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Ren X, Whitton MM, Yu SJ, Trotter T, Bajagai YS, Stanley D. Application of Phytogenic Liquid Supplementation in Soil Microbiome Restoration in Queensland Pasture Dieback. Microorganisms 2023; 11:microorganisms11030561. [PMID: 36985135 PMCID: PMC10054416 DOI: 10.3390/microorganisms11030561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2023] [Revised: 02/20/2023] [Accepted: 02/20/2023] [Indexed: 02/25/2023] Open
Abstract
Pasture production is vital in cattle farming as it provides animals with food and nutrients. Australia, as a significant global beef producer, has been experiencing pasture dieback, a syndrome of deteriorating grassland that results in the loss of grass and the expansion of weeds. Despite two decades of research and many remediation attempts, there has yet to be a breakthrough in understanding the causes or mechanisms involved. Suggested causes of this phenomenon include soil and plant microbial pathogens, insect infestation, extreme heat stress, radiation, and others. Plants produce a range of phytomolecules with antifungal, antibacterial, antiviral, growth-promoting, and immunostimulant effects to protect themselves from a range of environmental stresses. These products are currently used more in human and veterinary health than in agronomy. In this study, we applied a phytogenic product containing citric acid, carvacrol, and cinnamaldehyde, to investigate its ability to alleviate pasture dieback. The phytogenic liquid-based solution was sprayed twice, one week apart, at 5.4 L per hectare. The soil microbial community was investigated longitudinally to determine long-term effects, and pasture productivity and plant morphometric improvements were explored. The phytogenic liquid significantly improved post-drought recovery of alpha diversity and altered temporal and spatial change in the community. The phytogenic liquid reduced biomarker genera associated with poor and polluted soils and significantly promoted plant and soil beneficial bacteria associated with plant rhizosphere and a range of soil benefits. Phytogenic liquid application produced plant morphology improvements and a consistent enhancement of pasture productivity extending beyond 18 months post-application. Our data show that phytogenic products used in the livestock market as an alternative to antibiotics may also have a beneficial role in agriculture, especially in the light of climate change-related soil maintenance and remediation.
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Streptomyces pimonensis sp. nov., isolated from the Taklimakan desert in Xinjiang, China. Arch Microbiol 2022; 204:607. [PMID: 36076091 DOI: 10.1007/s00203-022-03228-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Revised: 08/26/2022] [Accepted: 08/29/2022] [Indexed: 11/02/2022]
Abstract
A novel Streptomyces strain, designated TRM 75549T, was isolated from a sample of sand in Pimo reclamation area, Taklimakan desert, Xinjiang, North-West China. Phylogenetic analyses of the 16S rRNA gene sequences placed strain TRM75549T within the genus Streptomyces with the highest similarities to Streptomyces pilosus NBRC 12772T (98.7%). Nonetheless, average nucleotide identity (ANI) value and the digital DNA-DNA hybridization (dDDH) value between strain TRM75549T and S. pilosus NBRC 12772T were, respectively, 88.2% and 44.1%, and well below 95-96% and 70% cutoff point recommended for recognizing genomospecies, respectively. A multi-locus sequence analysis of five house-keeping genes (atpD, gyrB, recA, rpoB and trpB) and phylogenomic analysis also illustrated that strain TRM75549T should also be assigned to the genus Streptomyces. Strain TRM75549T contained MK-9 (H6) and MK-9 (H8) as predominant menaquinones. The diagnostic diamino acid of cell walls were identified as LL-diaminopimelic acid and meso-diaminopimelic. The whole-cell sugar pattern of strain TRM 75549T consisted of mannose and glucose. The major fatty acids (> 5%) were iso-C14:0, iso-C15:0, anteiso-C15:0, iso-C16:1H, iso-C16:0. The polar lipids were diphosphatidylglycerol, lysophosphatidylglycerol, phosphatidylethanolamine, phospholipids, phosphatidylglycerol, phosphatidylinositol, phosphatiylinositol mannosides and unidentified phospholipids. Strain TRM75549T could be differentiated from S. pilosus NBRC 12772T, based on physiological and biochemical characteristics. Thus, strain TRM75549T is representative of a novel species of the genus Streptomyces, for which the name Streptomyces pimonensis sp. nov. is proposed. The type strain is TRM75549T (= CCTCC AA 2020054T = LMG 32221T).
