STUDIES ON THE PURIFYING SPACE IN ARTIFICIAL WETLANDS WITH CATTAIL AND RUSH

调查了人工湿地水生植物根区理化特性，根系扩展的深度和位置，微生物和酶的分布状况；比较了不同深度人工湿地污水净化效果；探讨了人工湿地污水处理系统最佳净化空间位点。通过对香蒲、灯心草人工湿地的研究，发现植物的根系主要分布在基质上层２５ｃｍ区域内，在５到１０ｃｍ区域内，微生物数量最多，２５ｃｍ区域次之，３５ｃｍ以下较少。系统表层磷酸酶，葡聚糖脱水酶和蛋白酶的活性较２０ｃｍ区域内各酶活性强。对于废水的净化而言，系统２０ｃｍ和６０ｃｍ处的净化效果差别很小。结果表明，人工湿地废水处理系统上部区域为较佳净化空间。

Relaxed purifying selection of rhodopsin gene within a Chinese endemic cavefish genus Sinocyclocheilus (Pisces: Cypriniformes)

The cyprinid fish genus Sinocyclocheilus, as the most cavefish rich genus, includes many species showing striking adaptation to caves and convergent reduction or even loss of eyes and pigmentation. RH1 is responsible for dim vision. In order to explore the evolution of RH1 gene in this genus, we sequenced the complete gene from 28 individuals of 16 representative species of Sinocyclocheilus, with cave and surface species included. Phylogenetic analyses supported the monophyly of Sinocyclocheilus and polyphyly of the cave species. Codon models implemented in PAML were used to infer the evolution of RH1. We found that Sinocyclocheilus had a significantly higher evolutionary rate for amino acids than other cyprinid fishes compared, which might be the result of relaxation of purifying selection and could be ascribed to cave habit of this genus. In contrast to previous hypotheses, both cave and surface lineages exhibited a similar rate of molecular evolution, so the RH1 of cave species may still be functional, although these species were highly adapted to cave environment. Two amino acid substitutions (D83G and E122V) that were not reported before were found, which may be useful for site-directed mutagenesis in the future.

