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Cui Y, Mo X, Huang Z. Roseicyclus amphidinii sp. nov., a novel bacterium isolated from the culture of a dinoflagellate Amphidinium carterae. Int J Syst Evol Microbiol 2025; 75. [PMID: 39999162 DOI: 10.1099/ijsem.0.006682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/27/2025] Open
Abstract
A Gram-negative, rod-shaped and light pink-pigmented bacterial strain, designated Amp-Y-6T, was isolated from the culture of a dinoflagellate Amphidinium carterae CCMP1314. It can produce bacteriochlorophyll a. The 16S rRNA gene of strain Amp-Y-6T had the highest sequence similarity with Roseicyclus marinus CCMM001T of 98.1%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain Amp-Y-6T was affiliated to the genus Roseicyclus and formed a monophyletic clade with R. marinus CCMM001T and Roseicyclus mahoneyensis ML6T. The digital DNA-DNA hybridization, average nucleotide identity and average amino acid identity between strain Amp-Y-6T and the two phylogenetic relatives were 22.7-22.8, 80.4-80.5 and 79.5-80.2%, respectively. The respiratory quinone was Q-10. The major fatty acid composition was summed feature 8 (C18:1 ω7c and/or C18:1 ω6c). The draft genome size was 3.8 Mbp with a genomic G+C content of 68.1 mol%. Gene annotation showed that Amp-Y-6T contained a gene cluster responsible for the C-P degradation, indicating that it had the potential to provide a phosphate source for the dinoflagellate. Based on the phylogenetic, phenotypic and chemotaxonomic characteristics, strain Amp-Y-6T represents a novel species, for which the name Roseicyclus amphidinii sp. nov. is proposed. The type strain is Amp-Y-6T (=MCCC 1K08249T=KCTC 92882T).
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Affiliation(s)
- Yudong Cui
- College of Oceanology and Food Science, Quanzhou Normal University, Quanzhou, PR China
- Fujian Province Key Laboratory for the Development of Bioactive Material from Marine Algae, Quanzhou Normal University, Quanzhou, PR China
| | - Xueyi Mo
- College of Oceanology and Food Science, Quanzhou Normal University, Quanzhou, PR China
| | - Zhaobin Huang
- College of Oceanology and Food Science, Quanzhou Normal University, Quanzhou, PR China
- Fujian Province Key Laboratory for the Development of Bioactive Material from Marine Algae, Quanzhou Normal University, Quanzhou, PR China
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Messner K, Kyndt JA, Yurkov V. Salinarimonas chemoclinalis, an Aerobic Anoxygenic Phototroph Isolated from a Saline, Sulfate-Rich Meromictic Lake. Microorganisms 2024; 12:2359. [PMID: 39597747 PMCID: PMC11596632 DOI: 10.3390/microorganisms12112359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2024] [Revised: 11/15/2024] [Accepted: 11/17/2024] [Indexed: 11/29/2024] Open
Abstract
A pink-pigmented, ovoid-rod-shaped, Gram-negative bacterial strain ML10T was previously isolated in a study of a meromictic lake in British Columbia, Canada. It produces bacteriochlorophyll a, which is incorporated into the reaction center and light harvesting I complexes. This alongside no anaerobic or photoautotrophic growth supports the designation of the strain as an aerobic anoxygenic phototroph. The cells produce wavy polar flagellum and accumulate clear, refractive granules, presumed to be polyhydroxyalkanoate. Sequence of the 16S rRNA gene identified close relatedness to Salinarimonas rosea (97.85%), Salinarimonas ramus (97.92%) and Saliniramus fredricksonii (94.61%). The DNA G + C content was 72.06 mol %. Differences in cellular fatty acids and some physiological tests compared to Salinarimonadaceae members, as well as average nucleotide identity and digital DNA-DNA hybridization, define the strain as a new species in Salinarimonas. Therefore, we propose that ML10T (=NCIMB 15586T = DSM 118510T) be classified as the type strain of a new species in the genus with the name Salinarimonas chemoclinalis sp. nov.
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Affiliation(s)
- Katia Messner
- Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada;
| | - John A. Kyndt
- College of Science and Technology, Bellevue University, Bellevue, NE 68005, USA;
| | - Vladimir Yurkov
- Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada;
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Zhou Z, Yang X, Yue Y, Liu X, Xu Z, Du Z. Roseicyclus sediminis sp. nov. and Roseicyclus salinarum sp. nov., isolated from marine environment, and reclassification of two species of the genus Roseibacterium as species of the genus Roseicyclus. Int J Syst Evol Microbiol 2024; 74. [PMID: 39560659 DOI: 10.1099/ijsem.0.006583] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2024] Open
Abstract
Two Gram-stain-negative, facultatively anaerobic, rod-shaped bacteria were isolated from coastal sediments and salt marshes in Weihai, China, and designated as SDUM158017T and SDUM158016T, respectively. Both grew at temperatures ranging from 20 to 43°C and within a pH range of 6.0 to 9.0. However, strain SDUM158016T grew in the presence of 1.0-7.0% (w/v) NaCl, whereas strain SDUM158017T was able to grow in the presence of 1.0-10.0% (w/v) NaCl. Strains SDUM158016T and SDUM158017T contain major fatty acids of C18 : 1 ω7ϲ and C16 : 0 and contain Q10 as the sole quinone. Based on 16S rRNA gene sequence analysis, the closest relatives of strains SDUM158016T and SDUM158017T are 'Roseibacterium beibuensis' MCCC 1F00103T, followed by Roseibacterium elongatum JCM 11220T, with the highest similarities 97.1 and 97.3 %, respectively. The average nucleotide identity values between strain SDUM158016T and species of the genera Roseibacterium and Roseicyclus ranged from 76.0 to 78.9 %, while they ranged from 75.9 to 78.6% for strain SDUM158017T. These values are below the species delineation threshold of 98.6%, suggesting that both strains represent novel species. Phylogenetic analysis of the 16S rRNA genes and genome sequences further indicates that Roseibacterium species within the genus Roseicyclus and these isolates represent two potentially novel species within the genus Roseicyclus. Taken together, strains SDUM158017T and SDUM158016T represent two novel species of the genus Roseicyclus, for which the names Roseicyclus sediminis and Roseicyclus salinarum are proposed with the type strains SDUM158016T (=KCTC 92632T =MCCC 1H01367T) and SDUM158017T (=KCTC 92633T =MCCC 1H01363T), respectively. Based on phylogenetic and genomic analyses, we also propose the reclassification of Roseibacterium elongatum as Roseicyclus elongatus comb. nov. and Roseibacterium persicicum as Roseicyclus persicicus comb. nov.
