Phylogenetic Differentiation of Two Closely RelatedNitrosomonas spp. That Inhabit Different Sediment Environments in an Oligotrophic Freshwater Lake
Phylogenetic Differentiation of Two Closely RelatedNitrosomonas spp. That Inhabit Different Sediment Environments in an Oligotrophic Freshwater Lake
复制标题
两种密切相关的亚硝化单胞菌的系统发育分化。
DOI：
10.1128/aem.65.11.4855-4862.1999
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发表时间：
1999
影响因子：
4.4
通讯作者：
A. Mccarthy
中科院分区：
文献类型：
--
作者：
C. Whitby;J. Saunders;Juana Rodríguez;R. Pickup;A. Mccarthy
摘要通过对一个温带贫营养淡水湖的湖水和沉积物样品的16 SrDNA分析，研究了该湖泊中氨氧化细菌的数量。用巢式PCR扩增亚硝化螺旋体和亚硝化单胞菌16 S rRNA基因，并通过寡核苷酸杂交证实产物的同一性。在所有样品中，亚硝化螺旋体DNA很容易被鉴定，亚硝化单胞菌欧洲亚硝化单胞菌-亚硝化单胞菌真养亚硝化单胞菌谱系的亚硝化单胞菌DNA也被直接检测到，但仅在夏季。利用16 S rRNA基因部分序列（345 bp）进行系统发育分析，证实了亚硝化单胞菌DNA扩增的准确性，并鉴定出两个与N. europaea或N.分别等同于沿岸的和深海沉积物的网站。701-bp序列的16 S rDNA克隆，代表每个集群的测定证实了这一划定。一个PCR-限制性片段长度多态性（RFLP）系统的开发，使鉴定克隆含有N。europaea和N. eutropha 16 S rDNA序列，包括其中的亚类。它被证明是可能的，直接从沉积物样品中扩增的16 S rDNA进行分析，以确定每个物种的相对丰度与其他相比。N. europaea和N.真养生物的亲缘关系非常密切，它们在湖泊系统中存在的直接证据有限。每个物种在沉积物中具有不同的空间位置的相关性是两种基因型相似的细菌适应生态位的一个不寻常的例子。它们的发生和相对分布现在可以通过应用PCR-RFLP分析与环境变化进行常规监测。
ABSTRACT The population of ammonia-oxidizing bacteria in a temperate oligotrophic freshwater lake was analyzed by recovering 16S ribosomal DNA (rDNA) from lakewater and sediment samples taken throughout a seasonal cycle. Nitrosospira and Nitrosomonas16S rRNA genes were amplified in a nested PCR, and the identity of the products was confirmed by oligonucleotide hybridization.Nitrosospira DNA was readily identified in all samples, and nitrosomonad DNA of the Nitrosomonas europaea-Nitrosomonas eutropha lineage was also directly detected, but during the summer months only. Phylogenetic delineation with partial (345 bp) 16S rRNA gene sequences of clones obtained from sediments confirmed the fidelity of the amplified nitrosomonad DNA and identified two sequence clusters closely related to either N. europaea or N. eutropha that were equated with the littoral and profundal sediment sites, respectively. Determination of 701-bp sequences for 16S rDNA clones representing each cluster confirmed this delineation. A PCR-restriction fragment length polymorphism (RFLP) system was developed that enabled identification of clones containing N. europaea and N. eutropha 16S rDNA sequences, including subclasses therein. It proved possible to analyze 16S rDNA amplified directly from sediment samples to determine the relative abundance of each species compared with that of the other. N. europaea and N. eutropha are very closely related, and direct evidence for their presence in lake systems is limited. The correlation of each species with a distinct spatial location in sediment is an unusual example of niche adaptation by two genotypically similar bacteria. Their occurrence and relative distribution can now be routinely monitored in relation to environmental variation by the application of PCR-RFLP analysis.
影响因子：
4.4
作者：
MUYZER, G;DEWAAL, EC;UITTERLINDEN, AG
通讯作者：
UITTERLINDEN, AG