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Altmetric Donut Measures Online Activity Surrounding Research Papers

Altmetric Donut Measures Online Activity Surrounding Research Papers | iBB | Scoop.it
A single research output may live online in multiple websites and can be talked about across dozens of different platforms. Altmetrics are metrics and qualitative data that are complementary to traditional, citation-based metrics. They can include peer reviews on Faculty of 1000, citations on Wikipedia, discussions on research blogs, mainstream media coverage, bookmarks on reference managers like Mendeley, and mentions on social networks such as Twitter and Facebook. This disparate information is collected, collated and visually displayed in the form of an Altmetric donut, that is made up of colors that reflect the mix of sources mentioning an article. The Altmetric ‘score’ for an article will appear in the middle of the donut, and is a measure derived from volume, sources and authors, each having an assigned value. Click on title to learn more.
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iBB and DBE researchers identify novel bacterial species from marine sponges in Portugal

iBB and DBE researchers identify novel bacterial species from marine sponges in Portugal | iBB | Scoop.it

The marine bacterial genus Aquimarina (Flavobacteriaceae, Bacteroidota) receives increased attention due to its versatile natural product biosynthesis capacity and antimicrobial activities. iBB and DBE researchers Joana Couceiro,Matilde Marques, Sandra Silva, Tina Keller-Costa and Rodrigo Costa identified two novel Aquimarina species, Aquimarina aquimarini Aq135T and Aquimarina spinulae Aq349T, isolated from marine sponges in Portugal, and describe them in the International Journal of Systematic and Evolutionary Microbiology. Aq135T is known for its production of a unique set of peptide antibiotics, aquimarins, while Aq349T is known to produce the trans-AT polyketide cuniculene. In their polyphasic approach, the researchers used phylogenetic, phylogenomic, phenotypic, and biochemical analyses to determine the novel species statuses of both strains. The bacteria are available in BSRG-iBB’s culture collection associated with the ‘Portuguese Blue Biobank’ of the Blue Bioeconomy Pact and can be purchased at three internationally recognized culture collections - DSMZ, ATCC, and UCCCB.

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Ana Melo received a Visiting Researcher Award from FAPESP

Ana Melo received a Visiting Researcher Award from FAPESP | iBB | Scoop.it

Ana Melo obtained a Visiting Researcher Award from the São Paulo Research Foundation (FAPESP), Brazil. This funding allowed her to stay in Brazil during October 2023 for: i) Visiting the Laboratory of Professor Rosangela Itri at Physics Institute, University of São Paulo (IFUSP); ii) Performing measurements at the Brazilian Synchrotron Sirius -4th Generation (Campinas, São Paulo State); Iii) Participating in the 47th Annual Meeting of Brazilian Biophysical Society (SBBf, Unicamp Convention Center from 19 to 22 October 2023).

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Miguel Cacho Teixeira received an Honorable Mention in the 2023 edition of the ULisboa/CGD Scientific Awards

Miguel Cacho Teixeira received an Honorable Mention in the 2023 edition of the ULisboa/CGD Scientific Awards | iBB | Scoop.it

Miguel Cacho Teixeira’s research impact was acknowledged in this year’s edition of the ULisboa/CGD scientific awards. Miguel received an honorable mention for his work in the category "Biology, Biological Engineering, Biochemistry and Biotechnology". His work is focused on understanding, in a Systems Biology perspective, the mechanisms underlying yeast evolution and stress adaptation, with particular focus on pathogenesis and drug resistance displayed by Candida species. The award ceremony took place on the 23rd of November 2023.

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Congratulation Miguel!!

