in moderate inhibition of cluster root formation. The primary and lateral root lengths of lupin were little affected by the overexpression, but LaCEP1 reduced cluster rootlet and root hair elongation. Addition of a 15-mer core peptide derived from LaCEP1 similarly altered root morphology and modified cluster activity, suggesting that a core sequence of the propeptide is functionally sufficient. Stable overexpression in Arabidopsis confirmed the LaCEP1 function in root growth inhibition across species. Taken together, the root inhibitory effects of the LaCEP1 phytohormone suggest a role as of a regulatory module involved in cluster root development in white lupin.

The alternative respiratory pathway mediates carboxylate synthesis in white lupin cluster roots under phosphorus deprivation

Plant adaptations associated with a high efficiency of phosphorus (P) acquisition can be used to increase productivity and sustainability in a world with a growing population and decreasing rock phosphate reserves. White lupin (Lupinus albus) produces cluster roots that release carboxylates to efficiently mobilize P from P-sorbing soils. It has been hypothesized that an increase in the activity of the alternative oxidase (AOX) would allow for the mitochondrial oxidation of NAD(P)H produced during citrate synthesis in cluster roots at a developmental stage when there is a low demand for ATP. We used the oxygen-isotope fractionation technique to study the in vivo respiratory activities of the cytochrome oxidase pathway (COP) and the alternative oxidase pathway (AOP) in different root sections of white lupins grown hydroponically with and without P. In parallel, AOX protein levels and internal carboxylate concentrations were determined in cluster and non-cluster roots. Higher in vivo AOP activity was measured in cluster roots when malate and citrate concentrations were also high, thus confirming our hypothesis. AOX protein levels were not always correlated with in vivo AOP activity, suggesting post-translational regulation of AOX.

An RNA-Seq transcriptome analysis of orthophosphate-deficient white lupin reveals novel insights into phosphorus acclimation in plants.

Phosphorus, in its orthophosphate form (P(i)), is one of the most limiting macronutrients in soils for plant growth and development. However, the whole-genome molecular mechanisms contributing to plant acclimation to P(i) deficiency remain largely unknown. White lupin (Lupinus albus) has evolved unique adaptations for growth in P(i)-deficient soils, including the development of cluster roots to increase root surface area. In this study, we utilized RNA-Seq technology to assess global gene expression in white lupin cluster roots, normal roots, and leaves in response to P(i) supply. We de novo assembled 277,224,180 Illumina reads from 12 complementary DNA libraries to build what is to our knowledge the first white lupin gene index (LAGI 1.0). This index contains 125,821 unique sequences with an average length of 1,155 bp. Of these sequences, 50,734 were transcriptionally active (reads per kilobase per million reads ≥ 3), representing approximately 7.8% of the white lupin genome, using the predicted genome size of Lupinus angustifolius as a reference. We identified a total of 2,128 sequences differentially expressed in response to P(i) deficiency with a 2-fold or greater change and P ≤ 0.05. Twelve sequences were consistently differentially expressed due to P(i) deficiency stress in three species, Arabidopsis (Arabidopsis thaliana), potato (Solanum tuberosum), and white lupin, making them ideal candidates to monitor the P(i) status of plants. Additionally, classic physiological experiments were coupled with RNA-Seq data to examine the role of cytokinin and gibberellic acid in P(i) deficiency-induced cluster root development. This global gene expression analysis provides new insights into the biochemical and molecular mechanisms involved in the acclimation to P(i) deficiency.

Burkholderia Species Are Major Inhabitants of White Lupin Cluster Roots

The formation of cluster roots by plants represents a highly efficient strategy for acquisition of sparingly available phosphate. This particular root type is characterized by a densely branched structure and high exudation of organic acids and protons, which are likely to influence the resident bacterial community. Until now, the identity of the bacterial populations living in cluster roots has not been investigated. We applied cultivation-dependent and cultivation-independent methods to characterize the dominant bacterial genera inhabiting the growing cluster roots of white lupin. We observed a high relative abundance of Burkholderia species (up to 58% of all isolated strains and 44% of all retrieved 16S rRNA sequences) and a significant enrichment with increasing cluster root age. Most of the sequences retrieved clustered together with known plant- or fungus-associated Burkholderia species, while only one of 98 sequences was affiliated with the Burkholderia cepacia complex. In vitro assays revealed that Burkholderia strains were much more tolerant to low pH than non-Burkholderia strains. Moreover, many strains produced large amounts of siderophores and were able to utilize citrate and oxalate as carbon sources. These features seem to represent important traits for the successful colonization and maintenance of Burkholderia species in white lupin cluster roots.

