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1.
【背景】铜绿微囊藻(Microcystis aeruginosa)广泛分布于温带湖泊,因产生微囊藻毒素且易成为蓝藻水华优势藻株而备受关注。【目的】基于全基因组序列分析和基因转录水平验证,阐明从巢湖新分离的铜绿微囊藻Chao 1910的主要代谢通路和磷营养高效利用机制。【方法】通过第三代测序技术拼接获得Chao1910的全基因组序列,完成主要代谢通路的基因注释,并对与蓝藻水华优势藻株形成相关的磷代谢通路进行深入分析。【结果】比较基因组学表明,Chao1910藻株与日本铜绿微囊藻NIES-843的亲缘关系最近,其糖酵解、磷酸戊糖途径和核苷酸合成等代谢通路的基因组成非常保守,同时具有完整的磷转运、磷吸收、多聚磷酸盐合成/分解等磷营养高效利用的通路。不同于其他铜绿微囊藻,Chao 1910藻株不具有微囊藻毒素合成基因簇,推测其主要依靠对磷营养的高效利用获取生存竞争优势。【结论】Chao1910藻株是巢湖首株完成全基因组测序的铜绿微囊藻,这将有助于揭示其获得生存竞争优势的分子机制,为遏制巢湖蓝藻水华暴发提供依据。  相似文献   

2.
研究以珠海市20座水库两次(2018年和2022年)调查数据为基础,分析华南热带地区产毒拟柱孢藻的发生规律和拟柱孢藻毒素(CYN)的健康风险。基于rpoC1和cyrJ基因的荧光定量PCR分析发现,在两次采样的40个样品中均检到拟柱孢藻,在其中的33个样品中检到产毒拟柱孢藻。种群内产毒基因型的比例在0.046%—38.66%,表明产毒株广泛存在但不占优势。与2018年相比, 20座水库的总拟柱孢藻丰度均值在2022年增加近10倍,但两年的产毒拟柱孢藻丰度无显著差异;产毒基因型的比例明显下降,比例均值和最大值分别从2018年的14.86%和38.66%降至2022年的4.17%和17.24%; CYN浓度与产毒细胞比例具有类似的变化趋势,平均浓度也从0.56降至0.19μg/L。线性混合效应模型分析表明,非产毒基因型丰度随无机磷的升高及硝氮的下降而显著增加,而产毒拟柱孢藻比例随水温升高而增加。  相似文献   

3.
镇海水库拟柱孢藻的分离鉴定和氮磷对其生长的影响   总被引:2,自引:0,他引:2  
以分离自广东省镇海水库的拟柱孢藻N8为对象, 探究其在不同磷浓度及氮磷浓度组合下的生长情况。结果表明, 拟柱孢藻N8对磷的适应范围很宽, 在0.025.12 mg/L磷浓度下均能生长, 最适生长磷浓度范围为0.165.12 mg/L, 磷浓度的升高能显著延长拟柱孢藻的对数生长期和提高生物量。动力学分析表明, 拟柱孢藻N8有较低的KSP值, 对磷元素的亲和性较高, 在磷营养贫乏的环境下更容易形成优势。在氮磷组合实验中, 低氮(0.5 mg/L)显著抑制拟柱孢藻的生长, 且这种生长抑制不受磷浓度的影响; 而在低磷(0.04 mg/L)条件下, 水体中氮浓度的增加会显著促进拟柱孢藻的生长, 拟柱孢藻在高氮中磷和高氮高磷下的生长显著优于其他氮磷组合条件。研究表明, 广东省水库拟柱孢藻的生长受磷的限制较弱, 氮是其生长的决定因子。    相似文献   