人工湿地强化净化太湖水体富营养化研究

为了进一步降低水中营养盐浓度、提高水体透明度，为湖泊生态系统的恢复创造条件，促进湖泊水体生态系统良性循环，以太湖五里湖富营养化水体为研究对象，采用中试规模的人工湿地技术来强化净化富营养化水体。重点研究了不同流态、不同基质、不同植物及植物有无条件下各人工湿地系统对富营养化水体的处理效果。此外，还对生长在人工湿地中的7种湿地植物芦苇(Phragmites communis)、香蒲(Typha angustifolia)、茭白(Zizania caduciflora)、水葱(Scirpus validus.)、菖蒲(Acorus calamus)、鸢尾(Iris pseudacorus)和千屈菜(Lythrum salicaria)的生长、生理生态特性如气体交换、叶绿素荧光、光合色素含量及氮、磷吸收能力进行了研究，旨在探索高等植物在富营养化水体净化过程中的机理和规律，为人工湿地污水净化机理奠定一定的科学和理论基础。主要研究结果如下： 通过对垂直潜流、水平潜流和自由表面流三种类型的人工湿地系统对富营养化水体净化效果的对比研究，我们发现在水力负荷0.64 m d-1，进水污染物浓度化学需氧量(COD) 7.37 mg L-1、氨氮(NH4+-N) 1.63 mg L-1、硝氮(NO3--N )1.41 mg L-1、总氮(TN) 4.82 mg L-1和总磷(TP) 0.15 mg L-1的条件下，三种不同流态的人工湿地对富营养化水体均有一定的净化功能。三种类型的人工湿地对主要污染物COD、NH4+-N、NO3--N、TN和TP的去除效果分别为：垂直潜流40.4%、45.9%、62.9%、51.6%和64.3%;水平潜流39.6%、32.0%、65.3%、52.1%和65.7%;自由表面流16.5%、22.8%、34.2%、19.8%和35.1%。相比之下，垂直潜流、水平潜流对主要的污染物的去除效果明显好于自由表面流人工湿地。除垂直潜流湿地NH4+-N的平均去除率显著大于水平潜流外，两人工湿地在其余指标的去除效果上无显著差异。考虑到土地面积的限制，就太湖五里湖富营养化水体治理而言，垂直潜流和水平潜流较自由表面流更为适合。 以沸石为基质的人工湿地较以砾石为基质的人工湿地对NH4+-N有很好的去除效果，除此之外两种基质类型的人工湿地在其余各污染指标的去除效果方面差异不显著。但随着湿地运行时间的延长，沸石对NH4+-N的吸收能力会逐渐减弱，考虑到湿地构建成本，建议就地取材，以当地较为廉价的砾石为人工湿地基质比较经济适用。 有无植物对有机污染物COD的去除效果影响差异不显著，但对TN和TP去除效果影响差异极显著，有植物的人工湿地对TN的去除率比无植物的分别高出12.5%和13.4%，对TP去除率分别高出16.9%和31.0%。不同植物对人工湿地处理效果的影响差异不显著，可见湿地流态对处理效果的影响大于植物的影响。 各湿地植物叶片的净光合速率(Pn)日变化均为双峰曲线，有光合“午休”现象。其中芦苇、茭白、鸢尾、菖蒲、水葱和千屈菜Pn的下降主要是由气孔导度(gs)的下降造成的，而香蒲则更多的受叶肉光合能力下降的影响。除千屈菜的Pn与gs之间呈显著正相关外，其余植物的Pn与gs之间均呈极显著正相关。气孔行为对湿地植物光合作用碳的固定显示了明显的主导控制作用。 各湿地植物的光补偿点(LCP)差异不显著，其均值都在10µmol m-2 s-1以上，显示了阳生植物的特性。但湿地植物的光饱和点 (LSP)差异极显著，LSP大小依次为香蒲1476.3µmol m-2 s-1>水葱1140.0µmol m-2 s-1>菖蒲753.7µmol m-2 s-1>芦苇751.7µmol m-2 s-1>茭白640.7µmol m-2 s-1>千屈菜567.3µmol m-2 s-1>鸢尾479.0µmol m-2 s-1。7种湿地植物的CO2补偿点差异极显著，CO2补偿点大小依次为水葱47.1µmol mol-1>茭白28.4µmol mol-1>香蒲23.7µmol mol-1>鸢尾16.8µmol mol-1>菖蒲16.7µmol mol-1>千屈菜15.2µmol mol-1>芦苇14.8µmol mol-1。与此相反，湿地植物的CO2饱和点差异不显著。 各湿地植物的Fv/Fm值大小差异也极显著，Fv/Fm值大小依次为千屈菜0.8168>水葱0.8348>香蒲0.8262>菖蒲0.8198>芦苇0.8168>茭白0.8040>鸢尾0.7930。由此可见千屈菜、水葱较芦苇和茭白有较高的PSⅡ效率。7种湿地植物叶片的叶绿素a、叶绿素b和类胡萝卜素含量水平差异极显著，芦苇和茭白叶片的叶绿素和类胡萝卜素含量水平都较高，这在客观上解释了他们为何拥有较强的光合能力。 不同湿地植物的生物量大小差异极显著，平均生物量(干重)变化范围在0.26-6.65 kg m-2之间。除香蒲和水葱的地下部生物量显著大于地上部外，其余植物都是地上部生物量大于地下部，这非常有利于人工湿地生态工程中通过收获植物地上部生物量来达到去除氮、磷污染目的。 不同湿地植物植株氮、磷含量差异极显著。湿地植物对氮吸收总量变化范围为6.09-93.96 g m-2，吸收氮最高是芦苇，最低是菖蒲;对磷吸收总量变化范围为0.51-8.95 g m-2，吸收磷最高是香蒲，最低是菖蒲。经测算，植物吸收的总氮量占人工湿地总氮去除量的0.6-17.1%，总磷量占人工湿地总磷去除量的1.4-40.5%。本次试验中香蒲和芦苇对氮、磷的吸收去除能力比较高，茭白、鸢尾、水葱和千屈菜的吸收去除能力中等，而菖蒲的吸收能力较弱。

Genetic evidence of a strong functional constraint of neurotrypsin during primate evolution

