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1.
Sci Rep ; 11(1): 919, 2021 Jan 13.
Artigo em Inglês | MEDLINE | ID: mdl-33441694

RESUMO

Bacteria from coast seawaters are widely known to induce larval recruitment of many invertebrates. However, whether and how deep-sea bacteria, that play crucial roles in the ecological and biogeochemical cycles, promote larval recruitment remains little known. Here, the interaction between deep-sea bacterial biofilms (BFs) and Mytilus coruscus larvae was tested. All these nine deep-sea bacterial isolates triggered planktonic-sessile transition, and the highest percentage of post-larvae was observed in Virgibacillus sp. 1 BF. Except for Pseudomonas sp. 3, Pseudoalteromonas sp. 32 and Bacillus sp. 13, other BF cell  densities were significantly related to their corresponding inductive efficiency. The deep-sea Virgibacillus sp. 1 BF's cue that triggers planktonic-sessile transition was uncovered. Treating Virgibacillus sp. 1 BFs through physic-chemical approaches reduced inducing impact and cell survival. The conditioned water collaborated with formalin-fixed Virgibacillus sp. 1 BF hoisted planktonic-sessile transition efficiency in comparison to each one alone. Thus, two signals derived from deep-sea bacteria trigger planktonic-sessile transition in M. coruscus. This finding firstly demonstrates that deep-sea bacteria has good potential for application in the mussel seed production and provides novel insight to clarify the bacteria-mussel interaction.

2.
Int J Syst Evol Microbiol ; 70(10): 5211-5216, 2020 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-32816657

RESUMO

A Gram-stain-positive, endospore-forming, motile and rod-shaped bacterium, designated as strain DSL-17T, was isolated from a tidal sediment of the East China Sea and characterized phylogenetically and phenotypically. The strain could grow at 16-47 °C (optimum 37 °C), at pH 6.0-10.0 (optimum 6.0) and with 1-7% (w/v) NaCl (optimum 3 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DSL-17T was related to members of the genus Metabacillus and shared the highest similarity with Metabacillus litoralis SW-211T (98.6 %), followed by Metabacillus halosaccharovorans E33T (97.9 %), Metabacillus crassostreae JSM 100118T (97.7 %), Metabacillus niabensis 4T19T (97.7 %) and Metabacillus malikii NCCP-662T (97.5 %). 16S rRNA gene sequence similarities between strain DSL-17T and other members of the genus Metabacillus were below 96.6 %. The sole respiratory quinone was MK-7. Strain DSL-17T had a cell-wall peptidoglycan based on meso-diaminopimelic acid. The polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), three unidentified glycolipids and six unidentified lipids. The strain had iso-C15 : 0, anteiso-C15 : 0, iso-C14 : 0, C16 : 0 and iso-C16 : 0 as major fatty acids. The G+C content of the genomic DNA was 35.7 mol%. The combined genotypic and phenotypic data indicated that strain DSL-17T represents a novel species of the genus Metabacillus, for which the name Metabacillus sediminilitoris sp. nov. is proposed The type strain is DSL-17T (=MCCC 1K03777T=DSM 109843T).


Assuntos
Bacillaceae/classificação , Sedimentos Geológicos/microbiologia , Filogenia , Água do Mar/microbiologia , Bacillaceae/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Peptidoglicano/química , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
3.
Front Microbiol ; 11: 1521, 2020.
Artigo em Inglês | MEDLINE | ID: mdl-32765444

RESUMO

Surprisingly high rates of microbial respiration have recently been reported in hadal trench sediment, yet the potentially active microorganisms and specific microbe-microbe relationships in trench sediment are largely unknown. We investigated the bulk and active prokaryotic communities and co-occurrence interactions of different lineages in vertically sectioned sediment cores taken from the deepest points of the Mariana and Mussau Trenches. Analysis on species novelty revealed for the first time the high rate of novel lineages in the microbial communities of the hadal trenches. Using 95, 97, and 99% similarity as thresholds, averagely 22.29, 32.3, and 64.1% of total OTUs retrieved from sediments of the two trenches were identified as the potentially novel lineages, respectively. The compositions of the potentially active communities, revealed via ribosomal RNA (rRNA), were significantly different from those of bulk communities (rDNA) in all samples from both trenches. The dominant taxa in bulk communities generally accounted for low proportions in the rRNA libraries, signifying that the abundance was not necessarily related to community functions in the hadal sediments. The potentially active communities showed high diversity and composed primarily of heterotrophic lineages, supporting their potential contributions in organic carbon consumption. Network analysis revealed high modularity and non-random co-occurrence of phylogenetically unrelated taxa, indicating highly specified micro-niches and close microbial interactions in the hadal sediments tested. Combined analysis of activity potentials and network keystone scores revealed significance of phyla Chloroflexi and Gemmatimonadetes, as well as several potentially alkane-degrading taxa in maintaining microbial interactions and functions of the trench communities. Overall, our results demonstrate that the hadal trenches harbor diverse, closely interacting, and active microorganisms, despite the extreme environmental conditions.

