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Horizontal gene transfer is important in the evolution of bacterial and archaeal genomes. An interesting genetic exchange process is carried out by diverse phage-like gene transfer agents (GTAs) that are found in a wide range of prokaryotes. Although GTAs resemble phages, they lack the hallmark capabilities that define typical phages, and they package random pieces of the producing cell's genome. In this Review, we discuss the defining characteristics of the GTAs that have been identified to date, along with potential functions for these agents and the possible evolutionary forces that act on the genes involved in their production.The prevalence of horizontal gene transfer (HGT), in which DNA is exchanged between closely or distantly related lineages, has altered the way we think about evolution 1,2 , having profound effects on our views of the evolutionary relationships among living organisms. It has caused a shift from a bifurcating 'tree of life' view to a 'net of life' or 'web of life' view [3][4][5] , in which "highways of gene sharing" (REF. 6) represent major connections, with genes (or DNA segments) viewed as "public goods, available for all organisms to integrate into their genomes" (REF. 7). HGT occurs within and between all three domains of life, and it has been estimated that 0.05-80% of genes in bacterial and archaeal genomes have been affected by HGT, depending on the analytical method used and the genome analysed [8][9][10] . Although HGT is widespread, it is not random: patterns of preferential gene exchange among specific groups of organisms that share ancestry or habitat have been * Present address. aslang@mun.ca; olgazh@dartmouth.edu; j.beatty@mail.ubc.ca Competing interests statementThe authors declare no competing financial interests. 6,9,11,12 . Such patterns are probably a consequence of existing barriers to HGT, which have been reviewed in detail elsewhere 13,14 . FURTHER INFORMATIONAlthough we have known about some HGT mechanisms for decades, novel processes that expand the existing repertoire of gene exchange methods are continually being identified. Transformation was the first mechanism of gene exchange to be discovered 15 , wherein DNA is taken up directly from the environment (reviewed elsewhere 16,17 ). In transduction, DNA transfer is mediated by viral particles (BOX 1). In conjugation, which was discovered in the 1940s 18 , DNA is transferred from a donor to a recipient cell during cell-to-cell contact; conjugation is used in the transfer of plasmids, transposons, integrons, and integrative and conjugative elements (ICEs) [19][20][21] . There are other modes of gene exchange that do not fit well into any of these three canonical mechanisms, including temporary cell fusion followed by chromosomal recombination and plasmid exchange 22 , intercellular connection through nanotubes 23 , and the release of membrane vesicles containing chromosomal, plasmid and phage DNA that can then merge with nearby cells 24 . In addition, a novel mechanism of gene transfer that has feature...
Horizontal gene transfer is important in the evolution of bacterial and archaeal genomes. An interesting genetic exchange process is carried out by diverse phage-like gene transfer agents (GTAs) that are found in a wide range of prokaryotes. Although GTAs resemble phages, they lack the hallmark capabilities that define typical phages, and they package random pieces of the producing cell's genome. In this Review, we discuss the defining characteristics of the GTAs that have been identified to date, along with potential functions for these agents and the possible evolutionary forces that act on the genes involved in their production.The prevalence of horizontal gene transfer (HGT), in which DNA is exchanged between closely or distantly related lineages, has altered the way we think about evolution 1,2 , having profound effects on our views of the evolutionary relationships among living organisms. It has caused a shift from a bifurcating 'tree of life' view to a 'net of life' or 'web of life' view [3][4][5] , in which "highways of gene sharing" (REF. 6) represent major connections, with genes (or DNA segments) viewed as "public goods, available for all organisms to integrate into their genomes" (REF. 7). HGT occurs within and between all three domains of life, and it has been estimated that 0.05-80% of genes in bacterial and archaeal genomes have been affected by HGT, depending on the analytical method used and the genome analysed [8][9][10] . Although HGT is widespread, it is not random: patterns of preferential gene exchange among specific groups of organisms that share ancestry or habitat have been * Present address. aslang@mun.ca; olgazh@dartmouth.edu; j.beatty@mail.ubc.ca Competing interests statementThe authors declare no competing financial interests. 6,9,11,12 . Such patterns are probably a consequence of existing barriers to HGT, which have been reviewed in detail elsewhere 13,14 . FURTHER INFORMATIONAlthough we have known about some HGT mechanisms for decades, novel processes that expand the existing repertoire of gene exchange methods are continually being identified. Transformation was the first mechanism of gene exchange to be discovered 15 , wherein DNA is taken up directly from the environment (reviewed elsewhere 16,17 ). In transduction, DNA transfer is mediated by viral particles (BOX 1). In conjugation, which was discovered in the 1940s 18 , DNA is transferred from a donor to a recipient cell during cell-to-cell contact; conjugation is used in the transfer of plasmids, transposons, integrons, and integrative and conjugative elements (ICEs) [19][20][21] . There are other modes of gene exchange that do not fit well into any of these three canonical mechanisms, including temporary cell fusion followed by chromosomal recombination and plasmid exchange 22 , intercellular connection through nanotubes 23 , and the release of membrane vesicles containing chromosomal, plasmid and phage DNA that can then merge with nearby cells 24 . In addition, a novel mechanism of gene transfer that has feature...