Neurotrypsin is one of the extra-cellular serine proteases that are predominantly expressed in the brain and involved in neuronal development and function. Mutations in humans are associated with autosomal recessive non-syndromic mental retardation (MR). We studied the molecular evolution of neurotrypsin by sequencing the coding region of neurotrypsin in 11 representative non-human primate species covering great apes, lesser apes, Old World monkeys and New World monkeys. Our results demonstrated a strong functional constraint of neurotrypsin that was caused by strong purifying selection during primate evolution, an implication of an essential functional role of neurotrypsin in primate cognition. Further analysis indicated that the purifying selection was in fact acting on the SRCR domains of neurotrypsin, which mediate the binding activity of neurotrypsin to cell surface or extracellular proteins. In addition, by comparing primates with three other mammalian orders, we demonstrated that the absence of the first copy of the SRCR domain (exon 2 and 3) in mouse and rat was due to the deletion of this segment in the murine lineage. Copyright (C) 2005 S. Karger AG, Basel.

Sequence evolution of the CCR5 chemokine receptor gene in primates

The chemokine receptor CCR5 can serve as a coreceptor for M-tropic HIV-1 infection and both M-tropic and T-tropic SIV infection. We sequenced the entire CCR5 gene from 10 nonhuman primates: Pongo pygmaeus, Hylobates leucogenys, Trachypithecus francoisi, Trachypithecus phayrei, Pygathrix nemaeus, Rhinopithecus roxellanae, Rhinopithecus bieti, Rhinopithecus avunculus, Macaca assamensis, and Macaca arctoides. When compared with CCR5 sequences from humans and other primates, our results demonstrate that:(1) nucleotide and amino acid sequences of CCR5 among primates are highly homologous, with variations slightly concentrated on the amino and carboxyl termini; and (2) site Asp13, which is critical for CD4-independent binding of SIV gp120 to Macaca mulatta CCR5, was also present in all other nonhuman primates tested here, suggesting that those nonhuman primate CCR5s might also bind SIV gp120 without the presence of CD4. The topologies of CCR5 gene trees constructed here conflict with the putative opinion that the snub-nosed langurs compose a monophyletic group, suggesting that the CCR5 gene may not be a good genetic marker for low-level phylogenetic analysis. The evolutionary rate of CCR5 was calculated, and our results suggest a slowdown in primates after they diverged from rodents. The synonymous mutation rate of CCR5 in primates is constant, about 1.1 x 10(-9) synonymous mutations per site per year. Comparisons of K-a and K-s suggest that the CCR5 genes have undergone negative or purifying selection. K-a/K-s ratios from cercopithecines and colobines are significantly different, implying that selective pressures have played different roles in the two lineages.

Episodic evolution of prolactin gene in primates

In the present study, we obtained exon 2-5 of prolactin (PRL) gene from four primate species by PCR and sequencing. Adding other genes available in GenBank, we calculate amino acid substitution rates for prolactin gene in primate. Comparison of nonsynonymous substitution rate to synonymous substitution rate ratios shows no evidence of positive selection for any lineage of primate prolactin gene. According to this and the facts that (i) no sites under positive selection are inferred by using maximum-likelihood method; (ii) among 32 amino acid replacement that occurred along the rapid evolutionary phase, only two are included in the 40 functionally important residues, indicating that amino acid replacement tends to occur in those functionally unimportant residues; (iii) partial of prolactin function is replaced by placental lactogen in primate at the rapid evolutionary phase of prolactin gene, we thus deem that it is relaxation of purifying selection to some extent rather than positive selection that enforces the rapid evolution of primate prolactin gene.

Molecular evolution of growth hormone gene family in old world monkeys and hominoids