Molecular analysis of SCARECROW genes expressed in white lupin cluster roots.

The Scarecrow (SCR) transcription factor plays a crucial role in root cell radial patterning and is required for maintenance of the quiescent centre and differentiation of the endodermis. In response to phosphorus (P) deficiency, white lupin (Lupinus albus L.) root surface area increases some 50-fold to 70-fold due to the development of cluster (proteoid) roots. Previously it was reported that SCR-like expressed sequence tags (ESTs) were expressed during early cluster root development. Here the cloning of two white lupin SCR genes, LaSCR1 and LaSCR2, is reported. The predicted amino acid sequences of both LaSCR gene products are highly similar to AtSCR and contain C-terminal conserved GRAS family domains. LaSCR1 and LaSCR2 transcript accumulation localized to the endodermis of both normal and cluster roots as shown by in situ hybridization and gene promoter::reporter staining. Transcript analysis as evaluated by quantitative real-time-PCR (qRT-PCR) and RNA gel hybridization indicated that the two LaSCR genes are expressed predominantly in roots. Expression of LaSCR genes was not directly responsive to the P status of the plant but was a function of cluster root development. Suppression of LaSCR1 in transformed roots of lupin and Medicago via RNAi (RNA interference) delivered through Agrobacterium rhizogenes resulted in decreased root numbers, reflecting the potential role of LaSCR1 in maintaining root growth in these species. The results suggest that the functional orthologues of AtSCR have been characterized.

Localized application of soil organic matter shifts distribution of cluster roots of white lupin in the soil profile due to localized release of phosphorus.

Phosphorus (P) is a major factor controlling cluster-root formation. Cluster-root proliferation tends to concentrate in organic matter (OM)-rich surface-soil layers, but the nature of this response of cluster-root formation to OM is not clear. Cluster-root proliferation in response to localized application of OM was characterized in Lupinus albus (white lupin) grown in stratified soil columns to test if the stimulating effect of OM on cluster-root formation was due to (a) P release from breakdown of OM; (b) a decrease in soil density; or (c) effects of micro-organisms other than releasing P from OM. Lupin plants were grown in three-layer stratified soil columns where P was applied at 0 or 330 mg P kg(-1) to create a P-deficient or P-sufficient background, and OM, phytate mixed with OM, or perlite was applied to the top or middle layers with or without sterilization. Non-sterile OM stimulated cluster-root proliferation and root length, and this effect became greater when phytate was supplied in the presence of OM. Both sterile OM and perlite significantly decreased cluster-root formation in the localized layers. The OM position did not change the proportion of total cluster roots to total roots in dry biomass among no-P treatments, but more cluster roots were concentrated in the OM layers with a decreased proportion in other places. Localized application of non-sterile OM or phytate plus OM stimulated cluster-root proliferation of L. albus in the localized layers. This effect is predominantly accounted for by P release from breakdown of OM or phytate, but not due to a change in soil density associated with OM. No evidence was found for effects of micro-organisms in OM other than those responsible for P release.

Localization of acid phosphatase activities in the roots of white lupin plants grown under phosphorus-deficient conditions

Acid phosphatase (APase) produced by the cluster roots of white lupin (Lupinus albus L.) plays an important role in inorganic phosphate (Pi) acquisition. Although the importance of cluster roots in Pi acquisition is well known, information on the distribution of APase within tissues of normal and cluster roots is lacking. Isoelectric focusing of APase isoforms as well as histochemical localization and visualization of APase were used to clarify the importance of secretory APase for P nutrition of white lupin grown under P deficiency. Isoelectric focusing revealed that both the secretory type and other major APase isoforms probably involved in P translocation were inducible. The major activity in the rhizosphere soil of cluster roots and roots grown under hydroponic conditions corresponded to LASAP2, a previously purified APase secreted from white lupin roots. Histochemical localization using enzyme-labeled fluorescence (ELF)-97 phosphate as a substrate was applied to rhizosphere samples. This substrate provides fluorescent precipitates after hydrolysis by phosphatase. Strong APase activity in the epidermal tissues of normal roots and cluster rootlets and in root hairs of cluster rootlets under P deficiency was detected. These results support the hypothesis that APase activities in the rhizosphere liberate Pi and supply it to white lupin plants grown under P-deficient conditions.

