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Girão M, Lequint Z, Rego A, Costa I, Proença DN, Morais PV, Carvalho MF. Nocardiopsis codii sp. nov., and Rhodococcus chondri sp. nov., two novel actinomycetal species isolated from macroalgae collected in the northern Portuguese coast. Int J Syst Evol Microbiol 2024; 74. [PMID: 39255017 DOI: 10.1099/ijsem.0.006483] [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: 09/11/2024] Open
Abstract
Two novel actinomycetal strains, designated CC-R113T and CC-R104T, were isolated from the tissues of two macroalgae collected on the northern Portuguese coast. Phylogenetic analyses based on the 16S rRNA gene showed that strain CT-R113T belongs to the genus Nocardiopsis, being closely related to Nocardiopsis umidischolae 66/93T and Nocardiopsis tropica VKM Ac-1457T, with 98.65 and 98.39 % sequence similarity, respectively. The clade formed between the three type strains was confirmed by phylogenomic analysis. The genome of strain CT-R113T was 7.27 Mb in size with a G+C content of 71.3 mol %, with average nucleotide identity (ANI) values of 89.59 and 90.14 % with strains 66/93T and VKM Ac-1457T, respectively. The major cellular fatty acids were identified as C18 : 1 ω9c, iso-C16 : 0 and anteiso-C17 : 0. Menaquinone 10 (MK-10) was the major respiratory quinone. Comparative analysis of 16S rRNA gene sequences showed that strain CC-R104T belongs to the genus Rhodococcus and is most closely related to Rhodococcus pyridinivorans DSM 44555T, with 98.24 % sequence similarity. However, phylogenomic analysis revealed that strain CC-R104T establishes a clade with Rhodococcus artemisae DSM 45380T, being more distant from Rhodococcus pyridinivorans DSM 44555T. The genome of strain CC-R104T was 5.34 Mb in size with a G+C content of 67.01 mol%. The ANI value between strains CC-R104T and DSM 45380T was 81.2 % and between strains CC-R104T and DSM 44555T was 81.5 %. The major cellular fatty acids were identified as C18 : 1 ω9c, C16 : 0 and summed feature 3. Menaquinone 8 (MK-8) was the only respiratory quinone. For both CC-R113T and CC-R104T, optimum growth was observed at pH 7.0, 28 °C and 0-5 % NaCl and whole-cell hydrolysates contained meso-diaminopimelic acid as the cell-wall diamino acid. On the basis of phenotypic, molecular and chemotaxonomic characteristics, strains CT-R113T and CC-R104T are considered to represent novel species, for which the names Nocardiopsis codii sp. nov. (type strain CT-R113T=LMG33234T=UCCCB172T) and Rhodococcus chondri sp. nov. (type strain CC-R104T=LMG33233T=UCCCB171T) are proposed.