Growth hormone is a classic molecule in the study of the molecular clock hypothesis as it exhibits a relatively constant rate of evolution in most mammalian orders except primates and artiodactyls, where dramatically enhanced rate of evolution (25-50-fold) has been reported. The rapid evolution of primate growth hormone occurred after the divergence of tarsiers and simians, but before the separation of old world monkeys (OWM) from new world monkeys (NWM). Interestingly, this event of rapid sequence evolution coincided with multiple duplications of the growth hormone gene, suggesting gene duplication as a possible cause of the accelerated sequence evolution. Here we determined 21 different GH-like sequences from four species of OWM and hominoids. Combining with published sequences from OWM and hominoids, our analysis demonstrates that multiple gene duplications and several gene conversion events both occurred in the evolutionary history of this gene family in OWM/hominoids. The episode of recent duplications of CSH-like genes in gibbon is accompanied with rapid sequence evolution likely resulting from relaxation of purifying selection. GHN genes in both hominoids and OWM are under strong purifying selection. In contrast, CSH genes in both lineages are probably not. GHV genes in OWM and hominoids evolved at different evolutionary rates and underwent different selective constraints. Our results disclosed the complex history of the primate growth hormone gene family and raised intriguing questions on the consequences of these evolutionary events. © 2005 Elsevier B.V. All rights reserved.

The complete mitochondrial genomes of two species from Sinocyclocheilus (Cypriniformes: Cyprinidae) and a phylogenetic analysis within Cyprininae

We determined the complete mitochondrial DNA sequences for two species of surface- and cave-dwelling-cyprinid fishes, Sinocyclocheilus grahami and S. altishoulderus. Sequence comparison of 13 protein-coding genes shows that the mutation pattern of each single gene is quite similar to those of other vertebrate animal species. Analysis of the ratios of Ka/Ks at these loci between Sinocyclocheilus and two other cyprinid species (Cyprinus carpio and Procypris rabaudi) show that Ka/Ks ratios are differed, consistent with purifying selection and variation in functional constraint among genes. Bayesian analysis and maximum likelihood analysis of the concatenated mitochondrial protein sequences for 14 cyprinid taxa support the monophyly of the family Cyprininae, and further confirm the monophyly of the genus Sinocyclocheilus. The two Sinocyclocheilus species fall within the Cyprinion-Onychostoma lineage, including Cyprinus, Carassius, and Procypris, rather than among the Barbinae, as previously suggested on morphological grounds.

Origin and evolution of ubiquitin-conjugating enzymes from Guillardia theta nucleomorph to hominoid

The origin of eukaryotic ubiquitin-conjugating enzymes (E2s) can be traced back to the Guillardia theta nucleomorph about 2500 million years ago (Mya). E2s are largely vertically inherited over eukaryotic evolution [Lespinet, O., Wolf, Y.I., Koonin, E.V.,

Recombination Yet Inefficient Selection along the Drosophila melanogaster Subgroup's Fourth Chromosome

A central goal of evolutionary genetics is an understanding of the forces responsible for the observed variation, both within and between species. Theoretical and empirical work have demonstrated that genetic recombination contributes to this variation by breaking down linkage between nucleotide sites, thus allowing them to behave independently and for selective forces to act efficiently on them. The Drosophila fourth chromosome, which is believed to experience no-or very low-rates of recombination has been an important model for investigating these effects. Despite previous efforts, central questions regarding the extent of recombination and the predominant modes of selection acting on it remain open. In order to more comprehensively test hypotheses regarding recombination and its potential influence on selection along the fourth chromosome, we have resequenced regions from most of its genes from Drosophila melanogaster, D. simulans, and D. yakuba. These data, along with available outgroup sequence, demonstrate that recombination is low but significantly greater than zero for the three species. Despite there being recombination, there is strong evidence that its frequency is low enough to have rendered selection relatively inefficient. The signatures of relaxed constraint can be detected at both the level of polymorphism and divergence.

Sox genes evolution in closely related young tetraploid cyprinid fishes and their diploid relative

Previous study and analysis of cytochrome b suggested that polyploidization event in the genus Tor occurred about 10 Mya ago. In order to understand evolutionary fates of Sox gene in the early stage of genome duplication at the nucleotide level, PCR surveys for Sox genes in three closely related cyprinid fishes T douronensis (2n = 100), T qiaojiensis (2n = ?), T sinensis (2n = 100) and their relative T brevifilis (2n = 50) were performed. Totally, 52 distinct Sox genes were obtained in these four species, representing SoxB, SoxC, and SoxE group. As expected, isoforms of some Sox genes correspond with the ploidy of species, such as two copies of Sox9a exist in tetraploid species. Analysis indicated that duplicated Sox gene pairs caused by polyploidization evolved independently of each other within polyploid species. Results of substitution rate showed nearly equal rate of nonsynonymous substitution of duplicated Sox orthologs among different polyploid species and their diploid relative orthologs, suggesting at the early stage of genome duplicated Sox orthologs are under similar selective constraints in different polyploidy species and their diploid relative at the amino acid level. All PCR fragments of Sox genes obtained in this study are not accompanied by obvious increase in mutations and pseudogene formation which means that they are under strong purifying selection, suggesting that they are functional at the DNA level. Cenealogical analysis revealed that T qiaojiensis was tetraploid, and T douronensis, T qiaojiensis as well as T sinensis had an allotetraploid ancestor. (C) 2009 Elsevier B.V. All rights reserved.

