Genome Sequence of Blastococcus saxobsidens DD2, a Stone-Inhabiting Bacterium

Chouaia, Bessem; Crotti, Elena; Brusetti, Lorenzo; Daffonchio, Daniele; Essoussi, Imen; Nouioui, Imen; Sbissi, Imed; Ghodhbane‐Gtari, Faten; Gtari, Maher; Vacherie, Benoît; Barbe, Valérie; Médigue, Claudine; Gury, Jérôme; Pujic, Petar; Normand, Philippe

doi:10.1128/jb.00320-12

Cited by 32 publications

(23 citation statements)

References 11 publications

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“…Characteristics of proteogenomes Life in biotopes with low trophic resources has driven the three Geodermatophilaceae members toward medium-sized genomes (Ivanova et al, 2010;Chouaia et al, 2012;Normand et al, 2012) from 4.87 to 5.32 Mb (Figure 1 and Supplementary Table S1). The three plasmidless genomes had very high G+C% (72.95-74.1%).…”

Section: Resultsmentioning

confidence: 99%

Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes

Sghaier¹,

Hezbri²,

Ghodhbane‐Gtari³

et al. 2015

The ISME Journal

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The Geodermatophilaceae are unique model systems to study the ability to thrive on or within stones and their proteogenomes (referring to the whole protein arsenal encoded by the genome) could provide important insight into their adaptation mechanisms. Here we report the detailed comparative genome analysis of Blastococcus saxobsidens (Bs), Modestobacter marinus (Mm) and Geodermatophilus obscurus (Go) isolated respectively from the interior and the surface of calcarenite stones and from desert sandy soils. The genome-scale analysis of Bs, Mm and Go illustrates how adaptation to these niches can be achieved through various strategies including 'molecular tinkering/ opportunism' as shown by the high proportion of lost, duplicated or horizontally transferred genes and ORFans. Using high-throughput discovery proteomics, the three proteomes under unstressed conditions were analyzed, highlighting the most abundant biomarkers and the main protein factors. Proteomic data corroborated previously demonstrated stone-related ecological distribution. For instance, these data showed starvation-inducible, biofilm-related and DNA-protection proteins as signatures of the microbes associated with the interior, surface and outside of stones, respectively.

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Section: Resultsmentioning

confidence: 99%

Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes

Sghaier¹,

Hezbri²,

Ghodhbane‐Gtari³

et al. 2015

The ISME Journal

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“…Moreover, nonsymbiotic Frankiales such as Acidothermus cellulolyticus (Barabote et al ., ), Blastococcus saxoobsidens (Chouaia et al ., ), Geodermatophilus obscurus (Ivanova et al ., ) and Modestobacter marinus (Normand et al ., ) have a variety of genomes sizes ranging from 2.4 Mb for Acidothermus cellolyticus to 5.57 Mb for M. marinus . While A. cellulolyticus is an organism found in hot springs a restricted habitat (Barabote et al ., ), M. marinus is found on calcarenite stone surfaces characterized by high solar radiation, rapid and different temperatures, low water and nutrient availability (Normand et al ., ).…”

Section: Genomic Diversity In Frankiamentioning

confidence: 99%

“…This fact should be seen in the context of the finding that bacterial genomes are dynamic and plastic units, which have undergone changes due to lateral gene transfers, gene gains and gene losses (Snel et al, 2002). Moreover, nonsymbiotic Frankiales such as Acidothermus cellulolyticus (Barabote et al, 2009), Blastococcus saxoobsidens (Chouaia et al, 2012), Geodermatophilus obscurus (Ivanova et al, 2010) and Modestobacter marinus have a variety of genomes sizes ranging from 2.4 Mb for Acidothermus cellolyticus to 5.57 Mb for M. marinus. While A. cellulolyticus is an organism found in hot springs a restricted habitat (Barabote et al, 2009), M. marinus is found on calcarenite stone surfaces characterized by high solar radiation, rapid and different temperatures, low water and nutrient availability .…”

Section: The Infection Processmentioning

confidence: 99%

Aspects of nitrogen-fixingActinobacteria, in particular free-living and symbioticFrankia

Sellstedt

Richau

2013

FEMS Microbiol Lett

179

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Studies of nitrogen-fixing properties among the Gram-positive Actinobacteria revealed that some species of Arthrobacter, Agromyces, Corynebacterium, Mycobacterium, Micromonospora, Propionibacteria and Streptomyces have nitrogen-fixing capacity. This is also valid for Frankia that fix nitrogen both in free-living and in symbiotic conditions. Frankia symbiosis results from interaction between the Frankia bacteria and dicotyledonous plants, that is, actinorhiza. These plants, which are important in forestry and agroforestry, form, together with the legumes (Fabales), a single nitrogen-fixing clade. It has been shown that a receptor-like kinase gene, SymRK, is necessary for nodulation in actinorhizal plants as well as in legumes and arbuscular mycorrhizal fungi. Recently, the involvement of isoflavonoids as signal molecules during nodulation of an actinorhizal plant was shown. The genome sizes of three Frankia species, Frankia EANpec, ACN14a and CcI3, are different, revealing a relationship between genome size and geographical distribution. Recent genomic sequencing data of Frankia represent genomes from cluster I to IV, indicating that the genome of DgI is one of the smallest genomes in Frankia. In addition, nonsymbiotic Frankiales such as Acidothermus cellulolyticus, Blastococcus saxoobsidens, Geodermatophilus obscurus and Modestobacter marinus have a variety of genome sizes ranging from 2.4 to 5.57 Mb.

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“…Recently a non-validly named species, 'Candidatus Blastococcus massiliensis' has been reported from a single anorexia nervosa stool sample (Pfleiderer et al, 2013). The complete genome sequence (Chouaia et al, 2012) proteome (Sghaier et al, 2016) have been obtained for B. saxobsidens strain DD2, an isolate obtained from the interior of monument stone (Urzì et al, 2001). In this study, an isolate representing a novel species was isolated from a limestone sample from the wall rock of a Roman pool in Gafsa, Tunisia.…”

mentioning

confidence: 99%

Blastococcus capsensis sp. nov., isolated from an archaeological Roman pool and emended description of the genus Blastococcus, B. aggregatus, B. saxobsidens, B. jejuensis and B. endophyticus

Hezbri

Louati

Nouioui

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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Genome Sequence of Blastococcus saxobsidens DD2, a Stone-Inhabiting Bacterium

Cited by 32 publications

References 11 publications

Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes

Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes

Aspects of nitrogen-fixingActinobacteria, in particular free-living and symbioticFrankia

Blastococcus capsensis sp. nov., isolated from an archaeological Roman pool and emended description of the genus Blastococcus, B. aggregatus, B. saxobsidens, B. jejuensis and B. endophyticus

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