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Affiliation(s)
- Mariana Girão
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
- ICBAS - School of Medicine and Biomedical Sciences, University of Porto, Porto, Portugal
| | - Zoé Lequint
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
- Polytech Clermont, University Clermont Auvergne, Clermont-Ferrand, France
| | - Adriana Rego
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
| | - Isabel Costa
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
| | - Diogo Neves Proença
- Department of Life Sciences, University of Coimbra, CEMMPRE, ARISE, Coimbra, Portugal
| | - Paula V Morais
- Department of Life Sciences, University of Coimbra, CEMMPRE, ARISE, Coimbra, Portugal
| | - Maria F Carvalho
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
- ICBAS - School of Medicine and Biomedical Sciences, University of Porto, Porto, Portugal
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Yao B, Niu G, Wang Z, Mu H, Ren X, Jiao Y, Cai C, Li J. Kaistella polysaccharea sp. nov., isolated from Antarctic intertidal sediment produces a novel extracellular polymeric substance. Int J Syst Evol Microbiol 2023; 73. [PMID: 37725075 DOI: 10.1099/ijsem.0.006037] [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: 09/21/2023] Open
Abstract
An exopolysaccharide-producing bacterial strain GW4-15T, belonging to the genus Kaistella, was isolated from intertidal sediment from King George Island, Antarctic. The strain was Gram-stain-negative, aerobic, rod-shaped, non-motile and yellow-pigmented. The strain was able to grow in the presence of 0-2 % (w/v) NaCl (optimum, 0 %), at 4-30 °C (optimum, 20-28 °C) and at pH 5.0-10.0 (optimum, pH 8.0). A phylogenetic tree based on 16S rRNA gene sequences showed that strain GW4-15T formed a lineage within the genus Kaistella with the closest phylogenetic neighbours Kaistella carnis NCTC 13525T (98.3 %), Kaistella gelatinilytica G5-32T (97.7 %), Kaistella antarctica LMG 24720T (97.4 %) and Kaistella yonginensis HMD1043T (96.9 %). Digital DNA-DNA hybridization values of strain GW4-15T with K. carnis NCTC 13525T, K. antarctica LMG 24720T, K. gelatinilytica G5-32T and K. yonginensis HMD1043T were 22.8, 22.0, 21.7 and 21.6 %, respectively. The average nucleotide identity values between strain GW4-15T and K. carnis NCTC 13525T , K. antarctica LMG 24720T, K. gelatinilytica G5-32T and K. yonginensis HMD1043T were 79.3, 78.6, 77.5 and 77.2 %, respectively. The G+C content of the genome was 36.2 mol%. The major phospholipids were phosphatidylethanolamine and aminophospholipid. The predominant menaquinone was MK-6. The major fatty acids were anteiso-C15 : 0 (28.7 %), iso-C16 : 0 3-OH (15.7 %), iso-C16 : 0 H (10.0 %), iso-C16 : 0 (5.4 %), summed feature 9 (comprising iso-C17 : 1 ω9c and/or 10-methyl C16 : 0; 5.2 %) and iso-C15 : 0 (5.1 %). The monosaccharide composition of the new type of extracellular polymeric of GW4-15T was Glc, GalN, GlcN, Rha, Man and Gal with a molar ratio of 3.14 : 3.83 : 8.38 : 5.16 : 1 : 2.82. Based on phenotypic, phylogenetic and genotypic data, a novel species, Kaistella polysaccharea sp. nov., is proposed with the type strain GW4-15T (=CGMCC 1.19368T=KCTC 92753T).
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Affiliation(s)
- Boqing Yao
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Guojiang Niu
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Zhe Wang
- Key Laboratory of Marine Drugs, Ministry of Education, School of Medicine and Pharmacy, Shandong Provincial Key Laboratory of Glycoscience and Glycotechnology, Ocean University of China, Qingdao, 266003, PR China
| | - Hongmei Mu
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Xingtao Ren
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Yabin Jiao
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Chao Cai
- Key Laboratory of Marine Drugs, Ministry of Education, School of Medicine and Pharmacy, Shandong Provincial Key Laboratory of Glycoscience and Glycotechnology, Ocean University of China, Qingdao, 266003, PR China
| | - Jing Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
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Nazari MT, Machado BS, Marchezi G, Crestani L, Ferrari V, Colla LM, Piccin JS. Use of soil actinomycetes for pharmaceutical, food, agricultural, and environmental purposes. 3 Biotech 2022; 12:232. [PMID: 35996673 PMCID: PMC9391553 DOI: 10.1007/s13205-022-03307-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2022] [Accepted: 08/10/2022] [Indexed: 11/25/2022] Open
Abstract
In this article, we reviewed the international scientific production of the last years on actinomycetes isolated from soil aiming to report recent advances in using these microorganisms for different applications. The most promising genera, isolation conditions and procedures, pH, temperature, and NaCl tolerance of these bacteria were reported. Based on the content analysis of the articles, most studies have focused on the isolation and taxonomic description of new species of actinomycetes. Regarding the applications, the antimicrobial potential (antibacterial and antifungal) prevailed among the articles, followed by the production of enzymes (cellulases and chitinases, etc.), agricultural uses (plant growth promotion and phytopathogen control), bioremediation (organic and inorganic contaminants), among others. Furthermore, a wide range of growth capacity was verified, including temperatures from 4 to 60 °C (optimum: 28 °C), pH from 3 to 13 (optimum: 7), and NaCl tolerance up to 32% (optimum: 0-1%), which evidence a great tolerance for actinomycetes cultivation. Streptomyces was the genus with the highest incidence among the soil actinomycetes and the most exploited for different uses. Besides, the interest in isolating actinomycetes from soils in extreme environments (Antarctica and deserts, for example) is growing to explore the adaptive capacities of new strains and the secondary metabolites produced by these microorganisms for different industrial interests, especially for pharmaceutical, food, agricultural, and environmental purposes.
