榧属（Torrya Arn.）分类研究及其在红豆杉科中的系统位置

本论文对榧属(TorreyI)的研究历史作了回顾．以形态性状为依据，结合叶片的解剖，花粉表面的电镜观察，以及种子蛋白的电泳等，对榧属的系统分类进行了研究。结果表明： l、支持根据种子胚乳深皱与微皱分榧属为两个组的观点． 2、从叶片气孔带乳突的特征及种子蛋白电泳带的类型，似可支持榧属两组的建立． 3、根据各种榧树叶肉组织中石细胞的观察，不支持将石细胞的有无作为分组的特征。 4、云南榧与巴山榧叶的解剖特征有较多相似性，但在石细胞的含量、栅栏组织细胞层数及结晶大小等方面存在差别．考虑到其他性状及地理分布，认为将云南榧改为巴山榧的变种较为自然。 5、本属植物花粉形态较为一致，种问无明显的差别．对组和种的划分无重要参考价值． 6、经研究订正，榧属共6种2变种和11个栽培变种。其中1新变种（九龙山榧），1改级新组合（云南榧），6个新载培变种。 7、结合前人的研究，作者归纳出红豆杉科植物的进化趋势，支持榧属为进化类群的观点。

A horsefly saliva antigen 5-like protein containing RTS motif is an angiogenesis inhibitor

The Ag5 proteins are the most abundant and immunogenic proteins in the venom secretory ducts of stinging insects. An antigen 5-like protein (named tabRTS) composed of 221 amino acid residues was purified and characterized from the salivary glands of the horsefly, Tabanus yao (Diptera, Tabanidae). Its cDNA was cloned from the cDNA library of the horsefly's salivary gland. TabRTS containing the SCP domain (Sc7 family of extracellular protein domain) was found in insect antigen 5 proteins. More interestingly, there is an Arg-Thr-Ser (RTS) disintegrin motif at the C-terminus of tabRTS. The RTS motif is positioned in a loop bracketed by cysteine residues as those found in RTS-disintegrins of Crotalidae and Viperidae snake venoms, which act as angiogenesis inhibitors. Endothelial Cell Tube formation assay in vitro and chicken chorioallantoic membrane (CAM) angiogenesis assay in vivo were performed as to investigate the effect of tabRTS on angiogenesis. It was found that tabRTS could significantly inhibit angiogenesis in vitro and in vivo. Anti-alpha(1)beta(1) monoclonal antibody could dose-dependently inhibit the anti-angiogenic activity of tabRTS. This result indicated that tabRTS possibly targets the alpha(1)beta(1) integrin to exert the anti-angiogenic activity as snake venom RTS-/KTS-disintegrins do. The current work revealed the first angiogenesis inhibitor protein containing RTS motif from invertebrates, a possible novel type of RTS-disintegrin. (C) 2009 Elsevier Ltd. All rights reserved.

Identification of protein superfamily from structure-based sequence motif

The structure-based sequence motif of the distant proteins in evolution, protein tyrosine phosphatases (PTP) I and II superfamilies, as an example, has been defined by the structural comparison, structure-based sequence alignment and analyses on substitut

Single-walled carbon nanotubes binding to human telomeric i-motif DNA under molecular-crowding conditions: More water molecules released

The natural occurrence of the human telomeric G-quadruplex or i-motif in vivo has not been demonstrated and the biological effects of the induction of these structures need to be clarified. Intracellular environments are highly crowded with various biomolecules and in vitro studies under molecular-crowding conditions will provide important information on how biomolecules behave in cells. Here we report that cell-mimic crowding can increase i-motif stability at acid pH and cause dehydration.