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The Hrk1 kinase is a determinant of acetic acid tolerance in yeast by modulating H+ and K+ homeostasis

The Hrk1 kinase is a determinant of acetic acid tolerance in yeast by modulating H+ and K+ homeostasis | iBB | Scoop.it
A new study from iBB,  Instituto Superior Técnico, has unveiled molecular mechanisms underlying yeast tolerance to acetic acid stress. Understanding these mechanisms is crucial for enhancing yeast performance in industrial applications for a circular bio-based economy.  Notably, the Hrk1 kinase has emerged as a novel key player in acetic acid stress response and tolerance. Hrk1 was shown to play a role in the activation of plasma membrane H+-ATPase, thereby maintaining pH homeostasis, and in the modulation of plasma membrane potential under acetic acid-stressed cultivation. Potassium (K+) supplementation of the growth medium led to a notable improvement in acetic acid stress tolerance of the hrk1∆ strain. Moreover, abrogation of this kinase's expression was shown to confer a physiological advantage to growth under K+ limitation in the absence of acetic acid stress. The work was led by Prof. Isabel Sá-Correia and the first author is the PhD student in Biotechnology and Biosciences, Miguel Antunes. The contribution of Dr Hana Sychrová's laboratory, Institute of Physiology, Czech Academy of Sciences in the context of Yeast4Bio COST Action CA18229 funded by STSM grant, is acknowledged.

 

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Catarina Jones presents at the 7th annual conference of RedeSAÚDE and wins best University of Lisbon master thesis award

Catarina Jones presents at the 7th annual conference of RedeSAÚDE and wins best University of Lisbon master thesis award | iBB | Scoop.it

The work developed by the master’s student Catarina Jones, supervised by Teresa Esteves and Paola Sanjuan-Alberte, entitled “Novel wireless Nanobioelectronic Systems to Rewire Cancer Bioelectricity” was selected among several works developed at the University of Lisbon (UL) and presented at the 7th annual conference of RedeSAÚDE on the 14th of November. This research, which developed an effective, targeted, and non-invasive therapy for breast cancer by exploiting cancer's unique bioelectrical properties, was awarded as the Best Master Thesis in the Oncology and Precision Medicine field at UL.  This project emphasized the critical role of interdisciplinary teamwork in pioneering and achieving breakthroughs in healthcare innovation.

A heartfelt appreciation is given to RedeSAÚDE's organizers for bringing together experts from various healthcare fields, fostering an environment of innovative thinking and providing substantial incentives for biotech research and innovation.

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An evolved strain of the oleaginous yeast Rhodotorula toruloides exhibits an altered cell envelope

An evolved strain of the oleaginous yeast Rhodotorula toruloides exhibits an altered cell envelope | iBB | Scoop.it

A new study from iBB, carried out within the scope of the Mobilizer Project Move2LowC, was published in the Journal of Fungi. The work describes the development, by adaptive laboratory evolution (ALE), of an evolved strain of the oleaginous yeast Rhodotorula toruloides more tolerant to the four major inhibitors present in lignocellulosic hydrolysates (LCH) (acetic acid, formic acid, hydroxymethylfurfural, and furfural). This outcome represents an advantage for the exploitation of promising lignocellulosic biomass feedstocks in bioprocesses envisaging the transition to a sustainable bio-based economy. In fact, the presence of toxic compounds in LCH is among the main barriers affecting the efficiency of lignocellulose-based fermentation processes, in particular hindering the production of intracellular lipids by oleaginous yeasts. These microbial oils are promising sustainable alternatives to vegetable oils for biodiesel production. The more protective role of the evolved strain cellular envelope (cell wall and plasma membrane) was demonstrated and the improved performance of this multi-tolerant strain for lipid production from a synthetic lignocellulosic hydrolysate medium, supplemented with those inhibitors, was confirmed. The work was led by Isabel Sá-Correia and the two first co-authors are the MSc student in Microbiology Mónica A. Fernandes, and the PhD student in Biotechnology and Biosciences Marta N. Mota. Dr. Nuno T. Faria has contributed with the lipid profile characterization.

