The Ingenuity of Bacterial Genomes.

  title={The Ingenuity of Bacterial Genomes.},
  author={Paul C. Kirchberger and Mariane Schmidt and Howard Ochman},
  journal={Annual review of microbiology},
The genomes of bacteria contain fewer genes and substantially less noncoding DNA than those of eukaryotes, and as a result, they have much less raw material to invent new traits. Yet, bacteria are vastly more taxonomically diverse, numerically abundant, and globally successful in colonizing new habitats than eukaryotes. Although bacterial genomes are generally considered to be optimized for efficient growth and rapid adaptation, nonadaptive processes have played a major role in shaping the size… 
Aerobic bacteria and archaea tend to have larger and more versatile genomes
A recent compilation of traits across culturable species of bacteria and archaea allows relationships to be quantified between genome size and other traits and habitat, and the genome size trait-dimension contributes a useful quantitative descriptor for ecological strategies.
A genomic perspective on genome size distribution across Earth's microbiomes reveals a tendency to gene loss
It is suggested that the known phylogenetic diversity of environmental microorganisms possess significantly smaller genomes than the collection of laboratory isolated microorganisms, and the variation in genome sizes across different types of environments reflects the different ecological and evolutionary strategies used by microorganisms to thrive in their native environment.
A Genomic Perspective Across Earth’s Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy
To better understand the ecological drivers of genome size, this work expands on the known and the overlooked factors that influence genome size in different environments, phylogenetic groups and trophic strategies.
Prochlorococcus have low global mutation rate and small effective population size.
The results suggest that genetic drift is a key driver of Prochlorococcus evolution, which is only reasonably greater than that of endosymbiotic bacteria but surprisingly smaller than those of many free-living bacteria extrapolated using the same approach.
A Large-Scale Genome-Based Survey of Acidophilic Bacteria Suggests That Genome Streamlining Is an Adaption for Life at Low pH
A statistically supported correlation is reported between reduction of genome size and decreasing pH that is due to gene loss and reduced gene sizes, and genome streamlining in the evolution of acidophilic Bacteria is supported by results.
Trait dimensions in bacteria and archaea compared to vascular plants.
Preliminary evidence shows the quantitative traits of bacteria and archaea vary widely within substrate-use pathways, which indicates they convey information complementary to substrate use.
The Notable Achievements and the Prospects of Bacterial Pathogen Genomics
This review discusses how the short- and long-read sequencing technologies have shaped the discipline of bacterial pathogen genomics, in terms of fundamental research, forensics, food safety, and routine clinical microbiology, and how this discipline will probably be transformed in the near future, especially by transitioning into metagenome-assembled genomes (MAGs), thanks to long- read sequencing.
Shadow ORFs illuminated: long overlapping genes in Pseudomonas aeruginosa are translated and under purifying selection
Two exceptionally long, evolutionarily novel, translated antisense open reading frames (ORFs) embedded within annotated genes in the medically important Gram-negative bacterium Pseudomonas aeruginosa are reported.