An unusual 3D polycatenane motif generated by the 2D -> 2D parallel -> 3D parallel interpenetration of (4,4) sheets

A fascinating 3D polycatenane-like metal-organic framework with two kinds of helical chains was reported, in which the helical chains exhibit multiple interweaving modes based on the unusual 2D -> 2D parallel -> 3D parallel interpenetration.

i-Motif Quadruplex DNA-Based Biosensor for Distinguishing Single- and Multiwalled Carbon Nanotubes

The increasing worldwide demand for carbon nanotubes (CNTs) and increasing concern regarding how to safely develop and use CNTs are requiring a low-cost, simple, and highly sensitive CNT detection assay for toxicological evaluation and environmental monitoring. However, this goal is still far from being achieved. All the current CNT detection techniques are not,applicable for automation and field analysis because they are dependent on highly expensive special instruments and complicated sample preparation. On the basis of the capability of single-walled carbon nanotubes (SWNTs) to specifically induce human telomeric i-motif formation, we design an electrochemical DNA (E-DNA) sensor that can distinguish single- and multiwalled carbon nanotubes both in buffer and in cell extracts. The E-DNA sensor can selectively detect SWNTs; with a direct detection limit of 0.2 ppm and has been demonstrated in cancer cell extracts. To the best of our knowledge, this is the first demonstration of a biosensing technique that can distinguish different types of nanotubes. Our work will provide new insights into how to design a biosensor for detection of carbon nanotubes.

Single-walled carbon nanotubes binding to human telomeric i-motif DNA: significant acceleration of S1 nuclease cleavage rate

Single-walled carbon nanotubes (SWNTs) binding to human telomeric i-motif DNA can significantly accelerate S1 nuclease cleavage rate by increasing the enzyme turnover number.

Carboxyl-modified single-walled carbon nanotubes selectively induce human telomeric i-motif formation

As the leading nanodevice candidate, single-walled carbon nano-tubes (SWNTs) have potential therapeutic applications in gene therapy and novel drug delivery. We found that SWNTs can inhibit DNA duplex association and selectively induce human telomeric i-motif DNA formation by binding to the 5'-end major groove under physiological conditions or even at pH 8.0. SWNT binding to telomeric DNA was studied by UV melting, NMR, S1 nuclease cleavage, CD, and competitive FRET methods. These results suggest that SWNTs might have the intriguing potential to modulate human telomeric DNA structures in vivo, like biologically relevant B-A and B-Z DNA transitions, which is of great interest for drug design and cancer therapy.

Identification and analysis of a CpG motif that protects turbot (Scophthalmus maximus) against bacterial challenge and enhances vaccine-induced specific immunity

Oligodeoxynucleotides (ODNs) containing unmethylated CpG motifs in certain contexts are known to be immunostimulatory in vertebrate systems. CpG ODNs with immune effects have been identified for many fish species but, to our knowledge, not for turbot. In this study, a turbot-effective CpG ODN, ODN 205, was identified and a plasmid, pCN5, was constructed which contains the CpG motif of ODN 205. When administered into turbot via intraperitoneal (i.p.) injection, both ODN 205 and pCN5 could (i) inhibit bacterial dissemination in blood in dose and time dependent manners, and (ii) protect against lethal bacterial challenge. Immunological analyses showed that in vitro treatment with ODN 205 stimulated peripheral blood leukocyte proliferation, while i.p. injection with ODN 205 enhanced the respiratory burst activity, chemiluminescence response, and acid phosphatase activity of turbot head kidney macrophages. pCN5 treatment-induced immune responses similar to those induced by ODN 205 treatment except that pCN5 could also enhance serum bactericidal activity in a calcium-independent manner. To examine whether ODN 205 and pCN5 had any effect on specific immunity, ODN 205 and pCN5 were co-administered into turbot with a Vibrio harveyi subunit vaccine, DegQ. The results showed that pCN5, but not ODN 205, significantly increased the immunoprotective efficacy of DegQ and enhanced the production of specific serum antibodies in the vaccinated fish. Further analysis indicated that vaccination with DegQ in the presence of pCN5 upregulated the expression of the genes encoding MHC class II alpha, IgM, Mx, and IL-8 receptor. Taken together, these results demonstrate that ODN 205 and pCN5 can stimulate the immune system of turbot and induce protection against bacterial challenge. In addition, pCN5 also possesses adjuvant property and can potentiate vaccine-induced specific immunity. (C) 2010 Elsevier Ltd. All rights reserved.