Formation of cluster roots and citrate exudation by Lupinus albus in response to localized application of different phosphorus sources

It is well known that lateral roots of some plants can respond to heterogeneous nutrient supply, but it is unknown how the cluster roots of white lupin, the special root structure induced by phosphorus (P) deficiency, respond to P-rich patches of different P sources in soil. The present study examined the effect of localized P supply on cluster root formation and root exudation by white lupin ( Lupinus albus L. cv. Kiev Mutant) grown in a P-deficient sandy soil. Phosphorus was applied only to one compartment in a four-compartment split-root system as either hydroxyapatite (Ca-P), iron phosphate (Fe-P), phytate (Phy-P) or KH 2PO 4 (K-P). The proportion of dry root biomass allocated to cluster roots in P-supplemented compartments was greater than that in the compartments without P application. The shoot P concentration of Phy-P plants was much lower than that of Fe-P ones, but there was no difference in the proportion of cluster roots in these two treatments. In comparison with Phy-P and Fe-P, there was a lower proportion of cluster roots in Ca-P and K-P plants. Citrate exudation rate increased significantly in the Fe-P-supplemented compartment, but did not respond to other P sources, compared with the compartment without P application. It is concluded that localized P application significantly stimulates cluster root formation by white lupin, and cluster root formation and citrate exudation are greatly dependent on the form of P supplied.

Secretion activity of white lupin’s cluster roots influences bacterial abundance, function and community structure

White lupin (Lupinus albus L. cv. Amiga) reacts to phosphate deficiency by producing cluster roots which exude large amounts of organic acids. The detailed knowledge of the excretion physiology of the different root parts makes it a good model plant to study plant-bacteria interaction. Since the effect of the organic acid exudation by cluster roots on the rhizosphere microflora is still poorly understood, we investigated the abundance, diversity and functions of bacteria associated with the cluster roots of white lupin, with special emphasis on the influence of root proximity (comparing root, rhizosphere soil and bulk soil fractions) and cluster root growth stages, which are characterized by different excretion activities. Plants were grown for five weeks in microcosms, in the presence of low phosphate concentrations, on acidic sand inoculated with a soil suspension from a lupin field. Plate counts showed that bacterial abundance decreased at the stage where the cluster root excretes high amounts of citrate and protons. In vitro tests on isolates showed that the frequencies of auxin producers were highest in juvenile and mature cluster roots and significantly decreased in senescent cluster roots. However, no significant difference in the frequency of auxin producers was found between cluster and non cluster roots. The diversity and structure of bacterial communities were investigated by DGGE of 16S rDNA and 16S rRNA. The diversity and community structure were mostly influenced by root proximity and, to a lesser extent, by cluster root stage. The richness of bacterial communities decreased with root proximity, whereas the proportion of active populations increased. The high citrate and proton excretion occurring at the mature stage of cluster roots had a strong impact on the structure and richness of the bacterial communities, both in the root and in the rhizosphere soil.

Alteration of citrate metabolism in cluster roots of white lupin.

Organic acid excretion plays a key role in the superior P(i)-acquisition of barely soluble inorganic P sources from soils. Seedlings of white lupin (Lupinus albus L.) grown for 37 d in -P nutrient solution showed typical -P symptoms, such as low P content, increased root/shoot ratio and the development of cluster roots which released large amounts of citrate. Citrate concentration in the cluster roots was 21.5 micro mol (g FW)(-1), which corresponded to a 4.3- and 2.6-fold increase of +P and -P root apexes, respectively. Cluster roots possessed higher phosphoenolpyruvate carboxylase and phosphoenolpyruvate phosphatase activity than those in +P root apexes, which could result in increasing the supply of substrate for citrate synthase. On the other hand, the cytosolic pathway which converts citrate to 2-oxoglutarate consists of aconitase and NADP-specific isocitrate dehydrogenase activity that was lower in the cluster roots than in +P root apexes, and may contribute to citrate accumulation. Thus, metabolic balance with these alterations would play an important role in increasing citrate concentration in the cluster roots. The molecular characterization of NADP-specific isocitrate dehydrogenase indicated that the cytosolic isoenzyme functions as a hetero-dimer, and that the activity would be regulated by the transcript levels for both isoforms.

