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- Abarenkov, Kessy, et al.
(författare)
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The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered
- 2024
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Ingår i: Nucleic Acids Research. - 0305-1048 .- 1362-4962. ; 52:D1, s. D791-D797
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Tidskriftsartikel (refereegranskat)abstract
- UNITE (https://unite.ut.ee) is a web-based database and sequence management environment for molecular identification of eukaryotes. It targets the nuclear ribosomal internal transcribed spacer (ITS) region and offers nearly 10 million such sequences for reference. These are clustered into similar to 2.4M species hypotheses (SHs), each assigned a unique digital object identifier (DOI) to promote unambiguous referencing across studies. UNITE users have contributed over 600 000 third-party sequence annotations, which are shared with a range of databases and other community resources. Recent improvements facilitate the detection of cross-kingdom biological associations and the integration of undescribed groups of organisms into everyday biological pursuits. Serving as a digital twin for eukaryotic biodiversity and communities worldwide, the latest release of UNITE offers improved avenues for biodiversity discovery, precise taxonomic communication and integration of biological knowledge across platforms. Graphical Abstract
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| 2. |
- Da, Chau Thi, et al.
(författare)
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Recycled pangasius pond sediments as organic fertilizer for vegetables cultivation : strategies for sustainable food production
- 2023
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Ingår i: Clean Technologies and Environmental Policy. - : Springer Science and Business Media LLC. - 1618-954X .- 1618-9558. ; 25:2, s. 369-380
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Tidskriftsartikel (refereegranskat)abstract
- Intensive Pangasius aquaculture farming contributes to increased income and profits in Vietnam, but is also associated with many environmental problems, including pollution from nutrient-rich water and sediments that are released into the environment. This article investigates the feasibility of using Pangasius pond sediments (PPS) in combination with amendments of rice straw (RS) to fertilize cucumber (Cucumis sativus L.) and water spinach (Ipomoea aquatica Forssk) plant. The results showed that mixing a ratio of 30% PPS with 70% RS produced the highest nutrient concentrations. The study demonstrates that organic fertilizer produced from PPS in combination with chemical fertilizer can replace 2575% of the inorganic fertilizers used as a nutrient source for cucumber and water spinach, and also increase the vegetable production. The highest yields were found for treatment PPS-3 (a combination of 50% chemical fertilizer and 50% organic fertilizer used on cucumber), and for treatment PPSRS-4 (a combination of 25% chemical fertilizer and 75% organic fertilizer used on water spinach) in both the wet and dry season (P˂0.05). The lowest yields were found when growing cucumbers and water spinach either with 100% organic fertilizer (the treatment PPS-5) or with 100% chemical fertilizer (the control treatment PPS-1), respectively (P˂0.05). Overall, the results indicated that the recycling of PPS as organic fertilizer and chemical fertilizer in combination for vegetable cultivation is more environmentally friendly as compared to using only chemical fertilizers.
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| 3. |
- Nilsson, R. Henrik, 1976, et al.
(författare)
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How, not if, is the question mycologists should be asking about DNA-based typification
- 2023
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Ingår i: MycoKeys. - : Pensoft Publishers. - 1314-4057 .- 1314-4049. ; :96, s. 143-157
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Tidskriftsartikel (refereegranskat)abstract
- Fungal metabarcoding of substrates such as soil, wood, and water is uncovering an unprecedented number of fungal species that do not seem to produce tangible morphological structures and that defy our best attempts at cultivation, thus falling outside the scope of the International Code of Nomenclature for algae, fungi, and plants. The present study uses the new, ninth release of the species hypotheses of the UNITE database to show that species discovery through environmental sequencing vastly outpaces traditional, Sanger sequencing-based efforts in a strongly increasing trend over the last five years. Our findings chal-lenge the present stance of some in the mycological community - that the current situation is satisfactory and that no change is needed to "the code" - and suggest that we should be discussing not whether to allow DNA-based descriptions (typifications) of species and by extension higher ranks of fungi, but what the precise requirements for such DNA-based typifications should be. We submit a tentative list of such criteria for further discussion. The present authors hope for a revitalized and deepened discussion on DNA-based typification, because to us it seems harmful and counter-productive to intentionally deny the overwhelming majority of extant fungi a formal standing under the International Code of Nomenclature for algae, fungi, and plants.
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| 6. |
- Vu, Thi Huyen, et al.
(författare)
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Modified Fluoroquinolones as Antimicrobial Compounds Targeting Chlamydia trachomatis
- 2022
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Ingår i: International Journal of Molecular Sciences. - : MDPI. - 1661-6596 .- 1422-0067. ; 23:12
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Tidskriftsartikel (refereegranskat)abstract
- Chlamydia trachomatis causes the most common sexually transmitted bacterial infection and trachoma, an eye infection. Untreated infections can lead to sequelae, such as infertility and ectopic pregnancy in women and blindness. We previously enhanced the antichlamydial activity of the fluoroquinolone ciprofloxacin by grafting a metal chelating moiety onto it. In the present study, we pursued this pharmacomodulation and obtained nanomolar active molecules (EC50) against this pathogen. This gain in activity prompted us to evaluate the antibacterial activity of this family of molecules against other pathogenic bacteria, such as Neisseria gonorrhoeae and bacteria from the ESKAPE group. The results show that the novel molecules have selectively improved activity against C. trachomatis and demonstrate how the antichlamydial effect of fluoroquinolones can be enhanced.
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