4.
Int J Syst Evol Microbiol ; 70(7): 4315-4320, 2020 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-32579094

RESUMO

A novel marine Gram-stain-negative, non-motile, aerobic and rod-shaped bacterium, designated as strain MT-229T, was isolated from the deep seawater in the Mariana Trench and characterized phylogenetically and phenotypically. Bacterial optimal growth occurred at 30 °C (ranging 10-40 °C), pH 6 (ranging 3-11) and with 11 % (w/v) NaCl (ranging 0-17 %). Strain MT-229T was a piezophile, growing optimally at 20 MPa (range 0.1-70 MPa). The nearest phylogenetic neighbours were Muricauda antarctica CGMCC 1.2174T and Muricauda taeanensis JCM 17757T with 16S rRNA gene similarity of 98.7 %. The sole respiratory quinone was menaquinone-6 (MK-6). The major polar lipids were phosphatidylethanolamine (PE), two unidentified aminolipids (AL) and ten unidentified lipids. The major fatty acids of strain MT-229T were iso-C15 : 0, iso-C17 : 0 3-OH and iso-C15 : 1 G. The G+C content of the genomic DNA was 45.6 mol%. The combined genotypic and phenotypic data indicated that strain MT-229T represents a novel species of the genus Muricauda, for which the name Muricauda hadalis sp. nov. is proposed, with the type strain MT-229T (=DSM 109894T=MCCC 1K04201T). In addition, the whole-genome-based comparisons revealed that the type strains of Muricauda antarctica and Muricauda teanensis belong to a single species. It is, therefore, proposed that M. antarctica be recognized as a heterotypic synonym of M. teanensis.


Assuntos
Flavobacteriaceae/classificação , Filogenia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , DNA Bacteriano/genética , Ácidos Graxos/química , Flavobacteriaceae/isolamento & purificação , Oceano Pacífico , Fosfatidiletanolaminas/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
5.
Int J Syst Evol Microbiol ; 70(4): 2560-2568, 2020 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-32129736

RESUMO

A piezotolerant, H2O2-tolerant, heavy-metal-tolerant, slightly halophilic bacterium (strain NBT06E8T) was isolated from a deep-sea sediment sample collected from the New Britain Trench at depth of 8900 m. The strain was aerobic, motile, Gram-stain-negative, rod-shaped, oxidase-positive and catalase-positive. Growth of the strain was observed at 4-45 °C (optimum, 30 °C), at pH 5-11 (optimum, pH 8-9) and in 0.5-21 % (w/v) NaCl (optimum, 3-7 %). The optimum pressure for growth was 0.1-30 MPa with tolerance up to 60 MPa. Under optimum growth conditions, the strain could tolerate 15 mM H2O2. Resuls of 16S rRNA gene sequence analysis showed that strain NBT06E8T is closely related to Halomonas aquamarina DSM 30161T (99.5%), Halomonas meridiana DSM 5425T (99.43%) and Halomonas axialensis Althf1T (99.35%). The digital DNA-DNA hybridization values between strain NBT06E8T and the three related type strains, H. aquamarina, H. meridiana and H. axialensis, were 30.5±2.4 %, 30.7±2.5% and 31.5±2.5 %, respectively. The average nucleotide identity values between strain NBT06E8T and the three related type strains were 86.26, 86.26 and 83.63 %, respectively. The major fatty acids were summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c) and C16 : 0. The predominant respiratory quinone detected was ubiquinone-9 (Q-9). Based on its phenotypic and phylogenetic characteristics, we conclude that strain NBT06E8T represents a novel species of the genus Halomonas, for which the name Halomonas piezotolerans sp. nov. is proposed (type strain NBT06E8T= MCCC 1K04228T=KCTC 72680T).


