Neutral adaptation of the genetic code to double-strand coding

Summary We lay new foundations to the hypothesis that the genetic code is adapted to evolutionary retention of information in the antisense strands of natural DNA/RNA sequences. In particular, we show that the genetic code exhibits, beyond the neutral replacement patterns of amino acid substitutions, optimal properties by favoring simultaneous evolution of proteins encoded in DNA/RNA sense-antisense strands. This is borne out in the sense-antisense transformations of the codons of every amino acid which target amino acids physicochemically similar to each other. Moreover, silent mutations in the sense strand generate conservative ones in its antisense counterpart and vice versa. Coevolution of proteins coded by complementary strands is shown to be a definite possibility, a result which does not depend on any physical interaction between the coevolving proteins. Likewise, the degree to which the present genetic code is dedicated to evolutionary sense-antisense tolerance is demonstrated by comparison with many randomized codes. Double-strand coding is quantified from an information-theoretical point of view.     

钉螺神经系统的显微解剖

作者于1988至1990年,对采自南京的133号日本血吸虫的中间宿主钉螺的神经系统进行了显微解剖研究。其神经系统由神经中枢和外周神经组成。前者由8对和两个不成对的神经节组成,神经节之间存在着3种联合和7种连索;后者主要由47对和18条不对称的神经组成;嗅检器位于鳃的基部。     

The molecular basis of cystinuria: the role of the rBAT gene

Summary The cDNAs of mammalian amino acid transporters already identified could be grouped into four families. One of these protein families is composed of the protein rBAT and the heavy chain of the cell surface antigen 4F2 (4F2hc). The cRNAs of rBAT and 4F2hc induce amino acid transport activity via systems b^0,+ -like and y⁺L -like inXenopus oocytes respectively. Surprisingly, neither rBAT nor 4F2hc is very hydrophobic, and they seem to be unable to form a pore in the plasma membrane. This prompted the hypothesis that rBAT and 4F2hc are subunits or modulators of the corresponding amino acid transporters. The association of rBAT with a light subunit of ~40kDa has been suggested, and such an association has been demonstrated for 4F2hc.The b^0,+-like system expressed in oocytes by rBAT cRNA transports L-cystine, L-dibasic and L-neutral amino acids with high-affinity. This transport system shows exchange of amino acids through the plasma membrane ofXenopus oocytes, suggesting a tertiary active transport mechanism. The rBAT gene is mainly expressed in the outer stripe of the outer medulla of the kidney and in the mucosa of the small intestine. The protein localizes to the microvilli of the proximal straight tubules (S3 segment) of the nephron and the mucosa of the small intestine. All this suggested the participation of rBAT in a high-affinity reabsorption system of cystine and dibasic amino acids in kidney and intestine, and indicated rBAT (named SLC3A1 in Gene Data Bank) as a good candidate gene for cystinuria. This is an inherited aminoaciduria due to defective renal and intestinal reabsorption of cystine and dibasic amino acids. The poor solubility of cystine causes the formation of renal cystine calculi. Mutational analysis of the rBAT gene of patients with cystinuria is revealing a growing number (~20) of cystinuria-specific mutations, including missense, nonsense, deletions and insertions. Mutations M467T (substitution of methionine 467 residue for threonine) and R270X (stop codon at arginine residue 270) represent approximately half of the cystinuric chromosomes where mutations have been found. Mutation M467T reduces transport activity of rBAT in oocytes. All this demonstrates that mutations in the rBAT gene cause cystinuria.Three types of cystinuria (types, I, II and III) have been described on the basis of the genetic, biochemical and clinical manifestations of the disease. Type I cystinuria has a complete recessive inheritance; type I heterozygotes are totally silent. In contrast, type II and III heterozygotes show, respectively, high or moderate hyperaminoaciduria of cystine and dibasic amino acids. Type III homozygotes show moderate, if any, alteration of intestinal absorption of cystine and dibasic amino acids; type II homozygotes clearly show defective intestinal absorption of these amino acids. To date, all the rBAT cystinuria-specific mutations we have found are associated with type I cystinuria (~70% of the chromosomes studied) but not to types II or III. This strongly suggests genetic heterogeneity for cystinuria. Genetic linkage analysis with markers of the genomic region of rBAT in chromosome 2 (G band 2p16.3) and intragenic markers of rBAT have demonstrated genetic heterogeneity for cystinuria; the rBAT gene is linked to type I cystinuria, but not to type III. Biochemical, genetic and clinical studies are needed to identify the additional cystinuria genes; a low-affinity cystine reabsortion system and the putative light subunit of rBAT are additional candidate genes for cystinuria.     

