Relationships between molecular bacterial diversity and chemistry of groundwater in the Wairarapa Valley,New Zealand     

KA Sirisena  CJ Daughney  M Moreau  KG Ryan  GK Chambers 《新西兰海洋与淡水研究杂志》2013,47(4):524-539

Groundwater plays an important role in New Zealand water supplies and hence monitoring activities are conducted regularly. Most monitoring programmes aim to evaluate groundwater chemistry and almost completely overlook the microbial component in this ecosystem. In our present study, the bacterial community structure of groundwater in the Wairarapa Valley was examined using the terminal restriction fragment length polymorphism (T-RFLP), and relationships between bacterial community structure and groundwater chemistry, aquifer confinement and groundwater usage were explored. In addition, the results from this study were compared with a previous T-RFLP survey of the same area in an attempt to detect changes in bacterial community structure over time. The data obtained suggested that bacterial community structure was related to groundwater chemistry, especially to redox conditions. Species composition showed minimal variation over time if groundwater chemistry remained unchanged. These findings reflect the potential of using bacterial communities as biological indicators to evaluate the health of groundwater ecosystems. We suggest that it is important to include this type of broad bacterial diversity assessment criteria into regular groundwater monitoring activities.  相似文献   

DNA barcoding of Antarctic marine zooplankton for species identification and recognition     

CHENG Fangping  WANG Minxiao  SUN Song  LI Chaolun  ZHANG Yongshan 《极地研究(英文版)》2013,(2):119-127

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Evidence of the restricted gene flow within a small spatial scale in the Japanese common intertidal goby Chaenogobius annularis     

Shotaro Hirase  Manami Kanno  Minoru Ikeda  Akihiro Kijima 《Marine Ecology》2012,33(4):481-489

Elucidating the scale of gene flow among populations is an important challenge for understanding the ecological dynamics and local adaptation of marine organisms. We assessed whether gene flow is restricted even at a small spatial scale in the Japanese common intertidal goby Chaenogobius annularis, using highly polymorphic DNA markers, involving the mitochondrial DNA (mtDNA) control region and 15 microsatellite DNA (msDNA), because past ecological studies have suggested low dispersal ability for rocky intertidal fishes. We found significant heterogeneities between four neighboring local populations by both mtDNA and msDNA analyses. In addition, no genetic heterogeneity was detected by either method across generations within a population; it was considered that such genetic differentiation is retained across generations and that the gene flow of this species is restricted to within a radius of a few kilometers. This is the first report showing a clear genetic subdivision in rocky intertidal fish.  相似文献   

Genetic variability of the blue and red shrimp Aristeus antennatus in the Western Mediterranean Sea inferred by DNA microsatellite loci     

Rita Cannas  Flavio Sacco  Maria Cristina Follesa  Andrea Sabatini  Marco Arculeo  Sabrina Lo Brutto  Teresa Maggio  Anna Maria Deiana  Angelo Cau 《Marine Ecology》2012,33(3):350-363

Genetic variation at eight microsatellite loci was studied in nine populations of the blue and red shrimp Aristeus antennatus to investigate whether distinct stocks are present in the Western Mediterranean Sea. A high level of gene flow and no evidence of genetic partitioning were discovered. No significant variation was found (F_ST = 0.00673, P-value = 0.067) even when shrimps from exploited and those from deep-water unexploited grounds were compared. No evidence of reduction or expansion of population size in the recent past was found, as indicated by the bottleneck and interlocus g-tests. Our results are consistent with previous studies using mitochondrial gene methods and allozymes, indicating that, for this species, extensive pelagic larval dispersal and adult migration are probably responsible for the genetic homogeneity observed. In particular, due to a different bathymetric distribution of males and females, reported to be associated with different water masses and hence with possible differential dispersal capacity between sexes, the hypothesis of sex-biased dispersal was tested. Mean values of corrected assignment indices and mean relatedness values were higher for males, suggesting that females are the more widely dispersing sex. Molecular assessment of A. antennatus from the Western Mediterranean provides data of biological and evolutionary interest for the successful management of such a highly valuable fishery resource.  相似文献   

