| 1. |
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- 2019
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Tidskriftsartikel (refereegranskat)
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| 2. |
- Klionsky, Daniel J., et al.
(författare)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
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| 3. |
- Ariyawansa, Hiran A., et al.
(författare)
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Fungal diversity notes 111–252—taxonomic and phylogenetic contributions to fungal taxa
- 2015
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Ingår i: Fungal diversity. - : Springer Science and Business Media LLC. - 1560-2745 .- 1878-9129. ; 75, s. 27-274
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Tidskriftsartikel (refereegranskat)abstract
- This paper is a compilation of notes on 142 fungal taxa, including five new families, 20 new genera, and 100 new species, representing a wide taxonomic and geographic range. The new families, Ascocylindricaceae, Caryosporaceae and Wicklowiaceae (Ascomycota) are introduced based on their distinct lineages and unique morphology. The new Dothideomycete genera Pseudomassariosphaeria (Amniculicolaceae), Heracleicola, Neodidymella and P s e u d o m i c ros p h a e r i o p s i s ( D id y m e l l a c e a e ) , P s e u d o p i t h o m y c e s ( D i d y m o s p h a e r i a c e a e ) , Brunneoclavispora, Neolophiostoma and Sulcosporium (Halotthiaceae), Lophiohelichrysum (Lophiostomataceae), G a l l i i c o l a , Popul o c re s c e n t i a a nd Va g i c o l a (Phaeosphaeriaceae), Ascocylindrica (Ascocylindricaceae), E l o n g a t o p e d i c e l l a t a ( R o u s s o e l l a c e a e ) , Pseudoasteromassaria (Latoruaceae) and Pseudomonodictys (Macrodiplodiopsidaceae) are introduced. The newly described species of Dothideomycetes (Ascomycota) are Pseudomassariosphaeria bromicola (Amniculicolaceae), Flammeascoma lignicola (Anteagloniaceae), Ascocylindrica marina (Ascocylindricaceae) , Lembosia xyliae (Asterinaceae), Diplodia crataegicola and Diplodia galiicola ( B o t r yosphae r i a cea e ) , Caryospor a aquat i c a (Caryosporaceae), Heracleicola premilcurensis and Neodi dymell a thai landi cum (Didymellaceae) , Pseudopithomyces palmicola (Didymosphaeriaceae), Floricola viticola (Floricolaceae), Brunneoclavispora bambusae, Neolophiostoma pigmentatum and Sulcosporium thailandica (Halotthiaceae), Pseudoasteromassaria fagi (Latoruaceae), Keissleriella dactylidicola (Lentitheciaceae), Lophiohelichrysum helichrysi (Lophiostomataceae), Aquasubmersa japonica (Lophiotremataceae) , Pseudomonodictys tectonae (Macrodiplodiopsidaceae), Microthyrium buxicola and Tumidispora shoreae (Microthyriaceae), Alloleptosphaeria clematidis, Allophaeosphaer i a c y t i s i , Allophaeosphae r i a subcylindrospora, Dematiopleospora luzulae, Entodesmium artemisiae, Galiicola pseudophaeosphaeria, Loratospora(Basidiomycota) are introduced together with a new genus Neoantrodiella (Neoantrodiellaceae), here based on both morphology coupled with molecular data. In the class Agaricomycetes, Agaricus pseudolangei, Agaricus haematinus, Agaricus atrodiscus and Agaricus exilissimus (Agaricaceae) , Amanita m e l l e i a l b a , Amanita pseudosychnopyramis and Amanita subparvipantherina (Amanitaceae), Entoloma calabrum, Cora barbulata, Dictyonema gomezianum and Inocybe granulosa (Inocybaceae), Xerocomellus sarnarii (Boletaceae), Cantharellus eucalyptorum, Cantharellus nigrescens, Cantharellus tricolor and Cantharellus variabilicolor (Cantharellaceae), Cortinarius alboamarescens, Cortinarius brunneoalbus, Cortinarius ochroamarus, Cortinarius putorius and Cortinarius seidlii (Cortinariaceae), Hymenochaete micropora and Hymenochaete subporioides (Hymenochaetaceae), Xylodon ramicida (Schizoporaceae), Colospora andalasii (Polyporaceae), Russula guangxiensis and Russula hakkae (Russulaceae), Tremella dirinariae, Tremella graphidis and Tremella pyrenulae (Tremellaceae) are introduced. Four new combinations Neoantrodiella gypsea, Neoantrodiella thujae (Neoantrodiellaceae), Punctulariopsis cremeoalbida, Punctulariopsis efibulata (Punctulariaceae) are also introduced here for the division Basidiomycota. Furthermore Absidia caatinguensis, Absidia koreana and Gongronella koreana (Cunninghamellaceae), Mortierella pisiformis and Mortierella formosana (Mortierellaceae) are newly introduced in the Zygomycota, while Neocallimastix cameroonii and Piromyces irregularis (Neocallimastigaceae) ar e i n t roduced i n the Neocallimastigomycota. Reference specimens or changes in classification and notes are provided for Alternaria ethzedia, Cucurbitaria ephedricola, Austropleospora, Austropleospora archidendri, Byssosphaeria rhodomphala, Lophiostoma caulium, Pseudopithomyces maydicus, Massariosphaeria, Neomassariosphaeria and Pestalotiopsis montellica.