Assuntos
Sedimentos Geológicos/microbiologia , Halomonas/classificação , Filogenia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , DNA Bacteriano/genética , Ácidos Graxos/química , Halomonas/isolamento & purificação , Hibridização de Ácido Nucleico , Oceano Pacífico , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Ubiquinona/química
6.
Microbiologyopen ; 9(2): e966, 2020 02.
Artigo em Inglês | MEDLINE | ID: mdl-31743595

RESUMO

A novel piezophilic alphaproteobacterium, strain D4M1T , was isolated from deep seawater of the Mariana Trench. 16S rRNA gene analysis showed that strain D4M1T was most closely related to Oceanicella actignis PRQ-67T (94.2%), Oceanibium sediminis O448T (94.2%), and Thioclava electrotropha ElOx9T (94.1%). Phylogenetic analyses based on both 16S rRNA gene and genome sequences showed that strain D4M1T formed an independent monophyletic branch paralleled with the genus Oceanicella in the family Rhodobacteraceae. Cells were Gram-stain-negative, aerobic short rods, and grew optimally at 37°C, pH 6.5, and 3.0% (w/v) NaCl. Strain D4M1T was piezophilic with the optimum pressure of 10 MPa. The principal fatty acids were C18:1 ω7c/C18:1 ω6c and C16:0 , major respiratory quinone was ubiquinone-10, and predominant polar lipids were phosphatidylglycerol, phosphatidylethanolamine, and an unidentified aminophospholipid. The complete genome contained 5,468,583-bp with a G + C content of 70.2 mol% and contained 4,855 protein-coding genes and 78 RNA genes. Genomic analysis revealed abundant clues on bacterial high-pressure adaptation and piezophilic lifestyle. The combined evidence shows that strain D4M1T represents a novel species of a novel genus in the family Rhodobacteraceae, for which the name Paraoceanicella profunda gen. nov., sp. nov. is proposed (type strain D4M1T  = MCCC 1K03820T  = KCTC 72285T ).

7.
Int J Syst Evol Microbiol ; 70(1): 373-379, 2020 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-31613738

RESUMO

A novel alphaproteobacterium, strain WS11T, was isolated from a deep-sea sediment sample collected from the New Britain Trench. The full-length 16S rRNA gene of strain WS11T had the highest sequence similarity of 97.6 % to Rhizobium subbaraonis JC85T, followed by Mycoplana ramosa DSM 7292T (96.9 %) and Rhizobium azooxidifex Po 20/26T (96.8 %). Phylogenetic analysis of concatenated 16S rRNA, atpD and recA gene sequences showed that strain WS11T was deeply separated from the species within the family Rhizobiaceae. Phylogenomic analysis based on the whole-genome protein sequences showed that strain WS11T formed an independent monophyletic branch in the family Rhizobiaceae, paralleled with the species in the families Brucellaceae and Phyllobacteriaceae within the order Rhizobiales. Cells were Gram-stain-negative, oxidase- and catalase-positive, and aerobic short rods (1.5-2.4×0.9-1.0 µm). Growth was observed at salinities ranging from 0 to 5% (optimum, 1 %), from pH 6.5 to 9 (optimum, pH 7) and at temperatures between 20 and 30 °C (optimum, 28 °C). Strain WS11T was piezotolerant, growing optimally at 0.1 MPa (range 0.1-70 MPa). The main fatty acid was summed feature 8 (C18 : 1 ω7c/C18  : 1 ω 6c). The sole respiratory quinone was ubiquinone-10 (Q-10). The predominant polar lipids were phosphatidylcholine, two unidentified aminophospholipids and an unidentified phospholipid. The genome size was about 4.36 Mbp and the G+C content was 62.3 mol%. The combined genotypic and phenotypic data show that strain WS11T represents a novel species of a novel genus in the family Rhizobiaceae, for which the name Georhizobium profundi gen. nov., sp. nov. is proposed (type strain WS11T=MCCC 1K03498T=KCTC 62439T).


Assuntos
Alphaproteobacteria/classificação , Sedimentos Geológicos/microbiologia , Filogenia , Água do Mar/microbiologia , Alphaproteobacteria/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , DNA Bacteriano/genética , Ácidos Graxos/química , Oceano Pacífico , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Ubiquinona/análogos & derivados , Ubiquinona/química
8.
Int J Syst Evol Microbiol ; 69(11): 3581-3585, 2019 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-31429814