波纹唇鱼mtDNA D-loop 序列变异分析   总被引：2，自引：1，他引：1  

胡静  齐兴柱  尹绍武  骆剑  朱晓平  祝斐  胡亚丽 《海洋科学》2012,36(4):50-56

为研究波纹唇鱼(Cheilinus undulatus)线粒体D-loop 序列遗传多样性, 作者采用聚合酶链式反应和克隆技术对海波纹唇鱼群体(n=25)的mtDNA D-loop 序列进行克隆和测序, 获得长度大约为1 400 bp的产物。用ClustalX 软件进行排序比较, 将结果导入MEGA5.0, 结果显示出在这25 尾个体中, 共检测出66 个变异位点, 包括0 个碱基缺失, 4 个碱基插入, 59 转换位点, 2 颠换位点及1 个转换和颠换同时存在的位点。并用MEGA5.0 软件构建该群25 尾个体的NJ 和UPGMA 系统树。由DNASP 软件计算出该波纹唇鱼群体的多态位点数(S)为62, 核苷酸多样性(P_i)为0.00606, 平均核苷酸差异数为6.907。结果表明波纹唇鱼群体的mtDNA-loop 基因个体差异程度不明显。  相似文献   

基于16S rRNA 部分序列探讨部分鳚亚目鱼类的分子系统进化关系   总被引：1，自引：0，他引：1  

张源真  王伟  姜志强  张钊 《海洋科学》2012,36(9):89-95

通过PCR扩增获得了3科5属6种中国黄渤海海域的鳚亚目(Blennioidei)鱼类的线粒体16S rRNA基因序列片段约669bp碱基,结合来自 GenBank的5种鳚亚目其他科鱼类的相应基因片段,并以眼斑雪冰鱼(Chionodraco rastrospinosus)为外群,生成供系统发育分析的序列矩阵,利用MEGA 4.0软件分析序列的碱基组成、差异百分比、转换/颠换值等,应用最大简约法(MP)和邻接法(NJ)构建系统发育树.结果显示:在鳚亚目鱼类的16S rRNA 片段生成的序列矩阵中发现有碱基的插入缺失现象,共有207 bp变异位点,转换/颠换值为0.8,碱基平均差异为3.36;支持绵鳚(Enchelyopus elongates)归于鳚亚目绵鳚科(Zoarcidae),鳚(Azuma emmnion)归于鳚亚目线鳚科(Stichaeidae);方氏云鳚(Enedrias fangi)和云鳚(Enedrias nebulosus)种间遗传距离只有0.01,亲缘关系最近.  相似文献   

尼罗罗非鱼Oreochromis niloticus、奥利亚罗非鱼O.aureus和红罗非鱼O.sp.群体遗传多样性的比较     

李莉好  喻达辉  黄桂菊  杜博  符云  童馨  郭奕惠  叶卫 《热带海洋学报》2012,(2):102-109

用9对微卫星引物对尼罗罗非鱼Oreochromis niloticus、奥利亚罗非鱼O.aureus和红罗非鱼O.sp.群体的遗传变异进行了比较研究。在3个群体109个个体中共检测到60个等位基因,3个群体的平均等位基因数分别为4.11、1.33和3.44,平均观测杂合度分别为0.528、0.056和0.491,平均期望杂合度分别为0.644、0.091和0.526,平均多态信息含量分别为0.580、0.077和0.466。杂合子偏离度D值分别为0.148、0.222和0.044,表明3个罗非鱼群体存在不同程度的杂合子缺失。卡方检验表明3个群体的大部分位点偏离Hardy-Weinberg平衡,存在遗传漂变现象。群体间遗传分化显著(遗传分化指数FST在0.329到0.656之间,P<0.01)。尼罗罗非鱼和红罗非鱼群体间的遗传距离最小(0.47)。上述分析表明,尼罗罗非鱼的遗传多样性最高,奥利亚罗非鱼的遗传多样性最低,群体间分化显著。表明尼罗罗非鱼和红罗非鱼尚具有一定的选育潜力,而奥利亚罗非鱼遗传多样性低,不利于选择育种,需要引进新的种群。  相似文献   

