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1.
Combined toxic effects of BPA and its two analogues BPAP and BPC in a 3D HepG2 cell model
Martina Štampar, Tim Ravnjak, Ana-Marija Domijan, Bojana Žegura, 2023, izvirni znanstveni članek

Povzetek: Bisphenol A (BPA) is one of the most commonly used substances in the manufacture ofvarious everyday products. Growing concerns about its hazardous properties, including endocrinedisruption and genotoxicity, have led to its gradual replacement by presumably safer analogues inmanufacturing plastics. The widespread use of BPA and, more recently, its analogues has increasedtheir residues in the environment. However, our knowledge of their toxicological profiles is limitedand their combined effects are unknown. In the present study, we investigated the toxic effectscaused by single bisphenols and by the combined exposure of BPA and its two analogues, BPAP andBPC, after short (24-h) and prolonged (96-h) exposure in HepG2 spheroids. The results showed thatBPA did not reduce cell viability in HepG2 spheroids after 24-h exposure. In contrast, BPAP andBPC affected cell viability in HepG2 spheroids. Both binary mixtures (BPA/BPAP and BPA/BPC)decreased cell viability in a dose-dependent manner, but the significant difference was only observedfor the combination of BPA/BPC (both at 40μM). After 96-h exposure, none of the BPs studiedaffected cell viability in HepG2 spheroids. Only the combination of BPA/BPAP decreased cellviability in a dose-dependent manner that was significant for the combination of 4μM BPA and 4μMBPAP. None of the BPs and their binary mixtures studied affected the surface area and growth ofspheroids as measured by planimetry. In addition, all BPs and their binary mixtures studied triggeredoxidative stress, as measured by the production of reactive oxygen species and malondialdehyde,at both exposure times. Overall, the results suggest that it is important to study the effects of BPsas single compounds. It is even more important to study the effects of combined exposures, as thecombined effects may differ from those induced by single compounds.
Ključne besede: BP analogues, hepatic in vitro 3D cell model, combined exposure, viability, oxidative stress, toxicology
Objavljeno v DiRROS: 12.07.2024; Ogledov: 17; Prenosov: 6
.pdf Celotno besedilo (2,18 MB)
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Uporabnost nacionalnih podatkov laserskega skeniranja in cikličnega aerofotografiranja pri zaznavanju gozdnih vrzeli
Anže Martin Pintar, Mitja Skudnik, 2024, izvirni znanstveni članek

Povzetek: Gozdna tla zastirajo drevesne krošnje in gozdna vrzel je vsaka večja ali manjša površina tal, ki je ne prekrivajo krošnje zgornjega sloja dreves. Velikost vrzeli vpliva na to, katera drevesna vrsta se bo pomladila, pa tudi na vertikalno in horizontalno strukturo gozda. Na Pohorju (Pahernikova gozdna posest, za katero so značilni gozdovi, v katerih se na majhnih površinah pojavljajo drevesa različnih premerov in starosti) smo analizirali možnosti samodejnega zaznavanja vrzeli na podlagi podatkov Laserskega skeniranja Slovenije (LSS) in Cikličnega aerofotografiranja Slovenije (CAS). Uporabili smo digitalna modela krošenj (DMK), pridobljena iz obeh virov podatkov. Skupna natančnost zaznavanja tudi najmanjših vrzeli (manjših od 50 m2 ) na podlagi podatkov LSS je znašala 94,4 %, na podlagi podatkov CAS pa 83,1 %. Na podlagi podatkov LSS je mogoče zaznati večje število in površino vrzeli, prav tako so vrzeli, pridobljene na podlagi podatkov LSS, bolj razčlenjene in podolgovate. Zaznavanje vrzeli s podatki CAS in LSS je medsebojno bolj primerljivo pri najmanjših površinah vrzeli 100 m2 , natančnost zaznave takšnih vrzeli je 85,4 oziroma 94,4 %. Rezultati kažejo, da je ob odsotnosti podatkov LSS uporaba podatkov CAS za določanje vrzeli smiselna na velikopovršinski ravni in pri zaznavanju vrzeli, večjih od 100 m2 .
Ključne besede: raznomerni gozdovi, raznodobni gozdovi, digitalni model krošenj, gozdna vrzel, daljinsko zaznavanje, Lasersko skeniranje Slovenije, LSS, Ciklično aerofotografiranje Slovenije, CAS
Objavljeno v DiRROS: 08.07.2024; Ogledov: 49; Prenosov: 15
.pdf Celotno besedilo (2,77 MB)
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Evidence-based unification of potato gene models with the UniTato collaborative genome browser
Maja Zagorščak, Jan Zrimec, Carissa Bleker, Nadja Francesca Nolte, Mojca Juteršek, Živa Ramšak, Kristina Gruden, Marko Petek, 2024, izvirni znanstveni članek

