A novel Golgi mannosidase inhibitor: Molecular design,synthesis, enzyme inhibition,and inhibition of spheroid formation

Effective chemotherapy for solid cancers is challenging due to a limitation in permeation that prevents anticancer drugs from reaching the center of the tumor, therefore unable to limit cancer cell growth. To circumvent this issue, we planned to apply the drugs directly at the center by first collapsing the outer structure. For this, we focused on cell–cell communication (CCC) between N-glycans and proteins at the tumor cell surface. Mature N-glycans establish CCC; however, CCC is hindered when numerous immature N-glycans are present at the cell surface. Inhibition of Golgi mannosidases (GMs) results in the transport of immature N-glycans to the cell surface. This can be employed to disrupt CCC. Here, we describe the molecular design and synthesis of an improved GM inhibitor with a non-sugar mimic scaffold that was screened from a compound library. The synthesized compounds were tested for enzyme inhibition ability and inhibition of spheroid formation using cell-based methods. Most of the compounds designed and synthesized exhibited GM inhibition at the cellular level. Of those, AR524 had higher inhibitory activity than a known GM inhibitor, kifunensine. Moreover, AR524 inhibited spheroid formation of human malignant cells at low concentration (10 µM), based on the disruption of CCC by GM inhibition.     

Individualistic responses of forest herb traits to environmental change

• Intraspecific trait variation (ITV; i.e. variability in mean and/or distribution of plant attribute values within species) can occur in response to multiple drivers. Environmental change and land‐use legacies could directly alter trait values within species but could also affect them indirectly through changes in vegetation cover. Increasing variability in environmental conditions could lead to more ITV, but responses might differ among species. Disentangling these drivers on ITV is necessary to accurately predict plant community responses to global change.
• We planted herb communities into forest soils with and without a recent history of agriculture. Soils were collected across temperate European regions, while the 15 selected herb species had different colonizing abilities and affinities to forest habitat. These mesocosms (384) were exposed to two‐level full‐factorial treatments of warming, nitrogen addition and illumination. We measured plant height and specific leaf area (SLA).
• For the majority of species, mean plant height increased as vegetation cover increased in response to light addition, warming and agricultural legacy. The coefficient of variation (CV) for height was larger in fast‐colonizing species. Mean SLA for vernal species increased with warming, while light addition generally decreased mean SLA for shade‐tolerant species. Interactions between treatments were not important predictors.
• Environmental change treatments influenced ITV, either via increasing vegetation cover or by affecting trait values directly. Species’ ITV was individualistic, i.e. species responded to different single resource and condition manipulations that benefited their growth in the short term. These individual responses could be important for altered community organization after a prolonged period.

     

Potentials of mean force in acidic proton transfer reactions in constrained geometries

Free energy barriers associated with the transfer of an excess proton in water and related to the potentials of mean force in proton transfer episodes have been computed in a wide range of thermodynamic states, from low-density amorphous ices to high-temperature liquids under the critical point for unconstrained and constrained systems. The latter were represented by set-ups placed inside hydrophobic graphene slabs at the nanometric scale allocating a few water layers, namely one or two in the narrowest case. Water–proton and carbon–proton forces were modelled with a Multi-State Empirical Valence Bond method. As a general trend, a competition between the effects of confinement and temperature is observed on the local hydrogen-bonded structures around the lone proton and, consequently, on the mean force exerted by its environment on the water molecule carrying the proton. Free energy barriers estimated from the computed potentials of mean force tend to rise with the combined effect of increasing temperatures and the packing effect due to a larger extent of hydrophobic confinement. The main reason observed for such enhancement of the free energy barriers was the breaking of the second coordination shell around the lone proton.     

A comparison of direct and indirect methods for measuring leaf and surface areas of individual bushes

Indirect estimates of leaf area from measurements with three commercially available instruments (DEMON, LAI-2000 and Sunfleck Ceptometer) were compared with directly measured areas of individual Retama sphaerocarpa bushes. The three indirect methods gave good estimates of the total surface area of individual bushes. For the DEMON, the method of log-linear averaging of transmitted radiation gave estimates closer to directly measured surface area than the method of averaging transmission linearly. For the LAI-2000, estimated surface area index multiplied by canopy projected area gave the best agreement with directly measured values. For measurements with the Sunfleck Ceptometer, values of surface area estimated from the transmission of photosynthetic quantum flux density, without correcting for diffuse radiation, gave the best agreement with directly measured values. Surface areas estimated by the three instruments were not significantly different from directly measured total (leaf + branch + stem) surface areas. Leaf surface area could be calculated from estimated total surface area minus directly measured branch surface area. Measured branch surface area was linearly related to canopy projected area.     