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| 4. |
- Zhang, Chi, et al.
(författare)
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Moisture source differences between the 2020 and 1998 super Meiyu-flood events in the Yangtze River Valley
- 2024
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Ingår i: Weather and Climate Extremes. - 2212-0947. ; 43
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Tidskriftsartikel (refereegranskat)abstract
- Two historic Meiyu events in 1998 and 2020 hit the Yangtze River Valley (YRV), causing catastrophic damage to the socio-economy. By tracking moisture supplies to the extreme precipitation events using Water Accounting Model-2Layers and ERA5 reanalysis, the moisture origins and their differences in feeding the YRV precipitation were revealed. Climatologically, the southwest monsoon channel is the most important moisture channel with the Indian Ocean contributing ∼45% and the Indo-China Peninsula contributing ∼16% of the YRV precipitation. During the two super Meiyu events, the Indian Ocean and the Indo-China Peninsula dominated the excessive moisture supply, which together contributed more than 65% of the extra precipitation. Moisture supply anomalies in 1998 and 2020 showed a robust spatial pattern of “west increase-east decrease”. When the YRV precipitation is higher than the normal, moisture mainly comes from the southwest sources, and moisture contribution from the northwestern Pacific is relatively small. We also found that the intensity of the western Pacific subtropical high is a major influencing factor that explained ∼47% of the YRV precipitation variation during 1991–2020. When it intensifies, an anomalous anticyclone is formed in the mid-lower troposphere around the tropical Northwest Pacific. In its northwestern flank, a strong southwesterly in the upwind of the YRV helps bring in more moisture through the southwest monsoon. In the downwind, it inhibits moisture supply from the northwestern Pacific Ocean. Compared with 2020, a drier condition over Indo-China Peninsula and YRV in 1998 led to a substantially less (∼29%) moisture supply to the YRV precipitation, resulting in a less strong Meiyu event in 1998.
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| 5. |
- Zhang, Chi, et al.
(författare)
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Quantifying precipitation moisture contributed by different atmospheric circulations across the Tibetan Plateau
- 2024
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Ingår i: Journal of Hydrology. - 0022-1694. ; 628
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Tidskriftsartikel (refereegranskat)abstract
- Precipitation over the Tibetan Plateau (TP) is generally influenced by the Asian monsoons, the westerlies, and the local circulation patterns. However, the exact contributions of these systems to different regions over the TP remain largely unknown. To reveal these, this study traced the origin of precipitation at four marginal and one central grid cells of the TP from 2011 to 2020. The results indicate that the Indian monsoon, the westerlies, and the local circulations are systems that exert influence on precipitation at a TP scale. The East Asian summer monsoon (EASM) is a sub-TP influencing system that mainly affects the eastern TP. Specifically, the influence of the Indian monsoon decreases rapidly from south to north while contributing 62.4–63.0 %, 30.5–32.9 %, and 7.8–8.0 % of precipitation in Grids South, Central, and North, respectively. The westerlies play a dominant role in Grids North (68.4–71.7 %) and West (52.8–54.0 %). They contribute the least 20.7–21.9 % in Grid East. The local circulations by themselves influence the strongest in Grids Central and East. The EASM's influence is strengthened in summer with the representative source contributing ∼ 18.8 % in comparison to an annual contribution of 12.8–13.1 % in Grid East. The outbreak of the Indian monsoon brings abundant moisture to the TP and elevates its influence primarily in Grids South and West. With the arrival of the rainy season, the wet TP becomes a more powerful moisture source. Consequently, most grids see an apparent strengthening in the role by the TP from spring to summer.
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| 6. |
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| 7. |
- Feigin, Valery L., et al.