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Wang YN, Meng LH, Wang BG. Progress in Research on Bioactive Secondary Metabolites from Deep-Sea Derived Microorganisms. Mar Drugs 2020; 18:E614. [PMID: 33276592 PMCID: PMC7761599 DOI: 10.3390/md18120614] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2020] [Revised: 11/25/2020] [Accepted: 11/30/2020] [Indexed: 12/15/2022] Open
Abstract
Deep sea has an extreme environment which leads to biodiversity of microorganisms and their unique physical and biochemical mechanisms. Deep-sea derived microorganisms are more likely to produce novel bioactive substances with special mechanism of action for drug discovery. This article reviews secondary metabolites with biological activities such as anti-tumor, anti-bacterial, anti-viral, and anti-inflammatory isolated from deep-sea fungi and bacteria during 2018-2020. Effective methods for screening and obtaining natural active compounds from deep-sea microorganisms are also summarized, including optimizing the culture conditions, using genome mining technology, biosynthesis and so on. The comprehensive application of these methods makes broader prospects for the development and application of deep sea microbial bioactive substances.
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Affiliation(s)
- Ya-Nan Wang
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Nanhai Road 7, Qingdao 266071, China;
- Laboratory of Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Wenhai Road 1, Qingdao 266237, China
- College of Earth Science, University of Chinese Academy of Sciences, Yuquan Road 19A, Beijing 100049, China
| | - Ling-Hong Meng
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Nanhai Road 7, Qingdao 266071, China;
- Laboratory of Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Wenhai Road 1, Qingdao 266237, China
| | - Bin-Gui Wang
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Nanhai Road 7, Qingdao 266071, China;
- Laboratory of Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Wenhai Road 1, Qingdao 266237, China
- Center for Ocean Mega-Science, Chinese Academy of Sciences, Nanhai Road 7, Qingdao 266071, China
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Streptomyces albicerus sp. nov., a novel actinomycete isolated from the sediments of the Tailan River in Xinjiang, China. Arch Microbiol 2020; 202:1639-1646. [DOI: 10.1007/s00203-020-01871-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2019] [Revised: 03/18/2020] [Accepted: 03/20/2020] [Indexed: 12/13/2022]
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Fu G, Wang R, Ding J, Qi H, Zhao Z, Chen C, Zhang H, Xue Z, Wang J, Wu M. Micromonospora zhangzhouensis sp. nov., a Novel Actinobacterium Isolated from Mangrove Soil, Exerts a Cytotoxic Activity in vitro. Sci Rep 2020; 10:3889. [PMID: 32127574 PMCID: PMC7054543 DOI: 10.1038/s41598-020-60677-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 02/13/2020] [Indexed: 11/21/2022] Open
Abstract
A new bacterial strain, designated HM134T, was isolated from a sample of soil collected from a Chinese mangrove Avicennia marina forest. Assessed by a polyphasic approach, the taxonomy of strain HM134T was found to be associated with a range of phylogenetic and chemotaxonomic properties consistent with the genus Micromonospora. Phylogenetic analysis based on the 16s rRNA gene sequence indicated that strain HM134T formed a distinct lineage with the most closely related species, including M. rifamycinica AM105T, M. wenchangensis CCTCC AA 2012002T and M. mangrovi 2803GPT1-18T. The ANI values between strain HM134T and the reference strains ranged from 82.6% to 95.2%, which was below the standard criteria for classifying strains as the same species (96.5%). Strain HM134T and related species shared in silico dDDH similarities values below the recommended 70% cut-off for the delineation of species (range from 25.7–62.6%). The DNA G+C content of strain HM134T was 73.2 mol%. Analysis of phylogenetic, genomic, phenotypic and chemotaxonomic characteristics revealed that strain HM134T is considered to represent a novel species of the genus Micromonospora, for which the name M. zhangzhouensis sp. nov. is proposed. The extract of strain HM134T was demonstrated to exhibit cytotoxic activity against the human cancer cell lines HepG2, HCT-116 and A549. Active substance presented in the fermentation broth of strain HM134T was isolated by bioassay-guided analysis and purified afterwards. A new derivative of diterpenoid was identified through electrospray ionizing mass spectrometry (MS) and nuclear magnetic resonance (NMR). The compound showed different cytotoxic activities against cancer cells, with the highest cytotoxicity against HCT-116, corresponding to IC50 value of 38.4 μg/mL.