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Widespread occurrence of chitinase genes in an iconic animal-dwelling bacterial family

Widespread occurrence of chitinase genes in an iconic animal-dwelling bacterial family | iBB | Scoop.it

Chitin is the most abundant natural polymer in the oceans, where it is primarily recycled by chitin-degrading microorganisms. Bacteria of the family Endozoicomonadaceae are prominent symbionts of sessile marine animals, particularly corals, contributing to nutrient cycling in their hosts. A new comparative genomics study, published in ISME Communications, found a widespread occurrence of chitinases, and other genes involved in chitin degradation in cultured and uncultured Endozoicomonadaceae lineages associated with diverse marine animals. The presence of multiple, distinct chitinases on the genomes of several Endozoicomonadaceae species hints at functional variation to secure effective chitin processing in diverse micro-habitats and changing environmental conditions. This study concludes that Endozoicomonadaceae symbionts likely play important roles in chitin turnover in filter- and suspension-feeding animals and in benthic, marine ecosystems at large. The work was developed by MSc students Daniela Silva and Filipa Pedrosa in the framework of the ChiCoBionts project led by iBB/DBE researcher Tina Keller-Costa with valuable contributions from professors Ângela Taipa and Rodrigo Costa.

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Miguel Cacho Teixeira delivered an invited talk at SMYTE 2023

Miguel Cacho Teixeira delivered an invited talk at SMYTE 2023 | iBB | Scoop.it

Miguel Cacho Teixeira, iBB, DBE, Instituto Superior Técnico, University of Lisbon, delivered an invited talk on the Small Meeting on Yeast Transport and Energetics (SMYTE) 2023 meeting, that took place in Blankenberge, Belgium, from 13-17 september 2023. The talk was intitled “Outward and inward azole transport in Candida glabrata” and included exciting new results on the role of hexose transporters as importers of azole antifungal drugs. SMYTE 23 was additionally a great opportunity to reconnect with the active community working in the field of solute transport in yeasts, including structure, function and regulation of transport proteins combined with signaling, homeostasis, physiology and drug resistance.

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2nd Microbiome PT Summit

2nd Microbiome PT Summit | iBB | Scoop.it

The 2nd Microbiome PT Summit is taking place on October 26-27 in Lisbon and will gather renowned scientists performing microbiome-based research across the health, environment, industry, and bioeconomy sectors. The registration is free and early-stage researchers are welcome to send abstracts and project ideas for presentation. Please visit the website of the event at https://biodata.pt/microbiome

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A Lateral Flow Immunoassay with Graphene Oxide Coating for Traumatic Brain Injury Diagnosis

A Lateral Flow Immunoassay with Graphene Oxide Coating for Traumatic Brain Injury Diagnosis | iBB | Scoop.it

Lateral Flow Assays (LFA) are point-of-care devices with impact in healthcare. In a paper published in Sensors and Actuators B, Miguel Prazeres and colleagues from the Indian Institute of Technology (Madras) propose a LFA for traumatic brain injury (TBI) diagnostics. The new LFA employs graphene oxide (GO) particles on nitrocellulose (NC) test strips to quantitatively detect the biomarker ubiquitin carboxyl-terminal hydrolase-L1 (UCH-L1). The incorporation of 80 ng of GO at test lines boosted fluorescence signals by 2–3 times by enhancing the immobilization of capture antibodies. With LOD and LOQ that match UCH-L1 threshold levels, the assay effectively analyzed mock plasma samples simulating TBI patients. In summary, the use of GO particles in the test zone of NC strips improves signal intensity, which could potentially enhance the accuracy and efficiency of LFA-based diagnosis.

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SCERG-iBB researcher João Carlos Silva was awarded with a ON Foundation Education Travel Grant to attend EORS 2023

SCERG-iBB researcher João Carlos Silva was awarded with a ON Foundation Education Travel Grant to attend EORS 2023 | iBB | Scoop.it

João Carlos Silva was awarded with one of the Education Travel Grants of the Orthoregeneration Network (ON) Foundation to participate and share the latest developments of his research work on novel strategies for bone and cartilage tissue engineering in the European Orthopaedic Research Society (EORS) conference meeting 2023, which will be held on the 27th-29th September at the Alfandega Porto Congress Centre, Porto-Portugal.

