Cyt b-559 链Arg18和Ser24的定点突变及其对PSII功能的影响

Cyt b-559是光系统II反应中心的成分之一，它由亚基和亚基组成的。在Cyt b-559中，血红素辅基与两个亚基中的组氨酸连接成有功能的蛋白，并维持PSII的功能稳定性。前人曾将与血红素相连的His突变，导致Cyt b-559功能和PSII稳定性的丧失。基于此研究，本文采用定点突变技术，将亚基中与His23位置最近的上游氨基酸Arg18分别用Gly和Glu取代，下游氨基酸Ser24用Phe取代，获得了衣藻Cyt b-559的突变体。对突变体的分析，有以下新结果：突变体都能进行光合自养，但无论在异养培养基上还是自养培养基上，和对照相比，其生长速度非常缓慢; PSII的活性分析，表明PSII的放氧活性为野生衣藻细胞的50%～80%， Fv/Fm 的荧光参数为40%～70%;对突变体进行强光（1000μE•m-2•s-1）照射，10min后，其放氧活性都降低为0，而野生型衣藻还保持35%的活性;提取类囊体膜蛋白，进行SDS-PAGE电泳和Western-blotting分析，显示突变体的膜蛋白与对照无显著差异。这些结果说明对围绕血红素环境的固有氨基酸的改变，虽然并没有明显影响类囊体膜蛋白的表达和组成，但是却影响了衣藻细胞的生长和PSII的活性，增加了衣藻细胞对强光的敏感性，降低了衣藻细胞自身的光保护能力。这说明靠近血红素配位环境的氨基酸Arg和Ser，尤其是Arg，对Cyt b-559的功能维持不可缺少，对于维持PSII的活性也很重要。

从线粒体Cyt b基因探讨红瘰疣螈物种地位的有效性

疣螈属的红瘰疣螈(Tylototriton shanjing)和棕黑疣螈(T.verrucosus)的物种界限一直不清楚.测定了来自中国西南地区14个地点的T.shanjing和T.verrucosus共40只标本的线粒体DNA Cyt b基因(753 bp).结果表明:(1)用邻接法、最大简约法和贝叶斯法等3种系统发育分析法分别重建棕黑疣螈种组系统发育树的拓扑结构不支持T.shanjing是单系群;(2)T.shanjing与T.verrucsus的mtDNA Cyt b序列差异平均值仅为1.2%.未达到种级水平.因此,全部T.shanjing样品都属于同一个物种,即T.verrucosus,不支持T.shanjing的物种地位,T.shanjing为T.verrucosus的同物异名,并建议恢复T.verrucosus的中文名红瘰疣螈.根据基于40个样品Cvt b基因序列的系统发育树和遗传变异以及地理分布,这些红瘰疣螈(T.verrucosus)样品聚为3支,即中国西南地区的红瘰疣螈可分为片马、滇中滇西和滇东南3个地理居群.

黄河裸裂尻鱼群体遗传结构和Cyt b序列变异

测定了来自黄河上游和柴达木盆地托索湖的裸裂尻鱼共16个个体的Cytb基因全序列(1141bp),探讨了种群结构和遗传多样性。用MEGA2.1软件分析了碱基组成和序列变异;以青海湖裸鲤、花斑裸鲤和极边扁咽齿鱼为外类群,用PAUP*4.0b10程序构建了单倍型NJ树;用Arlequin Ver.2000程序计算了群体间遗传变异值(Fst)和Nm值以及群体分化概率值。结果显示,来自柴达木水系托索湖的裸裂尻鱼没有形成单系群,Fst=0.204(P<0.05),Nm=1.95。初步判断,黄河和柴达木水系托索湖的裸裂

