Abstract:
:Marine cyanobacteria are important contributors to primary production in the ocean and their viruses (cyanophages) affect the ocean microbial communities. Despite reports of lysogeny in marine cyanobacteria, a genome sequence of such temperate cyanophages remains unknown although genomic analysis indicate potential for lysogeny in certain marine cyanophages. Using assemblies from Red Sea and Tara Oceans metagenomes, we recovered genomes of a novel uncultured marine cyanophage lineage, which contain, in addition to common cyanophage genes, a phycobilisome degradation protein NblA, an integrase and a split DNA polymerase. The DNA polymerase forms a monophyletic clade with a DNA polymerase from a genomic island in Synechococcus WH8016. The island contains a relic prophage that does not resemble any previously reported cyanophage but shares several genes with the newly identified cyanophages reported here. Metagenomic recruitment indicates that the novel cyanophages are widespread, albeit at low abundance. Here, we describe a novel potentially lysogenic cyanophage family, their abundance and distribution in the marine environment.
journal_name
Environ Microbiol Repjournal_title
Environmental microbiology reportsauthors
Flores-Uribe J,Philosof A,Sharon I,Fridman S,Larom S,Béjà Odoi
10.1111/1758-2229.12773subject
Has Abstractpub_date
2019-08-01 00:00:00pages
598-604issue
4issn
1758-2229journal_volume
11pub_type
杂志文章abstract::Bacterioplankton play a critical role in primary production, carbon cycling, and nutrient cycling in the oligotrophic ocean. To investigate the effect of elevated CO2 and warming on the composition and function of bacterioplankton communities in oligotrophic waters, we performed two trace-metal clean deck board incuba...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12844
更新日期:2020-08-01 00:00:00
abstract::It is well established that the release of anthropogenic-derived CO2 into the atmosphere will be mainly absorbed by the oceans, with a concomitant drop in pH, a process termed ocean acidification. As such, there is considerable interest in how changes in increased CO2 and lower pH will affect marine biota, such as bac...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12159
更新日期:2014-12-01 00:00:00
abstract::Biofilm communities in the euphotic zone of aquatic habitats comprise photoautotrophic microorganisms, such as diatoms, green algae and cyanobacteria, which produce the organic carbon that fuels the life of a heterotrophic contingent of microorganisms, mostly bacteria. Such photoautotrophic-heterotrophic mixed-species...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2011.00315.x
更新日期:2012-02-01 00:00:00
abstract::Bumblebees are ecologically and economically important as pollinators of crop and wild plants, especially in temperate systems. Species, such as the buff-tailed bumblebee (Bombus terrestris), are reared commercially to pollinate high-value crops. Their highly specific gut microbiota, characterized by low diversity, ma...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12299
更新日期:2015-08-01 00:00:00
abstract::Manganese (Mn) and iron (Fe)-enriched sediment layers were discovered in Lake Superior within, above and below the oxic-anoxic interface. While the role of bacteria in redox reactions with Mn is known to be significant, little information exists about indigenous microbial communities in many freshwater environments. T...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12364
更新日期:2016-04-01 00:00:00
abstract::The discovery of denitrifying anaerobic methane oxidation with nitrite as electron acceptor mediated by 'Candidatus Methylomirabilis oxyfera' connected the biogeochemical carbon and nitrogen cycle in a new way. However, it is important to have a comprehensive understanding about the distribution of M. oxyfera-like bac...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12214
更新日期:2015-02-01 00:00:00