Cloning and sequence analysis of Sox genes in a tetraploid cyprinid fish, Tor douronensis

A PCR survey for Sox genes in a young tetraploid fish Tor douronensis (Teleostei: Cyprinidae) was performed to access the evolutionary fates of important functional genes after genome duplication caused by polyploidization event. Totally 13 Sox genes were obtained in Tor douronensis, which represent SoxB, SoxC and SoxE groups. Phylogenetic analysis of Sox genes in Tor douronensis provided evidence for fish-specific genome duplication, and suggested that Sox19 might be a teleost specific Sox gene member. Sequence analysis revealed most of the nucleotide substitutions between duplicated copies of Sox genes caused by tetraploidization event or their orthologues in other species are silent substitutions. It would appear that the sequences are under purifying selective pressure, strongly suggesting that they represent functional genes and supporting selection against all null allele at either of two duplicated loci of Sox4a, Sox9a and Sox9b. Surprising variations of the intron length and similarities of two duplicated copies of Sox9a and Sox9b, suggest that Tor douronensis might be an allotetraploidy.

Purification of single-walled carbon nanotubes synthesized by the catalytic decomposition of hydrocarbons

A procedure for purifying single-walled carbon nanotubes (SWNTs) synthesized by the catalytic decomposition of hydrocarbons has been developed. Based on the results from SEM observations, EDS analysis and Raman measurements, it was found that amorphous carbon, catalyst particles, vapor-grown carbon nanofibers and multi-walled carbon nanotubes were removed from the ropes of SWNTs without damaging the SWNT bundles, and a 40% yield of the SWNTs with a purity of about 95% was achieved after purification. (C) 2000 Elsevier Science Ltd. All rights reserved.

Single-mode holey vertical-cavity surface-emitting laser with ultra-narrow beam divergence

We demonstrated oxide-confined 850-nm vertical-cavity surface-emitting lasers (VCSELs) with a two-dimensional petal-shaped holey structure composed of several annular-sector-shaped holes. Four types of devices with different hole numbers were designed and fabricated. The measured results showed that the larger hole number was beneficial to purifying the lasing mode, and realizing the single-mode operation. The side mode suppression ratio (SMSR) exceeded 30 dB throughout the entire drive current. Mode selective loss mechanism was used to explain the single-mode characteristic. The single-mode devices possessed good beam profiles, and the lowest divergence angle was as narrow as 3.2 degrees (full width at half maximum), attributed to the graded index profile and the shallow etching in the top distributed Bragg reflector (DBR).

Design and Operation of A 5.5 MWe Biomass Integrated Gasification Combined Cycle Demonstration Plant

The design and operation of a 5.5 MWe biomass integrated gasification combined cycle (IGCC) demonstration plant, which is located in Xinghua, Jiangsu Province of China, are introduced. It is the largest complete biomass gasification power plant that uses rice husk and other agricultural wastes as fuel in Asia. It mainly consists of a 20 MWt atmospheric circulating fluidized-bed gasifier, a gas-purifying system, 10 sets of 450 kW(e) gas engines, a waste heat boiler, a 1.5 MWe steam turbine, a wastewater treatment system, etc. The demonstration plant has been operating since the end of 2005, and its overall efficiency reaches 26-28%. Its capital cost is less than 1200 USD/kW, and its running cost is about 0.079 USD/kWh based on the biomass price of 35.7 USD/ton. There is a 20% increment on capital cost and 35% decrease on the fuel consumption compared to that of a 1 MW system without a combined cycle. Because only part of the project has been performed, many of the tests still remain and, accordingly, must be reported at a later opportunity.