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Rakitin AL, Begmatov S, Beletsky AV, Philippov DA, Kadnikov VV, Mardanov AV, Dedysh SN, Ravin NV. Highly Distinct Microbial Communities in Elevated Strings and Submerged Flarks in the Boreal Aapa-Type Mire. Microorganisms 2022; 10:microorganisms10010170. [PMID: 35056619 PMCID: PMC8778904 DOI: 10.3390/microorganisms10010170] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Revised: 01/11/2022] [Accepted: 01/12/2022] [Indexed: 02/04/2023] Open
Abstract
Large areas in the northern hemisphere are covered by extensive wetlands, which represent a complex mosaic of raised bogs, eutrophic fens, and aapa mires all in proximity to each other. Aapa mires differ from other types of wetlands by their concave surface, heavily watered by the central part, as well as by the presence of large-patterned string-flark complexes. In this paper, we characterized microbial diversity patterns in the surface peat layers of the neighboring string and flark structures located within the mire site in the Vologda region of European North Russia, using 16S rRNA gene sequencing. The microbial communities in raised strings were clearly distinct from those in submerged flarks. Strings were dominated by the Alpha- and Gammaproteobacteria. Other abundant groups were the Acidobacteriota, Bacteroidota, Verrucomicrobiota, Actinobacteriota, and Planctomycetota. Archaea accounted for only 0.4% of 16S rRNA gene sequences retrieved from strings. By contrast, they comprised about 22% of all sequences in submerged flarks and mostly belonged to methanogenic lineages. Methanotrophs were nearly absent. Other flark-specific microorganisms included the phyla Chloroflexi, Spirochaetota, Desulfobacterota, Beijerinckiaceae- and Rhodomicrobiaceae-affiliated Alphaproteobacteria, and uncultivated groups env.OPS_17 and vadinHA17 of the Bacteroidota. Such pattern probably reflects local anaerobic conditions in the submerged peat layers in flarks.
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Affiliation(s)
- Andrey L. Rakitin
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
| | - Shahjahon Begmatov
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
| | - Alexey V. Beletsky
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
| | - Dmitriy A. Philippov
- Papanin Institute for Biology of Inland Waters, Russian Academy of Sciences, 152742 Borok, Russia;
| | - Vitaly V. Kadnikov
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
| | - Andrey V. Mardanov
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
| | - Svetlana N. Dedysh
- Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia;
| | - Nikolai V. Ravin
- Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, 119071 Moscow, Russia; (A.L.R.); (S.B.); (A.V.B.); (V.V.K.); (A.V.M.)
- Correspondence: or
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Yue H, Zhao C, Yang S, Jia Y. Effects of glycine on cell growth and pigment biosynthesis in Rhodobacter azotoformans. J Basic Microbiol 2020; 61:63-73. [PMID: 33226142 DOI: 10.1002/jobm.202000503] [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] [Received: 08/14/2020] [Revised: 10/09/2020] [Accepted: 10/24/2020] [Indexed: 11/07/2022]
Abstract
The effect of exogenous glycine (a precursor for the biosynthesis of bacteriochlorophyll) on the cell growth and photopigment accumulation was investigated in phototrophic growing Rhodobacter azotoformans 134K20. The growth rate and the biomass of strain 134K20 were significantly inhibited by glycine addition when ammonium sulfate or glutamate were used as nitrogen sources and acetate or succinate as carbon sources. A characteristic absorption maximum at approximately 423 nm was present in the absorption spectra of glutamate cultures while it was absent by the addition of high-concentration glycine of 15 mM. The component account for the 423 nm peak was eventually identified as magnesium protoporphyrin IX monomethyl ester, a precursor of bacteriochlorophyll a (BChl a). Comparative analysis of pigment composition revealed that the amount of BChl a precursors was significantly decreased by the addition of 15-mM glycine while the BChl a accumulation was increased. Moreover, glycine changed the carotenoid compositions and stimulated the accumulation of spheroidene. The A850 /A875 in the growth-inhibited cultures was increased, indicating an increased level of the light-harvesting complex 2 compared to the reaction center. The exogenous glycine possibly played an important regulation role in photosynthesis of purple bacteria.