4.
为探讨不同环境因子对拟柱孢藻(Cylindrospermopsis raciborskii)生长的影响,对从广东省镇海水库分离的2株拟柱孢藻在不同的温度和光照组合,及不同氮源条件下的生长进行了研究。结果表明,在3种光强下,拟柱孢藻N1和N8藻株的生长随温度的上升而增加,均在28℃高光强下达到最大比生长速率,而N8藻株对低温的适应能力要高于N1藻株。拟柱孢藻N1和N8在各硝态氮浓度下均能正常生长,但仅能在中低浓度的铵态氮和尿素氮中生长,高浓度(128~247 mg L–1)的铵态氮和尿素氮会显著抑制藻细胞生长;在3种氮源下,N1藻株的比生长速率均显著大于N8藻株,这说明N1藻株对不同氮源的利用能力要高于N8藻株。因此,广东省的拟柱孢藻具株系多样性,喜好高温,适应较宽的光照范围,并可利用多种氮源用于生长,这可能是该地区拟柱孢藻水华频发的原因。  相似文献   

5.
对1株梅花鹿源性狂犬病街毒株(DRV)进行全基因组克隆,对全长cDNA进行测序分析.RT-PCR扩增克隆覆盖全基因组9个重叠基因片段,基因组3'和5'末端采取3,-RACE和5'-RACE方法,9个重叠基因片段序列拼接得到DRV全基因组cDNA序列,共11 863个核苷酸.DRV毒株全基因组构成与其他狂犬病毒基因组构成相似,由5个编码区组成,基因起始位点和终止位点高度保守,在核蛋白和糖蛋白的重要抗原位点有个别氨基酸发生变异,对已完成全基因组测序的几个基因1型毒株分别进行了N、P、M、G、L基因核苷酸及氨基酸的同源性比较.与其他具有代表性的毒株进行N基因序列比较建立的系统进化树表明,DRV毒株属于基因1型,与中国人用疫苗株3aG同源性最高为94%,与分类位置未确定的北高加索毒株(WCBV)的同源性最低为71%.本研究结果可为狂犬病毒各项分子生物学研究提供理论参考.  相似文献   

6.
【目的】蓝藻(cyanobacteria)水华频繁暴发,引起水质恶化,使水生生物大量死亡,给水产养殖业造成巨大的经济损失;其代谢产物藻毒素具有肝毒性、神经毒性、生殖毒性、遗传毒性和肿瘤促进作用,并可在水生生物中富集,造成饮用水安全风险和水产品食用安全风险。噬藻体(cyanophages)是一类特异性侵染蓝藻的病毒,参与调控蓝藻的种群密度和丰度,被认为是极具潜力的蓝藻水华生物防控工具。以往的研究报道多集中于海水噬藻体,有关淡水噬藻体的报道寥寥无几,迄今尚无惠氏微囊藻(Microcystis wesenbergii)噬藻体的研究报道。本研究的目的在于分离、鉴定惠氏微囊藻噬藻体。【方法】以惠氏微囊藻FACHB-1112为指示宿主,采用双层平板法从淡水中分离出噬藻体vB_MweS-yong2,对其进行全基因组测序、基因功能注释和系统进化分析。【结果】vB_MweS-yong2的基因组长44 530 bp,G+C含量为71.6%,有61个开放阅读框(ORF)、1个tRNA基因。成对序列比较 (pairwise sequence comparison,PASC)表明,vB_MweS-yong2与所有已知噬菌体间的全基因组核苷酸序列相似度最高只有20.21%,小于<50%的属边界值。没有在vB_MweS-yong2基因组中发现抗生素耐药基因和毒力因子基因,显示该噬藻体在基因水平上的安全性。【结论】vB_MweS-yong2在有尾目的长尾科中代表一个新的属。本研究丰富了淡水噬藻体库、基因库,并为以后研发该噬藻体的功能基因、进一步研发用于治理以惠氏微囊藻为优势种引起的水华的产品与技术奠定了基础。  相似文献   

7.
【目的】噬藻体(cyanophages)是特异性侵染蓝藻(cyanobacteria)的病毒,广泛分布于各类水体中,在调节蓝藻种群动态和密度、推动生物地球水生生态系统循环中起着重要作用。本研究的目的在于分离、鉴定噬藻体。【方法】本研究以海洋聚球藻(Synechococcus sp.) PCC 7002为指示宿主,从淡水水样中分离培养一株新型噬藻体Yong-L2-223,对其进行了宿主范围实验、全基因组测序、基因功能注释和系统进化分析。【结果】针对31株供试蓝藻的宿主范围实验,结果除指示藻PCC 7002 [属于聚球藻目(Synechococcales)]外,Yong-L2-223能够感染2株淡水蓝藻,分别是来源于滇池的绿色微囊藻(Microcystis viridis) FACHB-1342 [属于色球藻目(Chroococcales)]和水华束丝藻(Aphanizomenon flos-aquae)FACHB-1209[属于念珠藻目(Nostocales)]。既可在高盐条件下感染海洋蓝藻,又可在低盐条件下感染淡水蓝藻,Yong-L2-223具有广盐性。透射电镜观察表明,Yong-L2...  相似文献   