RESUMO

A novel marine Gram-stain-negative, non-motile, aerobic and rod-shaped bacterium, designated strain DSL-48T, was isolated from tidal flat sediment sampled from the East China Sea and characterized phylogenetically and phenotypically. Bacterial optimal growth occurred at 35 °C (range, 4-37 °C), pH 6 (pH 5-10) and with 4 % (w/v) NaCl (0-7 %). The nearest phylogenetic neighbour was Confluentibacter citreus KCTC 52638T with 16S rRNA gene similarity of 97.1 %. The predominant respiratory quinone was menaquinone-6 (MK-6). The major polar lipids were phosphatidylethanolamine, three unidentified aminolipids and four unidentified lipids. The major fatty acids of strain DSL-48T were iso-C15 : 0, iso-C17 : 0 3-OH, anteiso-C15 : 0, iso-C15 : 0 3-OH and iso-C16 : 0 3-OH. The G+C content of the genomic DNA was 33.3 mol%. The combined genotypic and phenotypic data indicated that strain DSL-48T represents a novel species of the genus Confluentibacter, for which the name Confluentibacter sediminis sp. nov. is proposed, with the type strain DSL-48T (=KCTC 62648T=MCCC 1K03537T).


Assuntos
Flavobacteriaceae/classificação , Sedimentos Geológicos/microbiologia , Filogenia , Microbiologia da Água , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Flavobacteriaceae/isolamento & purificação , Lagos/microbiologia , Lipídeos/química , Oceanos e Mares , RNA Ribossômico 16S/genética , Águas Salinas , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
9.
Antonie Van Leeuwenhoek ; 112(10): 1545-1552, 2019 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-31114973

RESUMO

A Gram-stain negative, non-motile and short rod shaped bacterium, designated strain DSL-12T, was isolated from seawater of the East China Sea and characterised phylogenetically and phenotypically. Optimal growth was found to occur at 28 °C (range 4-40 °C), pH 7 (range 6-12) and with 3% (w/v) NaCl (range 0-8%). Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain DSL-12T is related to members of the genus Algoriphagus and shares high sequence similarities with Algoriphagus boritolerans DSM 17298T (97.6%) and Algoriphagus alkaliphilus DSM 22703T (97.6%). The 16S rRNA gene sequence identities between strain DSL-12T and other current members of the genus Algoriphagus were below 96.4%. The digital DNA-DNA hybridization values between strain DSL-12T and the type strains A. boritolerans DSM 17298T and A. alkaliphilus DSM 22703T were found to be 21.2 ± 2.4% and 20.2 ± 2.4%, respectively. The average nucleotide identity (ANI) values between strain DSL-12T and A. boritolerans DSM 17298T and A. alkaliphilus DSM 22703T were found to be 83.2% and 82.8%, respectively. The sole respiratory quinone was identified as MK-7. The major polar lipids were identified as phosphatidylethanolamine, diphosphatidylglycerol, one unidentified phospholipid and two unidentified lipids. The major fatty acids identified as were iso-C15:0, summed feature 8 (C18:1ω7c and/or C18:1ω6c), C16:0, summed feature 3 (C16:1ω7c and/or C16:1ω6c) and iso-C17:0. The G+C content of the genomic DNA was determined to be 43.3 mol%. The combined genotypic and phenotypic data indicate that strain DSL-12T represents a novel species of the genus Algoriphagus, for which the name Algoriphagus litoralis sp. nov. is proposed, with the type strain DSL-12T (= KCTC 62647T = MCCC 1K03536T).


Assuntos
Bacteroidetes/classificação , Bacteroidetes/isolamento & purificação , Água Doce/microbiologia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Bacteroidetes/genética , Bacteroidetes/fisiologia , Composição de Bases , China , Análise por Conglomerados , Citosol/química , DNA Bacteriano/química , DNA Bacteriano/genética , DNA Ribossômico/química , DNA Ribossômico/genética , Ácidos Graxos/análise , Concentração de Íons de Hidrogênio , Lagos , Locomoção , Hibridização de Ácido Nucleico , Oceanos e Mares , Fosfolipídeos/análise , Filogenia , Quinonas/análise , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Cloreto de Sódio/metabolismo , Temperatura
10.
Int J Syst Evol Microbiol ; 69(5): 1423-1425, 2019 May.
Artigo em Inglês | MEDLINE | ID: mdl-30843786

RESUMO

Alteromonas indica IO390401T was compared with Salinimonas sediminis N102T to examine the taxonomic relationship between the two type strains. The 16S rRNA gene sequence of A. indica IO390401T shared high similarity (99.9 %) with that of S. sediminis N102T. The results of phylogenetic analyses based on 16S rRNA gene sequences indicated that the two strains formed a tight cluster within the genus Salinimonas. Whole genomic comparison between the two strains revealed an average nucleotide identity of 99.2 % and a digital DNA-DNA hybridization estimate of 92.6 %, strongly indicating that the two strains represented a single species. In addition, neither strain displayed any striking difference in metabolic, physiological or chemotaxonomic features. Therefore, we propose Alteromonas indica as a later heterotypic synonym of Salinimonas sediminis.