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Affiliation(s)
- Ziyang Zhou
- Marine college, Shandong University, Weihai 264209, PR China
| | - Xunian Yang
- Marine college, Shandong University, Weihai 264209, PR China
| | - Yuyan Yue
- Marine college, Shandong University, Weihai 264209, PR China
| | - Xinjiang Liu
- School of Bioscience and Bioengineering, South China University of Technology, Guangzhou 510641, PR China
| | - Zhenxing Xu
- Marine college, Shandong University, Weihai 264209, PR China
- Shandong University Weihai Research Institute of Industrial Technology, Weihai 264209, PR China
| | - Zongjun Du
- Marine college, Shandong University, Weihai 264209, PR China
- Shandong University Weihai Research Institute of Industrial Technology, Weihai 264209, PR China
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Messner K, Yurkov V. Abundance, Characterization and Diversity of Culturable Anoxygenic Phototrophic Bacteria in Manitoban Marshlands. Microorganisms 2024; 12:1007. [PMID: 38792836 PMCID: PMC11123896 DOI: 10.3390/microorganisms12051007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2024] [Revised: 05/10/2024] [Accepted: 05/14/2024] [Indexed: 05/26/2024] Open
Abstract
Marshes are an important ecosystem, acting as a biodiversity hotspot, a carbon sink and a bioremediation site, breaking down anthropogenic waste such as antibiotics, metals and fertilizers. Due to their participation in these metabolic activities and their capability to contribute to primary productivity, the microorganisms in such habitats have become of interest to investigate. Since Proteobacteria were previously found to be abundant and the waters are well aerated and organic-rich, this study on the presence of anoxygenic phototrophic bacteria, purple non-sulfur bacteria and aerobic anoxygenic phototrophs in marshes was initiated. One sample was collected at each of the seven Manitoban sites, and anoxygenic phototrophs were cultivated and enumerated. A group of 14 strains, which represented the phylogenetic diversity of the isolates, was physiologically investigated further. Aerobic anoxygenic phototrophs and purple non-sulfur bacteria were present at each location, and they belonged to the α- and β-Proteobacteria subphyla. Some were closely related to known heavy metal reducers (Brevundimonas) and xenobiotic decomposers (Novosphingobium and Sphingomonas). All were able to synthesize the photosynthetic complexes aerobically. This research highlights the diversity of and the potential contributions that anoxygenic phototrophs make to the essential functions taking place in wetlands.
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Affiliation(s)
| | - Vladimir Yurkov
- Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada;
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López-Sánchez R, Rebollar EA, Gutiérrez-Ríos RM, Garciarrubio A, Juarez K, Segovia L. Metagenomic analysis of carbohydrate-active enzymes and their contribution to marine sediment biodiversity. World J Microbiol Biotechnol 2024; 40:95. [PMID: 38349445 PMCID: PMC10864421 DOI: 10.1007/s11274-024-03884-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Accepted: 01/02/2024] [Indexed: 02/15/2024]
Abstract
Marine sediments constitute the world's most substantial long-term carbon repository. The microorganisms dwelling in these sediments mediate the transformation of fixed oceanic carbon, but their contribution to the carbon cycle is not fully understood. Previous culture-independent investigations into sedimentary microorganisms have underscored the significance of carbohydrates in the carbon cycle. In this study, we employ a metagenomic methodology to investigate the distribution and abundance of carbohydrate-active enzymes (CAZymes) in 37 marine sediments sites. These sediments exhibit varying oxygen availability and were isolated in diverse regions worldwide. Our comparative analysis is based on the metabolic potential for oxygen utilisation, derived from genes present in both oxic and anoxic environments. We found that extracellular CAZyme modules targeting the degradation of plant and algal detritus, necromass, and host glycans were abundant across all metagenomic samples. The analysis of these results indicates that the oxic/anoxic conditions not only influence the taxonomic composition of the microbial communities, but also affect the occurrence of CAZyme modules involved in the transformation of necromass, algae and plant detritus. To gain insight into the sediment microbial taxa, we reconstructed metagenome assembled genomes (MAG) and examined the presence of primary extracellular carbohydrate active enzyme (CAZyme) modules. Our findings reveal that the primary CAZyme modules and the CAZyme gene clusters discovered in our metagenomes were prevalent in the Bacteroidia, Gammaproteobacteria, and Alphaproteobacteria classes. We compared those MAGs to organisms from the same taxonomic classes found in soil, and we found that they were similar in its CAZyme repertoire, but the soil MAG contained a more abundant and diverse CAZyme content. Furthermore, the data indicate that abundant classes in our metagenomic samples, namely Alphaproteobacteria, Bacteroidia and Gammaproteobacteria, play a pivotal role in carbohydrate transformation within the initial few metres of the sediments.
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Affiliation(s)
- Rafael López-Sánchez
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Eria A Rebollar
- Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Rosa María Gutiérrez-Ríos
- Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Alejandro Garciarrubio
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Katy Juarez
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
| | - Lorenzo Segovia
- Departamento de Ingeniería Celular y Biocatálisis, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico.