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Affiliation(s)
- Mateus Torres Nazari
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo, Campus I, L1 Building. BR 285, Bairro São José, Passo Fundo, RS CEP: 99052-900 - Zip Code 611 Brazil
| | - Bruna Strieder Machado
- Faculty of Engineering and Architecture, University of Passo Fundo, BR 285, Passo Fundo, RS Brazil
| | - Giovana Marchezi
- Faculty of Engineering and Architecture, University of Passo Fundo, BR 285, Passo Fundo, RS Brazil
| | - Larissa Crestani
- Graduate Program Chemical Engineering (PPGEQ), Federal University of Santa Maria (UFSM), Santa Maria, RS Brazil
| | - Valdecir Ferrari
- Graduate Program in Mining, Metallurgical and Materials Engineering (PPGE3M), Federal University of Rio Grande Do Sul (UFRGS), Porto Alegre, RS Brazil
| | - Luciane Maria Colla
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo, Campus I, L1 Building. BR 285, Bairro São José, Passo Fundo, RS CEP: 99052-900 - Zip Code 611 Brazil
| | - Jeferson Steffanello Piccin
- Graduate Program in Civil and Environmental Engineering, University of Passo Fundo, Campus I, L1 Building. BR 285, Bairro São José, Passo Fundo, RS CEP: 99052-900 - Zip Code 611 Brazil
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Ren X, Jiang P, Liu Z, Liang Y, Li J. Kaistella gelatinilytica sp. nov., a flavobacterium isolated from Antarctic soil. Int J Syst Evol Microbiol 2021; 71. [PMID: 33724914 DOI: 10.1099/ijsem.0.004753] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, non-spore-forming, rod-shaped, non-motile, yellow-pigmented bacteria, designated strain G5-32T, belonging to the genus Kaistella was isolated from soil collected in the Antarctic. The strain was identified using a polyphasic taxonomic approach. The strain grew in the presence of 0-5% (w/v) NaCl (optimum, 1%), at pH 6.0-9.0 (optimum, pH 8.0) and at 4-28 °C (optimum, 20 °C). The predominant menaquinone was MK-6 (99.4%). The major fatty acids were anteiso-C15:0 (28.2%), iso-C15:0 (16.4%), summed feature 9 (comprising iso-C17:1 ω9c and/or 10-methyl C16:0; 10.6%) and iso-C16:0 (5.9%). A phylogenetic tree based on 16S rRNA gene sequences showed that strain G5-32T formed a lineage within the genus Kaistella with the closest phylogenetic neighbours Kaistella yonginensis HMD1043T, Kaistella chaponensis DSM 23145T, Kaistella jeonii DSM 17048T and Kaistella carnis NCTC 13525T (97.9, 97.8, 97.8 and 98.0 % 16S rRNA gene sequence similarity, respectively). The ANI values between strain G5-32T and K. jeonii DSM 17048T, K. chaponensis DSM 23145T, K. carnis NCTC 13525T and K. yonginensis HMD1043T were 90.9, 82.6, 77.1 and 76.3%. Concurrently, digital DNA-DNA hybridization values of strain G5-32T assessed against K. jeonii DSM 17048T, K. chaponensis DSM 23145T, K. carnis NCTC 13525T and K. yonginensis HMD1043T were 42.3, 25.9, 21.7 and 21.3%, respectively. Based on phenotypic, phylogenetic and genotypic data, a novel species, Kaistella gelatinilytica sp. nov., is proposed. The type strain is G5-32T (=CCTCC AA 2019083T=KCTC 72766T).