A combined statistical model for multiple motifs search

Transcription factor binding sites (TFBS) play key roles in genebior 6.8 wavelet expression and regulation. They are short sequence segments with de¯nite structure and can be recognized by the corresponding transcription factors correctly. From the viewpoint of statistics, the candidates of TFBS should be quite di®erent from the segments that are randomly combined together by nucleotide. This paper proposes a combined statistical model for ¯nding over- represented short sequence segments in di®erent kinds of data set. While the over-represented short sequence segment is described by position weight matrix, the nucleotide distribution at most sites of the segment should be far from the background nucleotide distribution. The central idea of this approach is to search for such kind of signals. This algorithm is tested on 3 data sets, including binding sites data set of cyclic AMP receptor protein in E.coli, PlantProm DB which is a non-redundant collection of proximal promoter sequences from di®erent species, collection of the intergenic sequences of the whole genome of E.Coli. Even though the complexity of these three data sets is quite di®erent, the results show that this model is rather general and sensible.

中国三种野生稻的遗传变异与保护生物学研究

稻属(OryzaL．)隶属禾本科(Poaceae)之稻族(OryzeaeDUmort.)，广布于全球热带与亚热带地区。目前认为该属约含20个野生种和2个栽培种，中国产4个种。亚洲栽培稻(O. sativaL．)是世界上最重要的粮食作物之一，而在中国则为第一粮食作物。在稻种基因库中，发掘野生稻中丰富的遗传多样性是解决当今人口与粮食矛盾的必由之路。因此，保护野生稻的遗传多样性举世瞩目。针对热带与亚热带地区的环境恶化而导致野生稻居群的大量绝灭与急剧萎缩的状况，制订有效的策略，最大限度地保护野生稻的遗传多样性已迫在眉睫。然而，目前对野生稻种内遗传多样性的知识十分贫乏，缺乏制订保护策略的科学基础。这一问题在中国尤为突出。本文基于1994-1995年对中国三种野生稻濒危状况的调查结果，利用等位酶分析对普通野生稻26个居群，药用野生稻8个居群和疣粒野生稻l7个居群进行了遗传多样性的研究，并重点对目前育种价值最大而濒危程度最高的普通野生稻从五个方面作了进一步的探讨。最后根据遗传多样性的研究结果讨论了它们的濒危原因，并提出了初步的保护策略。主要结果如下： 一．普通野生稻D．rufipogon Griff. 在中国的三种野生稻中，普通野生稻的遗传多样性水平最高(A=1.33，P= 0.227，Ho=0.033和He=_0.068)，遗传分化水平较低(Fst=0,310)。广西与广东的居群较其它地区的居群具有较丰富的遗传变异。因此，华南可能是中国普通野生稻的遗传多样性中心;云南现存的所有三个居群的遗传多样性水平偏低(A=1.10.p=0.148，Ho=0.007和He=0.079)，与该地区栽培稻丰富的遗传多样性形成鲜明对照，普通野生稻居群间的遗传一致度与地理距离无明显相关。 1．通过14个中央居群与5个边缘居群的对比研究表明了边缘居群的遗传结构明显不同于中央居群：其遗传多样性水平与遗传分化均低予中央居群，杂合子比中央居群更为不足。而且，从中央居群到边缘居群，位点的多态性逐渐丧失，遗传多样性水平递减，一些多态位点的等位基因频率逐渐地发生变化。 2. 通过7个受栽培稻基因渗入的居群与5个隔离较好居群的对比研究表明，被渗入居群虽然在形态上表现出复杂的变异式样，但遗传多样性水平并无相应的增高。栽培稻基因流对野生居群遗传结构的影响可能主要是遗传同化，即阻止其居群内与居群间的遗传分化。 3. 通过对2个低纬度居群与2个北缘居群两个生活史阶段的遗传多样性研究表明繁育系统是影响普通野生稻居群遗传结构的因素之一。在低纬度居群中种子阶段的遗传变异高于植株阶段，在高纬度居群中则相反。 4．通过对北缘居群(江西东乡)1980年，1985年和1994年的居群遗传结构的研究，发现该居群的遗传结构逐渐在发生变化，表现为遗传多样性水平不断下降，居群越来越偏移哈迪一温伯格平衡和杂合子变得越来越缺乏。 5．通过对一个典型的普通野生稻居群（元江居群）的居群内遗传结构的研究，表明遗传变异在3个亚居群间分布不均衡，基因型里聚集分布，使得亚居群间有一定的遗传分化。导致其居群遗传结构的亚划分的主要原因可能是有限的基因流(Nm=0.964Arn.ex Watt. 疣粒野生稻的遗传多样性水平(A=1.Ot5，p—0.0633，Ho- 0.022和He=O.O16)在三种野生稻中最低，但居群遗传分化却很高(FsT=0.859)。海南的遗传多样性水平与云南差别不大。剧烈的遗传分化不仅发生在海南与云南之间，而且还发生在地区内，甚至在很小地区内的居群阍。对每个地区来说，居群间的遗传一致度与地理距离明显相关，符合“隔离一距离”模型。该物种是克隆植物，遗传变异贫乏但居群遗传分化剧烈是这类植物的特征。 四. 对保护中国野生稻遗传资源的启示 中国的三种野生稻是居群水平上而非物种水平上的的濒危。人类的剧烈干拢和生境遭受破塥是导致它们濒危的主要原因。对普通野生稻和药用野生稻来说，人为的干扰导致了它们现存的居群变小且相互隔离，居群间的基因流受阻，遗传漂变的作用在小群体中显得尤为突出，并与严重的近交相交织，导致遗传多样性大量丧失，居群的遗传结构也进一步改变，从而产生真正遗传学上的濒危，甚至灭绝。对于普通野生稻的大多数居群来说，栽培稻频繁的基因流带来的遗传同化，也会直接或间接地引起濒危甚至消亡。 鉴于普通野生稻有69.0%的遗传多样性存在于居群内，收集种质资源时应在遗传变异丰富的居群中，特别在其遗传多样性中心的居群中取较多数量的个体，还应在不同的地理区域选择2～3个遗传变异丰富、彼此遗传差异大的居群作为代表，捕获存在于居群间的遗传变异。原位保护点的设置应优先考虑以下类型的居群：a．与栽培稻基因流隔离好的居群;b．边缘居群;c．严重受威胁的居群;原位保护区应在其遗传多样性中心设立，选择有数个相邻的较大居群。 鉴于药用野生稻有21.2%的遗传多样性存在于居群内，在收集种质资源时原则上应选择较多的居群，而在每个居群中取较少的个体。海南与大陆居群间的遗传差异较大，故两地的居群都必须收集;药用野生稻的居群通常较小，建议设立原位保护点即可。海南与大陆均须设立保护点，而且在每个地区内应保护尽可能多的居群。对地区间或地区内的居群间进行人工移植，促进基因流，对增强各居群的适应能力会有裨益。 鉴于仅有14.1%的遗传变异存在予疣粒野生稻的居群内，取样的原则是在云南和海南均取尽可能多的居群，而对每个居群取少数个体即可;该种的居群有时较大，其居群内往往有一定的遗传分化，故收集遗传资源时应按亚居群取样;建议在云南与海南各设置2～3个原位保护区，其中可优先考虑我国分布面积最大的云南思茅地区的居群。