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Life on our planet depends on microorganisms

Life on our planet depends on microorganisms | iBB | Scoop.it

As part of the celebrations of the International Microorganism Day (September 17th), the Academy of Sciences of Lisbon (ACL) and its Institute of Higher Studies, in collaboration with the Portuguese Society of Microbiology (SPM), organize, on the 18th September, Monday, an afternoon to promote Microbiology. The session includes talks by Isabel Sá-Correia who will moderate the colloquium, and Tinar Keller-Costa, both from DBE and iBB.

 

In the midst of the climate crisis, the colloquium's theme is: LIFE ON OUR PLANET DEPENDS ON MICROORGANISMS. The session is open and will take place, in a hybrid format, in the ACL session room, as well as on the Zoom platform. The session will take place in Portuguese, with the exception of the last talk which will be in English: SAVE THE MICROBES TO SAVE THE PLANET to be presented by the President of the International Union of Microbiological Societies (IUMS), it is a call to action to promote the development of sustainable solutions to control infectious agents, preserve global microbial diversity and healthy life on our planet.

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Hydroxyapatite-filled osteoinductive and piezoelectric nanofibers for bone tissue engineering

Hydroxyapatite-filled osteoinductive and piezoelectric nanofibers for bone tissue engineering | iBB | Scoop.it

The production of piezoelectric constructs in order to address osteoporotic-related fractures holds significant promise. Such scaffolds could be used to mimic the native piezoelectric features of bone as well as assisting electrical stimulation-based therapies, which have been found to accelerate bone repair. In an article recently published in the journal Science and Technology of Advanced Materials, iBB researchers Frederico Barbosa, João Silva, Fábio Garrudo, Marta Carvalho, Paola Alberte, Leonor Resina and Frederico Ferreira, in collaboration with colleagues from the University of Nottingham and the Universitat Politècnica de Catalunya, developed novel hydroxyapatite-filled PVDF-TrFE nanofibers with enhanced piezoelectrical properties and osteogenic potential.

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Book chapter on Redox enzymes in detergent formulations

Book chapter on Redox enzymes in detergent formulations | iBB | Scoop.it

Environmental concerns have driven the incorporation of enzymes in detergents. Redox enzymes, such as oxidases and peroxidases, stand out as green bleaching agents, offering sustainability by reducing reliance on harsh chemicals and enhancing energy efficiency. In a chapter published in “Microbial Oxidative Enzymes”, Pedro Fernandes presents the current state of the art and foreseen developments regarding the crucial role of redox enzymes in fostering a sustainable, eco-conscious approach in the field of detergent formulations.

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Natural product biosynthetic potential reflects macroevolutionary diversification in Flavobacteria

Natural product biosynthetic potential reflects macroevolutionary diversification in Flavobacteria | iBB | Scoop.it

A new article, published in mSystems, delved into the secondary metabolite biosynthesis potential of Flavobacteriaceae to find highly intertwined phylogenetic-secondary metabolism relationships within this family. The authors examined 2,680 genomes to suggest that the carbohydrate, peptide, and secondary metabolism triad synergistically shaped the evolution of this keystone and widely distributed bacterial taxon. These features likely underpin the broad host range and opportunistic-to-pathogenic behaviour encompassed by species in this family. This study breaks new ground for future research on select Flavobacteriaceae spp. as reservoirs of novel drug leads. Particularly, it highlights a versatile secondary metabolism among species belonging to the genera Aquimarina and Kordia, which should be explored in future natural product research endeavours. The study was first-authored by former iBB/DBE PhD student Sandra Silva and coordinated by professor Rodrigo Costa, counting on expert contributions from iBB/DBE scientist Tina Keller-Costa, and Ulisses Nunes da Rocha and Masun Homsi from the Helmholtz Centre for Environmental Research, Leipzig, Germany.

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Diogo Couceiro was awarded a Best Poster Prize at MicroBiotec 2023

Diogo Couceiro was awarded a Best Poster Prize at MicroBiotec 2023 | iBB | Scoop.it

Diogo Couceiro, a PhD student in Biotechnology and Biosciences of Instituto Superior Técnico, under de supervision of Pedro Monteiro (DEI/INESC-ID) and Miguel Cacho Teixeira (DBE/iBB) was awarded a Best Poster Prize at the MicroBiotec 2023 congress. Diogo presented his work intitled “Aiming at the Automation of Genome-wide Regulatory Network Inference in Saccharomyces cerevisiae”. His work aims the construction of mixed regulatory-metabolic models to guide the optimization of yeast cell factories.