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Affiliation(s)
- Xingtao Ren
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Peiqiang Jiang
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Zuoyang Liu
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Yuzi Liang
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
| | - Jing Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, PR China
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Chen Z, Guan Y, Wang J, Li J. Agromyces binzhouensis sp. nov., an actinobacterium isolated from a coastal wetland of the Yellow River Delta. Int J Syst Evol Microbiol 2016; 66:2278-2283. [PMID: 26977901 DOI: 10.1099/ijsem.0.001022] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-positive, heterotrophic, non-spore-forming, rod-shaped strain, designated OAct353T, belonging to the genus Agromyces was isolated from a soil sample collected from a coastal wetland of the Yellow River delta, PR China. The strain was identified using a polyphasic taxonomic approach. The strain grew in the presence of 0-10 % (w/v) NaCl (optimum 2-3 %), at pH 5.0-8.0 (optimum pH 7.0) and 12-36 °C (optimum 28 °C). The isolate contained 2,4-diaminobutyric acid, glutamic acid and glycine in its peptidoglycan. The acyl type of the cell-wall muramic acid was N-acetyl. The whole-cell sugars of this novel strain were glucose, xylose and rhamnose. The predominant menaquinones were MK-12 (74 %) and MK-11 (21 %). The major phospholipids were phosphatidylglycerol, one unknown phospholipid, three unknown glycolipids and three unknown polar lipids. The major fatty acids were iso-C16:0, anteiso-C15:0 and anteiso-C17:0. The DNA G+C content was 69.6 mol %. DNA-DNA relatedness clearly separated strain OAct353T from its closest relatives. On the basis of phenotypic, phylogenetic and chemotaxonomic data, a novel species, Agromyces binzhouensis sp. nov., is proposed. The type strain is OAct353T (=CGMCC4.7180T=DSM 28305T=NRRL B-59115T).
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Affiliation(s)
- Zhirong Chen
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, China
| | - Yingying Guan
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, China
| | - Jingjing Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, China
| | - Jing Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong, 266003, China
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Liao L, Chen R, Jiang M, Tian X, Liu H, Yu Y, Fan C, Chen B. Bioprospecting potential of halogenases from Arctic marine actinomycetes. BMC Microbiol 2016; 16:34. [PMID: 26964536 PMCID: PMC4785625 DOI: 10.1186/s12866-016-0662-2] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 03/05/2016] [Indexed: 11/14/2022] Open
Abstract
Background Halometabolites, an important group of natural products, generally require halogenases for their biosynthesis. Actinomycetes from the Arctic Ocean have rarely been investigated for halogenases and their gene clusters associated, albeit great potential of halometabolite production has been predicted. Therefore, we initiated this research on the screening of halogenases from Arctic marine actinomycetes isolates to explore their genetic potential of halometabolite biosynthesis. Results Nine halogenase genes were discovered from sixty Arctic marine actinomycetes using in-house designed or previously reported PCR primers. Four representative genotypes were further cloned to obtain full coding regions through genome walking. The resulting halogenases were predicted to be involved in halogenation of indole groups, antitumor agent ansamitocin-like substrates, or unknown peptide-like compounds. Genome sequencing revealed a potential gene cluster containing the halogenase predicted to catalyze peptide-like compounds. However, the gene cluster was probably silent under the current conditions. Conclusions PCR-based screening of halogenase genes is a powerful and efficient tool to conduct bioprospecting of halometabolite-producing actinomycetes from the Arctic. Genome sequencing can also identify cryptic gene clusters potentially producing new halometabolites, which might be easily missed by traditional isolation and chemical characterization. In addition, our study indicates that great genetic potential of new halometabolites can be expected from mostly untapped actinomycetes from the polar regions. Electronic supplementary material The online version of this article (doi:10.1186/s12866-016-0662-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Li Liao
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, 451 Jinqiao Road, Shanghai, 200136, China
| | - Ruiqin Chen
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, 451 Jinqiao Road, Shanghai, 200136, China.,College of Bioengineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Ming Jiang
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, 20030, China
| | - Xiaoqing Tian
- Key Laboratory of East China Sea & Oceanic Fishery Resources Exploitation and Utilization, Ministry of Agriculture, East China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Shanghai, 200090, China
| | - Huan Liu
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, 451 Jinqiao Road, Shanghai, 200136, China.,College of Marine Sciences, Shanghai Ocean University, Shanghai, 201306, China
| | - Yong Yu
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, 451 Jinqiao Road, Shanghai, 200136, China
| | - Chenqi Fan
- Key Laboratory of East China Sea & Oceanic Fishery Resources Exploitation and Utilization, Ministry of Agriculture, East China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Shanghai, 200090, China
| | - Bo Chen
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, 451 Jinqiao Road, Shanghai, 200136, China.