Brachyspira species are anaerobic spirochetes inhabiting intestinal tracts of animals and humans. Several species cause transmissible intestinal diseases of swine and birds. This unit describes methods for the isolation of Brachyspira from fecal samples, cultivation on liquid and solid media, and long term and short term preservation of Brachyspira species. Curr. Protoc. Microbiol. 22:12D.1.1‐12D.1.14. © 2011 by John Wiley & Sons, Inc.
Bra.chy.spi'ra. Gr. adj. brachys short; L. fem. n. spira a coil, spiral; N.L. fem. n. Brachyspira a short spiral, describing a bacterium that resembles a short spiral. Spirochaetes / Spirochaetia / Spirochaetales / Brachyspiraceae / Brachyspira Brachyspira spirochetes are helical shaped bacteria with regular coiling patterns . Cells measure 2–11 µm by 0.2–0.4 µm. Unicellular, but dividing pairs and occasional chains of three or more cells can be observed in growing cultures. Under unfavorable growth conditions, spherical or round bodies are formed. Gram‐stain negative. Obligately anaerobic, aerotolerant . Cell ends may be blunt or pointed. Cells have a typical spirochete cell ultrastructure, consisting of an outer sheath, helical protoplasmic cylinder, and internal flagella in the space between the protoplasmic cylinder and outer sheath. Brachyspire cells have 8–30 flagella per cell depending on the species (flagellar number usually correlates with cell size and species of smaller cells have fewer flagella). Flagella attach subterminally in equal numbers at each cell end, wrap around the protoplasmic cylinder, and their free ends overlap in the middle of the cells. Flexing and creeping motility at 22°C; translational movement in liquids at 37–42°C. Cultured anaerobically on commercially available media (trypticase soy or brain heart infusion broths) containing a carbohydrate growth substrate and supplemented with defibrinated blood or animal (calf) serum. Grows at 36–42°C, optimally at 37–39°C. Population doubling times on glucose in broth cultures are 1–5 h (not reported for Brachyspira aalborgi ). Chemoorganotrophic, using various carbohydrates for growth. Possess NADH oxidase for reducing molecular oxygen. Consume oxygen during growth in culture broth beneath a 1 % oxygen atmosphere. Acetate, butyrate, H 2 , and CO 2 are major endproducts of glucose metabolism. Higher amounts of H 2 than CO 2 are produced . Weakly hemolytic except for Brachyspira hyodysenteriae which exhibits β‐hemolysis (strongly hemolytic). Associated with animal and human hosts. Some species are pathogenic. The genus Brachyspira is distinguished from other spirochete genera based on 16S rRNA gene sequences . Brachyspira species share high 16S rRNA sequence similarity with each other. Species can be differentiated by DNA–DNA relative reassociation and MLEE (multilocus enzyme electrophoresis) analyses. Similar to other spirochete genera, Brachyspira is insensitive to the antibiotic rifampin. DNA G + C content ( mol %): 24.5–27.1 ( T m ). Type species : Brachyspira aalborgi Hovind‐Hougen, Birch‐Andersen, Henrik‐Nielsen, Orholm, Pedersen, Teglbjaerg and Thaysen 1 9 8 3, 896 VP (Effective publication: Hovind‐Hougen, Birch‐Andersen, Henrik‐Nielsen, Orholm, Pedersen, Teglbjaerg and Thaysen 1982, 1135 VP .).
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