Presence of multiple group I introns closely related to bacteria and fungi in plastid 23S rRNAs of lichen-forming Trebouxia

The chloroplast-encoded large subunit ribosomal RNA gene of several free-living green algae contains group I introns at Escherichia coli genic positions 1917, 1931, 1951, and 2449. Herein we report the presence of group I introns at these positions within the chloroplast-encoded large subunit ribosomal RNA gene of several lichen-forming green algae belonging to the Trebouxia genus. In contrast to the introns inserted at position 2449, all introns inserted at positions 1917, 1931, and 1951 contained LAGLIDADG homing endonuclease genes. Phylogenetic analyses show that: (i) introns inserted at positions 1917, 1931, and 1951 are closely related to introns located at homologous insertion sites in bacterial rDNA genes; and (ii) introns inserted at position 2449 are closely related to fungal introns located at homologous insertion sites in mitochondrial rDNA genes. The symbiogenetic thalli of some lichens are proposed as the likely setting of horizontal transfer of genetic material among distantly related organisms such as bacteria, fungi, and green [email protected]; [email protected]

Coexistence of different intrathalline symbiotic algae and bacterial biofilms in the foliose Canarian lichen Parmotrema pseudotinctorum

[EN] Parmotrema pseudotinctorum (des Abb.) Hale is a foliose lichen able to colonize large areas on rock surfaces in semiarid and warm localities in the Canary Islands. In this contribution, we investigate the phycobionts of this successful lichen under these extreme environmental conditions using ultrastructural and genetic methodologies. Two populations from La Gomera and La Palma islands were analyzed. After TEM analyses, three algal types were clearly distinguished in intrathalline symbiosis, provisionally named Ph1, Ph2, and Ph3. Two of them (Ph1 and Ph2) were Trebouxia showing a well visible pyrenoid corticolatype the chloroplast thylakoids being very different in both. The type Ph3 could be a taxon included in the genus Asterochloris. Our molecular approach consisted in sequencing two different DNA loci: a portion of the chloroplast psbA gene and nuclear ITS. Sequences of the psbA gene resulted in electrophoretograms showing double peaks when DNA extracted from the whole lichen thallus was used as template. Such double peaks were interpreted as single nucleotide polymorphisms (SNPs). This interpretation was confirmed by cloning. However, no intrathalline polymorphisms were detected among the nrITS sequences. Phylogenetic analyses on the basis of the psbA gene revealed three distinct clades. It is likely that these clades corresponded to the the three different morphotypes revealed by TEM. One of these clades, was closely related to T. corticola, other was related to Asterochloris glomerata and the third did not grouped with any specific taxa. These results are the first piece of evidence that algal coexistence may even be established between species of different genera of the Trebouxiophyceae (Asterochloris and Trebouxia at least). Moreover, the coexistence of several microalgal taxa evidenced in this study appears as a consistent character among the populations of this foliose lichen. Further isolation and cultivation of the three different algal types and physiological studies should shed light on the ecological plasticity of the entire holobiont. Along with such variety of intrathalline coexisting algae, another unexpected result was the observation of an almost continuous layer of bacterial-communities coating the lower cortex in all the studied samples of P. pseudotinctorum. The function of these biofilms in the lichen symbiosis remains to be elucidated. The existence of such particular symbiosis involving different algal species and bacteria could be explained by an increased fitness in particular habitats or under specific environmental conditions[ES] Parmotrema pseudotinctorum (des Abb.) Hale es un liquen foliáceo que coloniza roquedos volcánicos y es frecuente en localidades semiáridas y cálidas de las islas Canarias. En este trabajo, se investigan los ficobiontes de este liquen utilizando métodos ultraestructurales y genéticos. Se analizaron dos poblaciones de La Gomera y La Palma. Mediante análisis TEM, se han distinguido claramente tres tipos de algas en simbiosis intratalinas, llamados provisionalmente Ph1, Ph2 y Ph3. Dos de ellas (Ph1 y Ph2), pertenecientes al género Trebouxia, muestran un pirenoide bien visible del tipo corticola, pero los tilacoides del cloroplasto son muy diferentes en ambos. El tipo Ph3 podría ser un taxón incluido en el género Asterochloris. El enfoque molecular consistió en la secuenciación de dos loco diferentes de ADN: una porción del gen psbA del cloroplasto e ITS nuclear. Las secuencias del gen psbA proporcionaron electroforetogramas que mostraban dobles picos cuando se usó como patrón el ADN extraído de los talos completos. Estos dobles picos se interpretaron como polimorfismos de nucleótido simple (SNP). Esta interpretación se confirmó mediante técnicas de clonación. Sin embargo, no se detectaron polimorfismos intratalinos con las secuencias nrITS. Los análisis filogenéticos basados en las secuencias del gen psbA constataron la presencia de tres clados diferenciados. Es probable que éstos correspondan a los tres diferentes morfotipos puestos en evidencia por TEM. Uno de ellos está estrechamente relacionado con T. corticola, otro con Asterochloris glomerata, y el tercero no se agrupaba a ningún taxón especifico. Estos resultados son la primera evidencia de que en los líquenes la coexistencia de algas intratalinas se puede establecer incluso entre especies de difierentes géneros de Trebouxiophyceae (Asterochloris y Trebouxia al menos). Por otra parte, la coexistencia de varios taxones de microalgas, constatada en este estudio, puede considerarse como una sólida característica entre las poblaciones de este liquen foliáceo. Posteriores aislamientos y el cultivo de los tres tipos de algas, además de estudios fisiológicos, podrán explicar la plasticidad ecológica que muestra el holobionte. Otro resultado inesperado fue la observación de una capa casi continua de comunidades bacterianas que recubren el córtex inferior en todas las muestras estudiadas de P. pseudotinctorum. Está por determinar la función que estos biofilms puedan tener en las simbiosis liquénicas. La existencia de estos tipos de simbiosis tan particulares, que involucran tanto a diferentes especies de algas como a bacterias, podría explicarse por un incremento en la capacidad de colonizar hábitats peculiares o con condiciones ambientales específicasThis study was funded by the Spanish Ministry of Economy and Innovation (MINECO CGL2012-40058-C02-01/02), FEDER and the Generalitat Valenciana (PROMETEO 021/2013 GVA).Molins, A.; García-Breijo, F.; Reig Armiñana, J.; Del Campo, EM.; Casano, L.; Barreno Rodriguez, E. (2013). Coexistence of different intrathalline symbiotic algae and bacterial biofilms in the foliose Canarian lichen Parmotrema pseudotinctorum. Vieraea. Folia Scientarum Biologicarum Canariensium. 41:349-370. http://hdl.handle.net/10251/77348S3493704