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Yan L, Wang J, Chen Z, Guan Y, Li J. Microbacterium nanhaiense sp. nov., an actinobacterium isolated from sea sediment. Int J Syst Evol Microbiol 2015. [PMID: 26220793 DOI: 10.1099/ijsem.0.000480] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-positive, heterotrophic, anaerobic, non-spore-forming, non-motile, rod-shaped strain, OAct400T, belonging to the genus Microbacterium was isolated from a sediment collected from a depth of 2093 m in the South China Sea, China. The strain was identified using a polyphasic taxonomic approach. The strain grew well on yeast extract/malt extract agar (ISP 2) and nutrient agar media, and formed no aerial mycelium and no diffusible pigments on any media tested. The strain grew in the presence of 0-8 % (w/v) NaCl (optimum, 2-4 %), at pH 5.0-10.0 (optimum, pH 7.0) and at 4-37 °C (optimum, 28 °C). Strain OAct400T contained ornithine as the diagnostic diamino acid. The whole-cell sugars were dominated by glucose and galactose. The predominant menaquinones were MK-11 (51 %) and MK-10 (24 %). The major phospholipids were phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids were anteiso-C15 : 0 (59.35 %), iso-C16 : 0 (17.89 %) and anteiso-C17 : 0 (16.09 %). DNA-DNA relatedness with Microbacterium amylolyticum DSM 24221T and Microbacterium gubbeenense CIP 107184T, the nearest phylogenetic relatives (97.73 and 97.44 % 16S rRNA gene sequence similarity, respectively) was 31.3 ± 2.1 and 28.7 ± 1.2 %, respectively. On the basis of phenotypic, phylogenetic and genotypic data, a novel species, Microbacterium nanhaiense sp. nov., is proposed. The type strain is OAct400T ( = CGMCC 4.7181T = DSM 26811T = KCTC 29185T).
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Affiliation(s)
- Lien Yan
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong 266003, PR China
| | - Jingjing Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong 266003, PR China
| | - Zhirong Chen
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong 266003, PR China
| | - Yingying Guan
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong 266003, PR China
| | - Jing Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, Shandong 266003, PR China
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Huang HQ, Xing SS, Yuan WD, Wang Y, Liu M, Sun QG, Lin XZ, Bao SX. Nocardiopsis mangrovei sp. nov., isolated from mangrove sediment. Antonie van Leeuwenhoek 2015; 107:1541-6. [PMID: 25969384 DOI: 10.1007/s10482-015-0447-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2014] [Accepted: 04/03/2015] [Indexed: 11/25/2022]
Abstract
Two Gram-positive actinobacterial strains, designated HA11166(T) and HA12420, were isolated from mangrove sediments in Hainan, China. The bacterial cells grew with 0-9 % (w/v) NaCl, at 15-40 °C and pH 5.0-10.0, with the optimum growth at 1 % NaCl, 30-37 °C and pH 7.0. The organisms had a range of chemical and morphological properties consistent with their classification in the genus Nocardiopsis. Phylogenetic analysis of the 16S rRNA gene sequences indicated that strains HA11166(T) and HA12420 can be affiliated to the genus Nocardiopsis and most closely related to Nocardiopsis trehalosi VKM Ac-942(T) (with the similarity of 97.2 and 97.5 %, respectively). The value of DNA-DNA relatedness between type strain HA11166(T), selected as the representative strain, and N. trehalosi VKM Ac-942(T) was 38.8 %. The DNA G+C content of strain HA11166(T) was 73.7 %. On the basis of these phenotypic and genotypic data, strains HA11166(T) and HA12420 are proposed to represent a novel species of the genus Nocardiopsis, for which the name Nocardiopsis mangrovei sp. nov. is proposed. The type strain is HA11166(T) (=CGMCC 4.7119(T)=DSM 46665(T)).
