Isolation of planctomycetes from Aplysina sponges

Pimentel‐Elardo, Sheila Marie; Wehrl, Markus; Friedrich, Anja; Jensen, Paul R.; Hentschel, Ute

doi:10.3354/ame033239

Cited by 64 publications

(53 citation statements)

References 29 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…We detected 13 OTUs in 70 strains from 19 sample sites. The cultivated genetic diversity, together with the presence of genes closely related to R. baltica in different habitats all over the world (23,24,25,27,41), is in agreement with a recent ecological hypothesis of Kirchman and colleagues (9): bacterial groups in aquatic systems that appear to be more widespread are more diverse. Theoretically, biogeographical distributions A large number of taxon-area relationships are often achieved by cultivation-independent methods.…”

Section: Discussionsupporting

confidence: 73%

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

Winkelmann

Jaekel

Meyer

et al. 2010

Appl Environ Microbiol

View full text Add to dashboard Cite

In the biogeography of microorganisms, the habitat size of an attached-living bacterium has never been investigated. We approached this theme with a multilocus sequence analysis (MLSA) study of new strains of Rhodopirellula sp., an attached-living planctomycete. The development of an MLSA for Rhodopirellula baltica enabled the characterization of the genetic diversity at the species level, beyond the resolution of the 16S rRNA gene. The alleles of the nine housekeeping genes acsA, guaA, trpE, purH, glpF, fumC, icd, glyA, and mdh indicated the presence of 13 genetically defined operational taxonomic units (OTUs) in our culture collection. The MLSA-based OTUs coincided with the taxonomic units defined by DNA-DNA hybridization experiments. BOX-PCR supported the MLSA-based differentiation of two closely related OTUs. This study established a taxon-area relationship of cultivable Rhodopirellula species. In European seas, three closely related species covered the Baltic Sea and the eastern North Sea, the North Atlantic region, and the southern North Sea to the Mediterranean. The last had regional genotypes, as revealed by BOX-PCR. This suggests a limited habitat size of attached-living Rhodopirellula species.The biogeography of microorganisms describes the habitat size of the species and the distribution of microorganisms on Earth. The experimental approaches depend on the focus of the studies. Habitats are often analyzed by environmental microbiologists with genetic-fingerprinting techniques, with up to 200 bands or fragments representing the whole community. Although the taxonomic resolution of these operational taxonomic units (OTUs) is limited, the studies revealed a community biogeography (22). Medical microbiologists analyze the alleles of housekeeping genes of microorganisms to gain insight into the epidemiology of pathogens, the population biogeography (2). This strain-specific, fine-scale taxonomic resolution within a species is well suited to observance of recent dispersal events. At the species level, multilocus sequence typing (MLST) and analysis (MLSA), which were developed for intraspecies and intragenus specific studies, respectively, consist of the sequences of several (at least seven) housekeeping gene fragments concatenated to an approximately 5-kilobase alignment (17). Recent MLSA studies revealed its applicability to marine isolates and the analysis of biogeographic patterns: Alteromonas macleodii isolates could be grouped in an epipelagic and an abyssal clade (6), and strains of Pseudomonas aeruginosa were genetically well separated into groups of coastal and oceanic origin (8). However, for Salinibacter ruber strains, biogeographical distinctness was not resolved in an MLSA study but showed allopatry in a metabolic analysis (31). Several studies used MLSA together with DNA-DNA hybridization (DDH) for the delineation of new species, e.g., for Vibrio and Ensifer spp. (20,36).In the biogeography of microorganisms, the experimental proof of a local genetic evolution was first revealed at sample sites...

show abstract

Section: Discussionsupporting

confidence: 73%

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

Winkelmann

Jaekel

Meyer

et al. 2010

Appl Environ Microbiol

View full text Add to dashboard Cite

show abstract

“…Furthermore, their association with a great number of diverse eukaryotic organisms has been reported. These include sponges (Webster et al, 2001; Pimentel-Elardo et al, 2003; Zhu et al, 2008; Costa et al, 2013), ascidians (Oliveira et al, 2013), corals (Yakimov et al, 2006; Webster and Bourne, 2007; Duque-Alarcón et al, 2012), prawns (Fuerst et al, 1997), macrophytes (Hempel et al, 2008) and lichens (Grube et al, 2012). They were also found in sphagnum peat bogs (Kulichevskaia et al, 2006), the rock below the lichens (Bjelland et al, 2011) and in the rizosphere of several plants (Jensen et al, 2007; Zhao et al, 2010; Zhang et al, 2013).…”

