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91.
Poplar genomics is getting popular: the impact of the poplar genome project on tree research 总被引:12,自引:0,他引:12
Trees, due to their long life-span, have characteristics that distinguish them from annual, herbaceous plants. It is likely that many of these properties are based on a tree-specific genetic foundation. The U.S. Department of Energy initiated a genome-sequencing project for Populus, a model perennial plant. Through international collaboration and input to the sequencing effort, the annotated whole genome sequence of Populus trichocarpa will be released to the public in early 2004. This genomic resource will, for the first time, allow comparison between a perennial and an annual plant on a whole genome basis and therefore provide clues for molecular research on tree-specific questions like dormancy, development of a secondary cambium, juvenile-mature phase change, or long-term host-pest interactions. The approximately 520 Mbp of annotated genomic sequence will complement and expand the knowledge provided so far by the 125,000 ESTs from poplar that are available in public databases. This article introduces the international poplar research programmes and points out the significance of the poplar genome project for plant research. 相似文献
92.
摘要 目的:分析原发性肝癌患者术后癌因性疲乏(CRF)的影响因素并构建预测模型。方法:选取2020年1月~2023年1月湖南师范大学附属第一医院收治接受手术治疗的200例原发性肝癌患者,根据术后3个月是否存在CRF将患者分为CRF组(124例)和非CRF组(76例)。单因素和多因素Logistic回归分析影响原发性肝癌患者术后CRF的因素并构建其预测模型。通过受试者工作特征(ROC)曲线分析预测模型对原发性肝癌患者术后CRF的预测价值。结果:单因素分析显示,CRF组病程长于非CRF组,Child-Pugh分级B级、美国东部肿瘤协作组功能状态(ECOG)评分1~2分、辅助化疗、医疗付费方式自费、抑郁/焦虑比例高于非CRF组,文化程度高中及以上、家庭月收入>3000元、高度社会支持度比例低于非CRF组(P<0.05)。多因素Logistic回归分析显示,病程延长、Child-Pugh分级B级、ECOG评分1~2分、辅助化疗、医疗付费方式自费、抑郁/焦虑为影响原发性肝癌患者术后CRF的独立危险因素,家庭月收入>3000元、高度社会支持为独立保护因素(P<0.05)。原发性肝癌患者术后CRF的预测模型方程:Logit(P)=P/1-P=-1.252+0.409×病程+0.839×Child-Pugh分级+1.378×ECOG评分+1.055×辅助化疗+1.476×医疗付费方式-0.793×家庭月收入+0.883×抑郁/焦虑-1.260×社会支持度。霍斯默-莱梅肖检验P>0.05。ROC曲线分析显示,模型预测原发性肝癌患者术后CRF的曲线下面积为0.910,敏感度为87.10%,特异度为85.53%。结论:病程、Child-Pugh分级、ECOG评分、辅助化疗、医疗付费方式、抑郁/焦虑、家庭月收入、社会支持度为影响原发性肝癌患者术后CRF的因素,基于此构建的预测模型对原发性肝癌患者术后CRF的预测价值较高,可能有助于临床早期发现和干预原发性肝癌患者术后CRF,以改善患者预后。 相似文献
93.
The identification of the genes that are differentially expressed in two-sample microarray experiments remains a difficult problem when the number of arrays is very small. We discuss the implications of using ordinary t-statistics and examine other commonly used variants. For oligonucleotide arrays with multiple probes per gene, we introduce a simple model relating the mean and variance of expression, possibly with gene-specific random effects. Parameter estimates from the model have natural shrinkage properties that guard against inappropriately small variance estimates, and the model is used to obtain a differential expression statistic. A limiting value to the positive false discovery rate (pFDR) for ordinary t-tests provides motivation for our use of the data structure to improve variance estimates. Our approach performs well compared to other proposed approaches in terms of the false discovery rate. 相似文献
94.
The effect of temperature on mechanical unfolding of proteins is studied using a Go-like model with a realistic contact map and Lennard-Jones contact interactions. The behavior of the I27 domain of titin and its serial repeats is contrasted to that of simple secondary structures. In all cases, thermal fluctuations accelerate the unraveling process, decreasing the unfolding force nearly linearly at low temperatures. However, differences in bonding geometry lead to different sensitivity to temperature and different changes in the unfolding pattern. Due to its special native-state geometry, titin is much more thermally and elastically stable than the secondary structures. At low temperatures, serial repeats of titin show a parallel unfolding of all domains to an intermediate state, followed by serial unfolding of the domains. At high temperatures, all domains unfold simultaneously, and the unfolding distance decreases monotonically with the contact order, that is, the sequence distance between the amino acids that form the native contact. 相似文献
95.
