| 1. |
|
|
| 2. |
- Klionsky, Daniel J., et al.
(författare)
-
Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
-
Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
-
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.
|
|
| 3. |
|
|
| 4. |
- Wang, Longxin, et al.
(författare)
-
Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Quercus variabilis)
- 2023
-
Ingår i: Frontiers in Plant Science. - : Frontiers Media S.A.. - 1664-462X. ; 14
-
Tidskriftsartikel (refereegranskat)abstract
- The Quercus variabilis, a deciduous broadleaved tree species, holds significant ecological and economical value. While a chromosome-level genome for this species has been made available, it remains riddled with unanchored sequences and gaps. In this study, we present a nearly complete comprehensive telomere-to-telomere (T2T) and haplotype-resolved reference genome for Q. variabilis. This was achieved through the integration of ONT ultra-long reads, PacBio HiFi long reads, and Hi-C data. The resultant two haplotype genomes measure 789 Mb and 768 Mb in length, with a contig N50 of 65 Mb and 56 Mb, and were anchored to 12 allelic chromosomes. Within this T2T haplotype-resolved assembly, we predicted 36,830 and 36,370 protein-coding genes, with 95.9% and 96.0% functional annotation for each haplotype genome. The availability of the T2T and haplotype-resolved reference genome lays a solid foundation, not only for illustrating genome structure and functional genomics studies but also to inform and facilitate genetic breeding and improvement of cultivated Quercus species.
|
|
| 5. |
- Yang, Dong, et al.
(författare)
-
Encapsulation of Halocarbons in a Tetrahedral Anion Cage
- 2015
-
Ingår i: Angewandte Chemie International Edition. - : Wiley. - 1433-7851 .- 1521-3773. ; 54:30, s. 8658-8661
-
Tidskriftsartikel (refereegranskat)abstract
- Caged supramolecular systems are promising hosts for guest inclusion, separation, and stabilization. Well-studied examples are mainly metal-coordination-based or covalent architectures. An anion-coordination-based cage that is capable of encapsulating halocarbon guests is reported for the first time. This A(4)L(4)-type (A=anion) tetrahedral cage, [(PO4)(4)L-4](12-), assembled from a C-3-symmetric tris(bisurea) ligand (L) and phosphate ion (PO43-), readily accommodates a series of quasi-tetrahedral halocarbons, such as the Freon components CFCl3, CF2Cl2, CHFCl2, and C(CH3)F-3, and chlorocarbons CH2Cl2, CHCl3, CCl4, C(CH3)Cl-3, C(CH3)(2)Cl-2, and C(CH3)(3)Cl. The guest encapsulation in the solid state is confirmed by crystal structures, while the host-guest interactions in solution were demonstrated by NMR techniques.
|
|
| 6. |
- Zhao, Biao, Dr, et al.
(författare)
-
A Numerical Study of Tropical Cyclone and Ocean Responses to Air‐Sea Momentum Flux at High Winds
- 2024
-
Ingår i: Journal of Geophysical Research - Oceans. - : American Geophysical Union (AGU). - 2169-9275 .- 2169-9291. ; 129:7
-
Tidskriftsartikel (refereegranskat)abstract
- The relationship between minimum sea level pressure (MSLP) and maximum wind speed, is a commonly employed metric for assessing tropical cyclone (TC) forecast skill. However, accurately reproducing this relationship in TC forecasts is challenging. By introducing a new air-sea momentum flux scheme considering both wave state and saturation (decrease) effect at high winds into a fully coupled atmosphere-ocean-wave model, our numerical results reveal that the maximum wind speed and MSLP respond oppositely to the air-sea momentum flux change. The simulated wind-pressure relationship aligns well with observations when the new flux scheme is used. This study highlights the large sensitivity of wind-pressure relationship to the air-sea momentum flux parameterization at high winds. Furthermore, the air-sea momentum flux has a significant effect on ocean wave characteristics and sea surface temperature (SST) cooling in TC simulations.
|
|
| 7. |
|
|
| 8. |
|
|
| 9. |
|
|
| 10. |
- Zhao, Jie, et al.
(författare)
-
Phosphate-induced fluorescence of a tetraphenylethene-substituted tripodal tris(urea) receptor
- 2016
-
Ingår i: Dalton Transactions. - : Royal Society of Chemistry (RSC). - 1477-9226 .- 1477-9234. ; 45:17, s. 7360-7365
-
Tidskriftsartikel (refereegranskat)abstract
- A tetraphenylethene (TPE)-decorated tripodal tris(urea) ligand L was synthesized, which shows large emission enhancement when binding to an orthophosphate anion (PO43-), but exhibits only weak or no fluorescence with other anions. The anion-binding and fluorescence properties were studied by X-ray crystal structure, NMR and fluorescence spectroscopy, and by DFT computations and the results demonstrate that the different fluorescence performance may be determined by the anion-binding modes (i.e., full-or half-encapsulation).
|
|