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Affiliation(s)
- Geyi Fu
- Ocean College, Zhejiang University, Zhoushan, China
| | - Ruijun Wang
- Ocean College, Zhejiang University, Zhoushan, China
| | - Jinglin Ding
- Zhoushan Tourism & Health College, Zhoushan, China
| | - Huan Qi
- Zhejiang Key Laboratory of Antifungal Drugs, Zhejiang Hisun Pharmaceutical Co., Ltd., Taizhou, China
| | - Zhe Zhao
- College of Life Sciences, Zhejiang University, Hangzhou, China
| | - Can Chen
- Ocean College, Zhejiang University, Zhoushan, China
| | - Hui Zhang
- Zhejiang Key Laboratory of Antifungal Drugs, Zhejiang Hisun Pharmaceutical Co., Ltd., Taizhou, China.,College of Biochemical Engineering, Anhui Polytechnic University, Wuhu, China
| | - Zhenglian Xue
- College of Biochemical Engineering, Anhui Polytechnic University, Wuhu, China
| | - Jidong Wang
- Zhejiang Key Laboratory of Antifungal Drugs, Zhejiang Hisun Pharmaceutical Co., Ltd., Taizhou, China. .,College of Biochemical Engineering, Anhui Polytechnic University, Wuhu, China.
| | - Min Wu
- Ocean College, Zhejiang University, Zhoushan, China. .,College of Life Sciences, Zhejiang University, Hangzhou, China.
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Ay H, Nouioui I, Klenk HP, Cetin D, Igual JM, Sahin N, Isik K. Genome-based classification of Micromonospora craterilacus sp. nov., a novel actinobacterium isolated from Nemrut Lake. Antonie Van Leeuwenhoek 2020; 113:791-801. [PMID: 32060815 DOI: 10.1007/s10482-020-01390-w] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2019] [Accepted: 01/28/2020] [Indexed: 11/28/2022]
Abstract
A novel actinobacterial strain, designated NA12T, was isolated from coastal sediment sample of Nemrut Lake, a crater lake in eastern Anatolia, Turkey. The taxonomic position of the strain was established using a polyphasic approach. Cultural and chemotaxonomic characteristics of the strain were consistent with its classification within the family Micromonosporaceae. The 16S rRNA gene sequence analysis of strain NA12T showed that the strain closely related to M. radicis AZ1-13T, M. zingiberis PLAI 1-1T, M. craniella LHW63014T and M. endophytica 202201T with pairwise sequence identity values ranging from 99.4 to 99.3%. Digital DNA-DNA hybridization values between strain NA12T and the closely related type strains were ranged from 41.0 to 18.3% while the average nucleotide identity values were between 87.3 and 86.5%, which are well below the designed cut-off points of 70 and 95%, respectively. The G + C content of genomic DNA was 71.5%. Whole-cell hydrolysates of strain NA12T contained 3-hydroxydiaminopimelic acid and meso-diaminopimelic acid. Cell-wall sugars were composed of arabinose, fucose, glucose, mannose, rhamnose and xylose. The polar lipid profile contained phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylglycerol, glycophospholipid, amino-phospholipid and two unidentified phospholipids. The predominant menaquinones were MK-9(H6) and MK-9(H4). Major fatty acids were iso-C16:0 and C17:1ω8c. Based upon the consensus of phenotypic and phylogenetic analyses as well as whole genome comparisons, strain NA12T (DSM 100982T = KCTC 39647T) is proposed to represent the type strain of a novel species, Micromonospora craterilacus sp. nov.