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Affiliation(s)
- Huiying Yue
- College of Basic Medical Sciences, Shanxi University of Chinese Medicine, Taiyuan, China
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, China
| | - Chungui Zhao
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, China
| | - Suping Yang
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, China
| | - Yaqiong Jia
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, China
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Madigan MT, Kempher ML, Bender KS, Jung DO, Sattley WM, Lindemann SR, Konopka AE, Dohnalkova AC, Fredrickson JK. A green sulfur bacterium from epsomitic Hot Lake, Washington, USA. Can J Microbiol 2020; 67:332-341. [PMID: 33136441 DOI: 10.1139/cjm-2020-0462] [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] [Indexed: 11/22/2022]
Abstract
Hot Lake is a small heliothermal and hypersaline lake in far north-central Washington State (USA) and is limnologically unusual because MgSO4 rather than NaCl is the dominant salt. In late summer, the Hot Lake metalimnion becomes distinctly green from blooms of planktonic phototrophs. In a study undertaken over 60 years ago, these blooms were predicted to include green sulfur bacteria, but no cultures were obtained. We sampled Hot Lake and established enrichment cultures for phototrophic sulfur bacteria in MgSO4-rich sulfidic media. Most enrichments turned green or red within 2 weeks, and from green-colored enrichments, pure cultures of a lobed green sulfur bacterium (phylum Chlorobi) were isolated. Phylogenetic analyses showed the organism to be a species of the prosthecate green sulfur bacterium Prosthecochloris. Cultures of this Hot Lake phototroph were halophilic and tolerated high levels of sulfide and MgSO4. In addition, unlike all recognized species of Prosthecochloris, the Hot Lake isolates grew at temperatures up to 45 °C, indicating an adaptation to the warm summer temperatures of the lake. Photoautotrophy by Hot Lake green sulfur bacteria may contribute dissolved organic matter to anoxic zones of the lake, and their diazotrophic capacity may provide a key source of bioavailable nitrogen, as well.
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Affiliation(s)
- Michael T Madigan
- Department of Microbiology, Southern Illinois University, Carbondale, IL 62901, USA
| | - Megan L Kempher
- Department of Microbiology and Plant Sciences, University of Oklahoma, Norman, OK 73019, USA
| | - Kelly S Bender
- Department of Microbiology, Southern Illinois University, Carbondale, IL 62901, USA
| | - Deborah O Jung
- Department of Microbiology, Southern Illinois University, Carbondale, IL 62901, USA
| | - W Matthew Sattley
- Division of Natural Sciences, Indiana Wesleyan University, Marion, IN 46953, USA
| | - Stephen R Lindemann
- Department of Food Science, Purdue University, West Lafayette, IN 47907, USA
| | - Allan E Konopka
- Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA
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Genome Sequence of the Alphaproteobacterium Blastochloris sulfoviridis DSM 729, Which Requires Reduced Sulfur as a Growth Supplement and Contains Bacteriochlorophyll b. Microbiol Resour Announc 2020; 9:9/18/e00313-20. [PMID: 32354981 PMCID: PMC7193936 DOI: 10.1128/mra.00313-20] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The genome sequence of Blastochloris sulfoviridis is 3.85 Mb with a GC content of 68%. Its nearest relative is B. tepida (average nucleotide identity [ANI], 91.5%), followed by B. viridis (ANI, 83%). According to ANI and whole-genome-based phylogenetic analysis, the nearest relatives of Blastochloris are Rhodoplanes and Rhodopseudomonas, confirming the recognition of distinct genera.