Lilian I. B. Stedille Juliano P. Gomes Newton C. F. da Costa Roseli L. da Costa Bortoluzzi Adelar Mantovani 《Restoration Ecology》2020,28(5):1213-1224
Monitoring successional advancement is a complex field involving a constant search for applied ecological indicators which facilitate monitoring of secondary forests for both active and passive restoration. In this study, the authors investigate the successional advancement of floristics and tree structure within Araucaria Forest (AF) fragments under passive restoration in a context where exotic tree plantations (mainly Pinus L. genus) dominate the landscape. The ecological indicators used were floristic dissimilarity (β‐diversity inferences), indicator species, ecological groups of species, basal area, and species abundance distribution (SAD) models (α‐diversity inferences). A total of 182 tree species belonging to 91 genera and 43 botanical families were identified. A high β diversity was verified for which each site has indicator species (for the locations CD—Dicksonia sellowiana; CO—Cryptocarya aschersoniana; and PG—Pinus taeda), where pioneer species contributed to much of the abundance. Different SAD models are useful for describing passive restoration sites in exotic tree plantation landscapes, namely Lognormal, Mandelbrot, and Zipf. SAD models together with basal area, taxonomic group (e.g. Myrtaceae assemblage), and tree abundance in ecological groups are strategic ecological indicators for monitoring successional advancement in AF. 相似文献
96.
Mechanistic insights into the inhibition of prostate specific antigen by beta-lactam class compounds
Singh P Williams SA Shah MH Lectka T Pritchard GJ Isaacs JT Denmeade SR 《Proteins》2008,70(4):1416-1428
Prostate Specific Antigen (PSA) is a biomarker used in the diagnosis of prostate cancer and to monitor therapeutic response. However, its precise role in prostate carcinogenesis and metastasis remains largely unknown. A number of studies arguing in the favor of an active role of PSA in prostate cancer development and progression have implicated this serine protease in the release and activation of growth factors such as insulin-like growth factor 1 (IGF1) through cleavage of insulin like growth factor binding protein 3 and Transforming Growth Factor beta (TGF-beta) through cleavage of Latent TGF-beta. In contrast, other studies suggest that PSA activity might hinder tumor development and progression. In light of these contradictory findings, efficient inhibitors of PSA are needed for exploring its biological role in tumor development and metastasis. Towards the goal of developing potent inhibitors of PSA, we have explored the molecular mechanism of a series of beta-lactam based compounds on binding to PSA using activity assays, matrix assisted laser desorption ionization with a time-of-flight mass spectrometry, and GOLD docking methodology. The mass spectrometry experiments and the activity assays confirmed the time-dependent and covalent nature of beta-lactam binding. To gain insights on the reaction intermediates at the molecular level, we docked beta-lactam inhibitors to a homology modeled PSA using the GOLD docking program in noncovalent and covalent binding modes. The docking studies elucidated the molecular details of the early noncovalent Michaelis complex, the acyl-enzyme covalent complex, and the nature of conformational reorganization required for the long term stability of the covalent complex. Additionally, the molecular basis for the effect of stereochemistry of the lactam ring on the inhibitory potency was elucidated through docking of beta-lactam enantiomers. As a validation of our docking methodology, two novel enantiomers were synthesized and evaluated for their inhibitory potency using fluorogenic substrate based activity assays. Additionally, cis enantiomers of eight beta-lactam compounds reported in a previous study were docked and their GOLD scores and binding modes were analyzed in order to assess the general applicability of our docking results. The close agreement of our docking results with the experimental data validates the mechanistic insights revealed through the docking studies and paves the way for the design and development of potent and specific inhibitors of PSA. 相似文献
97.
98.
99.
Leg movements of stick insects (Carausius morosus) making turns towards visual targets are examined in detail, and a dynamic model of this behaviour is proposed. Initial results
suggest that front legs shape most of the body trajectory, while the middle and hind legs just follow external forces (Rosano
H, Webb B, in The control of turning in real and simulated stick insects, vol. 4095, pp 145–156, 2006). However, some limitations
of this explanation and dissimilarities in the turning behaviour of the insect and the model were found. A second set of behavioural
experiments was made by blocking front tarsi to further investigate the active role of the other legs for the control of turning.
The results indicate that it is necessary to have different roles for each pair of legs to replicate insect behaviour. We
demonstrate that the rear legs actively rotate the body while the middle legs move sideways tangentially to the hind inner
leg. Furthermore, we show that on average the middle inner and hind outer leg contribute to turning while the middle outer
leg and hind inner leg oppose body rotation. These behavioural results are incorporated into a 3D dynamic robot simulation.
We show that the simulation can now replicate more precisely the turns made by the stick insect.
This work was supported by CONACYT México and the European Commission under project FP6-2003-IST2-004690 SPARK. 相似文献
100.