Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology, Jan 22, 2016
Carbohydrate-binding proteins were purified from the marine calcareous sponge Clathrina clathrus ... more Carbohydrate-binding proteins were purified from the marine calcareous sponge Clathrina clathrus via affinity chromatography on lactose and N-acetyl glucosamine-agarose resins. Proteomic analysis of acrylamide gel separated protein subunits obtained in reducing conditions pointed out several candidates for lectins. Based on amino-acid sequence similarity, two peptides displayed homology with the jack bean lectin Concanavalin A, including a conserved domain shared by proteins in the L-type lectin superfamily. An N-acetyl glucosamine - binding protein complex, named clathrilectin, was further purified via gel filtration chromatography, bioguided with a diagnostic rabbit erythrocyte haemagglutination assay, and its activity was found to be calcium dependent. Clathrilectin, a protein complex of 3200kDa estimated by gel filtration, is composed of monomers with apparent molecular masses of 208 and 180kDa estimated on 10% SDS-PAGE. Nine internal peptides were identified using proteomic ana...
1 EA 4326 « Facteurs nerveux et structuration tissulaire » UBO -Brest Sections de rattachement : ... more 1 EA 4326 « Facteurs nerveux et structuration tissulaire » UBO -Brest Sections de rattachement : 65/68 Secteur : secondaire RÉSUMÉ. Les voies de signalisation des MAP kinases sont d'importants médiateurs activés en réponse à une grande variété de signaux extracellulaires (xénobiotiques, facteurs de croissance, stress osmotique, choc thermique, UV…). Elles représentent ainsi des cibles intéressantes pour les programmes de biosurveillance de la qualité de l'environnement marin. En particulier, l'étude des MAP kinases p38, JNK (c-Jun amino-terminal kinase) et ERK (extracellular signal-regulated protein kinase), hautement conservées au cours de l'évolution, renseigne sur des perturbations de l'organisme à un stade précoce, d'où leur intérêt en toxicologie. Des expositions de moules Mytilus galloprovincialis et d'éponges Suberites domuncula au tributylétain (TBT) et aux hydrocarbures aromatiques polycycliques (HAPs) entrainent une activation systématique de p3...
Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, 2015
Roles of p53 family ancestor (p63) in the organisms' response to stressful environmental ... more Roles of p53 family ancestor (p63) in the organisms' response to stressful environmental conditions (mainly pollution) have been studied among molluscs, especially in the genus Mytilus, within the last 15 years. Nevertheless, information about gene structure of this regulatory gene in molluscs is scarce. Here we report the first complete genomic structure of the p53 family orthologue in the mollusc Mediterranean mussel Mytilus galloprovincialis and confirm its similarity to vertebrate p63 gene. Our searches within the available molluscan genomes (Aplysia californica, Lottia gigantea, Crassostrea gigas and Biomphalaria glabrata), found only one p53 family member present in a single copy per haploid genome. Comparative analysis of those orthologues, additionally confirmed the conserved p63 gene structure. Conserved p63 gene structure can be a helpful tool to complement or/and revise gene annotations of any future p63 genomic sequence records in molluscs, but also in other animal phyla. Knowledge of the correct gene structure will enable better prediction of possible protein isoforms and their functions. Our analyses also pointed out possible mis-annotations of the p63 gene in sequenced molluscan genomes and stressed the value of manual inspection (based on alignments of cDNA and protein onto the genome sequence) for a reliable and complete gene annotation.
Environmental Science and Pollution Research, 2015
The exploration of marine Actinobacteria has as major challenge to answer basic questions of micr... more The exploration of marine Actinobacteria has as major challenge to answer basic questions of microbial ecology that, in turn, will provide useful information to exploit Actinobacteria metabolisms in biotechnological processes. The ecological functions performed by Actinobacteria in marine sediments are still unclear and belongs to the most burning basic questions. The comparison of Actinobacteria communities inhabiting marine sediments that are under the influence of different contamination types will provide valuable information in the adaptation capacities of Actinobacteria to colonize specific ecological niche. In the present study, the characterization of different Actinobacteria assemblages according to contamination type revealed the ecological importance of Actinobacteria for maintaining both general biogeochemical functions through a "core" Actinobacteria community and specific roles associated with the presence of contaminants. Indeed, the results allowed to distinguish Actinobacteria genera and species operational taxonomic units (OTUs) able to cope with the presence of either (i) As, (ii) metals Ni, Fe, V, Cr, and Mn, or (iii) polycyclic aromatic hydrocarbons (PAHs) and toxic metals (Hg, Cd, Cu, Pb, and Zn). Such observations highlighted the metabolic capacities of Actinobacteria and their potential that should be taken into consideration and advantage during the implementation of bioremediation processes in marine ecosystems.