8.
中国6株狂犬病病毒街毒株全基因组测序与分析   总被引:1,自引:0,他引:1  
实验研究中对分离于中国的6株狂犬病病毒街毒株进行了全基因组测序,对基因组的5个结构基因(N、P、M、G和L)的核苷酸和推断的氨基酸序列以及非编码区序列进行了分析与比较,并与来自GenBank的40株毒株从全基因组水平进行了分子进化分析。所测6株中国狂犬病病毒街毒株的全基因组核苷酸序列长度介于11 907 nt(CQ92)和11 924 nt(SH06和gg4)之间,基因组结构相同,用全基因组和不同的结构基因构建的进化树拓扑结构相似,基因组3′和5′末端高度保守而且末端11个核苷酸互补配对,5个结构基因的保守性依次是NLMGP,核苷酸同源性的最小值依次分别是81.9%、81.7%、80.7%、78.3%和76.7%。  相似文献   

9.
【背景】枝孢菌SYC63是一株具有重寄生作用和抗菌活性的潜在生防菌株,目前尚无研究报道该菌株的全基因组序列,因此限制了其开发与利用。对该菌株进行基因组测序与分析,将进一步了解其重寄生的分子机制,为其在生物防治上的应用奠定研究基础。【目的】解析枝孢菌SYC63基因组序列信息,初步探究该菌的重寄生作用机制。【方法】利用二代高通量测序平台对枝孢菌SYC63进行全基因组测序,运用相关软件对其测序数据进行基因组组装、基因功能注释、预测次级代谢产物合成基因簇并分析重寄生相关的碳水化合物酶类基因等。【结果】基因组组装后共得到17个contigs,总长度为31 912 211 bp,GC含量为52.80%,预测到12 327个编码基因。其中,4 029、949和6 595个基因分别能在KEGG、COG和GO数据库中被注释到,同时还预测到25个次级代谢产物合成基因簇。对重寄生机制相关的碳水化合物酶类进行分析并与重寄生菌株(拟盘多毛孢菌、木霉及盾壳霉)比较,发现该菌具有较多的糖苷水解酶和糖脂酶基因,而且细胞壁降解酶类基因经锈菌孢子壁处理后在转录组测序中显著上调表达,初步分析了该菌与重寄生木霉在分子水平上的...  相似文献   

10.
摘要:【目的】枯草芽孢杆菌ATCC 13952是一株肌苷工业生产菌株。为深入研究ATCC 13952菌株积累肌苷的分子机制以及为进一步分子育种研究提供序列背景信息,有必要解析ATCC 13952菌株的基因组序列信息。【方法】本研究采用高通量测序和Sanger测序相结合对ATCC 13952菌株进行全基因组测序,然后使用相关软件对测序数据进行基因组组装、基因预测与功能注释、GO/COG 聚类分析、共线性分析等。【结果】枯草芽孢杆菌ATCC 13952整个基因组大小为3876276 bp,GC含量为45.8%,序列已提交至GenBank 数据库,登录号为CP009748。比较基因组及嘌呤代谢相关基因分析结果显示:枯草芽孢杆菌ATCC 13952与其他几株芽孢杆菌具有较好的基因组共线性关系,嘌呤代谢相关基因编码的蛋白与标准菌株比较发生了一些缺失和突变。【结论】本研究首次报道了一株肌苷生产菌枯草芽孢杆菌ATCC 13952的全基因组序列,分析了基因组基本特征,初步探讨了该菌株积累肌苷的分子机制,为后续的进一步分子育种提供了理论基础。  相似文献   

