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1.
【目的】阐述阿拉伯海假交替单胞菌(Pseudoalteromonas arabiensis)的分子进化与生态适应策略。【方法】借助Illumina HiSeq X Ten和Oxford Nanopore PromethION测序平台对一株分离自太平洋表层海水的菌株Pseudoalteromonas arabiensis N1230-9进行全基因组测序,利用相关生物信息学分析软件对原始数据进行组装和基因组注释,并与一株分离自深海沉积物环境的模式菌株Pseudoalteromonas arabiensis JCM 17292进行比较基因组分析。【结果】菌株N1230-9基因组由2条染色体组成,基因组大小为4 627 470 bp,G+C含量为40.85%,共编码4 202个蛋白。功能基因注释结果显示,菌株N1230-9具有适应海洋环境的多种类型功能基因,包括重金属抗性基因、多种铁离子摄取系统编码基因、多种噬菌体防御系统编码基因、种类丰富的水解酶编码基因、多种碳水化合物代谢相关基因,以及数量众多的二元信号传导系统编码基因。通过比较基因组分析发现,菌株N1230-9和菌株JCM 17292拥有适应不同生态位的特有基因,这些基因主要涉及血红素摄取、重金属抗性、噬菌体防御、二元信号系统传导和横向基因水平转移。【结论】来自表层海水的菌株P. arabiensis N1230-9已演化出了适应其生态位的特有基因。  相似文献   

2.
Cupriavidus metallidurans CH34 has gained increasing interest as a model organism for heavy metal detoxification and for biotechnological purposes. Resistance of this bacterium to transition metal cations is predominantly based on metal resistance determinants that contain genes for RND (resistance, nodulation, and cell division protein family) proteins. These are part of transenvelope protein complexes, which seem to detoxify the periplasm by export of toxic metal cations from the periplasm to the outside. Strain CH34 contains 12 predicted RND proteins belonging to a protein family of heavy metal exporters. Together with many efflux systems that detoxify the cytoplasm, regulators and possible metal-binding proteins, RND proteins mediate an efficient defense against transition metal cations. To shed some light into the origin of genes encoding these proteins, the genomes of C. metallidurans CH34 and six related proteobacteria were investigated for occurrence of orthologous and paralogous proteins involved in metal resistance. Strain CH34 was not much different from the other six bacteria when the total content of transport proteins was compared but CH34 had significantly more putative transition metal transport systems than the other bacteria. The genes for these systems are located on its chromosome 2 but especially on plasmids pMOL28 and pMOL30. Cobalt–nickel and chromate resistance determinants located on plasmid pMOL28 evolved by gene duplication and horizontal gene transfer events, leading to a better adaptation of strain CH34 to serpentine-like soils. The czc cobalt–zinc–cadmium resistance determinant, located on plasmid pMOL30 in addition copper, lead and mercury resistance determinants, arose by duplication of a czcICAB core determinant on chromosome 2, plus addition of the czcN gene upstream and the genes czcD, czcRS, czcE downstream of czcICBA. C. metallidurans apparently evolved metal resistance by horizontal acquisition and by duplication of genes for transition metal efflux, mostly on the two plasmids, and decreased the number of uptake systems for those metals. This paper is dedicated to Dr. Max Mergeay for a long time of cooperation, constructive competition and friendship.  相似文献   

3.
Cupriavidus metallidurans strain CH34 is a β-Proteobacterium that thrives in low concentrations of heavy metals. The genetic determinants of resistance to heavy metals are located on its two chromosomes, and are particularly abundant in the two megaplasmids, pMOL28 and pMOL30. We explored the involvement of mobile genetic elements in acquiring these and others traits that might be advantageous in this strain using genome comparison of Cupriavidus/Ralstonia strains and related β-Proteobacteria. At least eleven genomic islands were identified on the main replicon, three on pMOL28 and two on pMOL30. Multiple islands contained genes for heavy metal resistance or other genetic determinants putatively responding to harsh environmental conditions. However, cryptic elements also were noted. New mobile genetic elements (or variations of known ones) were identified through synteny analysis, allowing the detection of mobile genetic elements outside the bias of a selectable marker. Tn4371-like conjugative transposons involved in chemolithotrophy and degradation of aromatic compounds were identified in strain CH34, while similar elements involved in heavy metal resistance were found in Delftia acidovorans SPH-1 and Bordetella petrii DSM12804. We defined new transposons, viz., Tn6048 putatively involved in the response to heavy metals and Tn6050 carrying accessory genes not classically associated with transposons. Syntenic analysis also revealed new transposons carrying metal response genes in Burkholderia xenovorans LB400, and other bacteria. Finally, other putative mobile elements, which were previously unnoticed but apparently common in several bacteria, were also revealed. This was the case for triads of tyrosine-based site-specific recombinases and for an int gene paired with a putative repressor and associated with chromate resistance.  相似文献   