Sažetak: The sponge Aplysina aerophoba Schmidt, 1862 (Demospongiae, Verongida, Aplysinidae) is on... more Sažetak: The sponge Aplysina aerophoba Schmidt, 1862 (Demospongiae, Verongida, Aplysinidae) is one of the most common sponges in the Limski kanal. The family Aplysinidae Carter, 1875 is a potential source for natural bioactive products. The information about ...
Abstract: Autecology of most sponge species, including Suberites domuncula in the Adriatic Sea, i... more Abstract: Autecology of most sponge species, including Suberites domuncula in the Adriatic Sea, is still unknown, as there are gaps in our knowledge of, for example, growth, migration, behavior, and symbiosis. The main objective of this study was to compile additional ...
The evaluation of the alochthonous and cosmopolitan mosquitofish species Gambusia affinis suitabi... more The evaluation of the alochthonous and cosmopolitan mosquitofish species Gambusia affinis suitability as a bioindicator species and the induction of its liver cytochrome P450-dependent mixed function oxygenase (MFO), measured as the 7-ethoxyresorfin-O-deethylase (EROD) activity, as well as changes in DNA integrity, measured by the Fast Micromethod, for the monitoring of organochlorine fresh water pesticide contamination, were the main aims of the study. The test mosquitofish were exposed under laboratory conditions to several doses (0.1, 10 and 100 microg l(-1)) of lindane in experimental basins for up to 7 days, and a subsequent field study was carried out at five natural ponds in the south-western Istrian peninsula, Croatia, where up to 10 fish were collected from each pond. Results obtained during the studies showed positive correlations between the measured biomarkers in G. affinis liver (EROD activity and DNA integrity status) and lindane (laboratory experiment) or persistent organochlorine pollutant amounts in natural pond sediments (field study). The clear dose-responses of EROD activity and DNA integrity deterioration in G. affinis were recorded after exposure to 0.1-10 microg/l lindane and 96 h exposure to lindane, respectively. The results indicate that the mosquitofish G. affinis, due to its biological-ecological characteristics and the biomarker dose-response, is suitable for the monitoring of fresh water organochlorine pesticide contamination in general and lindane in particular.
The marine mussel Mytilus galloprovincialis lives attached to the surface of hard substrata, wher... more The marine mussel Mytilus galloprovincialis lives attached to the surface of hard substrata, where its exposure and relative immobility allow it to record changes in ambient seawater. It is also found along the eastern coast of the Adriatic Sea. Oxygen and carbon isotopes were analysed for calcite and aragonite in separate shell layers, while major, minor and trace elements in the bulk shell were analysed to evaluate environmental conditions such as the temperature of carbonate deposition, freshwater influence and locations of anthropogenic pollution. We found that, on average, aragonite is enriched by 1.1‰ in (13)C and by 0.2‰ in (18)O compared with calcite. The calculated temperatures for M. galloprovincialis shell growth from the investigated area range from 13.4 to 20.9 °C for calcite and from 16.6 to 23.1 °C for aragonite. According to the δ(18)O and δ(13)C values of shell layers, we can separate the investigated area into three locations: those with more influence of freshwater, those with less influence of freshwater and those with marine environments. The highest concentrations of manganese, barium, boron, arsenic, nickel and chromium were observed in shells from Omis, Bacvice and Zablace (Central Adriatic) and Sv. Ivan (South Adriatic), where chemical and heavy industries are located and where sewage is known to be discharged into coastal areas. The highest concentrations of zinc, lead and copper were measured in samples from Pula, Rijeka and Gruz, where there are also ports in addition to industry.
Abstract: Organisms living in the estuarine habitats, near to urban and industrial areas are ofte... more Abstract: Organisms living in the estuarine habitats, near to urban and industrial areas are often subjected to interactions of varying natural stressors and diverse anthropogenic impacts, possibly modulating environmental trace metals bioavailability. Biomarker ...
Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology, Jan 22, 2016
Carbohydrate-binding proteins were purified from the marine calcareous sponge Clathrina clathrus ... more Carbohydrate-binding proteins were purified from the marine calcareous sponge Clathrina clathrus via affinity chromatography on lactose and N-acetyl glucosamine-agarose resins. Proteomic analysis of acrylamide gel separated protein subunits obtained in reducing conditions pointed out several candidates for lectins. Based on amino-acid sequence similarity, two peptides displayed homology with the jack bean lectin Concanavalin A, including a conserved domain shared by proteins in the L-type lectin superfamily. An N-acetyl glucosamine - binding protein complex, named clathrilectin, was further purified via gel filtration chromatography, bioguided with a diagnostic rabbit erythrocyte haemagglutination assay, and its activity was found to be calcium dependent. Clathrilectin, a protein complex of 3200kDa estimated by gel filtration, is composed of monomers with apparent molecular masses of 208 and 180kDa estimated on 10% SDS-PAGE. Nine internal peptides were identified using proteomic ana...
1 EA 4326 « Facteurs nerveux et structuration tissulaire » UBO -Brest Sections de rattachement : ... more 1 EA 4326 « Facteurs nerveux et structuration tissulaire » UBO -Brest Sections de rattachement : 65/68 Secteur : secondaire RÉSUMÉ. Les voies de signalisation des MAP kinases sont d'importants médiateurs activés en réponse à une grande variété de signaux extracellulaires (xénobiotiques, facteurs de croissance, stress osmotique, choc thermique, UV…). Elles représentent ainsi des cibles intéressantes pour les programmes de biosurveillance de la qualité de l'environnement marin. En particulier, l'étude des MAP kinases p38, JNK (c-Jun amino-terminal kinase) et ERK (extracellular signal-regulated protein kinase), hautement conservées au cours de l'évolution, renseigne sur des perturbations de l'organisme à un stade précoce, d'où leur intérêt en toxicologie. Des expositions de moules Mytilus galloprovincialis et d'éponges Suberites domuncula au tributylétain (TBT) et aux hydrocarbures aromatiques polycycliques (HAPs) entrainent une activation systématique de p3...
Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, 2015
Roles of p53 family ancestor (p63) in the organisms' response to stressful environmental ... more Roles of p53 family ancestor (p63) in the organisms' response to stressful environmental conditions (mainly pollution) have been studied among molluscs, especially in the genus Mytilus, within the last 15 years. Nevertheless, information about gene structure of this regulatory gene in molluscs is scarce. Here we report the first complete genomic structure of the p53 family orthologue in the mollusc Mediterranean mussel Mytilus galloprovincialis and confirm its similarity to vertebrate p63 gene. Our searches within the available molluscan genomes (Aplysia californica, Lottia gigantea, Crassostrea gigas and Biomphalaria glabrata), found only one p53 family member present in a single copy per haploid genome. Comparative analysis of those orthologues, additionally confirmed the conserved p63 gene structure. Conserved p63 gene structure can be a helpful tool to complement or/and revise gene annotations of any future p63 genomic sequence records in molluscs, but also in other animal phyla. Knowledge of the correct gene structure will enable better prediction of possible protein isoforms and their functions. Our analyses also pointed out possible mis-annotations of the p63 gene in sequenced molluscan genomes and stressed the value of manual inspection (based on alignments of cDNA and protein onto the genome sequence) for a reliable and complete gene annotation.
Environmental Science and Pollution Research, 2015
The exploration of marine Actinobacteria has as major challenge to answer basic questions of micr... more The exploration of marine Actinobacteria has as major challenge to answer basic questions of microbial ecology that, in turn, will provide useful information to exploit Actinobacteria metabolisms in biotechnological processes. The ecological functions performed by Actinobacteria in marine sediments are still unclear and belongs to the most burning basic questions. The comparison of Actinobacteria communities inhabiting marine sediments that are under the influence of different contamination types will provide valuable information in the adaptation capacities of Actinobacteria to colonize specific ecological niche. In the present study, the characterization of different Actinobacteria assemblages according to contamination type revealed the ecological importance of Actinobacteria for maintaining both general biogeochemical functions through a "core" Actinobacteria community and specific roles associated with the presence of contaminants. Indeed, the results allowed to distinguish Actinobacteria genera and species operational taxonomic units (OTUs) able to cope with the presence of either (i) As, (ii) metals Ni, Fe, V, Cr, and Mn, or (iii) polycyclic aromatic hydrocarbons (PAHs) and toxic metals (Hg, Cd, Cu, Pb, and Zn). Such observations highlighted the metabolic capacities of Actinobacteria and their potential that should be taken into consideration and advantage during the implementation of bioremediation processes in marine ecosystems.
