The discovery of abundant viruses in the oceans and on land
has ushered in a quarter century of groundbreaking advancements
in our understanding of viruses within ecosystems.
Two types of observations from environmental samples -
direct counts of viral particles and viral metagenomic sequences
- have been critical to these discoveries. Accurate
direct counts have established ecosystem-scale trends in the
impacts of viral infection on microbial host populations and
have shown that viral communities within aquatic and soil
environments respond to both short term and seasonal environmental
change. Direct counts have been critical for estimating
viral production rate, a measurement essential to
quantifying the implications of viral infection for the biogeochemical
cycling of nutrients within ecosystems. While
direct counts have defined the magnitude of viral processes;
shotgun sequences of environmental viral DNA - virome
sequences - have enabled researchers to estimate the diversity
and composition of natural viral communities. Virome-enabled
studies have found the virioplankton to contain thousands
of viral genotypes in communities where the most
dominant viral population accounts for a small fraction of
total abundance followed by a long tail of diverse populations.
Detailed examination of long virome sequences has
led to new understanding of genotype-to-phenotype connections
within marine viruses and revealed that viruses carry
metabolic genes that are important to maintaining cellular
energy during viral replication. Increased access to long virome
sequences will undoubtedly reveal more genetic secrets
of viruses and enable us to build a genomics rulebook for
predicting key biological and ecological features of unknown
viruses.
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While largely studied because of their harmful effects on
human health, there is growing appreciation that viruses
are also important members of the animal holobiont. This
review highlights recent findings on viruses associated with
Hydra and related Cnidaria. These early evolutionary diverging
animals not only select their bacterial communities but
also select for viral communities in a species-specific manner.
The majority of the viruses associating with these animals
are bacteriophages. We demonstrate that the animal host and
its virome have evolved into a homeostatic, symbiotic relationship
and propose that viruses are an important part of the
Hydra holobiont by controlling the species-specific microbiome.
We conclude that beneficial virus-bacterial-host interactions
should be considered as an integral part of animal
development and evolution.
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Bacterial secretion systems play critical roles in communication
with neighboring bacteria and in the modulation of
host immune responses via the secretion of small proteins
called effectors. Several secretion systems have been identified
and these are denoted types I-II. Of these, the type VI
secretion system (T6SS) and its effectors were only recently
elucidated. Most studies on the role and significance of the
T6SS and its effectors have focused on human pathogens.
In this review, type 6 effectors from plant-associated beneficial
and pathogenic bacteria are discussed, including effectors
from Agrobacterium tumefaciens, Dickeya dadanti, Rhizobium
leguminosarum, Pectobacterium atroseptium, Ralstonia
solanacearum, Pseudomonas syringae, Pseudomonas
fluorescens, and Pseudomonas protegens. Type 6 effectors act
in symbiosis, biofilm formation, virulence, and interbacterial
competition. Understanding the impact of type 6 effectors
on pathogenesis will contribute to the management of bacterial
pathogens in crop plants by allowing the manipulation
of intra and inter-specific interactions.
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