4.
【背景】植物根际促生细菌是一类位于植物根际并能对植物生长产生促进作用的有益菌,在微生物肥料领域具有重要的应用价值。【目的】对濒危植物连香树根际的植物根际促生细菌进行分离筛选和连香树接种效应评价,挑选对连香树生长促进作用最为显著的菌种进行促生特性分析、菌种鉴定及全基因组序列测定与促生相关基因分析。【方法】利用相应筛选培养基对连香树根际土壤中解有机磷、溶无机磷和解钾细菌进行分离筛选,通过根际接种验证各菌株对连香树实生苗的促生能力。从中选取促生作用最为显著的细菌,进行解钾能力、产吲哚乙酸(indole-3-acetic acid,IAA)和1-氨基环丙烷-1-羧酸(1-aminocyclopropane-1-carboxylate,ACC)脱氨酶能力测定。利用菌体形态观察、16S rRNA基因序列分析及全基因组序列的平均核苷酸一致性比对进行菌种鉴定。最后利用基因组功能注释和比较基因组学分析对该菌株中的植物促生及重金属抗性相关基因进行解析。【结果】从连香树根际土壤中共筛选得到3株解有机磷细菌、2株溶无机磷细菌和2株解钾细菌,其中解钾细菌LWK2对连香树实生苗的生长促进作用最为显著。该菌株能够产...  相似文献   

5.
河流、湖泊等水生环境中普遍存在的重金属污染破坏水生生态系统并间接威胁人类健康。为探究重金属胁迫下水生昆虫花翅摇蚊(Chironomus kiiensis)生态毒理,测定了重金属Cd2+和Pb2+胁迫对花翅摇蚊化蛹率和羽化率的影响,检测了摇蚊的口器致畸与富集效应。研究结果表明,Cd2+和Pb2+影响摇蚊幼虫化蛹和羽化过程,单一重金属离子处理14 d Pb2+处理组的化蛹率和羽化率分别为22.22%和8.89%,低于Cd2+的化蛹率(25.56%)和羽化率(11.11%),表现出更强的抑制效应。混合离子1:2和2:1配比处理组化蛹率和羽化率均为11.11%和4.44%,显著低于单一重金属离子胁迫下的化蛹率和羽化率。单一重金属离子及混合离子处理均能导致花翅摇蚊幼虫口器致畸,表现为上颚前齿断裂,中齿和基齿磨损、缺失,下唇板齿部不规则,下唇板边缘齿与中央齿磨损、断裂、增生、缺失。不同重金属离子处理下幼虫口器致畸率不同,并与暴露时间呈正相关,其中1:2配比处理14 d致畸率达到40.61%。重金属离子在摇蚊幼虫体内产生生物富集效应,单一重金属离子处理下的Pb2+富集含量7 d至14 d由11.46 mg/kg上升至31.32 mg/kg,不同配比混合离子处理下Pb2+富集含量均呈增加趋势,其中1:2配比处理组由15.48 mg/kg上升至42.50 mg/kg,而Cd2+在单一重金属与1:1混合离子处理组7 d至14 d的富集含量无显著性变化,2:1配比处理组由14.20 mg/kg下降至9.52 mg/kg,1:2配比由5.85 mg/kg上升至20.99 mg/kg。这些研究结果表明Cd2+和Pb2+胁迫影响花翅摇蚊幼虫生长发育且口器出现畸型,与重金属在幼虫体内的富集密切相关,为研究重金属对水生生态系统多重效应提供了理论依据。  相似文献   

