Correlation analysis of Normalized Different Vegetation Index (NDVI) difference series and climate variables in the Xilingole steppe, China from 1983 to 1999

There is a crucial need in the study of global change to understand how terrestrial ecosystems respond to the climate system. It has been demonstrated by many researches that Normalized Different Vegetation Index (NDVI) time series from remotely sensed data, which provide effective information of vegetation conditions on a large scale with highly temporal resolution, have a good relation with meteorological factors. However, few of these studies have taken the cumulative property of NDVI time series into account. In this study, NDVI difference series were proposed to replace the original NDVI time series with NDVI difference series to reappraise the relationship between NDVI and meteorological factors. As a proxy of the vegetation growing process, NDVI difference represents net primary productivity of vegetation at a certain time interval under an environment controlled by certain climatic conditions and other factors. This data replacement is helpful to eliminate the cumulative effect that exist in original NDVI time series, and thus is more appropriate to understand how climate system affects vegetation growth in a short time scale. By using the correlation analysis method, we studied the relationship between NOAA/AVHRR ten-day NDVI difference series and corresponding meteorological data from 1983 to 1999 from 11 meteorological stations located in the Xilingole steppe in Inner Mongolia. The results show that: (1) meteorological factors are found to be more significantly correlation with NDVI difference at the biomass-rising phase than that at the falling phase; (2) the relationship between NDVI difference and climate variables varies with vegetation types and vegetation communities. In a typical steppe dominated by Leymus chinensis, temperature has higher correlation with NDVI difference than precipitation does, and in a typical steppe dominated by Stipa krylovii, the correlation between temperature and NDVI difference is lower than that between precipitation and NDVI difference. In a typical steppe dominated by Stipa grandis, there is no significant difference between the two correlations. Precipitation is the key factor influencing vegetation growth in a desert steppe, and temperature has poor correlation with NDVI difference; (3) the response of NDVI difference to precipitation is fast and almost simultaneous both in a typical steppe and desert steppe, however, mean temperature exhibits a time-lag effect especially in the desert steppe and some typical steppe dominated by Stipa krylovii; (4) the relationship between NDVI difference and temperature is becoming stronger with global warming. __________ Translated from Acta Phytoecologica Sinica, 2005, 29(5): 753–765 [译自: 植物生态学报]     

Differential analysis of Bacillus anthracis after pX01 plasmid curing and comprehensive data on Bacillus anthracis infection in macrophages and glial cells

Bacillus anthracis is a gram-positive bacterial organism responsible for anthrax. This organism has two pathogenic plasmids: pX01 and pX02. The genetic function of pX01, which comprises about 198 kb, is not known, except for a region called the pathogenic island, which contains three genes-pag, lef, and cya-that code for three toxic proteins. A 2-D difference gel electrophoresis (2-D DIGE) system was used to verify the existence of proteins controlled by the pX01 plasmid, and protein regulation data were obtained using DeCyder software. A total of 1728 proteins were identified in the wild-type strain of this organism and 1684 in the pX01 plasmid. Twenty-seven of these proteins disappeared and eight appeared when the pX01 plasmid was removed. An additional 52 proteins were downregulated and 15 were upregulated when this plasmid was removed. A total of 102 proteins have been identified using the MALDI-TOF method of analysis, including 49 whose functions are unknown. Among these, 31 participate in metabolic processes, two in cellular processes, 15 in the processing of genetic information, and five in the processing of extracellular information. Another seven proteins participate in bacterial virulence and pathogenesis. We investigated the functions of these proteins in other bacteria, particularly the B. anthracis derivative H9041. Bacterial growth differed between pX01+/pX02+ B. anthracis and its pX01-/pX02+ derivative as did the cytotoxicity of macrophages infected by pX01+/pX02+ B. anthracis and the pX01-pX02+ derivative. We also found that S100B protein levels increased in the host infected with pX01+/pX02+ B. anthracis or its pX01-/pX02+ derivative. These data suggest that the pX01 plasmid plays a key role in the regulation of protein functions in B. anthracis.     