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Kuzyk SB, Messner K, Plouffe J, Ma X, Wiens K, Yurkov V. Diverse aerobic anoxygenic phototrophs synthesize bacteriochlorophyll in oligotrophic rather than copiotrophic conditions, suggesting ecological niche. Environ Microbiol 2023; 25:2653-2665. [PMID: 37604501 DOI: 10.1111/1462-2920.16482] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 08/01/2023] [Indexed: 08/23/2023]
Abstract
While investigating aerobic anoxygenic phototrophs (AAP) from Lake Winnipeg's bacterial community, over 500 isolates were obtained. Relatives of 20 different species were examined simultaneously, identifying conditions for optimal growth or pigment production to determine features that may unify this group of phototrophs. All were distributed among assorted α-Proteobacterial families including Erythrobacteraceae, Sphingomonadaceae, Sphingosinicellaceae, Acetobacteraceae, Methylobacteriaceae, and Rhodobacteraceae. Major phenotypic characteristics matched phylogenetic association, including pigmentation, morphology, metal transformations, tolerances, lipid configurations, and enzyme activities, which distinctly separated each taxonomic family. While varying pH and temperature had a limited independent impact on pigment production, bacteriochlorophyll synthesis was distinctly promoted under low nutrient conditions, whereas copiotrophy repressed its production but enhanced carotenoid yield. New AAP diversity was also reported by revealing strains related to non-phototrophic Rubellimicrobium and Sphingorhabdus, as well as spread throughout Roseomonas, Sphingomonas, and Methylobacterium/Methylorubrum, which previously only had a few known photosynthetic members. This study exemplified the overwhelming diversity of AAP in a single aquatic environment, confirming cultivation continues to be of importance in microbial ecology to discover functionality in both new and previously reported cohorts of bacteria as specific laboratory conditions were required to promote aerobic bacteriochlorophyll production.
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Affiliation(s)
- Steven B Kuzyk
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Katia Messner
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Jocelyn Plouffe
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Xiao Ma
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Kaitlyn Wiens
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
| | - Vladimir Yurkov
- Department of Microbiology, University of Manitoba, Winnipeg, Manitoba, Canada
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Kuzyk SB, Ma X, Yurkov V. Seasonal Dynamics of Lake Winnipeg’s Microbial Communities Reveal Aerobic Anoxygenic Phototrophic Populations Coincide with Sunlight Availability. Microorganisms 2022; 10:microorganisms10091690. [PMID: 36144291 PMCID: PMC9501198 DOI: 10.3390/microorganisms10091690] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 08/12/2022] [Accepted: 08/19/2022] [Indexed: 11/30/2022] Open
Abstract
In this first comprehensive study of Lake Winnipeg’s microbial communities, limnetic and littoral euphotic zones were examined during each season from 2016 through 2020. Classical cultivation and modern high-throughput sequencing techniques provided quantification and identification of key phototrophic populations, including aerobic anoxygenic phototrophs (AAP). Annual dynamics found total heterotrophs reached 4.23 × 106 CFU/g in littoral sands, and 7.69 × 104 CFU/mL in summer littoral waters on oligotrophic media, higher counts than for copiotrophic compositions. Limnetic numbers inversely dipped to 4.34 × 103 CFU/mL midsummer. Cultured AAP did not follow heterotrophic trends, instead peaking during the spring in both littoral and limnetic waters as 19.1 and 4.7% of total copiotrophs, or 3.9 and 4.9% of oligotrophs, decreasing till autumn each year. Complementary observations came from environmental 16S V4 rRNA gene analysis, as AAP made up 1.49 and 1.02% of the littoral and limnetic sequenced communities in the spring, declining with seasonal progression. Spatial and temporal fluctuations of microbes compared to environmental factors exposed photosynthetic populations to independently and regularly fluctuate in the ecosystem. Oxygenic phototrophic numbers expectantly matched the midsummer peak of Chl a and b, oxygenic photosynthesis related carbon fixation, and water temperature. Independently, AAP particularly colonized spring littoral areas more than limnetic, and directly corresponded to habitat conditions that specifically promoted growth: the requirement of light and organic material.
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Kuzyk SB, Jafri M, Humphrey E, Maltman C, Kyndt JA, Yurkov V. Prosthecate aerobic anoxygenic phototrophs Photocaulis sulfatitolerans gen. nov. sp. nov. and Photocaulis rubescens sp. nov. isolated from alpine meromictic lakes in British Columbia, Canada. Arch Microbiol 2022; 204:444. [PMID: 35776224 DOI: 10.1007/s00203-022-03007-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Revised: 05/17/2022] [Accepted: 05/19/2022] [Indexed: 12/27/2022]
Abstract
Seven Gram-negative flagellated and subsequent prosthecate bacteria were isolated from meromictic Mahoney Lake and Blue Lake in British Columbia, Canada. Each became pink-red after 1-2 weeks of incubation, containing bacteriochlorophyll a incorporated into light harvesting and reaction center pigment-protein complexes. They did not grow anaerobically under illuminated conditions, supporting their identification as obligate aerobic anoxygenic phototrophs (AAP). All isolates preferred high salinity and BL14T tolerated up to 6.5% NaCl or 16.0% Na2SO4. In addition to phenotypic differences, analysis of 16S rRNA gene sequences found both strains BL14T and ML37T were related to Alkalicaulis satelles, G-192T by 98.41 and 98.84%, respectively, and distantly associated to members of the non-phototrophic genus Glycocaulis profundi, ZYF765T (95.59 and 95.36%, respectively) within the newly recognized Maricaulales order of α-Proteobacteria. BL14T and ML37T contained photosynthetic operons of 46,143 and 46,315 bp, where genes of BL14T were uniquely split into two distal operons. Furthermore, A. satelles was not originally published as an AAP, but was also found in this work to contain a similar 45,131 bp fragment. The distinct morphological features, physiological traits and genomic analysis including average nucleotide identity and digital DNA:DNA hybridization of circularized genomes supported the proposal of new genus and species Photocaulis sulfatitolerans gen. nov. sp. nov., type strain BL14T and Photocaulis rubescens sp. nov. type strain ML37T.
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Affiliation(s)
- Steven B Kuzyk
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada
| | - Murtaza Jafri
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada
| | - Elaine Humphrey
- Department of Mechanical Engineering, University of Victoria, Victoria, BC, Canada
| | - Chris Maltman
- Department of Biology, Slippery Rock University, Slippery Rock, PA, USA
| | - John A Kyndt
- College of Science and Technology, Bellevue University, Bellevue, NE, USA
| | - Vladimir Yurkov
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada.