6.
Sites polluted with organic compounds frequently contain inorganic pollutants such as heavy metals. The latter might inhibit the biodegradation of the organics and impair bioremediation. Chromosomally located polychlorinated biphenyl (PCB) catabolic genes ofAlcaligenes eutrophus A5,Achromobacter sp. LBS1C1 andAlcaligenes denitrificans JB1 were introduced into the heavy metal resistantAlcaligenes eutrophus strain CH34 and related strains by means of natural conjugation. Mobile elements containing the PCB catabolic genes were transferred fromA. eutrophus A5 andAchromobacter sp. LB51C1 intoA. eutrophus CH34 after transposition onto their endogenous IncP plasmids pSS50 and pSS60, respectively. The PCB catabolic genes ofA. denitrificans JB1 were transferred intoA. eutrophus CH34 by means of RP4::Mu3A mediated prime plasmid formation. TheA. eutrophus CH34 transconjugant strains expressed both catabolic and metal resistance markers. Such constructs may be useful for the decontamination of sites polluted by both organics and heavy metals.  相似文献   

7.
Competition alters plant species response to nickel and zinc   总被引:1,自引:0,他引:1  
Phytoextraction can be a cost-efficient method for the remediation of contaminated soils. Using species mixtures instead of monocultures might improve this procedure. In a species mixture, an effect of heavy metals on the species' performance can be modified by the presence of a co-occuring species. We hypothesised that (a) a co-occuring species can change the effect of heavy metals on a target species, and (b) heavy metal application may modifiy the competitive behaviour between the plants. We investigated these mechanisms in a greenhouse experiment using three species to serve as a model system (Carex flava, Centaurea angustifolia and Salix caprea). The species were established in pots of monocultures and mixtures, which were exposed to increasing concentrations of Ni and Zn, ranging from 0 to 2,500 mg/kg. Increased heavy metal application reduced the species' relative growth rate (RGR); the RGR reduction being generally correlated with Ni and Zn concentrations in plant tissue. S. caprea was an exception in that it showed considerable Zn uptake but only moderate growth reduction. In two out of six cases, competitors significantly modified the influence of heavy metals on a target species. The interaction can be explained by an increased uptake of Zn by one species (in this case S. caprea) that reduced the negative heavy metal effect on a target species (C. flava). In two further cases, increasing heavy metal application also altered competitive effects between the species. The mechanisms demonstrated in this experiment could be of relevance for the phytoextraction of heavy metals. The total uptake of metals might be maximised in specific mixtures, making phytoextraction more efficient.  相似文献   

8.
Ye J 《Immunogenetics》2004,56(6):399-404
Four immunoglobulin heavy chain diversity (IGHD) gene subgroups (DFL16, DSP2, DQ52, and DST4) have been identified previously in BALB/c mice. Although the locations of most IGHD genes have been established based on restriction map and Southern blot analysis, a complete mouse IGHD gene locus map at the sequence level is still not available. In addition, a previous restriction fragment length polymorphism study suggested that significant difference in the IGHD gene locus exists between C57BL/6 and BALB/c mice. The author has now analyzed the C57BL/6 mouse genomic data and established a complete map of the IGHD gene locus. All four IGHD subgroups previously identified in BALB/c mice were found to be present in C57BL/6 mice. However, unlike the BALB/c mice, which have at least 13 IGHD genes, the C57BL/6 genome contains only ten IGHD genes, which include one DFL16, six DSP2, one DQ52, and two DST4 genes. There are also differences in the coding regions of the DST4 and DQ52 genes between the two mouse strains.  相似文献   