Assuntos
Alteromonas/classificação , Filogenia , Alteromonadaceae/classificação , Técnicas de Tipagem Bacteriana , Composição de Bases , DNA Bacteriano/genética , Hibridização de Ácido Nucleico , RNA Ribossômico 16S/genética , Análise de Sequência de DNA
11.
Int J Syst Evol Microbiol ; 69(4): 1035-1040, 2019 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-30735117

RESUMO

A novel marine Gram-stain-negative, non-spore-forming, motile, aerobic, coccoid or ovoid bacterium, designated as strain DSL-16T, was isolated from a tidal flat sediment on the East China Sea and characterized phylogenetically and phenotypically. Optimal growth of the strain occurred at 35 °C (range 4-40 °C), at pH 6 (range 5-11) and with 4 % (w/v) NaCl (range 1-14 %). The nearest phylogenetic neighbour was Paracoccusseriniphilus DSM 14827T (98.2 % 16S rRNA gene sequence similarity). The digital DNA-DNA hybridization value between strain DSL-16T and P. seriniphilus DSM 14827T was 19.5±2.2 %. The average nucleotide identity value between strain DSL-16T and P. seriniphilus DSM 14827T was 83.6 %. The sole respiratory ubiquinone was Q-10. The major polar lipids were phosphatidylmonomethylethanolamine (PME), phosphatidylglycerol (PG), phosphatidylcholine (PC), phosphatidylethanolamine (PE), diphosphatidyglycerol (DPG) and glycolipid (GL). The predominant cellular fatty acids of strain DSL-16T were C18 : 1ω7c, C18 : 0 and 11-methyl C18 : 1ω7c. The G+C content of the genomic DNA was 64.5 mol%. The combined genotypic and phenotypic data indicated that strain DSL-16T represents a novel species of the genus Paracoccus, for which the name Paracoccus sediminilitoris sp. nov. is proposed. The type strain is DSL-16T (=KCTC 62644T=MCCC 1K03534T).


Assuntos
Sedimentos Geológicos/microbiologia , Paracoccus/classificação , Filogenia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Hibridização de Ácido Nucleico , Paracoccus/isolamento & purificação , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Ubiquinona/análogos & derivados , Ubiquinona/química
12.
Int J Syst Evol Microbiol ; 69(3): 805-810, 2019 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-30688631

RESUMO

A Gram-stain-negative, motile with single polar flagellum, rod-shaped bacterium, designated as strain DSL-35T, was isolated from the location where the ocean and Dishui lake meet at Shanghai on the East China Sea and characterized phylogenetically and phenotypically. Optimal growth occurred at 35 °C (range, 4-40 °C), pH 8 pH 5-11) and with 3-4 % (w/v) NaCl (0-12 %). Phylogenetic analysis based on its 16S rRNA gene sequence showed that strain DSL-35T was related to members of the genus Marinomonas and shared the highest sequence identities with Marinomonasarctica 328T (98.0 %), Marinomonashwangdonensis HDW-15T (97.5 %) and Marinomonasrhizomae IVIA-Po-145T (97.2 %). The 16S rRNA gene sequence identities between strain DSL-35T and other members of the genus Marinomonas were below 96.8 %. The digital DNA-DNA hybridization values between strain DSL-35T and the three type strains, Marinomonas. arctica 328T, M. rhizomae HDW-15T and M. rhizomae IVIA-Po-145T, were 30.9±2.4 %, 21.7±2.2% and 22±2.3 %, respectively. The average nucleotide identity values between strain DSL-35T and the three type strains were 87.6 %, 84.6 and 84.2 %, respectively. The predominant ubiquinone was Q-8. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The predominant cellular fatty acids of strain DSL-35T were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 40.0 %), C16 : 0 (22.5 %), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c; 11.2 %), summed feature 2 (C14 : 0 3-OH and/or iso I C16 : 1; 7.2 %), C14 : 0 (6.8 %) and C12 : 0 (5.2 %). The G+C content of the genomic DNA was 44.5 mol%. The combined genotypic and phenotypic data indicated that strain DSL-35T represents a novel species of the genus Marinomonas, for which the name Marinomonas shanghaiensis sp. nov. is proposed, with the type strain DSL-35T (=KCTC 62646T=MCCC 1K03535T).