Coordinated ultrastructural and phylogenomic analyses shed light on the hidden phycobiont diversity of Trebouxia microalgae in Ramalina fraxinea

[EN] The precise boundary delineations between taxa in symbiotic associations are very important for evolutionary and ecophysiological studies. Growing evidence indicates that in many cases, the use of either morphological characters or molecular markers results in diversity underestimation. In lichen symbioses. Trebouxia is the most common genus of lichen phycobionts, however, the diversity within this genus has been poorly studied and as such there is no clear species concept. This study constitutes a multifaceted approach incorporating aspects of ultrastructural characterization by TEM and phylogenomics to evaluate the morphological and genetic diversity of phycobionts within the sexually reproducing lichen Ramalina fraxinea in the context of Mediterranean and temperate populations. Results reveal an association with at least seven different Trebouxia lineages belonging to at least two species. T. decolorans and T. jamesii, and diverse combinations of such lineages coexisting within the same thallus depending on the analysed sample. Some of these lineages are shared by several other non-related lichen taxa. Our findings indicate the existence of a highly diverse assemblage of Trebouxia algae associating with R. fraxinea and suggest a possible incipient speciation within T. decolorans rendering a number of lineages or even actual species. This study stresses the importance of coordinated ultrastructural and molecular analyses to improve estimates of diversity and reveal the coexistence of more than one Trebouxia species within the same thallus. lt is also necessary to have clearer species delimitation criteria within the genus Trebouxia and microalgae in general.This study was funded by the Ministerio de Economia y Competitividad (MINECO CGL2012-40058-0O2-01/02), FEDER, the Generalitat Valenciana (PROMETEOII2013/021, GVA) and the Direccion General de Universidades e Investigacion de la Consejeria de Educacion de la Comunidad de Madrid - Universidad de Alcala (CCG10-UAH/GEN-5904). Drs. Arantxa Matins and Patricia Moya (Universitat de Valencia) made helpful comments on the manuscript.Català, S.; Campo, ED.; Barreno, E.; García-Breijo, F.; Reig Armiñana, J.; Casano, L. (2016). Coordinated ultrastructural and phylogenomic analyses shed light on the hidden phycobiont diversity of Trebouxia microalgae in Ramalina fraxinea. Molecular Phylogenetics and Evolution. 94:765-777. https://doi.org/10.1016/j.ympev.2015.10.021S7657779