大脑皮层信息传输和精神分裂症

本工作用脑电图为测试手段,比较了正常人与精神分裂症病人的大脑皮层的信息传输。我们发现精神分裂病人的大脑皮层信息传输有非常特殊的现象。正常人在睁眼时大脑皮层信息传输比较活跃,当闭眼时信息传输相对减少。而精神分裂症病人则恰好相反。闭眼时信息传输很活跃而睁眼对它们产生抑制,严重的情况可与正常人深度睡眠时类似。经过近三百多例的统计分析这种差别是非常显著的。我们认为这种方法可能作为诊断精神分裂症的客观指标。     

Information about previous phosphate fluctuations is stored via an adaptive response of the high-affinity phosphate uptake system of the cyanobacterium Anacystis nidulans

The high-affinity uptake system of phosphatelimited cyanobacterium Anacystis nidulans [Synechococcus leopoliensis (Raciborski) Komarek] is characterized by a threshold value below which uptake cannot occur. Here it is shown that, if phosphate-limited cyanobacteria are challenged with a short pulse of high phosphate concentration that appreciably exceeds this threshold value, the uptake system undergoes an adaptive response, leading to the attainment of new kinetic properties and a new threshold value. These new properties are maintained for several hours after the pulse. A notable characteristic of this new state is a wide linear dependence of the uptake rate on the external phosphate potential that is a function of the driving force of the uptake process. According to theoretical arguments it is shown that this “linear operation mode” can be explained by the simultaneous operation of several uptake systems with different, staggered threshold values and kinetic properties. Moreover, the new linear uptake properties, in turn, reflect the prehistory of phosphate supply experienced by the population. The consequences of this result with regard to environmental fluctuations of the phosphate concentration in lakes are discussed.     

A method for determining the position and size of optimal sequence regions for phylogenetic analysis

The availability of fast and accurate sequencing procedures along with the use of PCR has led to a proliferation of studies of variability at the molecular level in populations. Nevertheless, it is often impractical to examine long genomic stretches and a large number of individuals at the same time. In order to optimize this kind of study, we suggest a heuristic procedure for detection of the shortest region whose informational content can be considered sufficient for significant phylogenetic reconstruction. The method is based on the comparison of the pairwise genetic distances obtained from a set of sequences of reference to those obtained for different windows of variable size and position by means of a simple index. We also present an approach for testing whether the informative content in the stretches selected in this way is significantly different from the corresponding content shown by the larger genomic regions used as reference. Application of this test to the analysis of the VP1 protein gene of foot-and-mouth-disease type C virus allowed us to define optimal stretches whose informative content is not significantly different from that displayed by the complete VP1 sequence. We showed that the predictions made for type C sequences are valid for type O sequences, indicating that the results of the procedure are consistent. Correspondence to: J. Dopazo     

Of mice and wrens: the relation between abundance and geographic range size in British mammals and birds