Assuntos
Lagos/microbiologia , Marinomonas/classificação , Filogenia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Marinomonas/isolamento & purificação , Hibridização de Ácido Nucleico , Oceanos e Mares , Fosfatidiletanolaminas/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Transferases (Outros Grupos de Fosfato Substituídos)/química , Ubiquinona/química
13.
Antonie Van Leeuwenhoek ; 112(3): 425-434, 2019 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-30302650

RESUMO

A piezotolerant, cold-adapted, slightly halophilic bacterium, designated strain PWS21T, was isolated from a deep-sea sediment sample collected from the New Britain Trench. Cells were observed to be Gram-stain negative, rod-shaped, oxidase- and catalase-positive. Growth of the strain was observed at 4-45 °C (optimum 37 °C), at pH 5.0-9.0 (optimum 7.0) and in 0.5-20% (w/v) NaCl (optimum 3-4%). The optimum pressure for growth was 0.1 MPa (megapascal) with tolerance up to 70 MPa. 16S rRNA gene sequence analysis showed that strain PWS21T is closely related to Marinobacter guineae M3BT (98.4%) and Marinobacter lipolyticus SM19T (98.2%). Multilocus sequence analysis (MLSA) based on sequences of housekeeping genes gyrB, recA, atpD, rpoB and rpoD indicates that strain PWS21T represents a distinct evolutionary lineage within the genus Marinobacter. Furthermore, strain PWS21T showed low ANI and diDDH values to the closely related species. The principal fatty acids were identified as C12:0, C12:0 3-OH, C16:1ω9c, C16:0 and C18:1ω9c. Ubiquinone-9 was identified as the major respiratory quinone. The polar lipids were identified as phosphatidylethanolamine (PE), phosphatidylglycerol (PG), diphosphatidylglycerol (DPG), aminophospholipid (APL), two unidentified lipids and an unidentified phospholipid (PL). The G + C content of the genomic DNA was determined to be 60.3 mol%. On the basis of phenotypic, chemotaxonomic and molecular data, we conclude that strain PWS21T represents a novel species of the genus Marinobacter, for which the name Marinobacter profundi sp. nov. is proposed (type strain PWS21T = KCTC 52990T = MCCC 1K03345T).


Assuntos
Sedimentos Geológicos/microbiologia , Marinobacter/classificação , Marinobacter/isolamento & purificação , Composição de Bases , Análise por Conglomerados , Citosol/química , DNA Bacteriano/química , DNA Bacteriano/genética , DNA Ribossômico/química , DNA Ribossômico/genética , Enzimas/análise , Ácidos Graxos/análise , Concentração de Íons de Hidrogênio , Fontes Hidrotermais/microbiologia , Marinobacter/genética , Marinobacter/fisiologia , Tipagem de Sequências Multilocus , Oceano Pacífico , Fosfolipídeos/análise , Filogenia , Quinonas/análise , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Cloreto de Sódio/metabolismo , Temperatura
14.
Int J Syst Evol Microbiol ; 68(12): 3766-3771, 2018 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-30362935

RESUMO

A cold-adapted, piezophilic, slightly halophilic bacterium, designated as N102T, was isolated from a deep-sea (4700 m) sediment sample collected from the New Britain Trench. Strain N102T was Gram-stain-negative, rod-shaped, oxidase- and catalase-positive, and grew optimally at 28 °C (range, 4-40 °C), pH 7.0-7.5 (range, 6.0-9.0) and 3-4 %(w/v) NaCl (range, 2-15 %). The optimum pressure for growth was 10 MPa with tolerance up to 70 MPa. 16S rRNA gene sequence analysis showed that strain N102T was most closely related to Alteromonas addita R10SW13T (97.2 %), Alteromonas stellipolaris LMG 21861T (97.1 %), Alteromonas gracilis 9a2T (97.1 %), Salinimonas lutimaris DPSR-4T (96.1 %) and Salinimonas chungwhensis BH030046T (95.4 %). Phylogenetic analyses based on 16S rRNA gene, gyrB gene and whole-genome sequences placed strain N102T within the genus Salinimonas. Genomic comparisons based on average nucleotide identity and tetranucleotide signature frequencies corroborated the results of the phylogenetic analyses. The principal fatty acids were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C16 : 0 and summed feature 8 (C18 : 1ω7c/C18 : 1ω6c). The major respiratory quinone was ubiquinone 8. The predominant polar lipids were phosphatidylethanolamine, phosphatidylglycerol and an unidentified phospholipid. The G+C content of the genomic DNA was 48.2 mol%. On the basis of phenotypic, chemotaxonomic and molecular data, we conclude that strain N102T represents a novel species of the genus Salinimonas, for which the name Salinimonassediminis sp. nov. is proposed (type strain N102T=MCCC 1K03497T=KCTC 62440T).