Phosphate transport in plants

Transport of inorganic phosphate (Pi) through plant membranes is mediated by a number of families of transporter proteins. Studies on the topology, function, regulation and sites of expression of the genes that encode the members of these transporter families are enabling roles to be ascribed to each of them. The Pht1 family, of which there are nine members in the Arabidopsis genome, includes proteins involved in the uptake of Pi from the soil solution and the redistribution of Pi within the plant. Members of this family are H2PO4−/H+ symporters. Most of the genes of the Pht1 family that are expressed in roots are up-regulated in P-stressed plants. Two members of the Pht1 family have been isolated from the cluster roots of white lupin. These same genes are expressed in non-cluster roots. The evidence available to date suggests that there are no major differences between the types of transport systems that cluster roots and non-cluster roots use to acquire Pi. Differences in uptake rates between cluster and non-cluster roots can be ascribed to more high-affinity Pi transporters in the plasma membranes of cluster roots, rather than any difference in the characteristics of the transporters. The efficient acquisition of Pi by cluster roots arises primarily from their capacity to increase the availability of soil Pi immediately adjacent to the rootlets by excretion of carboxylates, protons and phosphatases within the cluster. This paper reviews Pi transport processes, concentrating on those mediated by the Pht1 family of transporters, and attempts to relate those processes involved in Pi acquisition to likely Pi transport processes in cluster roots.

Introduction

Introduction H. Lambers, et al. The biology of cluster roots and the acquisition of P from the rhizosphere. Structure, ecology and physiology of root clusters a review B.B. Lamont. The evolution of physiology and development in the cluster root: teaching an old dog new tricks? K.R. Skene. Organic acid behaviour in soils misconceptions and knowledge gaps D.L. Jones, et al. Origins of root-mediated pH changes in the rhizosphere and their responses to environmental constraints: A review P. Hinsinger, et al. Strategies to isolate transporters that facilitate organic anion efflux from plant roots P.R. Ryan, et al. Phosphate transport in plants F.W. Smith, et al. Development of the adhesive pad on climbing fig (Ficus punila) stems from clusters of adventitious roots E.P. Groot, et al. Pathways of carbon metabolism related to enhanced exudation of organic acids and acid phosphatase. Acclimation of white lupin to phosphorus deficiency involves enhanced expression of genes related to organic acid metabolism C. Uhde-Stone, et al. Phosphorus deficiency-induced modifications in citrate catabolism and in cystolic pH as related to citrate exudation in cluster roots of white lupin A. Kania. Secreted acid phosphatase is expressed in cluster roots of lupin in response to phosphorus deficiency J. Wasaki, et al. Effects of altered citrate synthase and isocitrate dehydrogenase expression on internal citrate concentrations and citrate efflux from tobacco (Nicotiana tabacum L.) roots E. Delhaize, et al. Characterization of NAPD-isocitrate dehydrogenase expression in a carrot mutant cell line with enhanced citrate excretion T. Kihara, et al. The influence of organic acid exudation and cluster roots on P and N acquisition. Do cluster roots of Hakea actities (Proteaceae) acquire complex organic nitrogen? S. Schmidt, et al. Lupinus luteus cv. Wodjil takes up more phosphorus and cadmium than Lupinus angustifolius cv. Kalya R.F. Brennan, M.D.A. Bolland. Chick pea and white lupin rhizosphere carboxylates vary with soil properties and enhance phosphorus uptake E.J. Veneklaas, et al. Role of phosphorus nutrition in development of cluster roots and release of carboxylates in soil-grown Lupinus albus J. Shen, et al. The influence of plant nutrition on plant growth and development of cluster roots. Effects of external phosphorus supply on internal phosphorus concentration and the initiation, growth and exudation of cluster roots in Hahea prostrata R. Br. M.W. Shane, et al. Differences in cluster root formation and carboxylate exudation in Lupinus albus L. under different nutrient deficiencies R. Liang, C. Li. Is Fe deficiency rather than P deficiency the cause of cluster root formation in Casuarina species? E.H. Zaid, et al. The formation, morphology and anatomy of cluster root of Lupinus albus L. as dependent on soil type and phosphorus supply C.S. Peek, et al. Localized supply of phosphorus induces root morphological and architectural changes of rice in split and stratified soil cultures Y. He, et al. Interaction of nitrogen and phosphorus nutrition in determining growth C.C.de Groot, et al. Implications of root architecture, root-soil interactions and mycorrhiza on plant P nutrition. Phosphorus acquisition from soil by white lupin (Lupinus albus L.) and soybean (Glycine max L.) species with contrasting root development M. Watt, J.R. Evans. Plantago lanceolata L. and Rumex acetosella L. differ in their utilisation of soil phosphorus fractions A.-M. Fransson, et al. Chickpea facilitates phosphorus uptake by intercropped wheat from an organic phosphorus source L. Li, et al. Using competitive and facilitative interactions in intercropping systems enhances crop productivity and nutrient-use efficiency F. Zhang, L. Li. Phosphorus uptake by a community of arbuscular mycorrhizal fungi in jarrah forest M.Z. Solaiman, L.K. Abbott. Relationships between cluster root-bearing taxa and laterite across landscapes in southwest Western Australia: an approach using airborne radiometric and digital elevation models W.H. Verboom, J.S. Pate. Volume contents. Author index.