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Gai Y, Yang Y, Liu X, Li G, Wang S, Lai Q, Shao Z. Pseudoroseicyclus tamaricis sp. nov., isolated from seashore sediment of a Tamarix chinensis forest and emended descriptions of the genus Pseudoroseicyclus Park et al. 2016. Int J Syst Evol Microbiol 2021; 71. [PMID: 34323677 DOI: 10.1099/ijsem.0.004908] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An aerobic, Gram-stain-negative, bacterium, designated CLL3-39T was isolated from seashore sediment collected at a Tamarix chinensis forest in the Marine Ecology Special Reserve of Changyi, Shandong Province, PR China. Cells of strain CLL3-39T were olive-shaped and no flagellum was observed. Strain CLL3-39T grew optimally at 33 °C, pH 7.5 and salinity (sea salts) of 40 g l-1. The main fatty acids in the cell membrane of strain CLL3-39T comprised anteiso-C15 : 0 (22.3 %), iso-C15 : 0 (14.0 %), C16 : 0 (9.2 %) and summed feature 8 (contains C18 : 1 ω7c/C18 : 1 ω6c. 26. 7 %). The main polar lipids of CLL3-39T were phosphatidylglycerol, diphosphatidylglycerol and phosphatidylcholine. The respiratory quinone was Q10. The G+C content of the genomic DNA of strain CLL3-39T was 69.6 mol%. The average nucleotide identity between CLL3-39T and Pseudoroseicyclus aestuarii DB-4T was 74.7 % and the in silico DNA-DNA hybridization value was 20.1 %. Phylogenetically, strain CLL3-39T belonged to the genus Pseudoroseicyclus, branching with only one type strain P. aestuarii DB-4T with 96.3 % 16S rRNA gene similarity, followed by Limimaricola cinnabarinus LL-001T (95.2 %). Based on its phenotypic, phylogenetic and chemotaxonomic characteristics, we propose strain CLL3-39T (=MCCC 1A14815T =KCTC 72665T) as a representative of a novel species in the genus Pseudoroseicyclus, for which the name Pseudoroseicyclus tamaricis sp. nov. is proposed.
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Affiliation(s)
- Yingbao Gai
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Yongpeng Yang
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Xiupian Liu
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Guangyu Li
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Shanshan Wang
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Qiliang Lai
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
| | - Zongze Shao
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, State Key Laboratory Breeding Base of Marine Genetic Resources; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen 361005, PR China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, PR China
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Wang YW, Ren WT, Xu YY, Zhang XQ. Muriiphilus fusiformis gen. nov., sp. nov., a novel non-marine bacterium belonging to the Roseobacter group, and reclassification of Maritimibacter lacisalsi (Zhong et al. 2015) as Muriicola lacisalsi gen. nov., comb. nov. Int J Syst Evol Microbiol 2021; 71. [PMID: 34181513 DOI: 10.1099/ijsem.0.004859] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An aerobic, Gram-stain-negative, non-sporulating, flagellated and spindle-like bacterium, designated HY14T, was isolated from a pickle-processing factory wastewater sample. The isolate chemoheterotrophically grew at 4-42 °C (optimum, 35 °C) and pH 5.5-9.0 (optimum, pH 6.0-6.5). Salt was required for growth (0.5-12 % NaCl, w/v). A deep brown and water-soluble uncharacterized pigment was produced when grown in certain media. The predominant fatty acids (>5 %) included C16 : 0, C18 : 1 ω7c, 11-methyl C18 : 1 ω7c and C19 : 0 cyclo ω8c. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, two unidentified aminolipids, two unidentified phospholipids, two unidentified glycolipids and five unknown lipids. The major isoprenoid quinone was ubiquinone-10. Pairwise alignment based on 16S rRNA gene sequences indicated that strain HY14T had the highest sequence similarity to genera Maritimibacter (95.61-96.05 %) and Boseongicola (95.82 %). Phylogenetic analysis based on core genome illustrated that strain HY14T formed a monophyletic lineage with members of the genus Maritimibacter in the clade of the Roseobacter group in the family Rhodobacteraeceae. The core-gene average amino acid identity used to define bacterial genera by a threshold of 60-80 % was calculated to be 68.56-76.5 % between HY14T and closely related taxa. Several genomic characteristics, such as carrying two RuBisCO-mediated pathways and different osmoprotectant transport pathways, exhibited the genotypic discrepancies of strain HY14T. Based on the polyphasic taxonomic characterization, strain HY14T is considered to represent a novel species of a novel genus belonging to the family Rhodobacteraeceae, for which the name Muriiphilus fusiformis gen. nov., sp. nov. is proposed. The type strain is HY14T (=CGMCC 1.15973T=KCTC 52499T). Maritimibacter lacisalsi (Zhong et al. 2015) is considered to diverge from Maritimibacter alkaliphilus at the genus level, and should be reassigned as a novel genus, for which the name Muriicola lacisalsi gen. nov., comb. nov. is proposed.
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Affiliation(s)
- Yu-Wen Wang
- College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, PR China
| | - Wen-Ting Ren
- College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, PR China
| | - Yuan-You Xu
- College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, PR China
| | - Xin-Qi Zhang
- College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, PR China
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Wang G, Xu S, Su H, Chen B, Liang J, Huang W, Wang Y, Yu K. Histidinibacterium lentulum gen. nov., sp. nov., a marine bacterium from the culture broth of marine microalga Picochlorum sp. 122. Int J Syst Evol Microbiol 2019; 69:578-583. [PMID: 30663950 DOI: 10.1099/ijsem.0.003225] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
A Gram-stain-negative, non-spore-forming, aerobic, motile, ovoid or short rod shaped bacterium, designed strain B17T, was isolated from the culture broth of Picochlorum sp. 122. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain B17T forms a stable cluster with Oceanicolagranulosus MCCC 1A10589T (with the highest 16S rRNA gene similarity of 95.8 %) and Roseisalinusantarcticus DSM 11466T in the family Rhodobacteraceae. The only detected respiratory quinone was Q-10. The major cellular fatty acids were C18 : 1 ω7c/ω6c, C17 : 1iso I/anteiso B and C16 : 0. The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, an unidentified phospholipid and two unidentified lipids. The genome G+C content was 69 mol%. Characteristics, such as a long lag phase, being motile with single polar flagellum, no aminolipid content, and little or no C18 : 1ω7c11-methyl and C19 : 0cyclo ω8c content could significantly distinguish strain B17T from its closely related type strains. Therefore strain B17T is suggested to represent a new species in a new genus, for which Histidinibacterium lentulum gen. nov., sp. nov. is proposed. The type strain B17T (=MCCC 1K03225T=KCTC 52553T).