Assuntos
Alteromonadaceae/classificação , Sedimentos Geológicos/microbiologia , Filogenia , Água do Mar/microbiologia , Alteromonadaceae/genética , Alteromonadaceae/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , Temperatura Baixa , DNA Bacteriano/genética , Ácidos Graxos/química , Genes Bacterianos , Oceano Pacífico , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Ubiquinona/química
15.
Biomed Pharmacother ; 108: 1225-1236, 2018 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-30372824

RESUMO

Insulin, as the most important drug for the treatment of diabetes, can effectively control the blood glucose concentration in humans. Due to its instability, short half-life, easy denaturation and side effects, the administration way of insulin are limited to subcutaneous injection accompany with poor glucose control and low patient compliance. In recent years, emerging insulin delivery systems have been developed in diabetes research. In this review, a variety of stimuli-responsive insulin delivery systems with their response mechanism and regulation principle are described. Further, the introduction of stem cell transplantation and mobile application based delivery technologies are prudent for the diabetes treatment. This article also discusses the advantages and limitations of current strategies, along with the opportunities and challenges for future insulin therapy.


Assuntos
Diabetes Mellitus/tratamento farmacológico , Sequência de Aminoácidos , Humanos , Insulina/química , Insulina/metabolismo , Internet , Smartphone , Transplante de Células-Tronco
16.
Int J Syst Evol Microbiol ; 68(8): 2462-2467, 2018 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-29927369

RESUMO

A novel heterotrophic, Gram-stain-negative, aerobic, rod-shaped bacterium, designated as strain MT5T, was isolated from deep seawater in the Mariana Trench and characterized phylogenetically and phenotypically. Bacterial optimal growth occurred at 28 °C (range, 4-45 °C), pH 5-7 (pH 4-11) and with 3-7 % (w/v) NaCl (0-18 %). Phylogenetic analysis based on 16S rRNA gene sequence showed that strain MT5T was related to members of the genus Pseudomonas and shared the highest sequence identities with Pseudomonas pachastrellae CCUG 46540T (99.6 %), Pseudomonas aestusnigri VGXO14T (98.5 %) and Pseudomonas oceani KX 20T (98.4 %). The 16S rRNA gene sequence identities between strain MT5T and other members of the genus Pseudomonas were below 96.7 %. The digital DNA-DNA hybridization values between strain MT5T and the two type strains, P. pachastrellae and P. aestusnigri, were 38.9±2.5 and 25.8±2.4 %, respectively. The average nucleotide identity values between strain MT5T and the two type strains were 90.3 and 87.0 %, respectively. Strain MT5T and the two type strains shared 94.98 and 86.2 % average amino acid identity, and 30 and 33 Karlin genomic signature, respectively. The sole respiratory menaquinone was Q-9. The major polar lipids were phosphatidylethanolamine, diphosphatidyglycerol and phosphatidylglycerol. The predominant cellular fatty acids of strain MT5T were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) (35.3 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) (24.1 %), C16 : 0 (15.9 %) and C12 : 0 (7.2 %). The G+C content of the genomic DNA was 61.2 mol%. The combined genotypic and phenotypic data indicated that strain MT5T represents a novel species of the genus Pseudomonas, for which the name Pseudomonas abyssi sp. nov. is proposed, with the type strain MT5T (=KCTC 62295T=MCCC 1K03351T).


Assuntos
Filogenia , Pseudomonas/classificação , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , DNA Bacteriano/genética , Ácidos Graxos/química , Hibridização de Ácido Nucleico , Oceano Pacífico , Fosfatidiletanolaminas , Fosfolipídeos/química , Pseudomonas/genética , Pseudomonas/isolamento & purificação , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
17.
Int J Syst Evol Microbiol ; 68(5): 1474-1478, 2018 May.
Artigo em Inglês | MEDLINE | ID: mdl-29557772