11.
Comparative genomic hybridizations (CGH) using microarrays are performed with bacteria in order to determine the level of genomic similarity between various strains. The microarrays applied in CGH experiments are constructed on the basis of the genome sequence of one strain, which is used as a control, or reference, in each experiment. A strain being compared with the known strain is called the unknown strain. The ratios of fluorescent intensities obtained from the spots on the microarrays can be used to determine which genes are divergent in the unknown strain, as well as to predict the copy number of actual genes in the unknown strain. In this paper, we focus on the prediction of gene copy number based on data from CGH experiments. We assumed a linear connection between the log2 of the copy number and the observed log2-ratios, then predictors based on the factor analysis model and the linear random model were proposed in an attempt to identify the copy numbers. These predictors were compared to using the ratio of the intensities directly. Simulations indicated that the proposed predictors improved the prediction of the copy number in most situations. The predictors were applied on CGH data obtained from experiments with Enterococcus faecalis strains in order to determine copy number of relevant genes in five different strains.  相似文献   

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13.
We screened mini-Mu plasmid libraries from Enterobacter aerogenes IFO 12010 for plasmids that complement Escherichia coli phn mutants that cannot use phosphonates (Pn) as the sole source of phosphorus (P). We isolated two kinds of plasmids that, unexpectedly, encode genes for different metabolic pathways. One kind complements E. coli mutants with both Pn transport and Pn catalysis genes deleted; these plasmids allow degradation of the 2-carbon-substituted Pn alpha-aminoethylphosphonate but not of unsubstituted alkyl Pn. This substrate specificity is characteristic of a phosphonatase pathway, which is absent in E. coli. The other kind complements E. coli mutants with Pn catalysis genes deleted but not those with both transport and catalysis genes deleted; these plasmids allow degradation of both substituted and unsubstituted Pn. Such a broad substrate specificity is characteristic of a carbon-phosphorus (C-P) lyase pathway, which is common in gram-negative bacteria, including E. coli. Further proof that the two kinds of plasmids encode genes for different pathways was demonstrated by the lack of DNA homology between the plasmids. In particular, the phosphonatase clone from E. aerogenes failed to hybridize to the E. coli phnCDEFGHIJKLMNOP gene cluster for Pn uptake and degradation, while the E. aerogenes C-P lyase clone hybridized strongly to the E. coli phnGHIJKLM genes encoding C-P lyase but not to the E. coli phnCDE genes encoding Pn transport. Specific hybridization by the E. aerogenes C-P lyase plasmid to the E. coli phnF, phnN, phnO, and phnP genes was not determined. Furthermore, we showed that one or more genes encoding the apparent E. aerogenes phosphonatase pathway, like the E. coli phnC-to-phnP gene cluster, is under phosphate regulon control in E. coli. This highlights the importance of Pn in bacterial P assimilation in nature.  相似文献   

14.
Pseudomonas aeruginosa strains from the chronic lung infections of cystic fibrosis (CF) patients are phenotypically and genotypically diverse. Using strain PAO1 whole genome DNA microarrays, we assessed the genomic variation in P. aeruginosa strains isolated from young children with CF (6 months to 8 years of age) as well as from the environment. Eighty-nine to 97% of the PAO1 open reading frames were detected in 20 strains by microarray analysis, while subsets of 38 gene islands were absent or divergent. No specific pattern of genome mosaicism defined strains associated with CF. Many mosaic regions were distinguished by their low G + C content; their inclusion of phage related or pyocin genes; or by their linkage to a vgr gene or a tRNA gene. Microarray and phenotypic analysis of sequential isolates from individual patients revealed two deletions of greater than 100 kbp formed during evolution in the lung. The gene loss in these sequential isolates raises the possibility that acquisition of pyomelanin production and loss of pyoverdin uptake each may be of adaptive significance. Further characterization of P. aeruginosa diversity within the airways of individual CF patients may reveal common adaptations, perhaps mediated by gene loss, that suggest new opportunities for therapy.  相似文献   