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Affiliation(s)
- Guanghua Wang
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Shuailiang Xu
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Hongfei Su
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Biao Chen
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Jiayuan Liang
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Wen Huang
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Yinghui Wang
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
| | - Kefu Yu
- 3School of Marine Sciences, Guangxi University, Nanning 530004, PR China
- 1Guangxi Key Laboratory on the Study of Coral Reefs in the South China Sea, Nanning 530004, PR China
- 2Coral Reef Research Center of China, Guangxi University, Nanning 530004, PR China
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Tang L, Zhang Z, Zhou C, Cui R, Tian Y, Zhang Y. Roseicyclus marinus sp. nov., isolated from a Synechococcus culture, and emended description of the genus Roseicyclus. Int J Syst Evol Microbiol 2018; 68:1781-1786. [DOI: 10.1099/ijsem.0.002752] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Lili Tang
- Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China
- University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Zenghu Zhang
- Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China
| | - Chao Zhou
- Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China
- University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Rong Cui
- CNOOC China Limited, Zhanjiang Branch, Zhanjiang 524057, PR China
| | - Yu Tian
- CNOOC China Limited, Zhanjiang Branch, Zhanjiang 524057, PR China
| | - Yongyu Zhang
- Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, PR China
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13
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Park S, Jung YT, Yoon JH. Pseudoroseicyclus aestuarii gen. nov., sp. nov., isolated from a tidal flat. Int J Syst Evol Microbiol 2016; 66:2165-2171. [DOI: 10.1099/ijsem.0.001003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Sooyeon Park
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, South Korea
| | - Yong-Taek Jung
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, South Korea
- University of Science and Technology (UST), 113 Gwahak-ro, Yuseong-gu, Daejeon, South Korea
| | - Jung-Hoon Yoon
- Department of Food Science and Biotechnology, Sungkyunkwan University, Jangan-gu, Suwon, South Korea
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14
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Zhong ZP, Liu Y, Wang F, Zhou YG, Liu HC, Liu ZP. Lacimonas salitolerans gen. nov., sp. nov., isolated from surface water of a saline lake. Int J Syst Evol Microbiol 2015; 65:4550-4556. [DOI: 10.1099/ijsem.0.000611] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative bacterium, strain TS-T30T, was isolated from a saline lake (Lake Tuosu) in Qaidam basin, Qinghai province, China, and its taxonomic position was determined by using a polyphasic approach. Cells were non-spore-forming rods, non-motile, 0.8–1.4 μm wide and 1.9–4.0 μm long. Strain TS-T30T was strictly heterotrophic and aerobic. Catalase- and oxidase-positive. Growth was observed in the presence of 0.5–11.0 % (w/v) NaCl (optimum 3.0 %), and at 10–35 °C (optimum 25 °C) and pH 6.5–10.0 (optimum pH 8.5). Strain TS-T30T contained C18 : 1ω7c as the only predominant fatty acid. The major respiratory quinone was Q-10. The DNA G+C content was 62 mol% (T
m). Phylogenetic trees based on 16S rRNA gene sequences showed that strain TS-T30T formed a distinct lineage that was independent of other most closely related genera: Lutimaribacter (95.2–95.9 % 16S rRNA gene sequence similarities), Poseidonocella (95.4 %), Ruegeria (92.8–94.9 %), Marivita (93.6–94.9 %), Seohaeicola (94.7 %), Sediminimonas (94.7 %), Shimia (93.9–94.7 %), Oceanicola (92.6–94.5 %) and Roseicyclus (94.5 %). The major polar lipids were phosphatidylglycerol, one unidentified phospholipid and an unknown aminolipid; phosphatidylcholine was not detected. These data demonstrated that strain TS-T30T represents a novel species of a new genus in the family Rhodobacteraceae, for which the name Lacimonas salitolerans gen. nov., sp. nov. is proposed. The type strain of the type species is TS-T30T ( = CGMCC 1.12477T = NBRC 110969T).
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Affiliation(s)
- Zhi-Ping Zhong
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
- University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Ying Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Fang Wang
- State Key Laboratory of Simulation and Regulation of Water Cycle in River Basin, China Institute of Water Resources and Hydropower Research, Beijing 100089, PR China
| | - Yu-Guang Zhou
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Hong-Can Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Zhi-Pei Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
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Koblížek M, Moulisová V, Muroňová M, Oborník M. Horizontal transfers of two types of puf operons among phototrophic members of the Roseobacter clade. Folia Microbiol (Praha) 2014; 60:37-43. [PMID: 25090942 DOI: 10.1007/s12223-014-0337-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2013] [Accepted: 07/14/2014] [Indexed: 11/30/2022]
Abstract
The Roseobacter clade represents one of the most important bacterial groups in marine environments. While some of its members are heterotrophs, many Roseobacter clade members contain bacterial photosynthetic reaction centers. We investigated the phylogeny of pufL and pufM genes encoding the L and M subunits of reaction centers using available genomic data and our own cultured species. Interestingly, phylogeny of pufL and pufM genes largely deviated from 16S rRNA-based phylogeny. The sequences split into two clearly distinct clades. While most of the studied species contained pufL and pufM sequences related to those found in Roseobacter litoralis, some of the marine species contained sequences related to the freshwater Rhodobacter species. In addition, genomic data documents that Roseobacter-type centers contain cytochrome c subunits (pufC gene product), whereas Rhodobacter-type centers incorporate PufX proteins. This indicates that the two forms of the reaction centers are not only distinct phylogenetically, but also structurally. The large deviation of pufL and pufM phylogeny from 16S phylogeny indicates multiple horizontal transfers of the puf operon among members of the order Rhodobacterales.