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Affiliation(s)
- Hilal Ay
- Department of Molecular Biology and Genetics, Faculty of Science and Arts, Ondokuz Mayis University, Samsun, Turkey.
| | - Imen Nouioui
- School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK
| | - Hans-Peter Klenk
- School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK
| | - Demet Cetin
- Division of Science Education, Department of Mathematics and Science Education, Gazi Faculty of Education, Gazi University, 06500, Ankara, Turkey
| | - José M Igual
- Instituto de Recursos Naturales y Agrobiologia de Salamanca, Consejo Superior de Investigaciones Cientificas (IRNASA-CSIC), Salamanca, Spain
| | - Nevzat Sahin
- Department of Molecular Biology and Genetics, Faculty of Science and Arts, Ondokuz Mayis University, Samsun, Turkey
| | - Kamil Isik
- Department of Biology, Faculty of Science and Arts, Ondokuz Mayis University, Samsun, Turkey
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Kamjam M, Nopnakorn P, Zhang L, Peng F, Deng Z, Hong K. Streptomyces polaris sp. nov. and Streptomyces septentrionalis sp. nov., isolated from frozen soil. Antonie van Leeuwenhoek 2018; 112:375-387. [PMID: 30251113 DOI: 10.1007/s10482-018-1166-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Accepted: 09/14/2018] [Indexed: 12/16/2022]
Abstract
Two novel actinomycetes, designated strains ZLN81T and ZLN712T, were isolated from a frozen soil sample which was collected from the Arctic region. Chemotaxonomic and morphological characteristics were found to be typical of members of the genus Streptomyces. Based on 16S rRNA gene sequence analyses, the two strains show high similarity with Streptomyces polygonati NEAU-G9T (99.45%, 99.17%) and Streptomyces yanglinensis 1307T (98.17%, 98.10%). DNA-DNA relatedness between each of the strains and their close phylogenetic neighbours showed that they belonged to distinct species. Multilocus sequence analysis (MLSA) using four housekeeping genes (atpD, gyrB, recA and rpoB) for comparing Streptomyces type strains showed that the MLSA distance of strains ZLN81T and ZLN712T to the closely related species was greater than the 0.007 threshold. The cell wall amino acids of the two strains were identified as alanine, glycine, asparagine, ll-diaminopimelic acid and meso-diaminopimelic acid. The whole cell sugars were identified as galactose and glucose for strain ZLN81T and galactose, glucose and xylose for strain ZLN712T. The predominant menaquinones were identified as MK-10(H8), MK-9(H4) and MK-9(H6) for strain ZLN81T and MK-9(H0), MK-10(H8) and MK-9(H6) for strain ZLN712T. The polar lipid profile of strain ZLN81T was found to contain diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and two unidentified phospholipids, while that of strain ZLN712T consisted of diphosphatidylglycerol, phosphatidylethanolamine, a ninhydrin-positive glycophospholipid, phosphatidylinositol mannosides and two unidentified phospholipids. The major fatty acids were identified as iso-C16:0, anteiso-C17:0, C16:0 and anteiso-C15:0 for strain ZLN81T and iso-C16:0, C16:0, anteiso-C15:0 and iso-C14:0 for strain ZLN712T. The DNA G+C contents were found to be 73.96 and 72.77 mol% for strains ZLN81T and ZLN712T, respectively. On the basis of these phenotypic and genotypic data, strains ZLN81T (= CCTCC AA 2018010T = DSM 107255T) and ZLN712T (= CCTCC AA 2018011T = DSM 107266T) are concluded to represent two novel species of the genus Streptomyces, for which the names Streptomyces polaris sp. nov. and Streptomyces septentrionalis sp. nov. are proposed, respectively.
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Affiliation(s)
- Manita Kamjam
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Potjanicha Nopnakorn
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Li Zhang
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Fang Peng
- China Center for Type Culture Collection, Wuhan, 430071, People's Republic of China
| | - Zixin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China.