15.
Using pulse electrophoresis in controlled homogenous electric field we performed molecular karyotyping of cephalosporin C-producing industrial and laboratory strains of Acremonium chrysogenum. Differences in size of several chromosomes of high-producing strain CB26/8 compared to the wild-type strain ATCC 11550 were revealed. It was shown that chromosomal polymorphism in the high-producing strain was not associated with alteration of localization and copy number of cephalosporin C (CPC) biosynthesis and transport genes. A cluster of ??early?? CPC biosynthesis genes is located on chromosome VI (4.4 Mb); a cluster of the ??late genes??, on chromosome II (2.3 Mb). Both clusters are presented as a single copy per A. chrysogenum genome in the wild-type and in CB26/8 high-producing strains. Based on comparative analysis of laboratory and industrial CPC producers, a karyotype scheme for A. chrysogenum strains of various origins was designed.  相似文献   

16.
On the basis of mutational analysis, the genes for phosphonate uptake and degradation in Escherichia coli were shown to be organized in a 10.9-kb operon of 14 genes (named phnC to phnP) and induced by phosphate (Pi) starvation [Metcalf and Wanner (1993) J Bacteriol 175: 3430–3442]. The repression of phosphonate utilization by Pi has hindered both the biochemical characterization of the carbon-phosphorus (C-P) lyase activity and the development of improved methods for phosphonate biodegradation in biotechnology. We have cloned the genes phnG to phnP (associated with C-P lyase activity) with the lac promoter to provide expression of C-P lyase in the presence of Pi. A number of strains lacking portions of the phn operon have been constructed. In vivo complementation of the strains, in which phnC to phnP (including both Pn transport and catalysis genes) or phnH to phnP (including only catalysis genes) was deleted, with plasmids carrying various fragments of the phn operon revealed that the expression of phnC-phnP gene products is essential to restore growth on minimal medium with phosphonate as the sole phosphorus source, while phnG-phnM gene products are required for C-P lyase activity as assessed by in vivo methane production from methylphosphonic acid. The minimum size of the DNA required for the whole-cell C-P lyase activity has been determined to be a 5.8-kb fragment, encompassing the phnG to phnM genes. Therefore, there is no requirement for the phnCDE-encoded phosphonate transport system, suggesting that cleavage of the C-P bond may occur on the outer surface of the inner membrane of E. coli cells, releasing the carbon moiety into the periplasm. These data are in agreement with the observation that phosphonates cannot serve as the carbon source for E.␣coli growth. Received: 23 September 1997 / Received revision: 5 January 1998 / Accepted: 24 January 1998  相似文献   

17.
A role for cpeYZ in cyanobacterial phycoerythrin biosynthesis.   总被引:5,自引:1,他引:4       下载免费PDF全文
Pigment mutant strain FdR1 of the filamentous cyanobacterium Fremyella diplosiphon is characterized by constitutive synthesis of the phycobiliprotein phycoerythrin due to insertional inactivation of the rcaC regulatory gene by endogenous transposon Tn5469. Whereas the parental strain Fd33 harbors five genomic copies of Tn5469, cells of strain FdR1 harbor six genomic copies of the element; the sixth copy in FdR1 is localized to the rcaC gene. Electroporation of FdR1 cells yielded secondary pigment mutant strains FdR1E1 and FdR1E4, which identically exhibited the FdR1 phenotype with significantly reduced levels of phycoerythrin. In both FdR1E1 and FdR1E4, a seventh genomic copy of Tn5469 was localized to the cpeY gene of the sequenced but phenotypically uncharacterized cpeYZ gene set. This gene set is located downstream of the cpeBA operon which encodes the alpha and beta subunits of phycoerythrin. Complementation experiments correlated cpeYZ activity to the phenotype of strains FdR1E1 and FdR1E4. The predicted CpeY and CpeZ proteins share significant sequence identity with the products of homologous cpeY and cpeZ genes reported for Pseudanabaena sp. strain PCC 7409 and Synechococcus sp. strain WH 8020, both of which synthesize phycoerythrin. The CpeY and CpeZ proteins belong to a family of structurally related cyanobacterial proteins that includes the subunits of the CpcE/CpcF phycocyanin alpha-subunit lyase of Synechococcus sp. strain PCC 7002 and the subunits of the PecE/PecF phycoerythrocyanin alpha-subunit lyase of Anabaena sp. strain PCC 7120. Phycobilisomes isolated from mutant strains FdR1E1 and FdR1E4 contained equal amounts of chromophorylated alpha and beta subunits of phycoerythrin at 46% of the levels of the parental strain FdR1. These results suggest that the cpeYZ gene products function in phycoerythrin synthesis, possibly as a lyase involved in the attachment of phycoerythrobilin to the alpha or beta subunit.  相似文献   