Sažetak: The sponge Aplysina aerophoba Schmidt, 1862 (Demospongiae, Verongida, Aplysinidae) is on... more Sažetak: The sponge Aplysina aerophoba Schmidt, 1862 (Demospongiae, Verongida, Aplysinidae) is one of the most common sponges in the Limski kanal. The family Aplysinidae Carter, 1875 is a potential source for natural bioactive products. The information about ...
Abstract: Autecology of most sponge species, including Suberites domuncula in the Adriatic Sea, i... more Abstract: Autecology of most sponge species, including Suberites domuncula in the Adriatic Sea, is still unknown, as there are gaps in our knowledge of, for example, growth, migration, behavior, and symbiosis. The main objective of this study was to compile additional ...
The evaluation of the alochthonous and cosmopolitan mosquitofish species Gambusia affinis suitabi... more The evaluation of the alochthonous and cosmopolitan mosquitofish species Gambusia affinis suitability as a bioindicator species and the induction of its liver cytochrome P450-dependent mixed function oxygenase (MFO), measured as the 7-ethoxyresorfin-O-deethylase (EROD) activity, as well as changes in DNA integrity, measured by the Fast Micromethod, for the monitoring of organochlorine fresh water pesticide contamination, were the main aims of the study. The test mosquitofish were exposed under laboratory conditions to several doses (0.1, 10 and 100 microg l(-1)) of lindane in experimental basins for up to 7 days, and a subsequent field study was carried out at five natural ponds in the south-western Istrian peninsula, Croatia, where up to 10 fish were collected from each pond. Results obtained during the studies showed positive correlations between the measured biomarkers in G. affinis liver (EROD activity and DNA integrity status) and lindane (laboratory experiment) or persistent organochlorine pollutant amounts in natural pond sediments (field study). The clear dose-responses of EROD activity and DNA integrity deterioration in G. affinis were recorded after exposure to 0.1-10 microg/l lindane and 96 h exposure to lindane, respectively. The results indicate that the mosquitofish G. affinis, due to its biological-ecological characteristics and the biomarker dose-response, is suitable for the monitoring of fresh water organochlorine pesticide contamination in general and lindane in particular.
The marine mussel Mytilus galloprovincialis lives attached to the surface of hard substrata, wher... more The marine mussel Mytilus galloprovincialis lives attached to the surface of hard substrata, where its exposure and relative immobility allow it to record changes in ambient seawater. It is also found along the eastern coast of the Adriatic Sea. Oxygen and carbon isotopes were analysed for calcite and aragonite in separate shell layers, while major, minor and trace elements in the bulk shell were analysed to evaluate environmental conditions such as the temperature of carbonate deposition, freshwater influence and locations of anthropogenic pollution. We found that, on average, aragonite is enriched by 1.1‰ in (13)C and by 0.2‰ in (18)O compared with calcite. The calculated temperatures for M. galloprovincialis shell growth from the investigated area range from 13.4 to 20.9 °C for calcite and from 16.6 to 23.1 °C for aragonite. According to the δ(18)O and δ(13)C values of shell layers, we can separate the investigated area into three locations: those with more influence of freshwater, those with less influence of freshwater and those with marine environments. The highest concentrations of manganese, barium, boron, arsenic, nickel and chromium were observed in shells from Omis, Bacvice and Zablace (Central Adriatic) and Sv. Ivan (South Adriatic), where chemical and heavy industries are located and where sewage is known to be discharged into coastal areas. The highest concentrations of zinc, lead and copper were measured in samples from Pula, Rijeka and Gruz, where there are also ports in addition to industry.
Abstract: Organisms living in the estuarine habitats, near to urban and industrial areas are ofte... more Abstract: Organisms living in the estuarine habitats, near to urban and industrial areas are often subjected to interactions of varying natural stressors and diverse anthropogenic impacts, possibly modulating environmental trace metals bioavailability. Biomarker ...
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Papers by Bojan Hamer