(författare)
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Global, regional, and national burden of neurological disorders, 1990–2016 : a systematic analysis for the Global Burden of Disease Study 2016
- 2019
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Ingår i: Lancet Neurology. - : Elsevier. - 1474-4422 .- 1474-4465. ; 18:5, s. 459-480
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Tidskriftsartikel (refereegranskat)abstract
- Background: Neurological disorders are increasingly recognised as major causes of death and disability worldwide. The aim of this analysis from the Global Burden of Diseases, Injuries, and Risk Factors Study (GBD) 2016 is to provide the most comprehensive and up-to-date estimates of the global, regional, and national burden from neurological disorders.Methods: We estimated prevalence, incidence, deaths, and disability-adjusted life-years (DALYs; the sum of years of life lost [YLLs] and years lived with disability [YLDs]) by age and sex for 15 neurological disorder categories (tetanus, meningitis, encephalitis, stroke, brain and other CNS cancers, traumatic brain injury, spinal cord injury, Alzheimer's disease and other dementias, Parkinson's disease, multiple sclerosis, motor neuron diseases, idiopathic epilepsy, migraine, tension-type headache, and a residual category for other less common neurological disorders) in 195 countries from 1990 to 2016. DisMod-MR 2.1, a Bayesian meta-regression tool, was the main method of estimation of prevalence and incidence, and the Cause of Death Ensemble model (CODEm) was used for mortality estimation. We quantified the contribution of 84 risks and combinations of risk to the disease estimates for the 15 neurological disorder categories using the GBD comparative risk assessment approach.Findings: Globally, in 2016, neurological disorders were the leading cause of DALYs (276 million [95% UI 247–308]) and second leading cause of deaths (9·0 million [8·8–9·4]). The absolute number of deaths and DALYs from all neurological disorders combined increased (deaths by 39% [34–44] and DALYs by 15% [9–21]) whereas their age-standardised rates decreased (deaths by 28% [26–30] and DALYs by 27% [24–31]) between 1990 and 2016. The only neurological disorders that had a decrease in rates and absolute numbers of deaths and DALYs were tetanus, meningitis, and encephalitis. The four largest contributors of neurological DALYs were stroke (42·2% [38·6–46·1]), migraine (16·3% [11·7–20·8]), Alzheimer's and other dementias (10·4% [9·0–12·1]), and meningitis (7·9% [6·6–10·4]). For the combined neurological disorders, age-standardised DALY rates were significantly higher in males than in females (male-to-female ratio 1·12 [1·05–1·20]), but migraine, multiple sclerosis, and tension-type headache were more common and caused more burden in females, with male-to-female ratios of less than 0·7. The 84 risks quantified in GBD explain less than 10% of neurological disorder DALY burdens, except stroke, for which 88·8% (86·5–90·9) of DALYs are attributable to risk factors, and to a lesser extent Alzheimer's disease and other dementias (22·3% [11·8–35·1] of DALYs are risk attributable) and idiopathic epilepsy (14·1% [10·8–17·5] of DALYs are risk attributable).Interpretation: Globally, the burden of neurological disorders, as measured by the absolute number of DALYs, continues to increase. As populations are growing and ageing, and the prevalence of major disabling neurological disorders steeply increases with age, governments will face increasing demand for treatment, rehabilitation, and support services for neurological disorders. The scarcity of established modifiable risks for most of the neurological burden demonstrates that new knowledge is required to develop effective prevention and treatment strategies.Funding: Bill & Melinda Gates Foundation.
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| 8. |
- Gorai, Prasanta, 1991, et al.
(författare)
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Astrochemical Diagnostics of the Isolated Massive Protostar G28.20-0.05
- 2024
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Ingår i: Astrophysical Journal. - 1538-4357 .- 0004-637X. ; 960:2
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Tidskriftsartikel (refereegranskat)abstract
- We study the astrochemical diagnostics of the isolated massive protostar G28.20-0.05. We analyze data from Atacama Large Millimeter/submillimeter Array 1.3 mm observations with a resolution of 0.″2 (∼1000 au). We detect emission from a wealth of species, including oxygen-bearing (e.g., H2CO, CH3OH, CH3OCH3), sulfur-bearing (SO2, H2S), and nitrogen-bearing (e.g., HNCO, NH2CHO, C2H3CN, C2H5CN) molecules. We discuss their spatial distributions, physical conditions, correlation between different species, and possible chemical origins. In the central region near the protostar, we identify three hot molecular cores (HMCs). HMC1 is part of a millimeter continuum ring-like structure, is closest in projection to the protostar, has the highest temperature of ∼300 K, and shows the most line-rich spectra. HMC2 is on the other side of the ring, has a temperature of ∼250 K, and is of intermediate chemical complexity. HMC3 is further away, ∼3000 au in projection, cooler (∼70 K), and is the least line-rich. The three HMCs have similar mass surface densities (∼10 g cm−2), number densities (n H ∼ 109 cm−3), and masses of a few solar masses. The total gas mass in the cores and in the region out to 3000 au is ∼25 M ⊙, which is comparable to that of the central protostar. Based on spatial distributions of peak line intensities as a function of excitation energy, we infer that the HMCs are externally heated by the protostar. We estimate column densities and abundances of the detected species and discuss the implications for hot core astrochemistry.
