Paenibacillus cineris sp. nov. and Paenibacillus cookii sp. nov., from Antarctic volcanic soils and a gelatin-processing plant

Logan, Niall A.; Clerck, Elke De; Lebbe, Luc; Verhelst, An; Goris, Johan; Forsyth, Gillian; Rodríguez‐Díaz, Marina; Heyndrickx, Marc; Vos, Paul De

doi:10.1099/ijs.0.02967-0

Cited by 52 publications

(31 citation statements)

References 9 publications

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“…These values are similar to those obtained for the phylogenetically closest species of the genus Paenibacillus (Meehan et al, 2001;Logan et al, 2004;Velázquez et al, 2004). The results of DNA-DNA hybridization showed 79 % hybridization between strains CECAP06 T and CECAP16.…”

Section: Cells Of Cecap06supporting

confidence: 77%

Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum

Rivas

Gutiérrez

Abril³

et al. 2005

International Journal of Systematic and Evolutionary Microbiology

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Two sporulating bacterial strains designated CECAP06T and CECAP16 were isolated from the rhizosphere of the legume Cicer arietinum in Argentina. Almost-complete 16S rRNA gene sequences identified the isolates as a Paenibacillus species. It was most closely related to Paenibacillus cineris LMG 18439 T (99?6 % sequence similarity), Paenibacillus favisporus LMG 20987 T (99?4 % sequence similarity) and Paenibacillus azoreducens DSM 13822 T (97?7 % sequence similarity). The cells of this novel species were motile, sporulating, rod-shaped, Gram-positive and strictly aerobic. The predominant fatty acids were anteiso-C 15 : 0 , C 16 : 0 and iso-C 16 : 0 . The DNA G+C content of strains CECAP06 T and CECAP16 was 51?3 and 50?9 mol%, respectively. Growth was observed from many carbohydrates, but gas production was not observed from glucose. Catalase and oxidase activities were present. The isolates produced b-galactosidase and hydrolysed aesculin. Gelatinase, caseinase and urease were not produced. The results of DNA-DNA hybridization showed that the strains from this study constitute a novel species of the genus Paenibacillus, for which the name Paenibacillus rhizosphaerae sp. nov. is proposed. The type strain is CECAP06 T (=LMG 21955The genus Paenibacillus (Ash et al., 1994) contains several recently described species isolated from plant rhizospheres (Elo et al., 2001; Berge et al., 2002;Daane et al., 2002;von der Weid et al., 2002). Moreover, many species of this genus, including the type species, Paenibacillus polymyxa, have been reported as plant growth-promoting rhizobacteria (Lebuhn et al., 1997;Timmusk & Wagner, 1999;Helbig, 2001;Beatty & Jensen, 2002;Maes & Baeyen, 2003;von der Weid et al., 2003). Nevertheless, many rhizospheric bacterial species present in many soils remain unknown and their identification may be valuable for future studies of plant growth promotion.In the present report, we describe the chemotaxonomic, morphological, phylogenetic and physiological characteristics of two bacterial strains, CECAP06 T and CECAP16, isolated from the rhizosphere of Cicer arietinum, a legume cultivated in the Chaco Arido (Argentina). The soils from the Chaco Arido are of alluvial origin (Abril et al., 2005) and have been severely and extensively degraded by overgrazing and deforestation. In the dry winter season, the water balance is negative, resulting in a soil moisture deficit. C. arietinum is a legume that is able to grow in semi-arid soils and which may be an alternative crop in sustainable agriculture and soil recovery. On the basis of the data presented in this work, strains CECAP06T and CECAP16 should be placed in a novel species of the genus Paenibacillus, for which the name Paenibacillus rhizosphaerae sp. nov. is proposed.The isolation was carried out on nutrient agar, as described by Peix et al. (2003), from the rhizospheric soil of two C. arietinum plants, at flowering stage, growing in a soil from the Chaco Arido (Argentina). The colonies of the strains isolated were cream-coloured, opaque, rounded and co...