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Congratulations Diogo!

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Characterization of a strain from a shallow water hydrothermal vent

Characterization of a strain from a shallow water hydrothermal vent | iBB | Scoop.it

Microbial life present in the marine environment has to be able to adapt to rapidly changing and often extreme conditions. In a recently published paper, Ricardo F.S. Pereira and Carla C.C.R. de Carvalho form iBB and colleagues from CQE and ISEL, used genomic, lipidomic and biochemical approaches to characterise a Serratia rubidaea, isolated from a sample taken at a shallow water hydrothermal vent, and its red product. Several state-of-the-art techniques, such as DSC, FTIR, NMR, and Ultra-High Resolution Qq-Time-of-Flight mass spectrometry, were used to characterize the structure of the red pigment which was found to be prodigiosin.

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iBB present at IST-Taguspark Open Day 2023

iBB present at IST-Taguspark Open Day 2023 | iBB | Scoop.it

On November 11th, the Taguspark campus was filled with activities led by our researchers, teachers and students, and a vibrant atmosphere that permeated every corner of our facilitiess.

iBB was involved with visits to our SGERG laboratories and it was a pleasure to receive our guests.

We would like to thank everyone who was involved in these activities and important day to our IST-Taguspark community.

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Metabolic modeling and drug target identification in the emerging fungal threat Candida auris

Metabolic modeling and drug target identification in the emerging fungal threat Candida auris | iBB | Scoop.it

Candida auris is an emerging human pathogen, considered a serious health threat by the CDC, being associated with antifungal drug resistance and hospital candidiasis outbreaks. Aiming an increased understanding of the unique features of this new fungal pathogen, both in terms of drug resistance and metabolic potential, the construction and validation of a global stoichiometric model describing the whole metabolic network in this human pathogen, as well as its exploitation in drug target discovery, stemming from a collaboration between researchers from iBB (Romeu Viana, Tiago Carreiro, Diogo Couceiro, Miguel Cacho Teixeira), ITQB-NOVA (Isabel Rocha) and CEB-UMinho (Óscar Dias), was just published in FEMS Yeast Research.

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AnimalAssociatedMetagenomeDB – new database unveils biases towards livestock and developed countries

AnimalAssociatedMetagenomeDB – new database unveils biases towards livestock and developed countries | iBB | Scoop.it

A new database for non-human, animal-associated metagenomic data, the AnimalAssociatedMetagenomeDB, reveals a strong sampling bias towards livestock (cattle, pigs, poultry) and animals used in medical research as well as developed countries and temperate regions. Wildlife-associated microbial metagenomes, especially from polar and tropical regions and the Global South, particularly African countries, are largely underrepresented. This study can guide researchers in host species selection in novel animal-associated metagenome research, especially in biodiversity and conservation studies. The database can also guide scientists in future meta-analyses and testing of new hypotheses, for example, on host-specificity, strain heterogeneity, or biogeography of animal-associated microbiomes, leveraging existing data. The study was led by Ulisses Nunes da Rocha and his team from the Helmholtz Centre for Environmental Research in Leipzig, Germany, and counted on specialist guidance in animal taxonomy and metadata curation from iBB/DBE researcher Tina Keller-Costa. The user-friendly web app is a valuable resource for non-bioinformaticians to find publicly available animal-associated metagenome samples with curated metadata.

iBB's insight:

Weblink to Database/Web App: https://webapp.ufz.de/aamdb/

Weblink to Article: https://animalmicrobiome.biomedcentral.com/articles/10.1186/s42523-023-00267-3

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New video and abstract book out now! LIFE ON OUR PLANET DEPENDS ON MICROORGANISMS

New video and abstract book out now! LIFE ON OUR PLANET DEPENDS ON MICROORGANISMS | iBB | Scoop.it

If you missed the InternationalMicroorganismDay session at Academia das Ciências de Lisboa, you can now watch the full video of the symposium on YouTube: https://youtu.be/hOQqn-G8I18

The talks by Isabel Sá-Correia and Tina Keller-Costa, both from Departamento de Bioengenharia and iBB - Institute for Bioengineering and Biosciences, start at 07:00 min and 01h32 min, respectively.