abstract::Many species in the order Bacillales form a specialized cell type called a spore that is resistant to a range of environmental stresses. Transmission electron microscopy (TEM) reveals that the spore is comprised of a series of concentric shells, surrounding an interior compartment harbouring the spore DNA. The outermo...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12713
更新日期:2019-04-01 00:00:00
abstract::Several bacterial strains of the Pseudomonas genus provide plant growth stimulation, plant protection against pests or bioremediation. Among these bacteria, P. fluorescens Pf29Arp reduces the severity of take-all, a disease caused by the pathogenic fungus Gaeumannomyces graminis var. tritici (Ggt) on wheat roots. In t...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12048
更新日期:2013-06-01 00:00:00
abstract::Ectosymbiotic Nanoarchaeota live on the surface of diverse archaeal hosts. Despite being broadly distributed in global geothermal systems, only three Nanoarchaeota have been successfully co-cultivated with their hosts, and until now no nanoarchaeotal cultures or genomes have been described from deep-sea hydrothermal v...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12740
更新日期:2019-04-01 00:00:00
abstract::Mycophagous (=fungus feeding) soil bacteria of the genus Collimonas have been shown to colonize and grow on hyphae of different fungal hosts as the only source of energy and carbon. The ability to exploit fungal nutrient resources might require a strategy for collimonads to sense fungi in the soil matrix. Oxalic acid ...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12290
更新日期:2015-10-01 00:00:00
abstract::Anaerobic ammonium-oxidizing (anammox) bacteria affiliated with the genus 'Candidatus Scalindua' are responsible for significant nitrogen loss in oceans, and thus their ecophysiology is of great interest. Here, we enriched a marine anammox bacterium, 'Ca. S. japonica' from a Hiroshima bay sediment in Japan, and compar...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12586
更新日期:2017-10-01 00:00:00
abstract::Vibrio vulnificus, an inhabitant of marine and estuarine environments around the world, is the leading cause of reported seafood-related deaths in the United States. Disease is caused by opaque colony-forming strains that produce capsular polysaccharide, loss of which results in an unencapsulated translucent phenotype...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12318
更新日期:2015-10-01 00:00:00
abstract::Pseudomonas putida KF715 exhibits unique properties in both catabolic activity and genome plasticity. Our previous studies revealed that the DNA region containing biphenyl and salycilate metabolism gene clusters (termed the bph-sal element) was frequently deleted and transferred by conjugation to closely related P. pu...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12561
更新日期:2017-10-01 00:00:00
abstract::Although dissimilatory sulfate-reducing bacteria (SRB) are generally described as strictly anaerobic organisms with regard to growth, several reports have shown that some SRB, particularly Desulfovibrio species, are quite resistant to O2 . For example, SRB remain viable in many aerobic environments while some even red...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12479
更新日期:2016-12-01 00:00:00
abstract::Free-living bacteria such as Pseudomonas putida are frequently exposed to temperature shifts and non-optimal growth conditions. We compared the transcriptome and metabolome of the cold adaptation of P. putida KT2440 and isogenic cold-sensitive transposon mutants carrying transposons in their cbrA, cbrB, pcnB, vacB, an...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12793
更新日期:2019-12-01 00:00:00
abstract::Mutualistic and beneficial relationships between nematodes and bacteria are highly present in nature, mostly occurring because of nutritional dependence and pathogen protection, and intrinsically related with the environment, the ecological conditions and the nematode life stages. Thirty-four years have passed since t...