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Section: Cells Of Cecap06supporting

confidence: 77%

Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum

Rivas

Gutiérrez

Abril³

et al. 2005

International Journal of Systematic and Evolutionary Microbiology

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“…Results of 16S rRNA gene phylogenetic analysis showed that isolate C7 robustly grouped within the Paenibacillus genus, a group of aerobic spore formers (2) with species that produce polymer-degrading enzymes such as xylanase (47), agarase (46), gelatinase (22), curdlanase (19), etc. Even though basal branches on some trees collapsed to polytomy, on average, the distance matrices yielded a 2.5 and 2.4% difference between isolate C7 and P. antarcticus and P. macquariensis, respectively (data not shown).…”

Section: Resultsmentioning

confidence: 99%

Characterization of an Unusual Cold-Active β-Glucosidase Belonging to Family 3 of the Glycoside Hydrolases from the Psychrophilic Isolate Paenibacillus sp. Strain C7

Shipkowski

Brenchley

2005

Appl Environ Microbiol

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We selected for spore-forming psychrophilic bacteria able to use lactose as a carbon source and one isolate, designated Paenibacillus sp. strain C7, that was phylogenetically related to, but distinct from both Paenibacillus macquariensis and Paenibacillus antarcticus. Some Escherichia coli transformants obtained with genomic DNA from this isolate hydrolyzed X-Gal (5-bromo-4-chloro-3-indoyl-␤-D-galactopyranoside) only below 30°C, an indication of cold-active ␤-galactosidase activity. Sequencing of the cloned insert revealed an open reading frame encoding a 756-amino acid protein that, rather than belonging to a family typically known for ␤-galactosidase activity, belonged to glycoside hydrolase family 3, a family of ␤-glucosidases. Because of this unusual placement, the recombinant enzyme (BglY) was purified and characterized. Consistent with its classification, the enzyme had seven times greater activity with the glucoside substrate ONPGlu (o-nitrophenyl-␤-D-glucopyranoside) than with the galactoside substrate ONPGal (o-nitrophenyl-␤-D-galactopyranoside). In addition, the enzyme had, with ONPGlu, a thermal optimum around 30 to 35°C, activity over a broad pH range (5.5 to 10.9), and an especially low K m (<0.003 mM). Further examination of substrate preference showed that the BglY enzyme also hydrolyzed other aryl-␤-glucosides such as helicin, MUG (4-methylumbelliferyl-␤-D-glucopyranoside), esculin, indoxyl-␤-D-glucoside (a natural indigo precursor), and salicin, but had no activity with glucosidic disaccharides or lactose. These characteristics and substrate preferences make the BglY enzyme unique among the family 3 ␤-glucosidases. The hydrolysis of a variety of aryl-␤-glucosides suggests that the enzyme may allow the organism to use these substrates in the environment and that its low K m on indoxyl-␤-D-glucoside may make it useful for producing indigo.Glycoside hydrolases cleave the bond between two carbohydrates or a carbohydrate moiety and another molecule. The classic Enzyme Classification System (EC) groups glycoside hydrolases by substrate specificity; for instance, the ␤-glucosidases collectively have the designation EC 3.2.1.21. The EC system does not use structural or evolutionary information and is thus less useful for categorizing enzymes when the substrate preferences are not known. Therefore, Henrissat (18) initiated a classification system based on amino acid sequences, hydrophobicity plots, and reaction mechanisms. Under this system, ␤-glucosidases are grouped in two glycoside hydrolase families (GHFs), 1 and 3, and the ␤-galactosidases (EC 3.2.1.23) in four families, 1, 2, 35, and 42. Although this system illustrates enzyme relationships, it does not indicate the natural substrate or function of the enzyme. For example, some GHF 1 ␤-glucosidases possess significant ␤-galactosidase activity (5) and the physiological functions of many of these are unknown.The need for biochemical and physiological studies of microbial glycoside hydrolases is highlighted by the prevalence of open reading frames (OR...

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“…have been used and studied as plant growth-promoting agents in agriculture (39,41,42,63). Paenibacilli utilize starch and other plant-related carbohydrates and also proteins such as gelatin (40) and milk (10). They grow at chilled temperatures of Ͻ10°C (21,30), which explains why they appear frequently in harvested vegetables and grains (19), chilled foods (8,21,23,31), natural wood, as well as humus (18,34).…”

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confidence: 99%

Psychrotolerant Paenibacillus tundrae Isolates from Barley Grains Produce New Cereulide-Like Depsipeptides (Paenilide and Homopaenilide) That Are Highly Toxic to Mammalian Cells

Rasimus

Mikkola

Andersson

et al. 2012

Appl Environ Microbiol

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Paenibacillus cineris sp. nov. and Paenibacillus cookii sp. nov., from Antarctic volcanic soils and a gelatin-processing plant

Cited by 52 publications

References 9 publications

Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum

Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum

Characterization of an Unusual Cold-Active β-Glucosidase Belonging to Family 3 of the Glycoside Hydrolases from the Psychrophilic Isolate Paenibacillus sp. Strain C7

Psychrotolerant Paenibacillus tundrae Isolates from Barley Grains Produce New Cereulide-Like Depsipeptides (Paenilide and Homopaenilide) That Are Highly Toxic to Mammalian Cells

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