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Suksaard P, Srisuk N, Duangmal K. Saccharopolyspora maritima sp. nov., an actinomycete isolated from mangrove sediment. Int J Syst Evol Microbiol 2018; 68:3022-3027. [DOI: 10.1099/ijsem.0.002941] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Paweena Suksaard
- 1Department of Science, Faculty of Science and Technology, Rajamangala University of Technology Suvarnabhumi, Phranakhon Si Ayutthaya 13000, Thailand
| | - Nantana Srisuk
- 2Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
- 3Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart Univesity, Chatuchak, Bangkok 10900, Thailand
| | - Kannika Duangmal
- 2Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
- 3Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart Univesity, Chatuchak, Bangkok 10900, Thailand
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Micromonospora azadirachtae sp. nov., isolated from roots of Azadirachta indica A. Juss. var. siamensis Valeton. Antonie van Leeuwenhoek 2018; 112:253-262. [DOI: 10.1007/s10482-018-1152-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Accepted: 08/25/2018] [Indexed: 10/28/2022]
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Wu H, Liu B, Shao Y, Ou X, Huang F. Thermostaphylospora grisealba gen. nov., sp. nov., isolated from mushroom compost and transfer of Thermomonospora chromogena Zhang et al. 1998 to Thermostaphylospora chromogena comb. nov. Int J Syst Evol Microbiol 2018; 68:602-608. [DOI: 10.1099/ijsem.0.002551] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hao Wu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Bin Liu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Yuanyuan Shao
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Xiaoyun Ou
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Fuchang Huang
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
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Carro L, Nouioui I, Sangal V, Meier-Kolthoff JP, Trujillo ME, Montero-Calasanz MDC, Sahin N, Smith DL, Kim KE, Peluso P, Deshpande S, Woyke T, Shapiro N, Kyrpides NC, Klenk HP, Göker M, Goodfellow M. Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential. Sci Rep 2018; 8:525. [PMID: 29323202 PMCID: PMC5765111 DOI: 10.1038/s41598-017-17392-0] [Citation(s) in RCA: 65] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2017] [Accepted: 11/08/2017] [Indexed: 12/14/2022] Open
Abstract
There is a need to clarify relationships within the actinobacterial genus Micromonospora, the type genus of the family Micromonosporaceae, given its biotechnological and ecological importance. Here, draft genomes of 40 Micromonospora type strains and two non-type strains are made available through the Genomic Encyclopedia of Bacteria and Archaea project and used to generate a phylogenomic tree which showed they could be assigned to well supported phyletic lines that were not evident in corresponding trees based on single and concatenated sequences of conserved genes. DNA G+C ratios derived from genome sequences showed that corresponding data from species descriptions were imprecise. Emended descriptions include precise base composition data and approximate genome sizes of the type strains. antiSMASH analyses of the draft genomes show that micromonosporae have a previously unrealised potential to synthesize novel specialized metabolites. Close to one thousand biosynthetic gene clusters were detected, including NRPS, PKS, terpenes and siderophores clusters that were discontinuously distributed thereby opening up the prospect of prioritising gifted strains for natural product discovery. The distribution of key stress related genes provide an insight into how micromonosporae adapt to key environmental variables. Genes associated with plant interactions highlight the potential use of micromonosporae in agriculture and biotechnology.
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Affiliation(s)
- Lorena Carro
- School of Biology, Newcastle University, Newcastle upon Tyne, UK.
| | - Imen Nouioui
- School of Biology, Newcastle University, Newcastle upon Tyne, UK
| | - Vartul Sangal
- Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK
| | - Jan P Meier-Kolthoff
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany
| | - Martha E Trujillo
- Departamento de Microbiologia y Genetica, Lab 214, Universidad de Salamanca, Salamanca, Spain
| | | | - Nevzat Sahin
- Department of Biology, Faculty of Art and Science, Ondokuz Mayis University, Kurupelit-Samsun, Turkey
| | - Darren Lee Smith
- Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK
| | - Kristi E Kim
- Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA
| | - Paul Peluso
- Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA
| | | | - Tanja Woyke
- DOE Joint Genome Institute, Walnut Creek, California, USA
| | - Nicole Shapiro
- DOE Joint Genome Institute, Walnut Creek, California, USA
| | | | - Hans-Peter Klenk
- School of Biology, Newcastle University, Newcastle upon Tyne, UK.
