Physicochemical Factors in Growth

Breznak, John A.; Costilow, Ralph N.

doi:10.1128/9781555817497.ch14

Cited by 195 publications

(191 citation statements)

References 70 publications

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“…After injection, the overpressure was released to obtain final headspace concentrations of 0-5 % CO 2 and 0-20 % O 2 . To test if the strains could grow under anoxic conditions by fermentation or anaerobic respiration, tubes containing 0 % O 2 with 0 or 1 % CO 2 were injected with a reducing solution of 1 mM (final concentration) DTT and cysteine or 0.05 % (final concentration) cysteine-HCl prior to inoculation with bacteria (Breznak & Costilow, 2007). An increase in turbidity by at least 50 % of the optical density (OD 600 ) measured at the time of inoculation was considered evidence for growth.…”

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confidence: 99%

Cephaloticoccus gen. nov., a new genus of ‘Verrucomicrobia’ containing two novel species isolated from Cephalotes ant guts

Lin

Russell

Sanders

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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Two novel members of the bacterial phylum 'Verrucomicrobia', strains CAG34 T and CV41 T , were isolated from the guts of Cephalotes rohweri and Cephalotes varians ants, respectively. Strains CAG34 T and CV41 T were coccoid, Gram-stain-negative, non-motile, and formed creamcoloured colonies on trypticase soy agar. Optimum growth occurred under an atmosphere of 12-20 % O 2 and 1 % CO 2 for both strains, although strain CV41 T could not grow without supplemental CO 2 . Growth was possible under NaCl concentrations of 0.5-1.5 % (w/v) and temperatures of 23-37 C for both strains, and pH values of 6.9-7.7 for strain CAG34 T and 6.9-7.3 for strain CV41 T . The G+C content of the genomic DNA was 60.7 mol% for strain CAG34 T and 60.5 mol% for strain CV41 T . The major fatty acids for both strains were anteiso-C 15 : 0 , iso-C 14 : 0 , C 16 : 0 , and C 16 : 1 !5c. Based on the phylogenetic analysis of 16S rRNA gene sequences, the closest cultivated relative for both strains was the type strain of Opitutus terrae (91.8 % similarity). Hence, strains CAG34 T and CV41 T are considered to represent a new genus within the 'Verrucomicrobia' family Opitutaceae, for which we propose the name Cephaloticoccus gen. nov. Given that strains CAG34 T and CV41 T share 97.7 % 16S rRNA gene sequence similarity with each other and are physiologically distinct, we propose to classify the isolates as representing two novel species, Cephaloticoccus primus sp. nov. for strain CAG34 T (=NCIMB 15004 T =ATCC TSD-38 T ) and Cephaloticoccus capnophilus sp. nov. for strain CV41 T

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confidence: 99%

Cephaloticoccus gen. nov., a new genus of ‘Verrucomicrobia’ containing two novel species isolated from Cephalotes ant guts

Lin

Russell

Sanders

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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“…The pH range for growth was determined by measuring the optical densities (wavelength 600 nm) of R2A broth cultures after 3 days. pH was adjusted prior to sterilization to pH 4-10 (at intervals of 1.0 pH unit) using appropriate biological buffers (Breznak & Costilow, 2007;Delory & King, 1945): citrate/Na 2 HPO 4 buffer, pH 4.0-5.0; phosphate buffer, pH 6.0-7.0; Tris buffer, pH 8.0-9.0; and NaHCO 3 /Na 2 CO 3 buffer, pH 10.0. Verification of the pH after autoclaving revealed only minor changes.…”

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Filimonas zeae sp. nov., an endophytic bacterium isolated from maize root

Gao

Sun

Wang

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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A novel Gram-stain-negative, aerobic, motile by gliding and filamentous strain, designated 772 T , was isolated from surface-sterilized root tissue of maize planted in the Fangshan District of Beijing, China. 16S rRNA gene sequence analysis indicated that strain 772 T was closely related to Filimonas endophytica SR2-06 T andFilimonas lacunae YT21 T of the family Chitinophagaceae with sequence similarities of 99.0 and 96.9 %, respectively. However, the new isolate exhibited relatively low levels of DNA-DNA relatedness with respect to Filimonas. endophytica KCTC 42060 T (18.7±1.8 %) and Filimonas. lacunae DSM 21054 T (17.9±2.0%). The DNA G+C content of strain 772 T was 44.9 mol%. The respiratory quinone was menaquinone-7 and the polar lipid profile consisted of phosphatidylethanolamine, two unidentified aminophospholipids, two unidentified phospholipids and one unidentified lipid. The major fatty acids were iso-C 15 : 0 and iso-C 15 : 1 G. The results of the physiological and biochemical tests and minor differences in the fatty acid profiles allowed the clear phenotypic differentiation of strain 772 T from the closely related species Filimonas. endophytica andF. lacunae. Strain 772 T thus represents a novel species within the genus Filimonas, for which the name Filimonas zeae sp. nov. is proposed. The type strain is 772 T (=CGMCC 1.15290 T =DSM 100760 T ).