journal_title:Environmental microbiology reports
pub_type: 杂志文章,评审
doi:10.1111/1758-2229.12202
更新日期:2015-02-01 00:00:00
abstract::Pseudomonas aeruginosa produces the toxic secondary metabolite hydrogen cyanide (HCN) at high cell population densities and low aeration. Here, we investigated the impact of HCN as a signal in cell-cell communication by comparing the transcriptome of the wild-type strain PAO1 to that of an HCN-negative mutant under cy...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12105
更新日期:2014-02-01 00:00:00
abstract::Bacteria-host interactions are universal in nature and have significant effects on host functionality. Bacterial secondary metabolites are believed to play key roles in such interactions as well as in interactions within the host-associated microbial community. Hence, prominent secondary metabolite-producing bacteria ...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12698
更新日期:2019-06-01 00:00:00
abstract::Pseudomonas putida KT2440 is an efficient colonizer of the rhizosphere of plants of agronomical and basic interest. We have demonstrated that KT2440 can protect the model plant Arabidopsis thaliana against infection by the phytopathogen Pseudomonas syringae pv. tomato DC3000. P. putida extracellular haem-peroxidase (P...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2009.00091.x
更新日期:2010-06-01 00:00:00
abstract::The extent to which different sequence-based approaches describe environmental microbial communities in comparative studies is an important consideration when deriving inferences from ecological studies. The ability of a targeted metagenomic approach [small subunit (SSU) rRNA pyrosequencing] and shotgun metagenome app...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2012.00328.x
更新日期:2012-04-01 00:00:00
abstract::Electrodes poised at potentials low enough to serve as an electron donor for microbial respiration, but high enough to avoid the production of hydrogen, have been proposed as an alternative to the use of soluble electron donors for stimulating the bioremediation of chlorinated contaminants and/or metals. However, this...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2009.00118.x
更新日期:2010-04-01 00:00:00
abstract::Given the key role played by honey bees in almost all terrestrial ecosystems, maintaining bee populations in adequate sanitary conditions is crucial for these essential pollinators to continue their work. From the beginning of the 21st century, beekeepers have reported a progressive increase in the overwintering morta...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2011.00299.x
更新日期:2012-02-01 00:00:00
abstract::Relationships fueled by sulfide between deep-sea invertebrates and bacterial symbionts are well known, yet the diverse overlapping factors influencing symbiont specificity are complex. For animals that obtain their symbionts from the environment, both host identity and geographic location can impact the ultimate symbi...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12909
更新日期:2020-11-16 00:00:00
abstract::A fundamental question in marine microbial ecology is how microbes adapt to ocean environments. Although numerically dominant populations are typically considered more successful, higher census population sizes (Nc) do not equate directly to a greater capability for adaptation. Instead, effective population size (Ne) ...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12129
更新日期:2014-04-01 00:00:00
abstract::KaiC protein is the pivotal component of the circadian clock in cyanobacteria. While KaiC family proteins are well-conserved throughout divergent phylogenetic lineages, studies of the physiological roles of KaiC proteins from other microorganisms have been limited. We examined the role of the KaiC proteins, KaiC1 and ...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12662
更新日期:2018-12-01 00:00:00
abstract::Corals are inhabited by complex communities of microbes that affect their growth and survival. Several studies suggest that coral disease may be attributed to the success of vibrios in out-competing other bacteria in the mucus and tissues of corals. Vibrios utilize a variety of quorum sensing (QS) signal molecules to ...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/j.1758-2229.2009.00122.x
更新日期:2010-02-01 00:00:00
abstract::Magnetotactic bacteria (MTB) are distributed ubiquitously in sediments from coastal environments to the deep sea. The Pacific Manganese Nodule Province contains numerous polymetallic nodules mainly composed of manganese, iron, cobalt, copper and nickel. In the present study we used Illumina MiSeq sequencing technology...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12374
更新日期:2016-04-01 00:00:00
abstract::Bacteria from the Chloroflexi phylum are dominant members of phototrophic microbial mat communities in terrestrial thermal environments. Vitamins of B group are key intermediates (precursors) in the biosynthesis of indispensable enzyme cofactors driving numerous metabolic processes in all forms of life. A genomics-bas...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12227
更新日期:2015-04-01 00:00:00
abstract::The shallow submarine hydrothermal field of the Prony Bay (New Caledonia) discharges hydrogen- and methane-rich fluids with low salinity, temperature (< 40°C) and high pH (11) produced by the serpentinization reactions of the ultramafic basement into the lagoon seawater. They are responsible for the formation of carbo...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12184
更新日期:2014-12-01 00:00:00
abstract::Previous studies examining the clonal diversity of Escherichia coli populations within humans have been based on faecal isolates. In this study E. coli were isolated from biopsies taken from the terminal ileum, ascending, transverse and descending colon, and rectum of 69 individuals. Multiple isolates from each biopsy...
journal_title:Environmental microbiology reports
pub_type: 杂志文章
doi:10.1111/1758-2229.12300
更新日期:2015-08-01 00:00:00