| Title | Assessing T-RFLP suitability for the description of bacterial community structure and dynamics in oil-polluted marine environments |
| Abstract | The distribution of bacterial communities terminal restriction fragment length polymorphism (T-RFLP) fingerprint patterns was evaluated at three proximal hydrocarbon-contaminated sites located within the harbour of Messina. In order to analyse the short-term variability of the individual terminal restriction fragment (T-RF) patterns, water samples were collected at the three sites on three occasions within 3 months (T0, T90 and T91). Four sample sizes, from 50 to 1000 ml for each collected sample, were analysed separately (36 total analysed samples) to evaluate the relationship between the sample size and the bacterial diversity estimates. The dominant T-RF groups mostly belonged to signatures of putative hydrocarbon-degrading bacteria, as revealed by the virtual analysis of the obtained bands. In order to test whether significant differences were occurring between the analysed samples, the KruskalWallis non-parametric test was applied to the T-RF data set. Neither significant influence of the sample size nor short spatial variability within the three sampled sites was detected for each sampling time. On the contrary, significant temporal changes in the diversity of the bacterial communities were observed. These results were confirmed by the non-metric multidimensional scales (nMDS) analysis of the whole set of samples, which indicated three main groups corresponding to the three different sampling times. In summary, the T-RFLP technique, although a polymerase chain reaction-based method, proved to be a suitable technique for monitoring polluted marine environments, typically characterized by low diversity and high relative abundances of a few dominant groups. |
| Source | Environmental microbiology (Online) 7 (1), pp. 78–87 |
| Keywords | Marine environmentPetroleum degradationBacteria |
| Journal | Environmental microbiology (Online) |
| Editor | Blackwell Science, [S.l.], Regno Unito |
| Year | 2005 |
| Type | Articolo in rivista |
| DOI | 10.1111/j.1462-2920.2004.00685.x |
| Authors | Denaro R., DAuria G., Di Marco G., Genovese M., Troussellier M., Yakimov M. M., Giuliano L. |
| Text | 167987 2005 10.1111/j.1462 2920.2004.00685.x ISI Web of Science WOS 000225955800009 PubMed 15643938 Marine environment Petroleum degradation Bacteria Assessing T RFLP suitability for the description of bacterial community structure and dynamics in oil polluted marine environments Denaro R., DAuria G., Di Marco G., Genovese M., Troussellier M., Yakimov M. M., Giuliano L. Istituto per l Ambiente Marino Costiero IAMC Sezione di Messina, Istituto per i processi chimico fisici IPCF , sezione di Messina, CNR Laboratoire Ecosystemes lagunaires, CNRS Universite Montpellier II, France The distribution of bacterial communities terminal restriction fragment length polymorphism T RFLP fingerprint patterns was evaluated at three proximal hydrocarbon contaminated sites located within the harbour of Messina. In order to analyse the short term variability of the individual terminal restriction fragment T RF patterns, water samples were collected at the three sites on three occasions within 3 months T0, T90 and T91 . Four sample sizes, from 50 to 1000 ml for each collected sample, were analysed separately 36 total analysed samples to evaluate the relationship between the sample size and the bacterial diversity estimates. The dominant T RF groups mostly belonged to signatures of putative hydrocarbon degrading bacteria, as revealed by the virtual analysis of the obtained bands. In order to test whether significant differences were occurring between the analysed samples, the KruskalWallis non parametric test was applied to the T RF data set. Neither significant influence of the sample size nor short spatial variability within the three sampled sites was detected for each sampling time. On the contrary, significant temporal changes in the diversity of the bacterial communities were observed. These results were confirmed by the non metric multidimensional scales nMDS analysis of the whole set of samples, which indicated three main groups corresponding to the three different sampling times. In summary, the T RFLP technique, although a polymerase chain reaction based method, proved to be a suitable technique for monitoring polluted marine environments, typically characterized by low diversity and high relative abundances of a few dominant groups. 7 http //onlinelibrary.wiley.com/doi/10.1111/j.1462 2920.2004.00685.x/pdf Assessing terminal restriction fragment length polymorphism suitability for the description of bacterial community structure. Denaro_et_al_EMI_2005.pdf Articolo in rivista Blackwell Science 1462 2920 Environmental microbiology Online Environmental microbiology Online Environ. microbiol. Online Environmental microbiology Online gaetano.dimarco DI MARCO GAETANO laura.giuliano GIULIANO LAURA mikhail.iakimov IAKIMOV MIKHAIL renata.denaro DENARO RENATA MD.P01.014.005 Dispositivi fotoelettrochimici, polimeri e termodinamica dei processi irreversibili TA.P04.026.002 Impatto Antropogenico su ecosistemi marini microbiologia ed biotecnologia ambientale |