水稻花发育相关基因RA68和OsUBP1的分离与功能分析

　　　　　　　　　　　　　　　　　第一部分 利用减法杂交和RACEs从水稻中克隆了一个编码含有脯氨酸和苏氨酸丰富结构域多肽的cDNA,其相应的基因被命名为RA68。RA68由3个外显子和2个内含子组成，编码的蛋白由219个氨基酸残基组成。该蛋白由一个21个氨基酸残基组成的信号肽，一个亲水性的N－端结构域和一个疏水性的C－端结构域组成。 N端结构域是一段嵌合PTPTSYG motif的富含脯氨酸和苏氨酸的序列。 Southern杂交和序列分析结果表明RA68在水稻基因组中以单拷贝存在，定位于第2号染色体。Northern杂交结果表明RA68在幼芽和花中表达量较高，在根和叶中不表达。原位杂交分析结果表明：在幼苗期RA68 主要在幼芽胚芽鞘的内外层细胞和幼叶原基的表层细胞中表达;转入生殖生长期后，在花序分生组织、枝梗原基顶端、花器官原基、大孢子囊和花粉粒中表达。用GFP作报告基因，用洋葱表皮细胞进行的瞬间表达测试结果显示RA68蛋白定位于细胞核中。转反义RA68水稻植株抽穗期比对照野生型延迟30天左右。这些结果表明RA68可能是水稻花分生组织特征基因，在成花转变过程中起作用。 　　　　　　　　　　　　　　　　　　　第二部分 通过RACE和RT-PCR方法分离了水稻OsUBP1基因，其推测编码蛋白含有UBP结构域（Cys Box和His Box）和TopⅥA结构域。RT-PCR分析结果表明OsUBP1在转录过程中通过可变剪接产生多个不同的转录本，这些转录本在叶、根、颖花和幼芽中存在着时空调节表达模式，每种组织中的转录本是不一样的。这些转录本内含子剪切位点除了经典的GT-AG外，还有GC-AG、CT-AC、TT-GA、GT-GA和CT-GA。由于发生了GC-AG的可变剪切产生了OsUBP1的重要功能结构域Cys Box。水稻OsUBP1基因和OsSPO11-1基因位于11号染色体的同一基因座位上。原位杂交分析表明，在花中OsUBP1 mRNA 主要在药壁绒毡层、花粉粒、大孢子囊和颖花底部维管束中表达。转反义OsUBP1植株大多不能正常结实，这说明OsUBP1可能参与水稻的育性调节。 关键词