蜂猴线粒体细胞色素b基因变异特点及系统发育分析

在所研究的个体中,2个蜂猴物种碱基组成具有哺乳动物的共同特点,它们之间转换比(特别是密码子第3位)是颠换比的6倍多,大于其他种间比较;低的Ka/Ks值(<0.1)说明懒猴科cyt-b基因的异义突变位点受到强的选择压力作用。由cyt-b基因构建的系统发育树符合懒猴科化石记录和形态学分类观点。根据化石记录和分化时间有一定线性关系的第3位颠换和同义突变速率,估算蜂猴与倭蜂猴种间、蜂猴与瘠蜂猴属间可能的分化时间分别为300和600万年。

天然三倍体鲫鱼突变体萍乡肉红鲫线粒体细胞色素b基因序列分析

用细胞色素b(Cyt b)基因特异性引物,对萍乡肉红鲫(Carassius auratus var.pingxiangnensis)的线粒体Cytb基因进行PCR扩增和双向测序。在12个个体中均得到序列一致的Cytb基因全序列,长度为1 140 bp。其A、T、G、C含量分别为28.2%(321)、28.8%(328)、14.8%(170)和28.2%(321),A+T含量(57%)明显高于G+C含量(43%),与其他水生动物相同基因片段碱基含量相似。该基因中密码子第1位核苷酸中4种碱基组成较为均衡;第2

Speciation and Phylogeography of Opsariichthys bidens (Pisces: Cypriniformes: Cyprinidae) in China: Analysis of the Cytochrome b Gene of mtDNA from Diverse Populations

Gao-Yan Li, Xu-Zhen Wang, Ya-Hui Zhao, Jie Zhang, Chun-Guang Zhang, and Shun-Ping He (2009) Speciation and phylogeography of Opsariichthys bidens (Pisces: Cypriniformes: Cyprinidae) in China: analysis of the cytochrome b gene of mtDNA from diverse populations. Zoological Studies 48(4): 569-583. The cyprinid fish Opsariichthys bidens Gunther is distributed in all major river systems of continental East Asia, and represents an attractive model for phylogeographic studies among cyprinid species or within a given species. In this study, we investigated the phylogeographic and demographic history of this species, using partial sequences of the cytochrome (cyt) b gene in mitochondrial (mt)DNA. Fish samples were collected from almost all major river systems where O. bidens is distributed in China. Sequence analysis showed remarkably high polymorphism, with 125 haplotypes in the 234 specimens examined, and with 89.8% of haplotypes occurring in only 1 specimen. A neutrality test indicated that some groups were not at mutation-drift equilibrium, suggesting a past population expansion. These results were supported by a mismatch distribution analysis. Based on our analysis, O. bidens consists of 4 groups belonging to 2 clades. The divergence time of the 2 clades was estimated to be 11.06-8.04 my. This value corresponds to the time of the 2nd uplift of the Qinghai-Tibet Plateau, the emergence of the East Asian monsoon, and the Epoch-6 Event. A two species scheme is proposed. http://zoolstud.sinica.edu.tw/Journals/48.4/569.pdf

Non-monophyly of fish in the Sinipercidae (Perciformes) as inferred from cytochrome b gene

The sinipercids represent a group of 12 species of freshwater percoid fish, including nine in Siniperca and three species in Coreoperca. Despite several classification attempts and a preliminary molecular phylogeny, the phylogenetic relationships and systematic position of sinipercids remained still unsolved. The complete cytochrome b gene sequences from nine sinipercid species four non-sinipercid fish species were cloned, and a total of 12 cyt b sequences from 10 species of sinipercids and 11 cyt b sequences from 10 species of non-sinipercid fish also in Perciformes were included in the phylogenetic analysis. As expected, the two genera Siniperca and Coreoperca within sinipercids are recovered as monophyletic. However, nine species representing Moronidae, Serranidae, Centropomidae, Acropomatidae, Emmelichtyidae, Siganidae and Centrarchidae included in the present study are all nested between Coreoperca and Siniperca, which provides marked evidence for a non-monophyly of sinipercid fishes. Coreoperca appears to be closest to Centrachus representing the family Centrarchidae. Coreoperca whiteheadi and C. herzi are sibling species, which together are closely related to C. kawamebari. In the Siniperca, the node between S. roulei and the remaining species is the most ancestral, followed by that of S. fortis. S. chuatsi and S. kneri are sibling species, sister to S. obscura. However, the sinipercids do not seem to have a very clear phylogenetic history, for different methods of phylogenetic reconstruction result in different tree topologies, and the only conclusive result in favor of a paraphyletic origin of the two sinipercid genera is the parametric bootstrap test. The paraphyly of Sinipercidae may suggest that the "synapomorphs" such as cycloid scales, upon which this family is based, were independently derived at least twice within sinipercid fishes, and further study should be carried out to include the other two Siniperca species and to incorporate other genes.