| | - Markus Göker
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany
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Qu Z, Bao XD, Xie QY, Zhao YX, Yan B, Dai HF, Chen HQ. Actinoplanes sediminis sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 2018; 68:71-75. [DOI: 10.1099/ijsem.0.002451] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Zhi Qu
- Guangxi Mangrove Research Center, Guangxi Key Lab of Mangrove Conservation and Utilization, Beihai 536000, PR China
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
| | - Xiao-dong Bao
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
| | - Qing-yi Xie
- Guangxi Mangrove Research Center, Guangxi Key Lab of Mangrove Conservation and Utilization, Beihai 536000, PR China
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
| | - You-xing Zhao
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
| | - Bing Yan
- Guangxi Mangrove Research Center, Guangxi Key Lab of Mangrove Conservation and Utilization, Beihai 536000, PR China
| | - Hao-fu Dai
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
| | - Hui-Qin Chen
- Key Laboratory of Tropical Microbial Resources, Hainan Province, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, PR China
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Xie QY, Bao XD, Ma QY, Kong FD, Zhou ML, Yan B, Zhao YX. Verrucosispora rhizosphaerae sp. nov., isolated from mangrove rhizosphere soil. Antonie van Leeuwenhoek 2017; 111:125-133. [PMID: 28940085 PMCID: PMC5754459 DOI: 10.1007/s10482-017-0933-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Accepted: 08/19/2017] [Indexed: 11/26/2022]
Abstract
An actinomycete strain, 2603PH03T, was isolated from a mangrove rhizosphere soil sample collected in Wenchang, China. Phylogenetic analysis of the 16S rRNA gene sequence of strain 2603PH03T indicated high similarity to Verrucosispora gifthornensis DSM 44337T (99.4%), Verrucosispora andamanensis (99.4%), Verrucosispora fiedleri MG-37T (99.4%) and Verrucosispora maris AB18-032T (99.4%). The cell wall was found to contain meso-diaminopimelic acid and glycine. The major menaquinones were identified as MK-9(H4), MK-9(H6) and MK-9(H8), with MK-9(H2), MK-10(H2), MK-9(H10) and MK-10(H6) as minor components. The characteristic whole cell sugars were found to be xylose and mannose. The phospholipid profile was found to contain phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol mannoside, phosphatidylinositol, phosphatidylserine and an unidentified phospholipid. The DNA G+C content was determined to be 70.1 mol%. The results of physiological and biochemical tests and low DNA-DNA relatedness readily distinguished the isolate from the closely related species. On the basis of these phenotypic and genotypic data, strain 2603PH03T is concluded to represent a novel species of the genus Verrucosispora, for which the name Verrucosispora rhizosphaerae sp. nov. is proposed. The type strain is 2603PH03T (=CCTCC AA 2016023T = DSM 45673T).
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Affiliation(s)
- Qing-Yi Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China
- Guangxi Key Lab of Mangrove Conservation and Utilization, Guangxi Mangrove Research Center, Beihai, 536000, People's Republic of China
| | - Xiao-Dong Bao
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China
| | - Qing-Yu Ma
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China
| | - Fan-Dong Kong
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China
| | - Man-Li Zhou
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China
- Guangxi Key Lab of Mangrove Conservation and Utilization, Guangxi Mangrove Research Center, Beihai, 536000, People's Republic of China
| | - Bing Yan
- Guangxi Key Lab of Mangrove Conservation and Utilization, Guangxi Mangrove Research Center, Beihai, 536000, People's Republic of China
| | - You-Xing Zhao
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, People's Republic of China.
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Suksaard P, Mingma R, Srisuk N, Matsumoto A, Takahashi Y, Duangmal K. Nonomuraea purpurea sp. nov., an actinomycete isolated from mangrove sediment. Int J Syst Evol Microbiol 2016; 66:4987-4992. [PMID: 27561257 DOI: 10.1099/ijsem.0.001457] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A polyphasic approach was used to verify the novel actinomycete, strain 1SM4-01T, isolated from mangrove sediment collected from Ranong Province, Thailand. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the organism was a member of the genus Nonomuraea and was most closely related to Nonomuraea syzygii GKU 164T (98.7 % sequence similarity), Nonomuraea rhizophila YIM 67092T (98.4 %), Nonomuraea solani NEAU-Z6T (98.4 %), Nonomuraea monospora PT708T (98.3 %) and Nonomuraea thailandensis KC-061T (98.2 %). The strain produced branching aerial mycelium which differentiated into straight chains of rough-surfaced spores borne at the end of a short sporophore. The whole-cell hydrolysates contained meso-diaminopimelic acid as the diagnostic diamino acid, with madurose, mannose and ribose as the main sugars. MK-9(H4) was a major menaquinone of this strain. The acyl type of peptidoglycan was N-acetyl. The predominant cellular fatty acids were C17 : 1ω8c and iso-C16 : 0. Phospholipids consisted of diphosphatidylglycerol, hydroxy-phosphatidylethanolamine, hydroxy-phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside, aminophospholipids and unidentified lipids. The G+C content of the genomic DNA was 70.4 mol%. On the basis of phenotypic characteristics, DNA-DNA relatedness and phylogenetic distinctiveness, strain 1SM4-01T represents a novel species of the genus Nonomuraea, for which the name Nonomuraea purpurea sp. nov. is proposed. The type strain is 1SM4-01T (=BCC 60397T=NBRC 109647T).