We examine the relation between population size and geographic range size for British breeding birds and mammals. As for most other assemblages studied, a strong positive interspecific correlation is found in both taxa. The relation is also recovered once the phylogenetic relatedness of species has been controlled for using an evolutionary comparative method. The slope of the relation is steeper for birds than for mammals, but this is due in large part to two species of mammals that have much higher population sizes than expected from their small geographic ranges. These outlying mammal species are the only ones in Britain to be found only on small offshore islands, and so may be exhibiting density compensation effects. With them excluded, the slope of the abundance–range size relation for mammals is not significantly different to that for birds. However, the elevation of the relation is higher for mammals than for birds, indicating that mammals are approximately 30 times more abundant than birds of equivalent geographic range size. An earlier study of these assemblages showed that, for a given body mass, bats had abundances more similar to birds than to non-volant mammals, suggesting that the difference in abundance between mammals and birds might be due to constraints of flight. Our analyses show that the abundance–range size relation for bats is not different for that from other mammals, and that the anomalously low abundance of bats for their body mass may result because they have smaller than expected geographic extents for their size. Other reasons why birds and mammals might have different elevations for the relation between population size and geographic range size are discussed, together with possible reasons for why the slopes of these relations might be similar.     

金缕梅科:地理分布、化石历史和起源

本文利用系统发育与地理分布相结合的方法,探讨金缕梅科各属植物的系统位置和分布式样,并结合化石、古地理及古气候等证据,讨论该科的分布中心,可能的起源时间和地点以及现代分布式样形成的原因。研究结果表明：全世界金缕梅科植物共30属144种,间断分布于亚洲西部、东部、东南部,非洲东部、南部,大洋洲的澳大利亚东北部以及中美洲和北美洲的东南部,欧洲和南美洲尚无现代类群分布的记载。它基本上是一个热带和亚热带山地分布的科。通过对该科30个属的系统位置及其分布式样的分析,将金缕梅科属的分布归纳为：A．热带分布类型(18属),包括(1)热带亚洲分布(11属),(2)热带中美洲分布(2属),(3)热带非洲分布(2属),(4)热带大洋洲分布(3属),B．温带分布类型(12属),包括(5)东亚分布(7属),(6)西亚分布(2属),(7)西亚-东亚-北美间断分布(1属),(8)东亚-北美间断分布(1属),(9)北美分布(1属)。东亚区南部到印度支那区北部(即中国长江以南至中南半岛北部地区)是它的现代分布区中心;根据化石证据、原始类型分布和外类群分布分析,提出该科植物起源于劳亚古陆,并曾经有一个很长的白垩纪历史,至少在早白垩纪金缕梅科植物的先驱就已经出现。最后,从地质和气候的变迁等方面探讨了金缕梅科现代分布区形成的原因。     

模拟浮游生物的季节变化

本文讨论了海洋中光合作用过程和计算光合作用的速率方程。运用垂直平均值的浮游生物模型研究了在一个固定站和扩展湾流体系中,浮游植物、浮游动物和营养盐的季节变化。结果表明,夹卷过程将含营养盐丰富的中层水带入了混合层,从而导致浮游植物的生长;摸式较好地给出了扩展湾流体系中的水华季,基本上得到了浮游生物的生活周期。使用不同的参数值进行了若干实验,并对结果进行了讨论。     

南岭植物区系地理学研究──Ⅲ．植物区系地理亲缘与区划

南岭山地与相邻地区植物区系具有明显的过渡或替代关系,主要通过亚热带及亚热带亚热带亚洲分布成分与华南南亚热带及亚洲热带地区联系;与华中和华东地区植物区系的联系以亚热带及亚热带至温带分布和中国—日本间断分布成分来沟通;与西南地区植物区系的联系则表现为两地共有的古老和与遗成分区及石灰岩山地区系成分．华夏植物区系,是从古老的华夏植物群逐步发展起来的统一体,在区系分区上应划归为统一的华夏植物界,下分东亚植物区、马来西亚植物区和印度—喜马拉雅植物区。南岭山地植物区系拥有其自身的标志种、特有属和丰富的特有种,在区系分区上可划为完整的南岭植物亚省,下分东南岭植物县、中南岭植物县和西南岭植物县。