9.
Cupriavidus metallidurans CH34 and related strains are adapted to metal contaminated environments. A strong resistance to environmental stressors and adaptation make it ideal strains for survival in decreasing biodiversity conditions and for bioaugmentation purposes in environmental applications. The soil bacterium C. metallidurans is able to grow chemolithoautotrophically on hydrogen and carbon dioxide allowing a strong resilience under conditions lacking organic matter. The biofilm growth on soil particles allows coping with starvation or bad conditions of pH, temperature and pollutants. Its genomic capacity of two megaplasmids encoding several heavy metal resistance operons allowed growth in heavy metal contaminated habitats. In addition its specific siderophores seem to play a role in heavy metal sequestration besides their role in the management of bioavailable iron. Efflux ATPases and RND systems pump the metal cations to the membrane surface where polysaccharides serve as heavy metal binding and nucleation sites for crystallisation of metal carbonates. These polysaccharides contribute also to flotation under specific conditions in a soil-heavy metals–bacteria suspension mixture. An inoculated moving bed sand filter was constructed to treat heavy metal contaminated water and to remove the metals in the form of biomass mixed with metal carbonates. A membrane based contactor allowed to use the bacteria as well in a versatile wastewater treatment system and to grow homogeneously formed heavy metal carbonates. Its behaviour toward heavy metal binding and flotation was combined in a biometal sludge reactor to extract and separate heavy metals from metal contaminated soils. Finally its metal-induced heavy metal resistance allowed constructing whole cell heavy metal biosensors which, after contact with contaminated soil, waste, solids, minerals and ashes, were induced in function of the bioavailable concentration (Cd, Zn, Cu, Cr, Co, Ni, Tl, Pb and Hg) in the solids and allowed to investigate the speciation of immobilization of those metals. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.  相似文献   

10.
In this study, we compared the genomes of three metal-resistant bacteria isolated from mercury-contaminated soil. We identified diverse and novel MGEs with evidence of multiple LGT events shaping their genomic structure and heavy metal resistance. Among the three metal-resistant strains, Sphingobium sp SA2 and Sphingopyxis sp SE2 were resistant to multiple metals including mercury, cadmium, copper, zinc and lead. Pseudoxanthomonas sp SE1 showed resistance to mercury only. Whole genome sequencing by Illumina and Oxford Nanopore technologies was undertaken to obtain comprehensive genomic data. The Sphingobium and Sphingopyxis strains contained multiple chromosomes and plasmids, whereas the Pseudoxanthomonas strain contained one circular chromosome. Consistent with their metal resistance profiles, the strains of Sphingobium and Sphingopyxis contained a higher quantity of diverse metal resistance genes across their chromosomes and plasmids compared to the single-metal resistant Pseudoxanthomonas SE1. In all three strains, metal resistance genes were principally associated with various novel MGEs including genomic islands (GIs), integrative conjugative elements (ICEs), transposons, insertion sequences (IS), recombinase in trio (RIT) elements and group II introns, indicating their importance in facilitating metal resistance adaptation in a contaminated environment. In the Pseudoxanthomonas strain, metal resistance regions were largely situated on a GI. The chromosomes of the strains of Sphingobium and Sphingopyxis contained multiple metal resistance regions, which were likely acquired by several GIs, ICEs, numerous IS elements, several Tn3 family transposons and RIT elements. Two of the plasmids of Sphingobium were impacted by Tn3 family transposons and ISs likely integrating metal resistance genes. The two plasmids of Sphingopyxis harboured transposons, IS elements, an RIT element and a group II intron. This study provides a comprehensive annotation of complex genomic regions of metal resistance associated with novel MGEs. It highlights the critical importance of LGT in the evolution of metal resistance of bacteria in contaminated environments.  相似文献   

11.
We have investigated the immunoglobulin molecule and the genes encoding it in teleosts living in the Antarctic seas at the constant temperature of −1.86 °C. The majority of Antarctic teleosts belong to the suborder Notothenioidei (Perciformes), which includes only a few non-Antarctic species. Twenty-one Antarctic and two non-Antarctic Notothenioid species were included in our studies. We sequenced immunoglobulin light chains in two species and μ heavy chains, partially or totally, in twenty species. In the case of heavy chain, genomic DNA and the cDNA encoding the secreted and the membrane form were analyzed. From one species, Trematomus bernacchii, a spleen cDNA library was constructed to evaluate the diversity of VH gene segments. T. bernacchii IgM, purified from the serum and bile, was characterized. Homology Modelling and Molecular Dynamics were used to determine the molecular structure of T. bernacchii and Chionodraco hamatus immunoglobulin domains. This paper sums up the previous results and broadens them with the addition of unpublished data.  相似文献   