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Blastochloris tepida, sp. nov., a thermophilic species of the bacteriochlorophyll b-containing genus Blastochloris. Arch Microbiol 2019; 201:1351-1359. [PMID: 31317227 DOI: 10.1007/s00203-019-01701-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2019] [Revised: 07/01/2019] [Accepted: 07/03/2019] [Indexed: 10/26/2022]
Abstract
A new taxon is created for the thermophilic purple nonsulfur bacterium previously designated as Rhodopseudomonas strain GI. Strain GI was isolated from a New Mexico (USA) hot spring microbial mat and grows optimally above 40 °C and to a maximum of 47 °C. Strain GI is a bacteriochlorophyll b-containing species of purple nonsulfur bacteria and displays a budding morphology, typical of species of the genus Blastochloris. Although resembling the species Blc. viridis in many respects, the absorption spectrum, carotenoid content, and lipid fatty acid profile of strain GI is distinct from that of Blc. viridis strain DSM133T and other recognized Blastochloris species. Strain GI forms its own subclade within the Blastochloris clade of purple nonsulfur bacteria based on comparative 16S rRNA gene sequences, and its genome is significantly larger than that of strain DSM133T; average nucleotide identity between the genomes of Blc. viridis and strain GI was below 85%. Moreover, concatenated sequence analyses of PufLM and DnaK clearly showed strain GI to be distinct from both Blc. viridis and Blc. sulfoviridis. Because of its unique assortment of properties, it is proposed to classify strain GI as a new species of the genus Blastochloris, as Blc. tepida, sp.n., with strain GIT designated as the type strain (= ATCC TSD-138 = DSM 106918).
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Yue H, Zhao C, Li K, Yang S. Absorption spectral change of peripheral-light harvesting complexes 2 induced by magnesium protoporphyrin IX monomethyl ester association. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 137:1153-1157. [PMID: 25305606 DOI: 10.1016/j.saa.2014.08.132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2014] [Revised: 08/15/2014] [Accepted: 08/31/2014] [Indexed: 06/04/2023]
Abstract
Several spectrally different types of peripheral light harvesting complexes (LH) have been reported in anoxygenic phototrophic bacteria in response to environmental changes. In this study, two spectral forms of LH2 (T-LH2 and U-LH2) were isolated from Rhodobacter azotoformans. The absorption of T-LH2 was extremely similar to the LH2 isolated from Rhodobacter sphaeroides. U-LH2 showed an extra peak at ∼423 nm in the carotenoid region. To explore the spectral origin of this absorption peak, the difference in pigment compositions of two LH2 was analyzed. Spheroidene and bacteriochlorophyll aP were both contained in the two LH2. And magnesium protoporphyrin IX monomethyl ester (MPE) was only contained in U-LH2. It is known that spheroidene and bacteriochlorophyll aP do not produce ∼423 nm absorption peak either in vivo or in vitro. Whether MPE accumulation was mainly responsible for the formation of the ∼423 nm peak? The interactions between MPE and different proteins were further studied. The results showed that the maximum absorption of MPE was red-shifted from ∼415 nm to ∼423 nm when it was mixed with T-LH2 and its apoproteins, nevertheless, the Qy transitions of the bound bacteriochlorophylls in LH2 were almost unaffected, which indicated that the formation of the ∼423 nm peak was related to MPE-LH2 protein interaction. MPE did not bind to sites involved in the spectral tuning of BChls, but the conformation of integral LH2 was affected by MPE association, the alkaline stability of U-LH2 was lower than T-LH2, and the fluorescence intensity at 860 nm was decreased after MPE combination.
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Affiliation(s)
- Huiying Yue
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China.
| | - Chungui Zhao
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China.
| | - Kai Li
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China.
| | - Suping Yang
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China.
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Zhao C, Yue H, Cheng Q, Chen S, Yang S. What Caused the Formation of the Absorption Maximum at 421 nmin vivoSpectra ofRhodopseudomonas palustris. Photochem Photobiol 2014; 90:1287-92. [DOI: 10.1111/php.12334] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2014] [Accepted: 08/18/2014] [Indexed: 11/28/2022]
Affiliation(s)
- Chungui Zhao
- Department of Bioengineering and Biotechnology; Huaqiao University; Xiamen China
| | - Huiying Yue
- Department of Bioengineering and Biotechnology; Huaqiao University; Xiamen China
| | - Qianru Cheng
- Department of Bioengineering and Biotechnology; Huaqiao University; Xiamen China
| | - Shicheng Chen
- Department of Microbiology and Molecular Genetics; Michigan State University; East Lansing MI
| | - Suping Yang
- Department of Bioengineering and Biotechnology; Huaqiao University; Xiamen China
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