Comparison of evolutionary rates in the mitochondrial DNA cytochrome b gene and control region and their implications for phylogeny of the Cobitoidea (Teleostei : Cypriniformes)

It is widely accepted that mitochondrial DNA (mtDNA) control region evolves faster than protein encoding genes with few exceptions. In the present study, we sequenced the mitochondrial cytochrome b gene (cyt b) and control region (CR) and compared their rates in 93 specimens representing 67 species of loaches and some related taxa in the Cobitoidea (Order Cypriniformes). The results showed that sequence divergences of the CR were broadly higher than those of the cyt b (about 1.83 times). However, in considering only closely related species, CR sequence evolution was slower than that of cyt b gene (ratio of CR/cyt b is 0.78), a pattern that is found to be very common in Cypriniformes. Combined data of the cyt b and CR were used to estimate the phylogenetic relationship of the Cobitoidea by maximum parsimony, neighbor-joining, and Bayesian methods. With Cyprinus carpio and Danio rerio as outgroups, three analyses identified the same four lineages representing four subfamilies of loaches, with Botiinae on the basal-most clade. The phylogenctic relationship of the Cobitoidea was ((Catostomidae + Gyrinocheilidae) + (Botiinae + (Balitorinae + (Cobitinae + Nemacheilinae)))), which indicated that Sawada's Cobitidae (including Cobitinae and Botiinae) was not monophyletic. Our molecular phylogenetic analyses are in very close agreement with the phylogenetic results based on the morphological data proposed by Nalbant and Bianco, wherein these four subfamilies were elevated to the family level as Botiidae, Balitoridae, Cobitidae, and Nemacheilidae. (c) 2005 Elsevier Inc. All rights reserved.