12.
Leaf samples were collected from 40 accessions of Chenopodium spp. and assessed for six heavy metals (Fe, Zn, Cu, Ni, Cr and Cd) accumulation to explore the use of Chenopodium for phytoextraction of heavy metals. The results suggest that Chenopodium spp. have the ability to accumulate large quantities of heavy metals in the leaf tissues even when they are present in low concentrations in the soil. C. quinoa is a better accumulator of Ni, Cr and Cd than the rest of the species, while C. album accessions are good copper accumulators. Bioconcentration factor for chromium ranged from 0.36 (C. album “Chandanbathua”) to 6.57 (C. quinoa Ames 13719) with 13 accessions of C. quinoa scoring above the mean value. High heritability coupled with high genetic advance was recorded for Ni, Cr and Cd, which indicated a major role of additive gene action in the inheritance of these characters. Zinc showed significant positive association with iron (0.351**), nickel (0.659**), chromium (0.743**) and cadmium (0.288**). Nickel was significantly and negatively associated with copper (−0.663**), while it was positively and significantly correlated with chromium (0.682**) and cadmium (0.461**). Considering the accumulation efficiency of Chenopodium spp. with respect to heavy metals, this genus should be further explored for decontamination of metal polluted soils, with plant breeding playing an important role in evolving new plant types with higher capacity of heavy metal accumulation.  相似文献   

13.
【目的】挖掘产S-雌马酚梭菌C1转化大豆苷元产生S-雌马酚的功能基因,为梭菌C1的S-雌马酚转化机制研究提供参考,并为利用合成生物学方法生产S-雌马酚提供新基因资源。【方法】利用GridION测序平台,对梭菌C1进行第三代全基因组测序、基因组组装和功能注释等分析,从C1菌全基因组中筛选和鉴定参与S-雌马酚生物转化的功能基因。【结果】C1全基因组大小为3 035 113 bp,预测编码3 166个基因,包含53个tRNA、15个rRNA、4个ncRNA和1个基因岛。通过生物信息学分析,发现C1-07020基因编码蛋白与已报道的Lactococcus sp.20-92大豆苷元还原酶具有44.8%的氨基酸序列相似性和相同的3个功能保守结构域,体外蛋白功能验证表明,C1-07020具有大豆苷元还原酶功能。此外,C1菌中没有发现与已知产S-雌马酚菌相似的功能基因簇或大豆苷元还原酶以外的其他功能基因。【结论】在C1中鉴定到一个新的产S-雌马酚功能基因,并发现了C1可能具备特殊的产S-雌马酚机制,实验所获基础数据可为进一步挖掘产S-雌马酚新功能基因、了解S-雌马酚的生成机制及体外产S-雌马酚基因资源...  相似文献   

14.
Large-insert genomic bacterial artificial chromosome (BAC) libraries of two culturally and economically important oyster species, Crassostrea virginica and C. gigas, have been developed as part of an international effort to develop tools and reagents that will advance our ability to conduct genetic and genomic research. A total of 73,728 C. gigas clones with an average insert size of 152 kb were picked and arrayed representing an 11.8-fold genome coverage. A total of 55,296 clones with an average insert size of 150 kb were picked and arrayed for C. virginica, also representing an 11.8-fold genome coverage. The C. gigas and C. virginica libraries were screened with probes derived from selected oyster genes using high-density BAC colony filter arrays. The probes identified 4 to 25 clones per gene for C. virginica and 5 to 50 clones per gene for C. gigas. We conducted a preliminary analysis of genetic polymorphism represented in the C. gigas library. The results suggest that the degree of divergence among similar sequences is highly variable and concentrated in intronic regions. Evidence supporting allelic polymorphism is reported for two genes and allelic and/or locus specific polymorphism for several others. Classical inheritance studies are needed to confirm the nature of these polymorphisms. The oyster BAC libraries are publicly available to the research community on a cost-recovery basis at  相似文献   

