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Chapter 3 : Taxonomy of the Vibrios

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Taxonomy of the Vibrios, Page 1 of 2

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Abstract:

The taxonomy of vibrios was based on very few morphological features, including flagellation, morphology and curvature of the cells, and cultural aspects. This approach led to the description of many new, poorly characterized species. The DNA-DNA hybridization studies of researchers underpinned the taxonomy of vibrios. This chapter discusses the historical underpinnings of vibrio taxonomy and the traditional phenotypic basis of the taxonomy of group. Subsequently, it provides a review of the recent improvements in the taxonomy of vibrios that are mainly due to the application of genomic methodologies, including amplified fragment length polymorphism (AFLP), repetitive extragenic palindromic polymerase chain reaction (rep-PCR), DNA-DNA hybridization, and multilocus sequence analyses (MLSA). The authors conclude the chapter with a discussion on the development and application of an electronic prokaryotic taxonomy with vibrios as a prototype. The current taxonomy of vibrios is based mainly on genomic data. The taxonomy of vibrios is being rapidly improved owing to the application of modern molecular techniques. New data gathered by these techniques will lead to a revision and improvement of the taxonomy of vibrios in the next few years.

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3

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16s rRNA Sequencing
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FIGURE 1

Phylogenetic tree based on the Kimura 2-parameter neighbor-joining model and 16S rRNA sequences (ca. 1,300 nt) of the type strains. Bootstrap values were obtained after 500 repetitions.

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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Image of FIGURE 2
FIGURE 2

Dendrogram of the fluorescent AFLP patterns of 506 strains. A band-based (Dice) cluster analysis (Ward) was used. The threshold for cluster delineation was 45%. Adapted from Thompson et al. (2001a).

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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Image of FIGURE 3
FIGURE 3

Phylogenetic tree based on the Kimura 2-parameter neighbor-joining model. Bootstrap values were obtained after 500 repetitions. Concatenated sequences (3,284 nt) of the genes 16S rRNA (1,300 nt), (613 nt), (928 nt), and (443 nt). The type strains of 64 species were included in the tree.

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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Image of FIGURE 4
FIGURE 4

Congruence among , 16S rRNA, , and loci. Pearson correlation values are shown.

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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Image of FIGURE 5
FIGURE 5

Splits tree (Fit = 100) based on gene sequences of selected strains that showed evidence of recombination by Sawyer’s, maximum chi, or homoplasy tests. LMG 4409, R-20544 and R-18303, and LMG 20012 recombined with one another according to Sawyer’s test (SSCF; < 0.01).

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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Tables

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TABLE 1

List of species, place and date of isolation

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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TABLE 2

DNA-DNA similarity and mol% G+C of the main species groups of vibrios

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3
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TABLE 3

Genes used in MLSA of vibrios and some important features

Citation: Thompson F, Swings J. 2006. Taxonomy of the Vibrios, p 29-43. In Thompson F, Austin B, Swings J (ed), The Biology of Vibrios. ASM Press, Washington, DC. doi: 10.1128/9781555815714.ch3

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