Povzetek: Potato (Solanum tuberosum) is the most popular tuber crop and a model organism. A variety of gene models for potato exist, and despite frequent updates, they are not unified. This hinders the comparison of gene models across versions, limits the ability to reuse experimental data without significant re-analysis, and leads to missing or wrongly annotated genes. Here, we unify the recent potato double monoploid v4 and v6 gene models by developing an automated merging protocol, resulting in a Unified poTato genome model (UniTato). We subsequently established an Apollo genome browser (unitato.nib.si) that enables public access to UniTato and further community-based curation. We demonstrate how the UniTato resource can help resolve problems with missing or misplaced genes and can be used to update or consolidate a wider set of gene models or genome information. The automated protocol, genome annotation files, and a comprehensive translation table are provided at github.com/NIB-SI/unitato.
Ključne besede: bioinformatics analysis, plant genome annotation, gene model annotations, Phureja group, GFF files, poTato genome model, UniTato
Objavljeno v DiRROS: 11.06.2024; Ogledov: 111; Prenosov: 97
.pdf Celotno besedilo (2,48 MB)
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Discovering unknown Madagascar biodiversity : integrative taxonomy of raft spiders (Pisauridae: Dolomedes)
Kuang-Ping Yu, Matjaž Kuntner, 2024, izvirni znanstveni članek

Povzetek: Madagascar is a global biodiversity hotspot, but its biodiversity continues to be underestimated and understudied. Of raft spiders, genus Dolomedes Latreille, 1804, literature only reports two species on Madagascar. Our single expedition to humid forests of eastern and northern Madagascar, however, yielded a series of Dolomedes exemplars representing both sexes of five morphospecies. To avoid only using morphological diagnostics, we devised and tested an integrative taxonomic model for Dolomedes based on the unified species concept. The model first determines morphospecies within a morphometrics framework, then tests their validity via species delimitation using COI. It then incorporates habitat preferences, geological barriers, and dispersal related traits to form hypotheses about gene flow limitations. Our results reveal four new Dolomedes species that we describe from both sexes as Dolomedes gregoric sp. nov., D. bedjanic sp. nov., D. hydatostella sp. nov., and D. rotundus sp. nov. The range of D. kalanoro Silva & Griswold, 2013, now also known from both sexes, is expanded to eastern Madagascar. By increasing the known raft spider diversity from one valid species to five, our results merely scratch the surface of the true Dolomedes species diversity on Madagascar. Our integrative taxonomic model provides the framework for future revisions of raft spiders anywhere.
Ključne besede: raft spiders, integrative taxonomic model, Madagascar, biodiversity, integrative taxonomy, zoology
Objavljeno v DiRROS: 16.05.2024; Ogledov: 221; Prenosov: 257
.pdf Celotno besedilo (92,86 MB)
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Influence of casting defects on damage evolution and potential failures in hot rolling simulation system
Umut Hanoglu, Božidar Šarler, 2023, izvirni znanstveni članek

Ključne besede: simulation, rolling, steel, slice model, meshless, radial basis functions, damage
Objavljeno v DiRROS: 18.04.2024; Ogledov: 243; Prenosov: 132
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