Identification of a Diagnostic Marker To Detect Freshwater Cyanophages of Filamentous Cyanobacteria

Baker, Andrea; Goddard, Victoria; Davy, Joanne E.; Schroeder, Declan C.; Adams, David G.; Wilson, William H.

doi:10.1128/aem.00270-06

Cited by 33 publications

(22 citation statements)

References 43 publications

(37 reference statements)

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“…Our level of knowledge regarding the total diversity and genetic composition of environmental phages is minimal. Evidence suggests that communities of phages found in freshwaters are likely to represent a more complex cohort than that of their marine counterparts (Kimura et al 2013;Baker et al 2006), in congruence with the more heterogeneous nature of freshwater. Broadly speaking, in comparison to marine communities, freshwaters are understudied regardless, and so the scope of this expected greater diversity is unknown.…”

Section: Discussionmentioning

confidence: 90%

Assessment of a metaviromic dataset generated from nearshore Lake Michigan

Watkins

Kuehnle

Ruggeri

et al. 2016

Mar. Freshwater Res.

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Abstract. Bacteriophages are powerful ecosystem engineers. They drive bacterial mortality rates and genetic diversity, and affect microbially mediated biogeochemical processes on a global scale. This has been demonstrated in marine environments; however, phage communities have been less studied in freshwaters, despite representing a potentially more diverse environment. Lake Michigan is one of the largest bodies of freshwater on the planet, yet to date the diversity of its phages has yet to be examined. Here, we present a composite survey of viral ecology in the nearshore waters of Lake Michigan. Sequence analysis was performed using a web server previously used to analyse similar data. Our results revealed a diverse community of DNA phages, largely comprising the order Caudovirales. Within the scope of the current study, the Lake Michigan virome demonstrates a distinct community. Although several phages appeared to hold dominance, further examination highlighted the importance of interrogating metagenomic data at the genome level. We present our study as baseline information for further examination of the ecology of the lake. In the current study we discuss our results and highlight issues of data analysis which may be important for freshwater studies particularly, in light of the complexities associated with examining phage ecology generally.

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Section: Discussionmentioning

confidence: 90%

Assessment of a metaviromic dataset generated from nearshore Lake Michigan

Watkins

Kuehnle

Ruggeri

et al. 2016

Mar. Freshwater Res.

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“…The genetic richness and diversity in freshwater bacteriophage communities may equal or even surpass, that found in marine environments [13], [50]–[51]. Bacteriophages are known to act as important agents of mortality, as genetic reservoirs and transfer agents within bacterial communities, the impact of which will depend on their ability to infect a range of species and host ecotype, and also on whether they adopt lytic or lysogenic modes of infection.…”

Section: Discussionmentioning

confidence: 99%

Characterisation of Host Growth after Infection with a Broad-Range Freshwater Cyanopodophage

et al. 2014

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Freshwater cyanophages are poorly characterised in comparison to their marine counterparts, however, the level of genetic diversity that exists in freshwater cyanophage communities is likely to exceed that found in marine environments, due to the habitat heterogeneity within freshwater systems. Many cyanophages are specialists, infecting a single host species or strain; however, some are less fastidious and infect a number of different host genotypes within the same species or even hosts from different genera. Few instances of host growth characterisation after infection by broad host-range phages have been described. Here we provide an initial characterisation of interactions between a cyanophage isolated from a freshwater fishing lake in the south of England and its hosts. Designated ΦMHI42, the phage is able to infect isolates from two genera of freshwater cyanobacteria, Planktothrix and Microcystis. Transmission Electron Microscopy and Atomic Force Microscopy indicate that ΦMHI42 is a member of the Podoviridae, albeit with a larger than expected capsid. The kinetics of host growth after infection with ΦMHI42 differed across host genera, species and strains in a way that was not related to the growth rate of the uninfected host. To our knowledge, this is the first characterisation of the growth of cyanobacteria in the presence of a broad host-range freshwater cyanophage.

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“…Cyanophages are a group of extremely diverse tailed viruses. Although a variety of structural genes, such as g20 (portal protein) [90,91,92,93,94], mcp (major capsid protein) [95], g91 (tail sheath protein) [96], Syn_g101 (putative tail fiber) [63] and DNA polymerase [97,98], were used as marker molecules for investigating the genetic diversity and phylogenetic relationship of cyanophages, they are found to be restricted to specific groups that can be used as PCR targets. For example, the DNA polymerase gene is restricted to only a subset of the T7-like phage group, and the structural gene ( g20 ) that encodes a portal protein in myophage has been restricted to T4-like cyanophages.…”

Section: Signature Markers For Cyanophage Evolutionmentioning

confidence: 99%

Metabolic Genes within Cyanophage Genomes: Implications for Diversity and Evolution

Gao

Huang

Ning

2016

Genes

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Cyanophages, a group of viruses specifically infecting cyanobacteria, are genetically diverse and extensively abundant in water environments. As a result of selective pressure, cyanophages often acquire a range of metabolic genes from host genomes. The host-derived genes make a significant contribution to the ecological success of cyanophages. In this review, we summarize the host-derived metabolic genes, as well as their origin and roles in cyanophage evolution and important host metabolic pathways, such as the light-dependent reactions of photosynthesis, the pentose phosphate pathway, nutrient acquisition and nucleotide biosynthesis. We also discuss the suitability of the host-derived metabolic genes as potential diagnostic markers for the detection of genetic diversity of cyanophages in natural environments.

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Identification of a Diagnostic Marker To Detect Freshwater Cyanophages of Filamentous Cyanobacteria

Cited by 33 publications

References 43 publications

Assessment of a metaviromic dataset generated from nearshore Lake Michigan

Assessment of a metaviromic dataset generated from nearshore Lake Michigan

Characterisation of Host Growth after Infection with a Broad-Range Freshwater Cyanopodophage

Metabolic Genes within Cyanophage Genomes: Implications for Diversity and Evolution

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