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1.
Strain IMCC9063 is a novel isolate of the SAR11 clade and is distantly related to other cultured representatives in this clade. The strain was isolated off the coast of Svalbard, Norway, by applying high-throughput culturing methods based on dilution to extinction. Here we present the finished genome sequence of strain IMCC9063. 相似文献
2.
We report the genome sequence of actinobacterial strain IMCC13023, isolated from arctic fjord seawater. Phylogenetic analysis of 16S rRNA gene showed that the strain is related to "Candidatus Aquiluna rubra." The genome information suggests that strain IMCC13023 is a photoheterotroph carrying actinorhodopsin, with the smallest genome ever reported for a free-living member of the Actinobacteria. 相似文献
3.
Strain IMCC9480 is a novel member of the family Oxalobacteraceae of the Betaproteobacteria, isolated from the Arctic Ocean by dilution-to-extinction culturing. Here we present the draft genome sequence of strain IMCC9480. The genome is predicted to contain genes for xanthorhodopsin, retinoid biosynthesis, carbon monoxide dehydrogenase, and C(1) metabolism. 相似文献
4.
Strain IMCC3088, cultivated from the Yellow Sea, is a novel isolate belonging to the OM60/NOR5 clade and is closely related to clone OM241, Congregibacter litoralis, and strain HTCC2080. Here, the genome sequence of strain IMCC3088 is presented, showing the absence of photosynthetic gene clusters and the presence of proteorhodopsin. 相似文献
5.
6.
Kang I Kang D Oh HM Kim H Kim HJ Kang TW Kim SY Cho JC 《Journal of bacteriology》2011,193(14):3688-3689
Strain IMCC2047 was isolated from the Yellow Sea using dilution-to-extinction culturing. The strain was shown to occupy a distinct phylogenetic position within the Gammaproteobacteria. Here we present the genome sequence of strain IMCC2047, which harbors genes for various metabolic pathways, including proteorhodopsin and ribulose bisphosphate carboxylase. 相似文献
7.
Choi A Kim KM Kang I Youn SH Suh YS Lee Y Cho JC 《Journal of microbiology (Seoul, Korea)》2012,50(1):170-174
A novel species belonging to the genus Grimontia is described in this study. A Gram-negative, chemoheterotrophic, obligately aerobic, catalase- and oxidase-positive, motile
by a single polar flagellum, and rod-shaped bacterium, designated IMCC5001T, was isolated from surface seawater of the Yellow Sea. Strain IMCC5001T grew optimally at 30°C in the presence of 3.5% NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that the
isolate was related most closely to Grimontia hollisae with a sequence similarity of 95.8%, and formed a robust phyletic lineage with Grimontia hollisae. Differential physiological characteristics between the new strain and Grimontia hollisae KCCM 41680T and chemotaxonomic characterization including determination of DNA G+C content, fatty acid methyl esters, quinone composition,
and polar lipid profiles justified the assignment of strain IMCC5001T to the genus Grimontia as a novel species. In conclusion, strain IMCC5001T represents a new species, for which the name Grimontia marina sp. nov. is proposed, with the type strain IMCC5001T (=KCTC 22666T =NBRC 105794T). 相似文献
8.
Strain IMCC14465 was isolated from surface seawater of the East Sea using dilution-to-extinction culturing. Phylogenetic analysis indicated that the strain belongs to the PS1 clade, which is closely related to the OCS116 clade in the Alphaproteobacteria. Here, we report the genome sequence of IMCC14465, the first isolate of the PS1 clade. 相似文献
9.
Shan-Hui Li Jaeho Song Ilnam Kang Juchan Hwang Jang-Cheon Cho 《Journal of microbiology (Seoul, Korea)》2020,58(6):463-471
A Gram-stain-negative, rod-shaped, obligately aerobic, nonflagellated, and chemoheterotrophic bacterium, designated IMCC3088T, was isolated from coastal seawater of the Yellow Sea. The 16S rRNA gene sequence analysis indicated that this strain belonged to the family Halieaceae which shared the highest sequence similarities with Luminiphilus syltensis NOR5-1BT (94.5%) and Halioglobus pacificus S1-72T (94.5%), followed by 92.3–94.3% sequence similarities with other species within the aforementioned family. Phylogenetic analyses demonstrated that strain IMCC3088T was robustly clustered with Luminiphilus syltensis NOR5-1BT within the family Halieaceae. However, average amino acid identity (AAI), percentages of conserved proteins (POCP), average nucleotide identity (ANI), and alignment fraction (AF) between strain IMCC3088T and Luminiphilus syltensis NOR5-1BT were 54.5%, 47.7%, 68.0%, and 16.5%, respectively, suggesting that they belonged to different genera. Whole-genome sequencing of strain IMCC3088T revealed a 3.1 Mbp genome size with a DNA G + C content of 51.7 mol%. The genome encoded diverse metabolic pathways including sulfur oxidation, phenol degradation, and proteorhodopsin phototrophy. Mono-unsaturated fatty acids were found to be the predominant cellular fatty acid components in the strain. Phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol were the primarily identified polar lipids, and ubiquinone-8 was identified as a major respiratory quinone. The taxonomic data collected herein suggested that strain IMCC3088T represented a novel genus and species of the family Halieaceae, for which the name Aequoribacter fuscus gen. nov., sp. nov. is proposed with the type strain (= KACC 15529T = NBRC 108213T). 相似文献
10.