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Affiliation(s)
- Hui-qin Huang
- Institute of Tropical Biosciences and Biotechnology, Key Laboratory of Biology and Genetic Resources of Tropical Crops of Ministry of Agriculture, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China
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Bennur T, Kumar AR, Zinjarde S, Javdekar V. Nocardiopsis species: Incidence, ecological roles and adaptations. Microbiol Res 2015; 174:33-47. [PMID: 25946327 DOI: 10.1016/j.micres.2015.03.010] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2014] [Revised: 03/13/2015] [Accepted: 03/16/2015] [Indexed: 12/23/2022]
Abstract
Members of the genus Nocardiopsis are ecologically versatile and biotechnologically important. They produce a variety of bioactive compounds such as antimicrobial agents, anticancer substances, tumor inducers, toxins and immunomodulators. They also secrete novel extracellular enzymes such as amylases, chitinases, cellulases, β-glucanases, inulinases, xylanases and proteases. Nocardiopsis species are aerobic, Gram-positive, non-acid-fast, catalase-positive actinomycetes with nocardioform substrate mycelia and their aerial mycelia bear long chains of spores. Their DNA possesses high contents of guanine and cytosine. There is a marked variation in properties of the isolates obtained from different ecological niches and their products. An important feature of several species is their halophilic or halotolerant nature. They are associated with a variety of marine and terrestrial biological forms wherein they produce antibiotics and toxins that help their hosts in evading pathogens and predators. Two Nocardiopsis species, namely, N. dassonvillei and N. synnemataformans (among the thirty nine reported ones) are opportunistic human pathogens and cause mycetoma, suppurative infections and abscesses. Nocardiopsis species are present in some plants (as endophytes or surface microflora) and their rhizospheres. Here, they are reported to produce enzymes such as α-amylases and antifungal agents that are effective in warding-off plant pathogens. They are prevalent as free-living entities in terrestrial locales, indoor locations, marine ecosystems and hypersaline habitats on account of their salt-, alkali- and desiccation-resistant behavior. In such natural locations, Nocardiopsis species mainly help in recycling organic compounds. Survival under these diverse conditions is mediated by the production of extracellular enzymes, antibiotics, surfactants, and the accumulation of compatible solutes. The accommodative genomic features of Nocardiopsis species support their existence under the diverse conditions where they prevail.
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Affiliation(s)
- Tahsin Bennur
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India
| | - Ameeta Ravi Kumar
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India
| | - Smita Zinjarde
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India.
| | - Vaishali Javdekar
- Department of Biotechnology, Abasaheb Garware College, Pune 411004, India.