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Affiliation(s)
- Michal Koblížek
- Institute of Microbiology CAS, Opatovický mlýn, 379 81, Třeboň, Czech Republic,
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16
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Bilyj M, Lepitzki D, Hughes E, Swiderski J, Stackebrandt E, Pacas C, Yurkov VV. Abundance and Diversity of the Phototrophic Microbial Mat Communities of Sulphur Mountain Banff Springs and Their Significance to the Endangered Snail, <i>Physella johnsoni</i>. ACTA ACUST UNITED AC 2014. [DOI: 10.4236/oje.2014.48041] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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17
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Mao Y, Wei J, Zheng Q, Xiao N, Li Q, Fu Y, Wang Y, Jiao N. Roseibacterium beibuensis sp. nov., a Novel Member of Roseobacter Clade Isolated from Beibu Gulf in the South China Sea. Curr Microbiol 2012; 65:568-74. [DOI: 10.1007/s00284-012-0192-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2012] [Accepted: 06/25/2012] [Indexed: 11/24/2022]
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18
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Klepac-Ceraj V, Hayes CA, Gilhooly WP, Lyons TW, Kolter R, Pearson A. Microbial diversity under extreme euxinia: Mahoney Lake, Canada. GEOBIOLOGY 2012; 10:223-235. [PMID: 22329601 DOI: 10.1111/j.1472-4669.2012.00317.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Mahoney Lake, British Columbia, Canada, is a stratified, 15-m deep saline lake with a euxinic (anoxic, sulfidic) hypolimnion. A dense plate of phototrophic purple sulfur bacteria is found at the chemocline, but to date the rest of the Mahoney Lake microbial ecosystem has been underexamined. In particular, the microbial community that resides in the aphotic hypolimnion and/or in the lake sediments is unknown, and it is unclear whether the sulfate reducers that supply sulfide for phototrophy live only within, or also below, the plate. Here we profiled distributions of 16S rRNA genes using gene clone libraries and PhyloChip microarrays. Both approaches suggest that microbial diversity is greatest in the hypolimnion (8 m) and sediments. Diversity is lowest in the photosynthetic plate (7 m). Shallower depths (5 m, 7 m) are rich in Actinobacteria, Alphaproteobacteria, and Gammaproteobacteria, while deeper depths (8 m, sediments) are rich in Crenarchaeota, Natronoanaerobium, and Verrucomicrobia. The heterogeneous distribution of Deltaproteobacteria and Epsilonproteobacteria between 7 and 8 m is consistent with metabolisms involving sulfur intermediates in the chemocline, but complete sulfate reduction in the hypolimnion. Overall, the results are consistent with the presence of distinct microbial niches and suggest zonation of sulfur cycle processes in this stratified system.
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MESH Headings
- Archaea/classification
- Archaea/isolation & purification
- Bacteria/classification
- Bacteria/isolation & purification
- Biota
- British Columbia
- Cluster Analysis
- DNA, Archaeal/chemistry
- DNA, Archaeal/genetics
- DNA, Bacterial/chemistry
- DNA, Bacterial/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Fresh Water/microbiology
- Genes, rRNA
- Geologic Sediments/microbiology
- Phylogeny
- RNA, Archaeal/genetics
- RNA, Bacterial/genetics
- RNA, Ribosomal, 16S/genetics
- Sequence Analysis, DNA
- Sequence Homology, Nucleic Acid
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Affiliation(s)
- V Klepac-Ceraj
- Department of Molecular Genetics, Forsyth Institute, Cambridge, MA, USA.
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19
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Budinoff CR, Dunlap JR, Hadden M, Buchan A. Marivita roseacus sp. nov., of the family Rhodobacteraceae, isolated from a temperate estuary and an emended description of the genus Marivita. J GEN APPL MICROBIOL 2012; 57:259-67. [PMID: 22139454 DOI: 10.2323/jgam.57.259] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
A gram-negative, non-motile, pigmented, rod-shaped and strictly aerobic bacterium (CB1052(T)) was isolated from a temperate estuary. On the basis of 16S rRNA gene sequence similarity, strain CB1052(T) belongs to the α-3 subclass of the Proteobacteria, within the family Rhodobacteraceae, having the highest similarity to members of the genus Marivita (97.8%) of the Roseobacter lineage. Pylogenetic analysis showed CB1052(T) to be a distinct sister clade to M. litorea and M. cryptomonadis and DNA-DNA relatedness was quite low amongst the strains (< 35%). Strain CB1052(T) cells are non-motile and display a needle-like filamentous form, where individual cells can become quite elongated (up to 15 μm). Similar to M. litorea and M. cryptomonadis, CB1052(T) harbors aerobic anoxygenic photosynthesis genes. However, in contrast to other described Marivita species, strain CB1052(T) actively produces bacteriochlorophyll a. Further physiological features, including antibiotic sensitivities, differentiate strain CB1052(T) from the other members of the genus. Therefore, strain CB1052(T) is considered to represent a novel species of the genus Marivita, for which the name Marivita roseacus sp. nov. is proposed, with the type strain CB1052(T) (=DSM 23118(T) =ATCC BAA 1914(T)).
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Affiliation(s)
- Charles R Budinoff
- Department of Microbiology, University of Tennessee, Knoxville, Tennessee 37996, USA
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20
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Rathgeber C, Alric J, Hughes E, Verméglio A, Yurkov V. The photosynthetic apparatus and photoinduced electron transfer in the aerobic phototrophic bacteria Roseicyclus mahoneyensis and Porphyrobacter meromictius. PHOTOSYNTHESIS RESEARCH 2012; 110:193-203. [PMID: 22228440 DOI: 10.1007/s11120-011-9718-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2011] [Accepted: 12/16/2011] [Indexed: 05/31/2023]
Abstract
Photosynthetic electron transfer has been examined in whole cells, isolated membranes and in partially purified reaction centers (RCs) of Roseicyclus mahoneyensis, strain ML6 and Porphyrobacter meromictius, strain ML31, two species of obligate aerobic anoxygenic phototrophic bacteria. Photochemical activity in strain ML31 was observed aerobically, but the photosynthetic apparatus was not functional under anaerobic conditions. In strain ML6 low levels of photochemistry were measured anaerobically, possibly due to incomplete reduction of the primary electron acceptor (Q(A)) prior to light excitation, however, electron transfer occurred optimally under low oxygen conditions. Photoinduced electron transfer involves a soluble cytochrome c in both strains, and an additional reaction center (RC)-bound cytochrome c in ML6. The redox properties of the primary electron donor (P) and Q(A) of ML31 are similar to those previously determined for other aerobic phototrophs, with midpoint redox potentials of +463 mV and -25 mV, respectively. Strain ML6 showed a very narrow range of ambient redox potentials appropriate for photosynthesis, with midpoint redox potentials of +415 mV for P and +94 mV for Q(A). Cytoplasm soluble and photosynthetic complex bound cytochromes were characterized in terms of apparent molecular mass. Fluorescence excitation spectra revealed that abundant carotenoids not intimately associated with the RC are not involved in photosynthetic energy conservation.