《BBA》2020,1861(1):148092
Although many microbial rhodopsins have been discovered many of organisms in a variety of habitats, little is known about the property and diversity of rhodopsin in flavobacteria. Recent studies discovered that many proteorhodopsin (PR)-like proteins exist in genomes of flavobacteria. Following the isolation of a flavobacterial rhodopsins (FR) from the flavobacteria IMCC1997 from the East Sea of Korea, we characterized its photochemical features. We confirmed that the FR expression is induced by light in the IMCC1997 cell. Upon receiving light energy in vitro, the proton acceptor (D83) and donor (E94) of the FR translocate protons from intracellular to extracellular regions. Compared with proteorhodopsin (PR), the FR from IMCC 1997 cells is very unstable, which may be explained by their primary sequence differences. The ratio of all trans/13-cis retinal conformation does not influence this stability. To measure the stability of FR, we tested heat endurance at 70 °C and found that the heat endurance time of some FR mutants increased. Based upon these results, we found the helix E of this protein to be critical for the unstability of FR. 相似文献
11.
Yochan Joung Hye-jin Jang Miri Park Jaeho Song Jang-Cheon Cho 《Journal of microbiology (Seoul, Korea)》2018,56(7):478-484
A non-motile, pink-pigmented bacterial strain designated IMCC25679T, was isolated from freshwater Lake Chungju of Korea. Phylogenetic trees based on 16S rRNA gene sequences showed that the strain IMCC25679T formed a lineage within the genus Pedobacter. The strain IMCC25679T was closely related to Pedobacter daechungensis Dae 13T (96.4% sequence similarity), Pedobacter rivuli HME8457T (95.3%) and Pedobacter lentus DS-40T (94.3%). The major fatty acids of IMCC- 25679T were iso-C15:0, iso-C16:0 and summed feature 3 (comprising C16:1ω6c and/or C16:1ω7c). The major respiratory quinone was MK-7. The major polar lipids were phosphatidylethanolamine (PE), an unidentified sphingolipid (SL), an unidentified aminolipid (AL) and three unidentified polar lipids (PL). The DNA G + C content of IMCC25679T was 32.2 mol%. Based on the evidence presented in this study, the strain IMCC25679T represents a novel species within the genus Pedobacter, with the proposed name Pedobacter aquicola, sp. nov. The type strain is IMCC25679T (= KACC 19486T = NBRC113131T). 相似文献
12.
Members of the genus Marinomonas in the Gammaproteobacteria are broadly distributed in marine environments where they could be infected by bacteriophages. Here we report the genome sequence of bacteriophage P12026 that can lytically infect bacterial strain IMCC12026, a member of the genus Marinomonas. To our knowledge, this is the first genome sequence of a lytic bacteriophage infecting the genus Marinomonas. 相似文献
13.
The Roseobacter clade has been recognized as one of the abundant bacterial lineages in marine environments, which makes the characterization of bacteriophages infecting members of the clade important. Here we report the complete genome sequence of bacteriophage P12053L, which infects Celeribacter sp. strain IMCC12053, a member of the Roseobacter clade. 相似文献
14.
The phylum Bacteroidetes is one of the major bacterial phyla in marine environments, where bacteriophages are highly abundant. Bacteriophages infecting members of the phylum Bacteroidetes, however, have not been well represented in public genome databases. Here we announce the genome sequences of two bacteriophages, P12024S and P12024L, that were isolated from coastal seawater and lytically infect Persicivirga sp. IMCC12024, a marine Bacteroidetes bacterium. 相似文献
15.