不同耕作方式对陇中旱农区春小麦和豌豆根系空间分布及产量的影响

依托陇中旱农区长期的保护性耕作定位试验,对不同耕作方式下春小麦和豌豆根系空间分布特征及作物产量进行研究,以探索耕作措施影响作物产量的机制.结果表明: 随着生育期的推进,春小麦和豌豆的总根长、根表面积呈先增后减的趋势,开花期达到最大;春小麦根系苗期以0～10 cm最多,花期、成熟期10～30 cm最多;而豌豆根系苗期和成熟期均以0～10 cm最多,花期10～30 cm最多.免耕秸秆覆盖和免耕覆膜增加了根长和根表面积,春小麦和豌豆各生育时期的根长较传统耕作增加了35.9%～92.6%,根表面积增加了43.2%～162.4%.免耕秸秆覆盖和免耕覆膜优化了春小麦和豌豆根系分布,与传统耕作相比,增加了春小麦和豌豆苗期0～10 cm土层根长和根表面积分布比例,花期和成熟期深层次根系分布也显著增加,免耕秸秆覆盖在开花期30～80 cm土层根长和根表面积的分布比例分别比传统耕作提高了3.3%和9.7%.春小麦各生育期的总根长、根表面积与产量呈显著正相关,豌豆各生育期的总根长与豌豆产量呈极显著正相关.免耕秸秆覆盖和免耕覆膜较传统耕作春小麦和豌豆产量增加23.4%～38.7%,水分利用效率提高了13.7%～28.5%.在陇中旱农区,免耕秸秆覆盖和免耕覆膜可以增加作物根长和根表面积,优化了根系在土壤中的空间分布,增强作物根层吸收能力,从而提高作物产量和水分高效利用.     

不同营林面积情景下鹿科动物的潜在生境分布

在有人为干扰的森林景观中开展鹿科动物适宜生境分布研究,对于解决大尺度生境保护与小面积森林经营的矛盾问题有着重要的参考意义,也符合我国林区的现实需求.2013—2015年冬季进行的多次野外调查收集196处鹿科动物出现点信息,将这些点作为分布点数据,选取地形、景观类型、植被特征和人类干扰4类17种因子作为环境变量,利用最大熵模型方法,分析4种林下经营面积情景下小兴安岭铁力林业局马鹿和狍的潜在适宜生境分布特征及其对环境因子的响应.结果表明:模型预测精度达到优秀水平,稳定性好,鹿科动物的适宜生境主要集中在东部区域;不同情景下,两种鹿科动物的主要环境影响因子相似,均为距农田距离、距居民点距离、距河流距离、距营林区距离和海拔因子,其中,距营林区距离因子的贡献率稳定在4%～6%;两种鹿科动物躲避人类经营活动干扰的距离(1200～1300 m)较为接近.在无林下经营情景中,鹿科动物的适宜生境分布较广、面积较大;随着经营面积的增大,适宜生境面积减少;当经营面积扩大到现实情况的2～3倍时,鹿科动物栖息地面积缩减较为严重.     

Analysis of the binding loops configuration and surface adaptation of different crystallized single‐domain antibodies in response to various antigens

Monoclonal antibodies have revolutionized the biomedical field through their ubiquitous utilization in different diagnostics and therapeutic applications. Despite this widespread use, their large size and structural complexity have limited their versatility in specific applications. The antibody variable region that is responsible for binding antigen is embodied within domains that can be rescued individually as single‐domain antibody (sdAb) fragments. Because of the unique characteristics of sdAbs, such as low molecular weight, high physicochemical stability, and the ability to bind antigens inaccessible to conventional antibodies, they represent a viable alternative to full‐length antibodies. Consequently, 149 crystal structures of sdAbs, originating from human (VH), camelids (VHH), or sharks (VNAR), were retrieved from the Protein Data Bank, and their structures were compared. The 3 types of sdAbs displayed complementarity determining regions (CDRs) with different lengths and configurations. CDR3 of the VHH and VNAR domains were dominated by pleated and extended orientations, respectively. Although VNAR showed the smallest average molecular weight and molecular surface area compared with VHH and VH antibodies. However, the solvent accessible surface area measurements of the 3 tested sdAbs types were very similar. All the antihapten VHH antibodies showed pleated CDR3, which were sufficient to create a binding pocket to accommodate haptens (methotrexate and azo dyes) in terms of shape and electrostatic potential. The sdAbs that recognized lysozyme showed more diversity in their CDR3 orientation to enable them to recognize various topographies of lysozyme. Subsequently, the three sdAb classes were different in size and surface area and have shown distinguishable ability to optimize their CDR length and orientation to recognize different antigen classes.