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Affiliation(s)
- Christopher Rathgeber
- Department of Microbiology, The University of Manitoba, 422 Buller Building, Winnipeg, MB, R3T 2N2, Canada
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21
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Chromocurvus halotolerans gen. nov., sp. nov., a gammaproteobacterial obligately aerobic anoxygenic phototroph, isolated from a Canadian hypersaline spring. Arch Microbiol 2011; 193:573-82. [PMID: 21479531 DOI: 10.1007/s00203-011-0698-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2010] [Revised: 03/21/2011] [Accepted: 03/23/2011] [Indexed: 10/18/2022]
Abstract
A strain EG19(T) of aerobic bacteria able to form pleomorphic cells was isolated from a brine spring runoff stream in the west central region of the province of Manitoba, Canada. The pale pinkish purple strain contained bacteriochlorophyll a incorporated into light-harvesting I and reaction center complexes. Its inability to grow under anaerobic illuminated conditions prompted designation as a member of the functional group known as aerobic anoxygenic phototrophic bacteria. Phylogenetic analysis of the 16S rRNA gene sequence revealed that it belonged to the Gammaproteobacteria, forming a distinct branch of phototrophs distantly related to most described aerobic anoxygenic phototrophs, quite marginally related (95.6%) both to the only other described gammaproteobacterial aerobic phototroph, Congregibacter litoralis, and also to nonphototrophs in the genus Haliea (95.1-96.1%). Physiological tests demonstrated tolerance profiles to salinity (0-18% NaCl), pH (7-12), and temperature (7-40°C) consistent with survival in a shallow hypersaline stream on the exposed, vegetation-depleted salt playa of its native East German Creek. Phylogenetic data and phenotypic properties such as pigment composition, morphology, and physiology support the proposal of the novel genus and species Chromocurvus halotolerans gen. nov., sp. nov., with EG19(T) (=DSM 23344(T), =VKM B-2659(T)) as the type strain.
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Csotonyi JT, Stackebrandt E, Swiderski J, Schumann P, Yurkov V. An alphaproteobacterium capable of both aerobic and anaerobic anoxygenic photosynthesis but incapable of photoautotrophy: Charonomicrobium ambiphototrophicum, gen. nov., sp. nov. PHOTOSYNTHESIS RESEARCH 2011; 107:257-268. [PMID: 21308412 DOI: 10.1007/s11120-011-9629-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2010] [Accepted: 01/20/2011] [Indexed: 05/30/2023]
Abstract
A facultatively aerobic deep brown coccoid to ovoid bacterium, strain EG17(T), was isolated from a saline effluent stream in the NaCl-dominated brine spring system known as East German Creek in the province of Manitoba, Canada. The strain produced BChl a incorporated into a functional reaction center and two light-harvesting complexes with absorption peaks at 802, 850, and 879 nm. EG17(T) is the first reported anoxygenic phototroph capable of photoheterotrophic growth under both oxic and anoxic conditions. It yielded proportionally the greatest aerobic photosynthetic biomass under oligotrophic conditions. The results of 16S rRNA gene sequence comparisons revealed that EG17(T) was related most closely to the aerobic anoxygenic phototrophs Roseibacterium elongatum (98.3%) and quite distantly to both Dinoroseobacter shibae (95.2%) and Roseicyclus mahoneyensis (94.7%). The DNA G + C content was 65.6 mol%. On the basis of the unique dual aerobic/anaerobic photosynthetic capability, the distinctive spectrophotometric absorption of the photosynthetic apparatus, diagnostic physiological and biochemical traits, and the moderate phylogenetic separation between EG17(T) and its nearest relatives, it is concluded that this microorganism should be classified as a novel genus and species, Charonomicrobium ambiphototrophicum gen. nov., sp. nov., with EG17(T) as the type strain.
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Affiliation(s)
- J T Csotonyi
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada
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Csotonyi JT, Swiderski J, Stackebrandt E, Yurkov V. A new extreme environment for aerobic anoxygenic phototrophs: biological soil crusts. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2010; 675:3-14. [PMID: 20532732 DOI: 10.1007/978-1-4419-1528-3_1] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Biological soil crusts improve the health of arid or semiarid soils by enhancing water content, nutrient relations and mechanical stability, facilitated largely by phototrophic microorganisms. Until recently, only oxygenic phototrophs were known from soil crusts. A recent study has demonstrated the presence of aerobic representatives of Earth's second major photosynthetic clade, the evolutionarily basal anoxygenic phototrophs. Three Canadian soil crust communities yielded pink and orange aerobic anoxygenic phototrophic strains possessing the light-harvesting pigment bacteriochlorophyll a. At relative abundances of 0.1-5.9% of the cultivable bacterial community, they were comparable in density to aerobic phototrophs in other documented habitats. 16S rDNA sequence analysis revealed the isolates to be related to Methylobacterium, Belnapia, Muricoccus and Sphingomonas. This result adds a new type of harsh habitat, dry soil environments, to the environments known to support aerobic anoxygenic phototrophs.
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Affiliation(s)
- Julius T Csotonyi
- Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada.