Hana Kim Hyun-Myung Oh Seung-Jo Yang Jung-Sook Lee Jae-Sang Hong Jang-Cheon Cho 《Current microbiology》2009,58(5):511-515
A marine bacterium designated strain IMCC4074T was isolated from surface seawater collected off Incheon Port, the Yellow Sea, and subjected to a polyphasic taxonomy. The
strain was Gram-negative, chemoheterotrophic, slightly halophilic, strictly aerobic, and motile rods. Based on 16S rRNA gene
sequence comparisons, the strain was most closely related to Marinobacterium litorale KCTC 12756T (93.9%) and shared low 16S rRNA gene sequence similarities with members of the genus Marinobacterium (91.8–93.9%) and the genus Neptunomonas (93.4%) in the order Oceanospirillales. Phylogenetic analyses showed that this marine isolate formed an independent phyletic line within the genus Marinobacterium clade. The DNA G+C composition of the strain was 56.0 mol% and the predominant constituents of the cellular fatty acids were
C16:0 (28.0%), C16:1 ω7c and/or iso-C15:0 2-OH (19.3%), C18:1 ω7c (17.8%), and C17:1 cyclo (12.5%), which differentiated the strain from other Marinobacterium species. Based on the taxonomic data collected in this study, only a distant relationship could be found between strain IMCC4074T and other members of the genus Marinobacterium, thus the strain represents a novel species of the genus Marinobacterium, for which the name Marinobacterium marisflavi sp. nov. is proposed. The type strain of Marinobacterium marisflavi is IMCC4074T (= KCTC 12757T = LMG 23873T).
The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain IMCC4074T is EF468717.
An erratum to this article can be found at 相似文献
16.
Dong Han Choi Ki-Tae Park Sung Min An Kitack Lee Jang-Cheon Cho Jung-Hyun Lee Dongseon Kim Dongchull Jeon Jae Hoon Noh 《PloS one》2015,10(1)
Dimethyl sulfide (DMS) is a climatically active gas released into the atmosphere from oceans. It is produced mainly by bacterial enzymatic cleavage of dimethylsulfoniopropionate (DMSP), and six DMSP lyases have been identified to date. To determine the biogeographical distribution of bacteria relevant to DMS production, we investigated the diversity of dddP—the most abundant DMS-producing gene—in the northwestern Pacific Ocean using newly developed primers and the pyrosequencing method. Consistent with previous studies, the major dddP-containing bacteria in coastal areas were those belonging to the Roseobacter clade. However, genotypes closely related to the SAR116 group were found to represent a large portion of dddP-containing bacteria in the surface waters of the oligotrophic ocean. The addition of DMSP to a culture of the SAR116 strain Candidatus Puniceispirillum marinum IMCC1322 resulted in the production of DMS and upregulated expression of the dddP gene. Considering the large area of oligotrophic water and the wide distribution of the SAR116 group in oceans worldwide, we propose that these bacteria may play an important role in oceanic DMS production and biogeochemical sulfur cycles, especially via bacteria-mediated DMSP degradation. 相似文献
17.
A Gram-negative, motile by tuft flagella, obligately aerobic chemoorganoheterotrophic, sphere-form bacterium, designated IMCC3135(T), was isolated from the Antarctic surface seawater of King George Island, West Antarctica. The strain was mesophilic, neutrophilic, and requiring NaCl for growth, but neither halophilic nor halotolerant. The 16S rRNA gene sequence analysis indicated that the strain was most closely related to genera of the order Chromatiales in the class Gammaproteobacteria. The most closely related genera showed less than 90% 16S rRNA gene sequence similarity and included Thioalkalispira (89.9%), Thioalkalivibrio (88.0%-89.5%), Ectothiorhodospira (87.9%-89.3%), Chromatium (88.3%-88.9%), and Lamprocystis (87.7%-88.9%), which represent three different families of the order Chromatiales. Phylogenetic analyses showed that this Antarctic strain represented a distinct phylogenetic lineage in the order Chromatiales and could not be assigned to any of the defined families in the order. Phenotypic characteristics, including primarily non-phototrophic, non-alkaliphilic, non-halophilic, and obligately aerobic chemoheterotrophic properties, differentiated the strain from other related genera. The very low sequence similarities (<90%) and distant relationships between the strain and members of the order suggested that the strain merited classification as a novel genus within a novel family in the order Chromatiales. On the basis of these taxonomic traits, a novel genus and species is proposed, Granulosicoccus antarcticus gen. nov., sp. nov., in a new family Granulosicoccaceae fam. nov. Strain IMCC3135(T) (=KCCM 42676(T)=NBRC 102684(T)) is the type strain of Granulosicoccus antarcticus. 相似文献
18.