基于微卫星标记的三疣梭子蟹家系系谱认证   总被引：1，自引：0，他引：1  

刘磊  李健  刘萍 《中国海洋大学学报(自然科学版)》2012,(Z2):38-44

用6个微卫星标记对三疣梭子蟹(Portunus trituberculatus)的6个家系进行系谱鉴别和遗传多样性研究。6个微卫星标记在6个家系中显示了高度的遗传差异,6个位点的多态信息含量(PIC)分别为Pot09位点0.6045,Pot14位点0.6072,Pot17位点0.8130,Pot18位点0.6870,Pot25位点0.7839,Pot42位点0.6330。6个多态性位点共发现了32个等位基因,每个位点的等位基因数在4～8个之间。不同位点共发现7个家系特异性等位基因,2#和3#家系中各发现2个,1#、5#、6#家系中各发现1个,4#家系未发现特异性等位基因。根据已知亲本及子代基因型,可推断出6个家系中全部亲本的基因型,据此鉴别各家系。在Pot18位点可将1#家系和6#家系与其他家系相区别;Pot14位点和Pot17位点可将3#家系与其他家系相区别;Pot42位点可将5#与其他家系相区别;Pot17位点和Pot25可将2#家系与其他家系相区别。因此,Pot18位点、Pot14位点和Pot17位点、Pot42位点、Pot17位点和Pot25位点可分别用于鉴别1#和6#家系、3#、5#、2#家系的特异性标记。研究表明,在选用的6个微卫星标记中,最少选用3个标记可鉴别6个三疣梭子蟹家系。  相似文献   

5个湖泊河川沙塘鳢(Odontobutis potamophila)种群线粒体细胞色素b基因的遗传变异分析     

徐宇  钟立强  李潇轩  朱锡和  王崇华  史杨白 《湖泊科学》2015,27(4):693-699

通过对5个湖泊的河川沙塘鳢种群的线粒体DNA细胞色素b基因进行PCR扩增、测序,获得1141 bp的序列全长.序列分析显示,cyt b基因序列中A+T含量(55.8%)略高于G+C含量(44.2%),共检测到806个多态位点,115个样本得到87个单倍型,平均单倍型多样性为0.969±0.012,核苷酸多样性为0.20081±0.00742,遗传多样性表现高度多样性.太湖种群与大纵湖种群间的遗传距离最近,为0.137,巢湖种群和大纵湖种群之间遗传距离最远,为0.424.分子方差分析表明,群体间遗传分化系数Fst为0.531,变异来自群体内及群体间.cyt b基因序列构建的UPGMA系统进化树显示,5个种群分化成不同的分支系谱,种群间存在的基因交流较少.  相似文献   

Potential use of dissolved cyanobacterial DNA for monitoring toxic Microcystis cyanobacteria in filtered water     

《Physics and Chemistry of the Earth》2013

Toxic and non-toxic Microcystis sp. are morphologically indistinguishable cyanobacteria that are increasingly posing health problems in fresh water systems by producing odours and/or toxins. Toxic Microcystis sp. produces toxicologically stable water soluble toxic compounds called microcystins (MCs) that have been associated with cases of aquatic life and wildlife poisoning and kills including some cases of human illnesses/deaths around the world. Thus, the need for rapid detection of toxic Microcystis sp. in surface water is imperatively a necessity for early mitigation purposes. Genomic DNA from potentially toxic Microcystis sp. comprises of ten microcystin synthetase (mcy) genes of which six major ones are directly involved in MCs biosynthesis. In Polymerase Chain Reaction (PCR) methodsmcy genes can be amplified from intracellular/extracellular genomic DNA using PCR primers. However, little is known about the limitations of sourcing genomic DNA templates from extracellular DNA dissolved in water. In this work, filtered water (0.45 μM) from a Microcystis infested Dam (South Africa) was re-filtered on 0.22 μM syringe filters followed by genomic DNA isolation and purification from micro-filtrates (9 mL). Six major mcy genes (mcyABCDEG) from the isolated DNA were amplified using newly designed as well as existing primers identified from literature. PCR products were separated by gel electrophoresis and visualized after staining with ethidium bromide. The limitation of using dissolved DNA for amplification of mcy genes was qualitatively studied by establishing the relationship between input DNA concentrations (10.0–0.001 ng/μL) and the formation of respective PCR products. The amplification of mcyA gene using new primers with as little as 0.001 ng/μL of DNA was possible. Other mcy gene sensitivities reached 0.1 ng/μL DNA dilution limits. These results demonstrated that with appropriately optimized PCR conditions the method can provide accurate cost-effective tools for rapid detection of toxic Microcystis sp. in water giving early information for water quality monitoring against MC producing cyanobacteria.  相似文献