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| 9. |
- Li, Jiao, et al.
(författare)
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The Quantitative Role of Moisture and Vertical Motion in Shaping Summer Heavy Rainfall over North China under Two Distinct Large-Scale Weather Patterns
- 2024
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Ingår i: JOURNAL OF CLIMATE. - 0894-8755 .- 1520-0442. ; 37:8, s. 2655-2672
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Tidskriftsartikel (refereegranskat)abstract
- Two distinct categories of weather patterns, denoted as Type 1 and Type 2, which show higher -thanexpected frequency of summer heavy rainfall days (HRDs) over North China (NC), are selected from nine weather patterns categorized by the self -organizing map algorithm during 1979-2019. The respective HRDs over NC exhibit dissimilar characteristics, with Type 1 showing a northern distribution and Type 2 a southern distribution. The quantitative disparities in terms of moisture content and vertical motion are discussed in reactions to the synoptic -scale patterns associated with HRDs. The outcomes of a 20 -day backward tracking, using the so-called Water Accounting Model-2layers, reveal noteworthy contrasts in moisture sources. Type 1 predominantly receives moisture from the western North Pacific, while Type 2 relies more on contributions from the Arabian Sea, Bay of Bengal, and Eurasia. However, the major moisture sources with grid cells contributing more than 0.01 mm show a consistent cumulative contribution of 77% for Type 1 and 80% for Type 2. The finding suggests that the discrepancy between the two types cannot be solely attributed to moisture supply. Further examination of the transverse and shearwise Q -vector components provides insights into how these distinct weather patterns influence HRDs by the alteration of vertical motion. In Type 1, an upper -level jet entrance induces a thermally direct secondary circulation that enhances vertical motion, while a baroclinic trough plays a dominant role in generating vertical motion in Type 2. Moreover, these unique configurations for each type of weather pattern are not only pre-existing but also intensified during HRDs.
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| 10. |
- Ni, Zhongjun, 1992-, et al.
(författare)
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A study of deep learning-based multi-horizon building energy forecasting
- 2024
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Ingår i: Energy and Buildings. - : ELSEVIER SCIENCE SA. - 0378-7788 .- 1872-6178. ; 303
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Tidskriftsartikel (refereegranskat)abstract
- Building energy forecasting facilitates optimizing daily operation scheduling and long-term energy planning. Many studies have demonstrated the potential of data-driven approaches in producing point forecasts of energy use. Despite this, little work has been undertaken to understand uncertainty in energy forecasts. However, many decision-making scenarios require information from a full conditional distribution of forecasts. In addition, recent advances in deep learning have not been fully exploited for building energy forecasting. Motivated by these research gaps, this study contributes in two aspects. First, this study has adapted and applied state-of-the-art deep learning architectures to address the problem of multi-horizon building energy forecasting. Eight different methods, including seven deep learning-based ones, were investigated to develop models to perform both point and probabilistic forecasts. Second, a comprehensive case study was conducted in two public historic buildings with different operating modes, namely the City Museum and the City Theatre, in Norrköping, Sweden. The performance of the developed models was evaluated, and the predictability of different scenarios of energy consumption was studied. The results show that incorporating future information on exogenous factors that determine energy use is critical for making accurate multi-horizon predictions. Furthermore, changes in the operating mode and activities held in a building bring more uncertainty in energy use and deteriorate the prediction accuracy of models. The temporal fusion transformer (TFT) model exhibited strong competitiveness in performing both point and probabilistic forecasts. As assessed by the coefficient of variance of the root mean square error (CV-RMSE), the TFT model outperformed other models in making point forecasts of both types of energy use of the City Museum (CV-RMSE 29.7% for electricity consumption and CV-RMSE 8.7% for heating load). When making probabilistic predictions, the TFT model performed best to capture the central tendency and upper distribution of heating load of the City Museum as well as both types of energy use of the City Theatre. The predictive models developed in this study can be integrated into digital twin models of buildings to discover areas where energy use can be reduced, optimize building operations, and improve overall sustainability and efficiency.
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