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Rathgeber C, Lince MT, Alric J, Lang AS, Humphrey E, Blankenship RE, Verméglio A, Plumley FG, Van Dover CL, Beatty JT, Yurkov V. Vertical distribution and characterization of aerobic phototrophic bacteria at the Juan de Fuca Ridge in the Pacific Ocean. PHOTOSYNTHESIS RESEARCH 2008; 97:235-244. [PMID: 18679821 DOI: 10.1007/s11120-008-9332-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2008] [Accepted: 07/09/2008] [Indexed: 05/26/2023]
Abstract
The vertical distribution of culturable anoxygenic phototrophic bacteria was investigated at five sites at or near the Juan de Fuca Ridge in the Pacific Ocean. Twelve similar strains of obligately aerobic phototrophic bacteria were isolated in pure culture, from depths ranging from 500 to 2,379 m below the surface. These strains appear morphologically, physiologically, biochemically, and phylogenetically similar to Citromicrobium bathyomarinum strain JF-1, a bacterium previously isolated from hydrothermal vent plume waters. Only one aerobic phototrophic strain was isolated from surface waters. This strain is morphologically and physiologically distinct from the strains isolated at deeper sampling locations, and phylogenetic analysis indicates that it is most closely related to the genus Erythrobacter. Phototrophs were cultivated from three water casts taken above vents but not from two casts taken away from active vent sites. No culturable anaerobic anoxygenic phototrophs were detected. The photosynthetic apparatus was investigated in strain JF-1 and contains light-harvesting I and reaction center complexes, which are functional under aerobic conditions.
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Affiliation(s)
- Christopher Rathgeber
- Department of Microbiology, The University of Manitoba, 422 Buller Building, Winnipeg, MB, Canada, R3T 2N2
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Ying JY, Wang BJ, Dai X, Yang SS, Liu SJ, Liu ZP. Wenxinia marina gen. nov., sp. nov., a novel member of the Roseobacter clade isolated from oilfield sediments of the South China Sea. Int J Syst Evol Microbiol 2007; 57:1711-1716. [PMID: 17684242 DOI: 10.1099/ijs.0.64825-0] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An aerobic and heterotrophic, Gram-negative bacterial isolate, strain HY34T, was isolated from sediment of an oilfield in the South China Sea, China. The taxonomy of strain HY34T was studied by phenotypic and phylogenetic methods. Strain HY34T formed faint-pink colonies on marine agar 2216. Cells of strain HY34T were non-motile, ovoid or short rods. Strain HY34T was positive for catalase and oxidase, and nitrate was reduced to nitrite. The nearly complete 16S rRNA gene sequence of strain HY34T was obtained and sequence analysis showed that it, together with the genus Rubellimicrobium, formed a distinct clade close to some members of the Roseobacter clade in the family Rhodobacteraceae, and it showed highest sequence similarities to Oceanicola granulosus HTCC2516T (93.8 %), Silicibacter lacuscaerulensis ITI-1157T (93.3 %), Dinoroseobacter shibae DFL 12T (93.3 %) and Rubellimicrobium thermophilum C-lvk-R2A-2T (92.2 %). Bacteriochlorophyll a was not detected. The ubiquinone system was Q-10. The major polar lipids were phosphatidylglycerol, phosphatidylcholine and an unidentified glycolipid. The major fatty acids (>10 %) were C18 : 1
ω7c and C16 : 0. The DNA G+C content of this strain was 69.4 mol%. A polyphasic analysis supported the conclusion that this strain represents a novel genus and species, which we designated Wenxinia marina gen. nov., sp. nov. The type strain of Wenxinia marina is HY34T (=CGMCC 1.6105T =JCM 14017T).
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Affiliation(s)
- Jiao-Yan Ying
- College of Biological Sciences, China Agricultural University, Beijing 100094, PR China
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Bao-Jun Wang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Xin Dai
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Su-Sheng Yang
- College of Biological Sciences, China Agricultural University, Beijing 100094, PR China
| | - Shuang-Jiang Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Zhi-Pei Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
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Rathgeber C, Yurkova N, Stackebrandt E, Schumann P, Humphrey E, Beatty JT, Yurkov V. Porphyrobacter meromictius sp. nov., an appendaged bacterium, that produces Bacteriochlorophyll a. Curr Microbiol 2007; 55:356-61. [PMID: 17882507 DOI: 10.1007/s00284-007-0275-y] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2007] [Accepted: 05/04/2007] [Indexed: 11/28/2022]
Abstract
Four Gram-negative strains (ML4(T), ML19, ML31, ML32) of nonmotile, appendaged, budding bacteria were isolated from the meromictic Mahoney Lake in British Columbia, Canada. The strains were red to brown-red in color and produced bacteriochlorophyll a incorporated into photosynthetic pigment-protein complexes. Phylogenetic analysis has placed these strains within the class Alphaproteobacteria, with the closest relatives being members of the genera Erythrobacter, Porphyrobacter, and Erythromicrobium. Morphological features warrant their inclusion within the genus Porphyrobacter and these strains can be readily distinguished from other species of this genus on the basis of a mesophilic temperature range, a broad pH range, and tolerance to extremely high NaCl and Na(2)SO(4) concentrations, in keeping with the environment from which they were isolated, a Na(2)SO(4)-dominated meromictic lake. These isolates utilize a variety of organic substrates for aerobic chemoheterotrophic growth and do not grow under anaerobic conditions, in either the presence or the absence of light. All strains require vitamin B(12), and strains ML4(T) and ML19 require biotin. The DNA G + C contents ranged from 62.2 to 64.9 mol%. Phenotypic and phyletic data support the classification of strains ML4(T), ML19, ML31, and ML32 as a novel Porphyrobacter species for which the name Porphyrobacter meromictius sp. nov. is proposed.
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Affiliation(s)
- Christopher Rathgeber
- Department of Microbiology, The University of Manitoba, 422 Buller Building, R3T 2N2, Winnipeg, MB, Canada
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Lunina ON, Bryantseva IA, Akimov VN, Rusanov II, Rogozin DY, Barinova ES, Lysenko AM, Pimenov NV. Seasonal changes in the structure of the anoxygenic photosynthetic bacterial community in Lake Shunet, Khakassia. Microbiology (Reading) 2007. [DOI: 10.1134/s0026261707030149] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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29
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Eiler A. Evidence for the ubiquity of mixotrophic bacteria in the upper ocean: implications and consequences. Appl Environ Microbiol 2006; 72:7431-7. [PMID: 17028233 PMCID: PMC1694265 DOI: 10.1128/aem.01559-06] [Citation(s) in RCA: 68] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Affiliation(s)
- Alexander Eiler
- Limnology/Department of Ecology and Evolution, Evolutionary Biology Centre, Uppsala, Sweden.
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