RESUMO

A novel heterotrophic, Gram-stain-positive, facultatively anaerobic and rod-shaped bacterium, designated strain NBT06-6T, was isolated from the deep seawater in the New Britain Trench and characterized phylogenetically and phenotypically. Optimal bacterial growth occurred at 35 °C (range 22-41 °C), at pH 6 (4-8) and with 4 % (w/v) NaCl (0-10 %). The strain grew at hydrostatic pressures of 0.1-100 MPa (optimum, 0.1 MPa) at 35 °C. Phylogenetic analysis of the 16S rRNA gene sequences indicated that strain NBT06-6T belonged to the genus Corynebacterium, with the highest sequence similarity (97.9 %) to Corynebacterium imitans, and shared low 16S rRNA gene sequence similarities (<97.0 %) with other type strains. The major respiratory menaquinones were MK-8(H2) and MK-9(H2). The polar lipids were diphosphatidyglycerol, phosphatidylglycerol, phosphatidylinositol, three unidentified aminoglycolipids and four unidentified glycolipids. The major fatty acids detected were C18 : 1ω9c, C16 : 0 and C15 : 0. Strain NBT06-6T contained meso-diaminopimelic acid and mycolic acids in its cell wall, and mannose, galactose, glucose, arabinose and ribose as major whole-cell sugars. The G+C content of the genomic DNA was 65.1 mol%. The digital DNA-DNA hybridization value and the average nucleotide identity between strain NBT06-6T and C. imitans were 24.5±2.4 and 81.9 %, respectively. The combined genotypic and phenotypic data indicated that strain NBT06-6T represents a novel species of the genus Corynebacterium, for which the name Corynebacterium hadale sp. nov. is proposed, with the type strain NBT06-6T (=MCCC 1K03347T=DSM 105365T).


Assuntos
Corynebacterium/classificação , Filogenia , Água do Mar/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , Parede Celular/química , Corynebacterium/genética , Corynebacterium/isolamento & purificação , DNA Bacteriano/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Glicolipídeos/química , Hibridização de Ácido Nucleico , Oceano Pacífico , Peptidoglicano/química , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
18.
Genome Announc ; 5(7)2017 Feb 16.
Artigo em Inglês | MEDLINE | ID: mdl-28209827

RESUMO

Marinilactibacillus piezotolerans strain 15R is a facultatively anaerobic heterotrophic lactobacillus isolated from deep marine subsurface sediment nearly 2 km below the seafloor in the northwestern Pacific. We report here the first whole-genome sequence of strain 15R. The identified genome sequence has 2,767,908 bp, 35.4% G+C content, and predicted 2,552 candidate protein-coding sequences, with no identified plasmids.

19.
Genome Announc ; 5(8)2017 Feb 23.
Artigo em Inglês | MEDLINE | ID: mdl-28232436

RESUMO

Here, we report the genome sequence of Bacillus subtilis strain 29R7-12, a piezophilic bacterium isolated from coal-bearing sediment down to ~2.4 km below the ocean floor in the northwestern Pacific. The strain is a Gram-positive spore-forming bacterium, closely related to Bacillus subtilis within the phylum Firmicutes This is the first complete genome sequence of a Bacillus subtilis strain from the deep biosphere. The genome sequence will provide a valuable resource for comparative studies of microorganisms from the surface and subsurface environments.

20.
Artigo em Inglês | MEDLINE | ID: mdl-25375487

RESUMO

We investigate the formation of fingered flow in dry granular media under simulated rainfall using a quasi-two-dimensional experimental setup composed of a random close packing of monodisperse glass beads. Using controlled experiments, we analyze the finger instabilities that develop from the wetting front as a function of fundamental granular (particle size) and fluid properties (rainfall, viscosity). These finger instabilities act as precursors for water channels, which serve as outlets for water drainage. We look into the characteristics of the homogeneous wetting front and channel size as well as estimate relevant time scales involved in the instability formation and the velocity of the channel fingertip. We compare our experimental results with that of the well-known prediction developed by Parlange and Hill [D. E. Hill and J. Y. Parlange, Soil Sci. Soc. Am. Proc. 36, 697 (1972)]. This model is based on linear stability analysis of the growth of perturbations arising at the interface between two immiscible fluids. Results show that, in terms of morphology, experiments agree with the proposed model. However, in terms of kinetics we nevertheless account for another term that describes the homogenization of the wetting front. This result shows that the manner we introduce the fluid to a porous medium can also influence the formation of finger instabilities. The results also help us to calculate the ideal flow rate needed for homogeneous distribution of water in the soil and minimization of runoff, given the grain size, fluid density, and fluid viscosity. This could have applications in optimizing use of irrigation water.

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