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19.
The complete genomic sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7 which optimally grows at 80 degrees C, at low pH, and under aerobic conditions, has been determined by the whole genome shotgun method with slight modifications. The genomic size was 2,694,756 bp long and the G + C content was 32.8%. The following RNA-coding genes were identified: a single 16S-23S rRNA cluster, one 5S rRNA gene and 46 tRNA genes (including 24 intron-containing tRNA genes). The repetitive sequences identified were SR-type repetitive sequences, long dispersed-type repetitive sequences and Tn-like repetitive elements. The genome contained 2826 potential protein-coding regions (open reading frames, ORFs). By similarity search against public databases, 911 (32.2%) ORFs were related to functional assigned genes, 921 (32.6%) were related to conserved ORFs of unknown function, 145 (5.1%) contained some motifs, and remaining 849 (30.0%) did not show any significant similarity to the registered sequences. The ORFs with functional assignments included the candidate genes involved in sulfide metabolism, the TCA cycle and the respiratory chain. Sequence comparison provided evidence suggesting the integration of plasmid, rearrangement of genomic structure, and duplication of genomic regions that may be responsible for the larger genomic size of the S. tokodaii strain7 genome. The genome contained eukaryote-type genes which were not identified in other archaea and lacked the CCA sequence in the tRNA genes. The result suggests that this strain is closer to eukaryotes among the archaea strains so far sequenced. The data presented in this paper are also available on the internet homepage (http://www.bio.nite.go.jp/E-home/genome_list-e.html/).  相似文献   

20.
【背景】玉米迪基氏菌(Dickeya zeae)可引起香蕉、水稻等重要作物的细菌性软腐病,并造成巨大的损失。芭蕉芋抗性较好且与病虫害相关的报道很少,本研究团队首次报道了由D. zeae CE1引起的芭蕉芋细菌性软腐病。【目的】揭示CE1菌株的全基因组序列,并与同样来源于广东香蕉和水稻的D. zeae菌株作比较基因组学分析,初步探讨D. zeae种内不同病原细菌在与寄主互作过程中可能存在的遗传分化机制。【方法】采用三代测序结合二代测序对CE1菌株进行完整基因组测序,利用比较基因组学方法分析该菌株与香蕉和水稻菌株的进化关系和基因组特征差异。【结果】细菌基因组测序表明,CE1菌株的完整基因组大小为4 714 731 bp,注释预测到4 052个编码基因。与芭蕉芋和香蕉两个寄主亲缘关系类似,基因组比较分析发现来自芭蕉芋和香蕉的病菌菌株亲缘关系较近,它们在遗传进化上明显不同于水稻菌株。基因家族分析表明,编码重要致病因子如细菌分泌系统、鞭毛蛋白、胞外多糖、规律间隔成簇短回文重复序列(clustered regularly interspaced short palindromic repeats,CRISPR)等的基因簇在不同寄主间未表现明显分化。通过进一步分析发现,有80个基因是芭蕉芋和香蕉菌株所特有的,42个基因则是水稻菌株所特有的。在芭蕉芋和香蕉菌株的特异基因中,功能预测发现有2个基因簇分别与脂肪酸合成酶和群体感应相关;然而较多的水稻菌株特异基因则与碳水化合物转运和代谢相关,另外有一个水稻菌株特异基因簇存在于CRISPR的邻接位点。【结论】比较基因组学分析确定了芭蕉芋菌株和香蕉菌株、水稻菌株间的遗传亲缘关系,并发现了数个可能与不同类型寄主互作相关的基因位点,为D. zeae病原细菌侵染与香蕉、水稻等重要作物亲缘关系较为接近的不同作物提出风险预警。  相似文献   

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