Seung-Jo Yang Hyun-Myung Oh Sangyun Chung Jang-Cheon Cho 《Journal of microbiology (Seoul, Korea)》2009,47(5):517-523
A marine bacterium, designated IMCC3175T, was isolated from a seawater sample collected off the Antarctic coast. The strain was Gram-negative, obligately aerobic,
carotenoid pigment-containing, and rod-shaped bacterium that divided by binary fission. As determined by 16S rRNA gene sequence
comparisons, the most closely related genera were Formosa (92.9∼93.3%), Bizionia (91.6∼93.2%), Gaetbulibacter (91.5∼92.8%), Sediminibacter (92.7%), Yeosuana (92.6%), Subsaximicrobium (92.1∼92.2%), and Gillisia (89.5∼92.2%). Phylogenese analysis based on 16S rRNA gene sequences showed that the strain formed a monophyletic clade together
with the genera Sediminibacter and Subsaximicrobium but represented an independent phyletic line in this clade of the family Flavobacteriaceae. The DNA G+C content of the strain was 37.3 mol%. The major respiratory quinone was MK-6 and the predominant cellular fatty
acids were C16:1 ω7c and/or iso-C15:0 2-OH (12.8%), anteiso-C15:0 (9.4%), and iso-C16:1 (9.4%). Low 16S rRNA gene sequence similarity, formation of a distinct phylogenetic branch, and several phenotypic characteristics,
including a narrow range of temperature and salinity for growth, differentiated strain IMCC3175T from other related genera in the family Flavobacteriaceae. Therefore the name Antarcticimonas flava gen. nov., sp. nov. is proposed, with strain IMCC3175T (=KCCM 42713T =NBRC 103398T) as the type strain. 相似文献
19.
Shin-Gyu Cho Myungchul Song Kimleng Chuon Jin-gon Shim Seanghun Meas Kwang-Hwan Jung 《PLoS biology》2022,20(10)
Photoreceptors are light-sensitive proteins found in various organisms that respond to light and relay signals into the cells. Heliorhodopsin, a retinal-binding membrane protein, has been recently discovered, however its function remains unknown. Herein, we investigated the relationship between Actinobacteria bacterium IMCC26103 heliorhodopsin (AbHeR) and an adjacent glutamine synthetase (AbGS) in the same operon. We demonstrate that AbHeR binds to AbGS and regulates AbGS activity. More specifically, the dissociation constant (Kd) value of the binding between AbHeR and AbGS is 6.06 μM. Moreover, the absence of positively charged residues within the intracellular loop of AbHeR impacted Kd value as they serve as critical binding sites for AbGS. We also confirm that AbHeR up-regulates the biosynthetic enzyme activity of AbGS both in vitro and in vivo in the presence of light. GS is a key enzyme involved in nitrogen assimilation that catalyzes the conversion of glutamate and ammonia to glutamine. Hence, the interaction between AbHeR and AbGS may be critical for nitrogen assimilation in Actinobacteria bacterium IMCC26103 as it survives in low-nutrient environments. Overall, the findings of our study describe, for the first time, to the best of our knowledge, a novel function of heliorhodopsin as a regulatory rhodopsin with the capacity to bind and regulate enzyme activity required for nitrogen assimilation.A study of heliorhodopsin, an actinobacterial photoreceptor of unknown function, reveals that it interacts with glutamine synthetase, an enzyme involved in nitrogen assimilation, and regulates its activity in the presence of light, highlighting the diverse functions of rhodopsins in different organisms. 相似文献
20.
Elizabeth Franke Stevens 《Zoo biology》1991,10(1):53-63
Group displays in flamingos have been presumed to play a role in stimulating synchronous nesting and in facilitating pair formation. This study compares the group displays and breeding success of a captive flock of Caribbean flamingos (Phoenicopterus ruber ruber) at the National Zoological Park between 2 years: the frequency and synchrony of group displays were measured for a flock of 17 in 1988 and then again in 1989 after flock size was increased to 21. In 1989 the rate of occurrence of display activity increased 48%, the synchrony of group displays increased 100%, the frequency of mounts and copulations almost doubled, and for the first time in the flock's history two fertile eggs were produced. The use of sprinklers to simulate rain had no effect on the group displays. The amount of naturally occurring rainfall in 1989 was almost twice that in 1988. The increased frequency and synchrony of group displays could be attributed to increased flock size, change in sex ratio, addition of strange individuals, or increased rainfall. This study, however, provides evidence for a relationship between behavioral stimulation from group displays and components of breeding success in flamingos. 相似文献