Biogeography of the ubiquitous marine bacterium Alteromonas macleodii determined by multilocus sequence analysis

  title={Biogeography of the ubiquitous marine bacterium Alteromonas macleodii determined by multilocus sequence analysis},
  author={Elena Ivars-Mart{\'i}nez and Giuseppe D’Auria and Francisco Rodr{\'i}guez-Valera and Cristina S{\'a}nchez-Porro and Antonio Ventosa and Ian R. Joint and Martin M{\"u}hling},
  journal={Molecular Ecology},
Twenty‐three isolates of the widely distributed marine bacteria Alteromonas macleodii have been analysed by multilocus sequence analysis combined with phylogenetic and multivariate statistical analyses. The strains originated from the Pacific Ocean, Mediterranean Sea, English Channel, Black Sea and Thailand. Using the nucleotide sequences of nine loci for each of the 23 isolates, a robust identification was achieved of different clades within the single species. Strains generally clustered with… 

Genomes of surface isolates of Alteromonas macleodii: the life of a widespread marine opportunistic copiotroph

The recruitment of very similar genomic fragments from metagenomes in different locations indicates that the surface clade is globally abundant with little effect of geography, even the AltDE and the BS11 genomes recruiting from surface samples in open ocean locations.

Multilocus Sequence Analysis for Assessment of Phylogenetic Diversity and Biogeography in Thalassospira Bacteria from Diverse Marine Environments

The phylogenetic analyses and biogeography of the Thalassospira bacteria were systematically investigated for the first time and will be helpful to explore further their ecological role and adaptive evolution in marine environments.

Determination of the Diversity of Rhodopirellula Isolates from European Seas by Multilocus Sequence Analysis

A taxon-area relationship of cultivable Rhodopirellula species is established and suggests a limited habitat size of attached-living Rhodopiresula species.

Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter

The genome of one strain of the ‘deep ecotype’ (AltDE) isolated from 1000 m in the Eastern Mediterranean is described and compared with that of the type strain ATCC 27126, a representative of the global ‘surface’ ecotype, to indicate that this microbe colonizes relatively large particles that sink rapidly to meso and bathypelagic depths.

Ecophysiological diversity of a novel member of the genus Alteromonas, and description of Alteromonas mediterranea sp. nov.

The results of a phylogenetic study that incorporated a 16S rRNA gene sequence analysis, multilocus phylogenetic analysis (MLPA) and genomic analysis, together with the physiological, biochemical and chemotaxonomic data, clearly indicated that the group of deep-sea ecotype strains represents a distinct species within the genus Alteromonas.

Multilocus sequence analysis of the family Halomonadaceae.

Phylogenetic trees based on the individual and concatenated gene sequences revealed that the family Halomonadaceae formed a monophyletic group of micro-organisms within the order Oceanospirillales; however, the impact of recombination events in the phylogenetic analysis was minimized by concatenating the six loci, which agreed with the current taxonomic scheme for this family.

Peculiarities of Alteromonas macleodii strains reflects their deep/surface habitation rather than geographical distribution.

The phenotypic, chemotaxonomic and genetic peculiarities of 5 deep strains of Alteromonas macleodii and 5 strains of the same species isolated from the surface layer of Aegean, Andaman, Black Sea and Atlantic Ocean water near the British shore have been studied.

Polyclonality of Concurrent Natural Populations of Alteromonas macleodii

The results indicate that this natural A. macleodii population has multiple clones with a potential for different phage susceptibility and exploitation of resources, within a seemingly unstructured habitat.

Population structure and species description of aquatic Sphingomonadaceae

The data suggest that the incipient sexual isolation of subpopulations of freshwater Sphingomonadaceae is caused by natural selection rather than genetic drift or demographic effects, and represents a novel standard in microbial molecular systematics.

Genetic analysis of the Alteromonas macleodii [NiFe]-hydrogenase.

A system for the genetic manipulation of A. macleodii Deep ecotype using conjugation was developed and used to create mutant strains that lack the [NiFe] hydrogenase structural genes (hynSL), and complementation of the mutant strain with the hynSL genes successfully restored hydrogenase activity.



Genetic analysis of housekeeping genes reveals a deep-sea ecotype of Alteromonas macleodii in the Mediterranean Sea.

The results indicate the existence of both lineages of global distribution and ecotypes adapted to specific conditions such as deep or more diluted (the Black Sea) waters.

Biogeographical diversity among marine bacterioplankton

It is concluded that a large proportion of the great species richness of marine bacteria, found by culture-independent techniques, is likely to be verified through information from live and functional bacteria.

Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel

Data suggest that marine planktonic crenarchaea and euryarchaea of temperate coastal habitats thrive in different zones of the water column, and that its members constitute a significant fraction of the prokaryotic biomass in subsurface coastal waters.

Multilocus Sequence Typing Scheme That Provides Both Species and Strain Differentiation for the Burkholderia cepacia Complex

The improved resolution in strain identification offered by MLST was able to identify previously characterized epidemic strain lineages and also demonstrated the presence of four novel potential species groups within the Burkholderia cepacia complex.

The uncultured microbial majority.

Genome sequence information that would allow ribosomal RNA gene trees to be related to broader patterns in microbial genome evolution is scant, and therefore microbial diversity remains largely unexplored territory.

Genetic diversity of marine Synechococcus and co-occurring cyanophage communities: evidence for viral control of phytoplankton.

Evidence is provided that supports the hypothesis that virus infection can play an important role in determining the success of different Synechococcus genotypes and hence of seasonal succession and multivariate statistical analyses show a significant relationship between cyanophage assemblage structure and that of SyneChococcus.

Microbial Evolution, Diversity, and Ecology: A Decade of Ribosomal RNA Analysis of Uncultivated Microorganisms

This review provides an outline of the main methods used in molecular microbial ecology, and their limitations, with reference to morphologically distinctive, uncultivated bacteria; an important biotechnological process (wastewater treatment); and symbiotic relationships between Bacteria, Archaea and Eukarya.

Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms.

Multilocus sequence typing (MLST), which exploits the unambiguous nature and electronic portability of nucleotide sequence data for the characterization of microorganisms, can be applied to almost all bacterial species and other haploid organisms, including those that are difficult to cultivate.

Seasonal succession in marine bacterioplankton

During summer significantly lower levels of production at corresponding temperatures were found compared to spring and autumn, it is suggested to be a result of different physiological predisposition of the dominant bacteria during the respective seasons.

The bacterial species definition in the genomic era

The analysis of five important bacterial groups suggests, however, that more stringent standards for species may be justifiable when a solid understanding of gene content and ecological distinctiveness becomes available and the idea of biologically meaningful clusters of diversity may not be universally applicable in the microbial world.