15.
16.
Cadmium is a non-essential heavy metal that can be harmful even at low concentrations to plants. Colocassia esculentum (Araceae) plant was studied to know its tolerance capability to cadmium. Colocassia esculentum plants grown in pots containing different concentrations of cadmium (Cd) were analyzed for dry matter, fresh weight and total metal content. Cadmium depressed dry matter production of the plant up to 33%. Plant accumulated larger portion of the heavy metal in the roots followed by stem and leaf. Chlorophyll content of the plant declined on treatment with heavy metal while the activity of antioxidative enzymes catalase and peroxidase increased. Colocassia esculentum also showed an increase in total protein along with greater A250/A280 value suggesting an increase in metal protein complexes. Cadmium elicited anatomical changes in the root of C. esculentum. These changes under heavy metal stress indicate the adaptive properties of this plant species.  相似文献   

17.
Cupriavidus metallidurans CH34 is a β-proteobacterium well equipped to cope with harsh environmental conditions such as heavy metal pollution. The strain carries two megaplasmids specialized in the response to heavy metals and a considerable number of genomic islands, transposons and insertion sequence (IS) elements. The latter were characterized in detail in this study, which revealed nine new IS elements totaling to 21 distinct IS elements from 10 different IS families and reaching a total of 57 intact IS copies in CH34. Analysis of all fully sequenced bacterial genomes revealed that relatives of these IS elements were mostly found in the Burkholderiaceae family (β-proteobacteria) to which C. metallidurans belongs. Three IS elements were 100% conserved in other bacteria suggesting recent interaction and horizontal transfer between these strains. In addition, a number of these IS elements were associated with genomic islands, gene inactivation or rearrangements that alter the autotrophic growth capacities of CH34. The latter rearrangements gave the first molecular evidence for the mutator phenotype that is characteristic for various C. metallidurans strains. Furthermore, differential expression of some IS elements (or adjacent genes in the same strand orientation) was found under heavy metal stress, an environmental stress to which C. metallidurans CH34 is well adapted. These observations indicate that these IS elements play an active role in C. metallidurans CH34 lifestyle, including its metabolic potential and adaptation under selective pressure.  相似文献   

18.
Pinus banksiana andPicea glauca inoculated or not with the ectomycorrhizal fungusSuillus luteus were grown in a sandy loam soil containing a range of Cd, Cu, Ni, Pb and Zn concentrations. Ectomycorrhizal colonization rates were significantly reduced on Pinus and Picea seedlings by the heavy metals, particularly Cd and Ni. Needle tissue metal concentrations were lower in ectomycorrhizal seedlings at low soil metal concentrations. However, at higher soil concentrations, heavy metal concentrations of needle tissue were similar in ectomycorrhizal and nonmycorrhizal plants. The growth of nonmycorrhizal seedlings exposed to heavy metals was reduced compared to those inoculated withSuillus luteus. Apparently ectomycorrhizal colonization can protect Pinus and Picea seedlings from heavy metal toxicity at low or intermediate soil concentrations of Cd, Cu, Ni, Pb and Zn.  相似文献   

19.
为探讨金毛狗[Cibotium barometz(L.) J. Sm.]对重金属的富集能力,在广东省选取6个样点(南岭、南昆山、白云山、大岭山、梧桐山、西樵山)采集金毛狗的叶片、根状茎和根际土壤,采用ICP-MS测定9种重金属元素(Cr、Mn、Ni、Cu、Zn、As、Cd、Hg、Pb)的含量。结果表明,样地土壤已受到不同程度的重金属污染,土壤中Cd和Hg含量均高于广东省土壤背景值,分别为背景值的1.61~4.82倍和4.74~11.79倍。西樵山土壤中Cd含量最大,南岭土壤中Hg含量最大。在9种元素中,金毛狗对Hg的转运系数最高,达4.8,对Cd的富集系数最高,达2.2,Cu和Cd元素的转运系数和富集系数均大于1。这说明金毛狗对重金属元素的富集能力较弱而转运能力较强。  相似文献   

20.
H. Sieghardt 《Plant and Soil》1990,123(1):107-111
Plant and soil samples from a mining area in Carinthia (Austria) were investigated for their heavy metal content. In the soil surrounding roots of plants (Minuartia verna and Silene vulgaris) growing on the mining dumps, high concentrations of lead and zinc are to be expected. The two species (Minuartia and Silene) show very different heavy metal concentrations in their above- and belowground organs. From these observations it can be concluded that the divergent distribution of heavy metals within the plants is an important mechanism of tolerance to heavy metals.  相似文献   

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