2001—2020年川西北高原归一化植被指数演变特征及其对极端气候的响应

川西北高原是典型的生态气候敏感区,其植被状况与气候变化密切相关。本研究基于2001—2020年MODIS-NDVI数据集和气象数据,采用最大值合成、地理探测器模型、线性趋势分析、相关分析等方法,研究川西北高原生长季归一化植被指数(NDVI)的变化趋势及其对气候因子的响应机制。结果表明: 研究期间,川西北高原植被覆盖度整体状况良好,86.8%的区域植被稳定,12.6%的区域NDVI呈弱持续性上升趋势,0.6%的区域NDVI呈下降趋势,全区生态环境呈稳中向好的发展趋势。研究区植被覆盖度空间差异大,总体呈由西南向东北上升的趋势,并有显著的立体变化。海拔1350 m以下,NDVI随海拔升高而上升;海拔1350～3650 m,NDVI无显著变化;海拔3650～5900 m,NDVI随海拔升高而下降,在4750～5900 m快速下降;海拔5900 m以上,几乎无植被。川西北高原的NDVI受多种自然因子交互作用影响,热量因子(月最高气温极大值、月最低气温极小值、植物生长期、年均温、生长期均温)是主导气候因子,除月最高气温极大值外,其余温度因子对NDVI均以正贡献为主。NDVI对气温指数的响应高于降水指数。在气候变暖背景下,极端气温暖指数对川西北高原植被生长尤其是高海拔地区植被生长及改善以促进作用为主。     

长江源区同域分布兔狲、藏狐和赤狐的时空重叠度

兔狲(Otocolobus manul)、藏狐(Vulpes ferrilata)和赤狐(V. vulpes)是青藏高原三江源区域分布的重要小型食肉兽。本研究于2014年6月至2019年9月在青海省长江源区沱沱河和通天河沿岸选取208个位点布设红外相机, 通过所获取的时空分布数据比较了上述3种同域分布小型食肉兽的时空利用情况。通过空间重叠度系数的比较分析, 兔狲和藏狐、兔狲和赤狐以及藏狐和赤狐之间的空间重叠度系数分别为0.25、0.48和0.17, 这表明兔狲、藏狐和赤狐三者在空间利用上存在一定的差异。通过核密度估计方法分析, 兔狲和藏狐属典型的昼行性动物, 而赤狐以夜行性活动为主。兔狲、藏狐和赤狐每个物种在冷暖两季的日活动节律重叠指数分别为0.83、0.78和0.88。两两比较分析表明, 兔狲和藏狐二者的日活动节律重叠指数最高(0.84), 兔狲和赤狐在夜间活动时段存在一定重叠(0.63), 而藏狐和赤狐的时间生态位分化最明显, 重叠指数最低(0.48)。此外, 在暖季, 两两物种之间的日活动节律重叠指数均小于其冷季的重叠指数。综上所述, 长江源区兔狲、藏狐和赤狐3种小型食肉兽可通过空间和时间资源的利用差异来降低物种间的干扰和竞争, 从而达到同域物种共存的目的。     

Expression and functional analysis of flotillins in Dugesia japonica

FLOTILLIN-1 and FLOTILLIN-2 are membrane rafts associated proteins that have been implicated in insulin and growth factor signaling, endocytosis, cell migration, proliferation, differentiation, cytoskeleton remodeling and membrane trafficking. Furthermore, FLOTILLINs also play important roles in the progression of cancer and neurodegenerative diseases. In this study, the roles of flotillins are investigated in planarian Dugesia japonica. The results show that Djflotillin-1 and Djflotillin-2 play a key role in homeostasis maintenance and regeneration process by regulating the proliferation of the neoblast cells, they are not involved in the maintenance and regeneration of the central nervous system in planarians.     

NDVI is not reliable as a surrogate of forage abundance for a large herbivore in tropical forest habitat

Remotely sensed vegetation indices are increasingly being used in wildlife studies but field‐based support for their utility as a measure of forage availability comes largely from open‐canopy habitats. We assessed whether normalized difference vegetation index (NDVI) represents forage availability for Asian elephants in a southern Indian tropical forest. We found that the number of food species was a small percentage of all plant species. NDVI was not a good measure of food abundance in any vegetation category partly because of (a) small to moderate proportional abundances of food species relative to the total abundance of all species in that category (herbs and shrubs), (b) abundant overstory vegetation resulting in low correlations between NDVI and food abundance, despite a high proportional abundance of food species and a concordance between total abundance and food species abundance (graminoids), and (c) the relevant variables measured and important as food at the ground level (count and GBH) not being related to primary productivity (trees and recruits). NDVI had a negative relationship with the total abundance of graminoids, which represent a bulk of elephant and other herbivore diet, because of negative interaction with other vegetation and canopy cover that positively explained NDVI. Spatially interpolated total graminoid abundance modeled from field data outperformed NDVI in predicting total graminoid abundance, although interpolation models of food graminoid abundance were not satisfactory. Our results reject the utility of NDVI in mapping elephant forage abundance in tropical forests, a finding that has implications for studies of other herbivores also. Abstract in Kannada is available with online material.     

