The Significance of Mutualistic Phages for Bacterial Ecology and Evolution.

Bacteria and phages have traditionally been viewed as 'antagonists'. However, temperate phages can transfer genes, which can broaden their bacterial hosts' metabolic repertoire, confer or enhance virulence, or eliminate competing organisms, and so enhance bacterial fitness. Recent evidence shows that phages can also promote biofilm formation leading to population-level benefits for their bacterial hosts. Here, we provide a perspective on the ecological and evolutionary consequences for the bacteria interacting with phages, when phage and host interests are aligned. Furthermore, we examine the question whether bacterial hosts can lower immune barriers to phage infection, thereby facilitating infection by beneficial phages. Taking recent evidence together, we suggest that in many cases temperate phages are to be considered as being mutualistic as well as parasitic, at the same time.

Microbial invasions: the process, patterns, and mechanisms.

There has recently been a surge of literature examining microbial invasions into a variety of environments. These studies often include a component of biological diversity as a major factor determining an invader's fate, yet common results are rarely cross-compared. Since many studies only present a snapshot of the entire invasion process, a bird's eye view is required to piece together the entire continuum, which we find consists of introduction, establishment, spread, and impact phases. We further examine the patterns and mechanisms associated with invasion resistance and create a mechanistic synthesis governed by the species richness, species evenness, and resource availability of resident communities. We conclude by exploring the advantages of using a theoretical invasion framework across different fields.

Transcriptional profiling of genes involved in n-hexadecane compounds assimilation in the hydrocarbon degrading Dietzia cinnamea P4 strain

The petroleum-derived degrading Dietzia cinnamea strain P4 recently had its genome sequenced and annotated. This allowed employing the data on genes that are involved in the degradation of n-alkanes. To examine the physiological behavior of strain P4 in the presence of n-alkanes, the strain was grown under varying conditions of pH and temperature. D. cinnamea P4 was able to grow at pH 7.0-9.0 and at temperatures ranging from 35 ºC to 45 ºC. Experiments of gene expression by real-time quantitative RT-PCR throughout the complete growth cycle clearly indicated the induction of the regulatory gene alkU (TetR family) during early growth. During the logarithmic phase, a large increase in transcriptional levels of a lipid transporter gene was noted. Also, the expression of a gene that encodes the protein fused rubredoxin-alkane monooxygenase was enhanced. Both genes are probably under the influence of the AlkU regulator.

The great screen anomaly--a new frontier in product discovery through functional metagenomics.

Functional metagenomics, the study of the collective genome of a microbial community by expressing it in a foreign host, is an emerging field in biotechnology. Over the past years, the possibility of novel product discovery through metagenomics has developed rapidly. Thus, metagenomics has been heralded as a promising mining strategy of resources for the biotechnological and pharmaceutical industry. However, in spite of innovative work in the field of functional genomics in recent years, yields from function-based metagenomics studies still fall short of producing significant amounts of new products that are valuable for biotechnological processes. Thus, a new set of strategies is required with respect to fostering gene expression in comparison to the traditional work. These new strategies should address a major issue, that is, how to successfully express a set of unknown genes of unknown origin in a foreign host in high throughput. This article is an opinionating review of functional metagenomic screening of natural microbial communities, with a focus on the optimization of new product discovery. It first summarizes current major bottlenecks in functional metagenomics and then provides an overview of the general metagenomic assessment strategies, with a focus on the challenges that are met in the screening for, and selection of, target genes in metagenomic libraries. To identify possible screening limitations, strategies to achieve optimal gene expression are reviewed, examining the molecular events all the way from the transcription level through to the secretion of the target gene product.

Properties of bacterial endophytes and their proposed role in plant growth.

Bacterial endophytes live inside plants for at least part of their life cycle. Studies of the interaction of endophytes with their host plants and their function within their hosts are important to address the ecological relevance of endophytes. The modulation of ethylene levels in plants by bacterially produced 1-aminocyclopropane-1-carboxylate deaminase is a key trait that enables interference with the physiology of the host plant. Endophytes with this capacity might profit from association with the plant, because colonization is enhanced. In turn, host plants benefit by stress reduction and increased root growth. This mechanism leads to the concept of 'competent' endophytes, defined as endophytes that are equipped with genes important for maintenance of plant-endophyte associations. The ecological role of these endophytes and their relevance for plant growth are discussed here.

Starvation-induced stress resistance development in a genetically modified pseudomonas fluorescens strain

The response of a genetically modified Pseudomonas flurescens to nutrient starvation and starvation-induced stress cross-protection were investigated. Strain BR12 was starved for carbon, nitrogen, phosphorus and sulphur individually and for all nutrients in defined mineral media and exposed for 6 h to chemical (ethanol 20 percentage), oxidative (H2O220µM), osmotic (NaCl3M), cold shock (0 degree) and heat shock (47 degree C) stresses at different incubationtimes. Response to starvation and stress cross-protection development were evaluated by viable bacteria counts. There was a significant increase in resistance of late phase cultures grown in rich medium to stress, except for ethanol, in all starvation situations. Multiple nutrient starved cultures were more resistant to stress than individual nutrient starved ones. This strain inoculated in oligotrophic stream water microcosms also showed the starvation-induced stress protection mechanism but it presented a higher resistance to ethanol than cultures starved in mineral media. the acquisition of nonspecific resistance to stress can favour the persistance of Genetically Modified Microorganisms (GMMos) in apparently unfavourable.

Molecular microbial ecology: a minireview

Nossos conhecimentos sobre ecologia de microorganismos em ambientes naturais têm sido limitados por se basearem em técnicas clássicas de Microbiologia. Entretanto, os recentes avanços em técnicas de biologia molecular, juntamente com os constantes desenvolvimentos em tecnologias de informaçäo e computadores, têm transformado os estudos de Ecologia Microbiana e abriram uma nova área da Microbiologia denominada Ecologia Molecular Microbiana. Atualmente, estudos sobre comunidades microbianas naturais säo possíveis mesmo sem a necessidade de técnicas baseadas em cultivo, e novas estratégias moleculares têm sido desenvolvidas permitindo a realizaçäo de estudos sobre expressäo gênica, assim como um melhor entendimento sobre as interaçöes entre comunidades microbianas no ecossistema. Algumas das principais e/ou mais recentes técnicas foram revisadas.