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Antimicrobial and Biocatalytic Potential of Haloalkaliphilic Actinobacteria. SUSTAINABLE DEVELOPMENT AND BIODIVERSITY 2015. [DOI: 10.1007/978-3-319-14595-2_2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Bennur T, Kumar AR, Zinjarde S, Javdekar V. Nocardiopsis species as potential sources of diverse and novel extracellular enzymes. Appl Microbiol Biotechnol 2014; 98:9173-85. [PMID: 25269602 DOI: 10.1007/s00253-014-6111-y] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2014] [Revised: 09/18/2014] [Accepted: 09/19/2014] [Indexed: 01/10/2023]
Abstract
Members of the genus Nocardiopsis are generally encountered in locations that are inherently extreme. They are present in frozen soils, desert sand, compost, saline or hypersaline habitats (marine systems, salterns and soils) and alkaline places (slag dumps, lake soils and sediments). In order to survive under these severe conditions, they produce novel and diverse enzymes that allow them to utilize the available nutrients and to thrive. The members of this genus are multifaceted and release an assortment of extracellular hydrolytic enzymes. They produce enzymes that are cold-adapted (α-amylases), thermotolerant (α-amylases and xylanases), thermoalkalotolerant (cellulases, β-1,3-glucanases), alkali-tolerant thermostable (inulinases), acid-stable (keratinase) and alkalophilic (serine proteases). Some of the enzymes derived from Nocardiopsis species act on insoluble polymers such as glucans (pachyman and curdlan), keratin (feathers and prion proteins) and polyhydroxyalkanoates. Extreme tolerance exhibited by proteases has been attributed to the presence of some amino acids (Asn and Pro) in loop structures, relocation of multiple salt bridges to outer regions of the protein or the presence of a distinct polyproline II helix. The range of novel enzymes is projected to increase in the forthcoming years, as new isolates are being continually reported, and the development of processes involving such enzymes is envisaged in the future.
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Affiliation(s)
- Tahsin Bennur
- Institute of Bioinformatics and Biotechnology, University of Pune, Pune, 411007, India
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Dashti Y, Grkovic T, Abdelmohsen UR, Hentschel U, Quinn RJ. Production of induced secondary metabolites by a co-culture of sponge-associated actinomycetes, Actinokineospora sp. EG49 and Nocardiopsis sp. RV163. Mar Drugs 2014; 12:3046-59. [PMID: 24857962 PMCID: PMC4052330 DOI: 10.3390/md12053046] [Citation(s) in RCA: 99] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2014] [Revised: 03/04/2014] [Accepted: 04/10/2014] [Indexed: 01/15/2023] Open
Abstract
Two sponge-derived actinomycetes, Actinokineospora sp. EG49 and Nocardiopsis sp. RV163, were grown in co-culture and the presence of induced metabolites monitored by 1H NMR. Ten known compounds, including angucycline, diketopiperazine and β-carboline derivatives 1–10, were isolated from the EtOAc extracts of Actinokineospora sp. EG49 and Nocardiopsis sp. RV163. Co-cultivation of Actinokineospora sp. EG49 and Nocardiopsis sp. RV163 induced the biosynthesis of three natural products that were not detected in the single culture of either microorganism, namely N-(2-hydroxyphenyl)-acetamide (11), 1,6-dihydroxyphenazine (12) and 5a,6,11a,12-tetrahydro-5a,11a-dimethyl[1,4]benzoxazino[3,2-b][1,4]benzoxazine (13a). When tested for biological activity against a range of bacteria and parasites, only the phenazine 12 was active against Bacillus sp. P25, Trypanosoma brucei and interestingly, against Actinokineospora sp. EG49. These findings highlight the co-cultivation approach as an effective strategy to access the bioactive secondary metabolites hidden in the genomes of marine actinomycetes.
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Affiliation(s)
- Yousef Dashti
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia.
| | - Tanja Grkovic
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia.
| | - Usama Ramadan Abdelmohsen
- Department of Botany II, Julius-von-Sachs Institute for Biological Sciences, University of Würzburg, Julius-von-Sachs-Platz 3, D-97082 Würzburg, Germany.
| | - Ute Hentschel
- Department of Botany II, Julius-von-Sachs Institute for Biological Sciences, University of Würzburg, Julius-von-Sachs-Platz 3, D-97082 Würzburg, Germany.
| | - Ronald J Quinn
- Eskitis Institute for Drug Discovery, Griffith University, Brisbane, QLD 4111, Australia.
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