光系统Ⅱ反应中心细胞色素b559结构和功能的研究

植物已经演化出多种保护其免受强光抑制和破坏的机制，从而使植物体在自然界能够应付复杂多变的光照环境。虽然人们早就确定Cyt b-559存在于PSII反应中心内，但目前对其性质与功能的认识还不充分。本工作的目的就是研究Cyt b-559天然分子特性，探讨其生理功能和存在的意义。取得了一些有新意的结果： 1、依据PSII反应中心分离纯化的原理，应用更有效的层析介质DEAE-Sephacel，我们设计了快速高效的从菠菜和水稻中分离纯化Cyt b-559的方法和流程，获得了高纯度的样品。它们在非变性胶电泳中具有相同的泳动性。蛋白组分的HPLC结果证明，纯化的Cyt b-559的确由两个亚基组成，α亚基和β亚基的分子量用我们设计的适合于分析小蛋白的Tricine—SDS—PAGE方法准确测定为9.4kDa和4.5kDa。 2、利用HPLC技术分析了纯化的Cyt b-559样品的色素组成，结果表明Cytb-559中含有Chl α而不含类胡萝卜素分子，这一结果通过吸收光谱和共振拉曼光谱的分析得到进一步地证明。通过等电聚焦方法分析了Cyt b-559的等电点，发现其亚基的等电点相差很大，全蛋白的等电点与...更多D1、D2蛋白的等电点也不相同，推测在体内生理pH条件下它们具有相反带电性而在PSII组装中发挥作用。 3、低温荧光光谱的检测结果表明，Cyt b-559的荧光发射峰位在563nm和666nm;首次证明Cyt b-559可以发出荧光和将电子传递给结合在其上的辅助叶绿素，但传递能力比较低故而导致其荧光特性与PSII反应中心的不相同。Cytb-559的紫外荧光光谱表明Trp残基位于其内部的疏水区域，证明Cyt b-559中的芳香族氨基酸可能在其功能的发挥中起一定作用。 4、通过MCD的分析，发现Cyt b-559中血红素的MCD信号在540—580nm和400—440nm波段，而且光谱形状和强度与PSII反应中心的相一致，说明PSII反应中心该范围内的MCD信号中有Cyt b-559的贡献。FTIR光谱的测定结果证明Cyt b-559血红素的配体是组氨酸，其二级结构中α-螺旋占了一半。此外，还比较了Cyt b-559和PSII反应中心的膜脂成分，发现两者有很大的相似性。不同植物来源的Cyt b-559在许多性质上都表现出高度一致，从一个侧面证明Cyt b-559在进化中的保守性。 5、PSll反应中心发生光破坏时，原初电子供体P680己受到严重破坏。我们发现，在光抑制的最初一段时间内，Cyt b-559吸收峰值发生变化：在受体侧光抑制的条件下，其吸收峰值先略有增加而后才下降，而在供体侧光抑制条件下则相反，说明 Cyt b-559对光抑制的发生非常敏感，可能在光抑制早期保护PSll反应中心。 6、纯化的Cyt b-559的组氨酸含量在照光前后没有显著的变化，说明 PSll反应中心内被破坏的组氨酸不属于Cyt b-559。PSll反应中心所含的组氨酸中有些可被DEPC修饰，但我们的实验结果表明DEPC不能修饰Cyt b-559的组氨酸。这可能有利于Cyt b-559保护功能的发挥。 7、我们观察到，在两种光抑制条件下，LP Cyt b-559光还原和 HP Cyt b-559光氧化具有对pH值的依赖性，说明Cyt b-559在光保护中的作用不仅与其高低电势态有关，而且与其质子化程度有联系。CCCP促进HP Cyt -559释放质子，从而维持循环电子传递。DCBQ和 DCMU在很低浓度时都抑制 Cyt b-559光还原，前者不影响Cyt b-559光氧化而后者在CCCP存在时也会抑制Cyt b-559光氧化。 8、Cyt b-559有定位PSll反应中心其它蛋白的锚蛋白的作用。黄化苗转绿实验证明在 HP Cyt b-559的含量增加超过 45％以后放氧活性开始逐渐增加。Cytb－559从低电势态到高电势态的转变是放氧复合物组装到PSll反应中心的关键步骤之一。在植物正常生长时，Cyt b-559与 P680的其它电于供体发生竟争，起到安全阀门的作用。 9、在逆境条件下，Cyt b-559具有保护PSll反应中心免受强光破坏而起到“分于开关”的作用。我们的实验表明，在室温条件下存在通过Cyt b-559的环式电子流，存在从氧化态LP Cyt b-559到还原态HP Cyt b-559的一个循环，其中的氧化还原变化与质子化／去质子化反应相连。通过与其它血红素蛋白的比较，我们推测 Cyt b-559“分子开关”的关键是：光抑制情况下，铁原子与远端His之间的疏水空穴被氧自由基占据后使得铁进入叶琳中央孔中，迫使近端HIS向叶琳平面位移，从而引起 Cyt b-559构象改变，使电势态发生转变。