Different strategies to achieve Pb-tolerance by the two Trebouxia algae coexisting in the lichen Ramalina farinacea

Lichen thalli are permeable to airborne substances, including heavy metals, which are harmful to cell metabolism. Ramalina farinacea shows a moderate tolerance to Pb. This lichen comprises two Trebouxia phycobionts, provisionally referred to as TR1 and TR9, with distinct physiological responses to acute oxidative stress. Thus, there is a more severe decay in photosynthesis and photosynthetic pigments in TR1 than in TR9. Similarly, under oxidative stress, antioxidant enzymes and HSP70 protein decrease in TR1 but increase in TR9. Since Pb toxicity is associated with increased ROS formation, we hypothesized greater Pb tolerance in this phycobiont. Accordingly, the aim of the present study was to characterize the physiological differences in the responses of TR1 and TR9 to Pb exposure. Liquid cultures of isolated phycobionts were incubated for 7 days in the presence of Pb(NO3)2. Thereafter, extracellular and intracellular Pb accumulation, photosynthetic pigments, and photosynthesis (as modulated chlorophyll fluorescence) were analyzed along with the antioxidant enzymes glutathione reductase (GR), superoxide dismutase (SOD), ascorbate peroxidase (APx), and catalase (CAT), and the stress-related protein HSP70. Pb uptake increased with the amount of supplied Pb in both algae. However, while significantly more metal was immobilized extracellularly by TR9, the amount of intracellular Pb accumulation was three times higher in TR1. In neither of the phycobionts were significant effects on photosynthetic pigments or photosynthetic electron transport observed. While under control conditions GR, SOD, and APx levels were significantly higher in TR1 than in TR9, only in the latter were these enzymes induced by Pb. This resulted in quantitatively similar antioxidant activities in the two algae when exposed to Pb. In conclusion, the phycobionts of R. farinacea make use of two different strategies against stress, in which the integration of distinct anatomical and physiological features affords similar levels of Pb tolerance.This study was supported by the Spanish Ministry of Science and Innovation (CGL2009-13429-C02-01/02) and the Generalitat Valenciana (PROMETEO 174/2008 and GVACOMP2011-205). We are grateful to the Central Support Service in Experimental Research (SCSIE), University of Valencia (Spain), for the TEM studies. We acknowledge Dr. Said Agouram (SCSIE, University of Valencia, Spain) for TEM-EDXS characterizations and for helpful discussions during the TEM investigations. We thank Wendy Ran and Daniel Sheerin for the English revision of the manuscript.Álvarez, R.; Del Hoyo, A.; García Breijo, FJ.; Reig Armiñana, J.; Del Campo, EM.; Guéra, A.; Barreno, E.... (2012). Different strategies to achieve Pb-tolerance by the two Trebouxia algae coexisting in the lichen Ramalina farinacea. Journal of Plant Physiology. 169(18):1797-1806. https://doi.org/10.1016/j.jplph.2012.07.005S179718061691

Balanced gene losses, duplications and intensive rearrangements led to an unusual regularly sized genome in Arbutus unedo chloroplasts