Phosphorus deficiency-induced modifications in citrate catabolism and in cytosolic pH as related to citrate exudation in cluster roots of white lupin

A possible contribution of alterations in metabolic sequences involved in citrate catabolism, to intracellular accumulation and subsequent release of citrate was investigated in cluster roots of phosphorus (P)-deficient white lupin (Lupinus albus L.). Citrate accumulation during maturation of root clusters was associated with decreased levels of intracellular soluble Pi and ATP, and with reduced rates of respiration. Inhibitor studies with KCN and salicylhydroxamic acid (SHAM) suggest a reduced capacity of both the cytochrome pathway and of the alternative respiration with a concomitant decrease of immunochemically detectable protein levels of the alternative oxidase. Reduced respiration seems to be related to a general impairment of the respiratory system, rather than to limitation of respiratory substrates such as Pi and adenylates, as indicated by the absence of stimulatory effects of the uncoupler CCCP. The citrate/malate ratio in juvenile root clusters with high rates of respiration and low inherent levels of citrate accumulation was increased by short-term application (4–8 h) of azide and SHAM as respiration inhibitors. During maturation of root clusters, a shift from intracellular malic acid to citric acid accumulation was associated also with down-regulation of ATP citrate lyase (ACL), which catalyzes cleavage of citrate into acetyl-CoA and oxaloacetate with a putative function as anapleurotic source for the production of acetyl-CoA under P-deficient conditions. Inhibition of nitrate uptake and assimilation is a general response to P limitation in many plant species including white lupin. Reduced consumption of the amino acceptor 2-oxoglutaric acid as a product of citrate turnover may therefore contribute to increased citrate accumulation. Accordingly, artificial inhibition of nitrate reduction by localized application of tungstate significantly increased the citrate/malate ratio in juvenile root clusters. Lowering the cytosolic pH by external application of propionate stimulated citrate and malate exudation in non-cluster lateral roots and in developing root clusters. This effect was reverted by preincubation with phosphonate to buffer the cytosol. The results suggest that acidification of the cytosol may be an important factor, triggering the transient release of citrate and protons from mature root clusters in P-deficient white lupin.

Spatial and temporal dynamics of the microbial community structure in the rhizosphere of cluster roots of white lupin (Lupinus albus L.)

White lupin was grown in a quartz sand–soil mix with poorly available Ca phosphate. The plants were harvested on days 21, 35 and 51 and DNA was extracted from the non-cluster roots, the young, mature and senescent cluster roots with adhering soil. Bacterial community structure was examined by PCR-DGGE of 16S rDNA, digitisation of the band patterns and multivariate analyses. In all root zones the bacterial community structure changed with plant age. The communities in the rhizosphere of the non-cluster roots were always different from those of the cluster roots. The bacterial communities of the cluster roots were cluster age and plant age dependent. The differences in bacterial community structure between the cluster root age classes were significant on days 35 and day 51 but not on d 21. A separate experiment, in which root exudates and samples for PCR-DGGE were collected simultaneously, showed that both bacterial and eukaryotic (18S rDNA) community structures change with organic acid exudation. While eukaryotic community structure of the cluster roots was correlated with citric acid exudation, bacterial community structure was correlated with cis-acconitic, citric and malic acid exudation.