The abstract book with contributions from all speakers of the session is available in Portuguese and English on the ACL website.

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Click here no know more: https://www.acad-ciencias.pt/books/a-vida-no-nosso-planeta-depende-dos-microrganismos/

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Single-Particle Plasmon Sensor to Monitor Proteolytic Activity in Real Time

Single-Particle Plasmon Sensor to Monitor Proteolytic Activity in Real Time | iBB | Scoop.it

The ability of single-particle sensors to precisely detect/analyze individual entities may revolutionize medical diagnostics. In a paper published in ACS Applied Optical Materials, Rui Oliveira-Silva, Miguel Prazeres and colleagues from CQE and Eindhoven University of Technology describe a label-free plasmonic platform for real-time monitoring of proteolytic activity. The sensor comprises a random array of gold nanorods functionalized with a peptide susceptible to cleavage by thrombin, resulting in a blue shift in the longitudinal plasmon. By tracking the plasmon of individual nanorods, thrombin's activity was measured in real time. The sensor displays a dynamic range spanning over two orders of magnitude and can detect physiologically relevant levels of active thrombin down to 3 nM. This contribution to plasmon-mediated label-free sensors holds promise for applications ranging from diagnosing bleeding disorders to fundamental proteolytic and pharmacological studies.

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Book chapter on biocatalysis of steroids

Book chapter on biocatalysis of steroids | iBB | Scoop.it

Mycobacterium sp. can convert steroids such as β-sitosterol, campesterol, and cholesterol, into key intermediates that can be easily functionalized to yield commercially interesting pharmaceutical products. In a chapter published in the 2nd edition of the book “Microbial Steroids – Methods and Protocols”, Carla C.C.R. de Carvalho and Pedro Fernandes, describe the methodology for the biocatalysis of β-sitosterol to steroids, both in aqueous and organic:aqueous systems using traditional organic and green solvents.

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Meeting of project Yum Algae in Bergen

Meeting of project Yum Algae in Bergen | iBB | Scoop.it

Carla C. C. R. de Carvalho, Kilian Neves and Sebastião Tavares participated in the annual meeting of project Yum Algae, funded by programme Blue Growth of EEA Grants. The Yum Algae researchers from Instituto Superior Técnico, Instituto Superior de Agronomia, NORCE Norwegian Research Centre, and Pagarete Solutions, met at NORCE facilities in Bergen, Norway. The results presented are very promising to improve the sensory quality of microalgae ingredients in foods such as bread and cheese. Future actions were planned for the scale up of the process.

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Microbial communities on the surface of ETICS facades in residential buildings

Microbial communities on the surface of ETICS facades in residential buildings | iBB | Scoop.it

External Thermal Insulation Composite Systems (ETICS) are frequently used to enhance the energy efficiency of the built environment. However, bio-colonization stains are often detected, causing cladding defacement and altering the building aesthetics. To address which microbiota could contribute to these biodeterioration related color/aesthetic anomalies, Cristina A. Viegas and Leonilde M. Moreira from iBB, in collaboration with researchers from CERIS/DECivil-IST and LNEC, identified the taxonomic diversity and distribution patterns of the microbial communities in stains present on the surface of ETICS facades in three residential sites in Lisbon. This study reveals diverse microbial communities assigned to taxa of the major microbial groups of heterotrophic bacteria, fungi, cyanobacteria, and microalgae (through DNA plastid detection) in color/aesthetic biodeterioration stains of ETICS facades, taking into consideration in-service environmental exposure, facade location/cardinal orientation and ETICS material composition. Results suggest the need to include additional microorganisms in the list of bio-susceptibility testing organisms in ETICS.

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