新型光系统II电子传递抑制剂的抑制特性及作用位点的研究

本文由两部分组成，一部分是关于一组新型除草剂(K-15，K-23)的抑制特性及作用位点的研究;另一部分是关于碳酸氢盐对细胞色素b-559高电势的保护作用的研究。 在第一部分，我们首先研究了抑制剂K-23对Psn放氧活性、DCIP光还原和可变荧光等光合特性的影响。研究发现，K-23在低浓度时刺激放氧活性，而在相对高浓度时抑制放氧活性。但是，K-23在低浓度时却有效地抑制了可变荧光。这些数据表明了新型抑制剂的抑制反应是基于氧化还原作用而不是猝灭作用。此外，通过采用胰蛋白酶消化类囊体膜的方式初步检测了新型抑制剂的作用部位，其结果表明：虽然新型抑制剂抑制受体侧电子传递，但它的抑制部位与DCMU不同。 其次，研究了新型抑制剂对光系统II色素蛋白复合体与多肽组分的影响及抑制剂的键合蛋白。应用SDS-PAGE技术，发现新型抑制剂主要作用于光系统II的反应中心蛋白。用温和的Deriphat-PAGE分析也证实了新型抑制剂作用于核心复合物，导致核心复合物二聚体消失。 进一步用SDS-PAGE分析新型抑制剂对Psn多肽组分的影响，发现新型抑制剂主要影响D．、D2、CP43和CP47。用荧光发射的方法确定了K-15键合在D2蛋白上。 最后，结合荧光动力学和HPLC方法，分别从定性和定量的角度，以核心复合物以及抑制剂存在下从BBY中分离的核心复合物为研究对象，详细研究了抑制剂对QA的取代作用。研究发现，在无去垢剂或低浓度去垢剂存在情况下，由于不能创造出适合于QA存在的疏水环境，我们没有得到QA被K-15取代的实验证据。而在抑制剂K-15存在下，用2.2% HTG从BBY分离的核心复合物的实验中，检测不到正的可变荧光Fv，而是得到了降低的FM，这个结果表明QA已被抑制剂在它的作用位点处所取代。 在第二部分，研究了pH5.0—7.0范围内碳酸氢盐对Cyt b-559氧化还原状态转变的影响。首先研究了pH5.0～7.0条件下碳酸氢盐对PSII Cyt b-559还原减氧化差异吸收光谱的影响，发现铁氰化钾还原的PSII Cyt b-559 HP的含量随介质pH值的降低而减少。然而，碳酸氢盐的加入阻止了由于介质pH降低而引起的Cyt b-559由高电势向低电势的转化。比如，当样品温育在pH5.0的介质中，铁氰化钾还原的Cyt b-559 HP含量占总量的25%-30%，当介质中加入2mmol/L碳酸氢盐后Cyt b-559 HP的含量上升，占总量的50%-56%。碳酸氢盐效应对氢醌还原的Cyt b-559HP含量的影响尤为显著。pH6.5时碳酸氢盐对Cyt b-559的还原氧化状态的影响不显著。其次，分别研究了PSII经Tris处理去除锰簇和三个外周蛋白及NH20H处理去除锰簇和17 kDa和23 kDa后，碳酸氢盐对Cytb一559 HP影响的pH依赖值，发现不论在pH5.0还是pH6.5的介质中碳酸氢盐效应都不存在。 综合以上实验结果，我们认为碳酸氢盐对酸化引起的Cyt b-559氧化还原状态的影响与它和锰的作用有关，但也不能排除钙离子与碳酸氢盐之间的协同作用。

鮡科褶鮡属鱼类部分线粒体DNA序列分析与分子进化

采用PCR技术获得了中国鮡科褶鮡属(Pseudecheneis)5种鱼类及外群种类巨魾[Bagarius yarrelli(Sykes)]和红河纹胸鮡(Glyptothorax fukiensis honghensis Li)的线粒体部分基因序列.序列分析结果表明:间褶鮡(Pseudecheneis intermedius Chu)与平吻褶鮡(P.paviei Vaillant)在Cyt b基因片段上完全无差异,形成单倍型,支持间褶鮡应为平吻褶鮡的同物异名.凭Cyt b基因片段构建了它们的NJ,MP和ML分子树,3棵分子树基本一致,均支持褶鮡属构成一单系群;怒江和伊洛瓦底江"黄斑褶鮡"不同样品分别聚在一起,但二水系的样品未能形成一单系;其他各种的不同样品均能分别聚在一起形成单系.怒江和伊洛瓦底江"黄斑褶鮡"的分类地位值得今后进一步研究.

What are the closest relatives of the hot-spring snakes (Colubridae, Thermophis), the relict species endemic to the Tibetan Plateau?