Completely sequenced plastomes provide a valuable source of information about the duplication, loss, and transfer events of chloroplast genes and phylogenetic data for resolving relationships among major groups of plants. Moreover, they can also be useful for exploiting chloroplast genetic engineering technology. Ericales account for approximately six per cent of eudicot diversity with 11,545 species from which only three complete plastome sequences are currently available. With the aim of increasing the number of ericalean complete plastome sequences, and to open new perspectives in understanding Mediterranean plant adaptations, a genomic study on the basis of the complete chloroplast genome sequencing of Arbutus unedo and an updated phylogenomic analysis of Asteridae was implemented. The chloroplast genome of A. unedo shows extensive rearrangements but a medium size (150,897 nt) in comparison to most of angiosperms. A number of remarkable distinct features characterize the plastome of A. unedo: five-fold dismissing of the SSC region in relation to most angiosperms; complete loss or pseudogenization of a number of essential genes; duplication of the ndhH-D operon and its location within the two IRs; presence of large tandem repeats located near highly re-arranged regions and pseudogenes. All these features outline the primary evolutionary split between Ericaceae and other ericalean families. The newly sequenced plastome of A. unedo with the available asterid sequences allowed the resolution of some uncertainties in previous phylogenies of Asteridae

Presence of multiple group I introns closely related to bacteria and fungi in plastid 23S rRNAs of lichen-forming Trebouxia

The chloroplast-encoded large subunit ribosomal RNA gene of several free-living green algae contains group I introns at Escherichia coli genic positions 1917, 1931, 1951, and 2449. Herein we report the presence of group I introns at these positions within the chloroplast-encoded large subunit ribosomal RNA gene of several lichen-forming green algae belonging to the Trebouxia genus. In contrast to the introns inserted at position 2449, all introns inserted at positions 1917, 1931, and 1951 contained LAGLIDADG homing endonuclease genes. Phylogenetic analyses show that: (i) introns inserted at positions 1917, 1931, and 1951 are closely related to introns located at homologous insertion sites in bacterial rDNA genes; and (ii) introns inserted at position 2449 are closely related to fungal introns located at homologous insertion sites in mitochondrial rDNA genes. The symbiogenetic thalli of some lichens are proposed as the likely setting of horizontal transfer of genetic material among distantly related organisms such as bacteria, fungi, and green algae. [Int Microbiol 2009; 12(1):59-67

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Summary. The chloroplast-encoded large subunit ribosomal RNA gene of several free-living green algae contains group I introns at Escherichia coli genic positions 1917, 1931, 1951, an

Ultrastructural and biochemical analyses reveal cell wall remodelling in lichen-forming microalga submitted to cyclic desiccation-rehydration

[Background and Aims]: One of the most distinctive features of desiccation-tolerant plants is their high cell wall (CW) flexibility. Most lichen microalgae can tolerate drastic dehydration–rehydration (D/R) conditions; however, their mechanisms of D/R tolerance are scarcely understood. We tested the hypothesis that D/R-tolerant microalgae would have flexible CWs due to species-specific CW ultrastructure and biochemical composition, which could be remodelled by exposure to cyclic D/R.[Methods]: Two lichen microalgae, Trebouxia sp. TR9 (TR9, adapted to rapid D/R cycles) and Coccomyxa simplex (Csol, adapted to seasonal dry periods) were exposed to no or four cycles of desiccation [25–30 % RH (TR9) or 55–60 % RH (Csol)] and 16 h of rehydration (100 % RH). Low-temperature SEM, environmental SEM and freeze-substitution TEM were employed to visualize structural alterations induced by D/R. In addition, CWs were extracted and sequentially fractionated with hot water and KOH, and the gel permeation profile of polysaccharides was analysed in each fraction. The glycosyl composition and linkage of the main polysaccharides of each CW fraction were analysed by GC–MS.[Key Results]: All ultrastructural analyses consistently showed that desiccation caused progressive cell shrinkage and deformation in both microalgae, which could be rapidly reversed when water availability increased. Notably, the plasma membrane of TR9 and Csol remained in close contact with the deformed CW. Exposure to D/R strongly altered the size distribution of TR9 hot-water-soluble polysaccharides, composed mainly of a β-3-linked rhamnogalactofuranan and Csol KOH-soluble β-glucans.[Conclusions]: Cyclic D/R induces biochemical remodelling of the CW that could increase CW flexibility, allowing regulated shrinkage and expansion of D/R-tolerant microalgae.This research was supported by grants from the Spanish Ministry of Science, Innovation and Universities (CGL2016-80259-P), (PGC2018-094076-B-I00 to C.A.), Fundação de Amparo a Pesquisa do Estado de São Paulo, Brazil (2017/50341-0 to M.R.B.) and Conselho Nacional de Desenvolvimento Científico e Tecnológico, Brazil (305542/2016–8 to M.R.B.)