Sequence- and seed-structure-dependent polymorphic fibrils of alpha-synuclein

Synucleinopathies comprise a diverse group of neurodegenerative diseases including Parkinson's disease (PD), dementia with Lewy bodies, and multiple system atrophy. These share a common pathological feature, the deposition of alpha-synuclein (a-syn) in neurons or oligodendroglia. A-syn is highly conserved in vertebrates, but the primary sequence of mouse a-syn differs from that of human at seven positions. However, structural differences of their aggregates remain to be fully characterized. In this study, we found that human and mouse a-syn aggregated in vitro formed morphologically distinct amyloid fibrils exhibiting twisted and straight structures, respectively. Furthermore, we identified different protease-resistant core regions, long and short, in human and mouse a-syn aggregates. Interestingly, among the seven unconserved amino acids, only A53T substitution, one of the familial PD mutations, was responsible for structural conversion to the straight-type. Finally, we checked whether the structural differences are transmissible by seeding and found that human a-syn seeded with A53T aggregates formed straight-type fibrils with short protease-resistant cores. These results suggest that a-syn aggregates form sequence-dependent polymorphic fibrils upon spontaneous aggregation but become seed structure-dependent upon seeding.     

Daily rhythm and seasonal pattern of lick use in sika deer (Cervus nippon) in China

Many ungulates are reported to use natural or artificial licks with seasonal patterns around the world. From December 2016 to August 2017, we used infrared camera to record the use of artificial licks in wild sika deer (Cervus nippon) in Zhejiang Qingliangfeng National Nature Reserve, China. We explored the daily rhythm, seasonal pattern and sex difference in lick utilization. In total, 12,043 videos and 22,901 pictures were collected. Our results showed that: (1) the lick visiting frequency was higher at night than that during daytime; (2) the difference in lick visiting frequency between females and males disappeared after taking into account of sex ratio; (3) the lick duration peaked in April during a year. These findings suggested that there were clear daily rhythm and seasonal pattern of lick use in sika deer. Seasonal change in lick use intensity was consistent with our prediction. These variations in lick use might be driven by both the physiological needs of the mineral elements in different life stages and the seasonal changes in climate and food. The reserve management authority should pay more attention to the supplement of licks in spring and summer to fulfill animal’s physiological needs.     

Physical scoring function based on AMBER force field and Poisson-Boltzmann implicit solvent for protein structure prediction

A well-behaved physics-based all-atom scoring function for protein structure prediction is analyzed with several widely used all-atom decoy sets. The scoring function, termed AMBER/Poisson-Boltzmann (PB), is based on a refined AMBER force field for intramolecular interactions and an efficient PB model for solvation interactions. Testing on the chosen decoy sets shows that the scoring function, which is designed to consider detailed chemical environments, is able to consistently discriminate all 62 native crystal structures after considering the heteroatom groups, disulfide bonds, and crystal packing effects that are not included in the decoy structures. When NMR structures are considered in the testing, the scoring function is able to discriminate 8 out of 10 targets. In the more challenging test of selecting near-native structures, the scoring function also performs very well: for the majority of the targets studied, the scoring function is able to select decoys that are close to the corresponding native structures as evaluated by ranking numbers and backbone Calpha root mean square deviations. Various important components of the scoring function are also studied to understand their discriminative contributions toward the rankings of native and near-native structures. It is found that neither the nonpolar solvation energy as modeled by the surface area model nor a higher protein dielectric constant improves its discriminative power. The terms remaining to be improved are related to 1-4 interactions. The most troublesome term is found to be the large and highly fluctuating 1-4 electrostatics term, not the dihedral-angle term. These data support ongoing efforts in the community to develop protein structure prediction methods with physics-based potentials that are competitive with knowledge-based potentials.