We conducted phylogenetic analyses to identify the closest related living relatives of the Xizang and Sichuan hot-spring snakes (T baileyi and T. zhaoermii) endemic to the Tibetan Plateau, using mitochondrial DNA sequences (cyt b, ND4) from eight specimen

青海湖裸鲤的起源和花斑裸鲤的种群演化

通过线粒体Cytb基因全序列分析,探讨了青海湖裸鲤和花斑裸鲤的起源关系及其进化模式.系统发育分析进一步支持了青海湖裸鲤和花斑裸鲤3个mtDNA谱系的划分.形态上具有高鳃耙变异的个体未形成特有的进化枝,证明了第一鳃弓外鳃耙变异并不具有系统发育意义.对青海湖裸鲤和花斑裸鲤进化枝扩散模式的网络分析表明,黄河独有的单倍型A1是一个创立者单倍型,全部青海湖裸鲤的样品来自于它的辐射,而青海湖裸鲤可能仅仅起源于黄河花斑裸鲤两个主要支系中的一个.Fs检验和核苷酸不配对分析暗示了青海湖裸鲤和柴达木盆地花斑裸鲤在历史上经历过

似鮈(Pseudogobio vaillanti)的分子生物地理学分析

似鮈(Pseudogobiovaillanti)是广布于中国淡水水体中的一种小型鲤科鱼类.通过分析线粒体细胞色素b(cytb)基因序列变异,探讨似鮈不同地理种群的相互关系,研究似鮈的生物地理学过程,并讨论其物种分化的现状.收集了来自辽河、长江(赣江、信江等)、富春江、珠江、万泉河等水系的样品.在获得的似鮈61个样本的线粒体cytb基因全序列(1140bp)中,共检测出了45个单倍型.线粒体单倍型的网络分析发现45个单倍型不形成一个网络图,而是分成9个单元群.邻接树的结果显示,这些单倍型形成5个大的分支,基

Molecular evidence for diphyly of the Asian catfish family Amblycipitidae (Teleostei: Siluriformes) and exclusion of the South American Aspredinidae from Sisoroidea

Amblycipitidae Day, 1873 is an Asian family of catfishes (Siluriformes) usually considered to contain 28 species placed in three genera: Amblyceps (14 spp.), Liobagrus (12 spp.) and Xiurenbagrus (2 spp.). Morphology-based systematics has supported the monophyly of this family, with some authors placing Amblycipitidae within a larger group including Akysidae, Sisoridae and Aspredinidae, termed the Sisoroidea. Here we investigate the phylogenetic relationships among four species of Amblyceps, six species of Liobagrus and the two species of Xiurenbagrus with respect to other sisoroid taxa as well as other catfish groups using 6100 aligned base pairs of DNA sequence data from the rag1 and rag2 genes of the nuclear genome and from three regions (cyt b, COL ND4 plus tRNA-His and tRNA-Ser) of the mitochondrial genome. Parsimony and Bayesian analyses of the data indicate strong support for a diphyletic Amblycipitidae in which the genus Amblyceps is the sister group to the Sisoridae and a clade formed by genera Liobagrus and Xiurenbagrus is the sister group to Akysidae. These taxa together form a well supported monophyletic group that assembles all Asian sisoroid taxa, but excludes the South American Aspredinidae. Results for aspredinids are consistent with previous molecular studies that indicate these catfishes are not sisoroids, but the sister group to the South American doradoid catfishes (Auchenipteridae + Doradidae). The redefined sisoroid clade plus Bagridae, Horabagridae and (Ailia + Laides) make up a larger monophyletic group informally termed "Big Asia." Likelihood-based SH tests and Bayes Factor comparisons of the rag and the mitochondrial data partitions considered separately and combined reject both the hypothesis of amblycipitid monophyly and the hypothesis of aspredinid inclusion within Sisoroidea. This result for amblycipitids conflicts with a number of well documented morphological synapomorphies that we briefly review. Possible nomenclatural changes for amblycipitid taxa are noted.