Section: Introductionmentioning

confidence: 99%

Planctomycetes and macroalgae, a striking association

2014

View full text Add to dashboard Cite

Planctomycetes are part of the complex microbial biofilm community of a wide range of macroalgae. Recently, some studies began to unveil the great diversity of Planctomycetes present in this microenvironment and the interactions between the two organisms. Culture dependent and independent methods revealed the existence of a great number of species but, so far, only less than 10 species have been isolated. Planctomycetes comprise the genera Rhodopirellula, Blastopirellula, and Planctomyces, Phycisphaera and the uncultured class OM190 and some other taxa have only been found in this association. Several factors favor the colonization of macroalgal surfaces by planctomycetes. Many species possess holdfasts for attachment. The macroalgae secrete various sulfated polysaccharides that are the substrate for the abundant sulfatases produced by planctomycetes. Specificity between planctomycetes and macroalgae seem to exist which may be related to the chemical nature of the polysaccharides produced by each macroalga. Furthermore, the peptidoglycan-free cell wall of planctomycetes allows them to resist the action of several antimicrobial compounds produced by the macroalgae or other bacteria in the biofilm community that are effective against biofouling by other microorganisms. Despite the increase in our knowledge on the successful planctomycetes-macroalgae association, a great effort to fully understand this interaction is needed.

show abstract

“…They were detected in the water column and sediments of fresh water lakes (Neef et al, 1998;Miskin et al, 1999;Wang et al, 2002;Kalyuzhnaya et al, 2004Kalyuzhnaya et al, , 2005a, hot springs (Giovannoni et al, 1987a), in the water column (DeLong et al, 1993;Vergin et al, 1998;Gade et al, 2004) as well as in shallow and deep sea sediments of marine systems (LlobetBrossa et al, 1998;Rusch et al, 2003;Inagaki et al, 2006;Musat et al, 2006) and in oxic and anoxic soils (Wang et al, 2002). Furthermore, planctomycetes have been detected in marine sponges (Fuerst et al, 1998Pimentel-Elardo et al, 2003) and in the hepatopancreas of the crustacean Panaeus monodon (Fuerst et al, 1991, in freshwater (Crump et al, 1999), marine detritus particles (DeLong et al, 1993;Fuerst, 1995;Crump et al, 1999) and attached to diatoms (Morris et al, 2006).…”

Section: Introductionmentioning

confidence: 99%

Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross-comparison with planctomycete genomes

et al. 2007

View full text Add to dashboard Cite

Planctomycetes are widely distributed in marine environments, where they supposedly play a role in carbon recycling. To deepen our understanding about the ecology of this sparsely studied phylum six planctomycete fosmids from two marine upwelling systems were investigated and compared with all available planctomycete genomic sequences including the as yet unpublished nearcomplete genomes of Blastopirellula marina DSM 3645 T and Planctomyces maris DSM 8797 T . High numbers of sulfatase genes (41-109) were found on all marine planctomycete genomes and on two fosmids (2). Furthermore, C1 metabolism genes otherwise only known from methanogenic Archaea and methylotrophic Proteobacteria were found on two fosmids and all planctomycete genomes, except for 'Candidatus Kuenenia stuttgartiensis'. Codon usage analysis indicated high expression levels for some of these genes. In addition, novel large families of planctomycete-specific paralogs with as yet unknown functions were identified, which are notably absent from the genome of 'Candidatus Kuenenia stuttgartiensis'. The high numbers of sulfatases in marine planctomycetes characterizes them as specialists for the initial breakdown of sulfatated heteropolysaccharides and indicate their importance for recycling carbon from these compounds. The almost ubiquitous presence of C1 metabolism genes among Planctomycetes together with codon usage analysis and information from the genomes suggest a general importance of these genes for Planctomycetes other than formaldehyde detoxification. The notable absence of these genes in Candidatus K. stuttgartiensis plus the surprising lack of almost any planctomycete-specific gene within this organism reveals an unexpected distinctiveness of anammox bacteria from all other Planctomycetes.

show abstract

Isolation of planctomycetes from Aplysina sponges

Cited by 64 publications

References 29 publications

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

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

Planctomycetes and macroalgae, a striking association

Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross-comparison with planctomycete genomes

Contact Info

Product

Resources

About