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“…The pH range for bacterial growth was estimated by measuring the optical densities (wavelength 600 nm) of R2A broth cultures. The pH of the medium was adjusted prior to sterilization to pH 4.0-9.0 (at intervals of 0.5 pH unit) using the following biological buffers (Breznak & Costilow, 2007): citrate/Na 2 HPO 4 (for pH 4.0-5.5), phosphate (for pH 6.0-7.5), and Tris (for pH 8.0-9.0). Verification of the pH values after autoclaving revealed only minor changes.…”

Section: Mucilaginibacter Rigui Wpcb133 T (Eu747841)mentioning

confidence: 99%

Mucilaginibacter roseus sp. nov., isolated from a freshwater river

Chen

Sheu

2016

International Journal of Systematic and Evolutionary Microbiology

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A bacterial strain, designated TTM-1 T , was isolated from a water sample taken from the Caohu River in Taiwan and characterized in a taxonomic study using a polyphasic approach. Cells of strain TTM-1 T were Gram-stain-negative, aerobic, non-motile, rod-shaped and covered by large capsules, and formed pink-coloured colonies. Growth occurred at 10-37 8C (optimum 30-37 8C), at pH 6-8 (optimum pH 6-7) and with 0-2 % NaCl (optimum 0.5 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain TTM-1 T belonged to the genus Mucilaginibacter and was most closely related to Mucilaginibacter defluvii A5 T with a 16S rRNA gene sequence similarity of 97.3 %. The predominant fatty acids of strain TTM-1 T were summed feature 3 (C 16 : 1 v7c and/or C 16 : 1 v6c; 37.1 %) and iso-C 15 : 0 (30.7 %). The polar lipid profile consisted of phosphatidylethanolamine and several uncharacterized aminophospholipids and phospholipids. The major isoprenoid quinone was MK-7. The DNA G+C content of the genomic DNA was 45.1 mol%. The DNA-DNA relatedness of strain TTM-1 T with respect to recognized species of the genus Mucilaginibacter was less than 70 %. On the basis of the phylogenetic inference and phenotypic data, strain TTM-1 T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter roseus sp. nov. is proposed. The type strain is TTM-1 T (5LMG 28454 T 5KCTC 42273 T ). , 2011). At the time of writing, this genus comprises 33 species with validly published names (http://www. bacterio.net/mucilaginibacter.html). Cells of members of the genus Mucilaginibacter are Gram-stain-negative, non-motile, non-spore-forming and rod-shaped. Chemotaxonomically, cells possess MK-7 as the major respiratory quinone, phosphatidylethanolamine as the major polar lipid, iso-C 15 : 0 and summed feature 3 (C 16 : 1 v7c and/or C 16 : 1 v6c) as the predominant fatty acids, and DNA G+C contents between 39.1 and 47.2 mol%. The present study was carried out to clarify the taxonomic position of a strain identified as a novel species of the genus Mucilaginibacter by using a polyphasic approach. The genusDuring our investigations on the biodiversity of bacteria in the water of the Caohu River (GPS location: 248 049 240 N 1208 469 040 E) in the vicinity of Taichung city, Taiwan, a novel pink-pigmented bacterium, designated TTM-1 T , was isolated and selected for detailed taxonomy analyses. Strain TTM-1 T was isolated on R2A agar (BD Difco) after incubation at 25 8C for 3 days, subcultured under the same conditions and stored at 280 8C in R2A broth (BD Difco) with 20 % (v/v) glycerol or by lyophilization.Genomic DNA was isolated using a bacterial genomic DNA purification kit (DP02-150; GeneMark Technology) and the 16S rRNA gene was sequenced and analysed as described previously by Chen et al. (2001). Primers FD1 (59-AGAGTTTGATCCTGGCTCAG-39) and RD1 (59-AAGGAGGTGATCCAG CC-39) were used for amplification of bacterial 16S rRNA genes by PCR (Weisburg et al., 1991;Anzai et al., 1997). These primers correspond to nucleoti...

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Physicochemical Factors in Growth

Cited by 195 publications

References 70 publications

Cephaloticoccus gen. nov., a new genus of ‘Verrucomicrobia’ containing two novel species isolated from Cephalotes ant guts

Cephaloticoccus gen. nov., a new genus of ‘Verrucomicrobia’ containing two novel species isolated from Cephalotes ant guts

Filimonas zeae sp. nov., an endophytic bacterium isolated from maize root

Mucilaginibacter roseus sp. nov., isolated from a freshwater river

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