光敏核不育水稻41 kDa和61 kDa蛋白质的发现、N-端序列分析及其雄性不育性状关系的探讨

光敏核不育水稻农垦58S是石明松于1973年在晚粳农垦58的大田中发现的雄性不育突变体，它在长日照下雄性不育可被用于与恢复系杂交生产杂种，而在短日照下雄性可育能用于自交繁殖，它的恢复系来源广泛。基于这些特性，育种学家用光敏核不育水稻建立的二系杂交水稻制种技术有很大的应用潜力。近十几年来，育种学家用农垦58S作基因供体转育了许多新的不育系，研究结果表明育成的粳型不育系均为光敏不育系，但在育成的籼型不育系中，绝大多数丧失光敏核不育特性，变成温敏不育系。目前因不知光敏核不育的分子遗传机制，尚不能解释这些问题。 本文用双向电泳技术分析了农垦58S和农垦58苗期和育性转换光敏感期叶绿体蛋白质的差异，在农垦58S中发现三个蛋白质(Pl，P2和P3)，其中Pl和P2在苗期和光敏感期叶片内均存在，P3仅在光敏感期的叶片中存在，它们不受长日照或短日照处理的影响。农垦58没有这三个蛋白质。 用制备型双向电泳纯化后，得到SDS - PAGE和IEF纯的Pl和P2。经SDS-PAGE和IEF测定，Pl的等电点是6.2，分子量是41 kDa;P2的等电点是5.8，分子量是61 kDa。现称Pl为P41，P2为P61。氨基酸序列分析和同源性检索发现P41与水稻叶绿体ATP合成酶p亚基和酵母转录因子CAD1有同源性，此外，P41的N-端序列中有一个与蛋白激酶催化核心中的多功能motif Y-G-X-G-X- (P/T)-G-V相似的序列;P61的14个氨基酸长的N-端序列与水稻叶绿体ATP合成酶β亚基的一致。P41和P61 N-端前12个氨基酸的序列也完全一致。 PCR扩增和Southern杂交分析没有发现农垦58S和农垦58之间ATP合成酶β亚基基因(atpB)的多态性。Nothern杂交分析表明农垦58S中仅有一种、与农垦58 atpB mRNA分子量相同的atpB转录产物，但它的atpB mRNA丰度明显低于农垦58的。没有检测到突变的atpB和其它形式的atpB转录产物。 分析P41和P61在其它水稻材料中的分布特点发现它们在粳型光敏不育系7001S、5088S、31301S、C407S和1647S，籼型光敏不育系W7415S和W9451S以及温（光）敏不育系培矮64S中存在，而在对照材料三系水稻马协A、珍汕97A、马协B、珍汕97B和明恢63以及常规粳稻C94153中不存在。根据这些不育系的系谱和它们与农垦58S之间基因的等位性研究结果，讨论了P41和P61与光敏核不育性的可能联系。

A novel fusion gene, TRIMS-Cyclophilin A in the pig-tailed macaque determines its susceptibility to HIV-1 infection

Objective: In Old World monkeys, the tripartite motif Sec (TRIM5 alpha) protein confers resistance to HIV-1 infection following virus entry into host cells. However, the pig-tailed macaque (Macaca nemestrina) is an exception and is susceptible to HIV-1 in