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Affiliation(s)
- Paweena Suksaard
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Ratchanee Mingma
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Nantana Srisuk
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand.,Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Atsuko Matsumoto
- Kitasato Institute for Life Sciences, Kitasato University, 5-9-1 Shirokane, Minato-ku, Tokyo 108-8641, Japan
| | - Yoko Takahashi
- Kitasato Institute for Life Sciences, Kitasato University, 5-9-1 Shirokane, Minato-ku, Tokyo 108-8641, Japan
| | - Kannika Duangmal
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand.,Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
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15
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Micromonospora yasonensis sp. nov., isolated from a Black Sea sediment. Antonie Van Leeuwenhoek 2016; 109:1019-28. [PMID: 27154186 DOI: 10.1007/s10482-016-0701-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2016] [Accepted: 04/25/2016] [Indexed: 10/21/2022]
Abstract
A Micromonospora strain, designated DS3186(T), isolated from sediment collected from the Black Sea off the Yason Peninsula, Ordu, Turkey, was examinated using a polyphasic approach. The strain was found to have chemotaxonomic, morphological and phylogenetic properties consistent with its clasification in the genus Micromonospora. A comparative 16S rRNA gene sequence analysis showed that the strain was closely related to the type strains of Micromonospora olivasterospora (99.0 %), Micromonospora equina (98.8 %), Micromonospora rhizosphaerae (98.8 %) and Micromonospora viridifaciens (98.8 %); low levels of DNA-DNA relatednes were found between the isolate and the M. olivasterospora and M. rhizosphaerae strains. Corresponding phylogenetic analysis based on partial gyrB gene sequences showed that strain DS3186(T) formed a subclade with the type strains of Micromonospora eburnea, M. equina, Micromonospora narathiwatensis and M. viridifaciens. Strain DS3186(T) was distinguished from its close phylogenetic neighbours using a combination of chemotaxonomic, morphological and physiological properties. Consequently, it is proposed that strain DS3186(T) represents a novel Micromonospora species for which the name Micromonospora yasonensis sp. nov. is proposed. The type strain is DS3186(T) (=DSM 45980(T) = KCTC 29433(T)).
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16
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Wu H, Liu B, Pan S. Saccharopolyspora subtropica sp. nov., a thermophilic actinomycete isolated from soil of a sugar cane field. Int J Syst Evol Microbiol 2016; 66:1990-1995. [DOI: 10.1099/ijsem.0.000976] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Hao Wu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
- College of Life Science and Technology, Guangxi University, Nanning, PR China
| | - Bin Liu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Shangli Pan
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
- College of Life Science and Technology, Guangxi University, Nanning, PR China
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17
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Xie QY, Ren J, Li L, Li Y, Deng ZX, Hong K. Micromonospora mangrovi sp. nov., isolated from mangrove soil. Antonie van Leeuwenhoek 2016; 109:483-91. [PMID: 26942919 DOI: 10.1007/s10482-015-0641-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2015] [Accepted: 12/21/2015] [Indexed: 01/10/2023]
Abstract
A novel actinomycete strain 2803GPT1-18(T) was isolated from a composite mangrove soil sample collected from Beihai, Guangxi province, China. Phylogenetic analysis of the 16S rRNA gene sequence of strain 2803GPT1-18(T) indicated high similarity with 'Micromonospora harpali' NEAU-JC6(T) (99.2 %), Micromonospora haikouensis 232617(T) (99.1 %), Micromonospora wenchangensis 2602GPT1-05(T) (99.1 %), Micromonospora schwarzwaldensis HKI0641(T) (99.1 %). The gyrB gene sequence analysis also indicated that strain 2803GPT1-18(T) should be assigned to the genus Micromonospora but different from any established Micromonospora species. The strain harbored meso-DAP and glycine as major cell wall amino acids, MK-10(H6) (53.5 %), MK-9(H6) (25.1 %) and MK-9(H4) (13.4 %) as predominant menaquinones. The characteristic whole cell sugars are arabinose, xylose, glucose, galactose and mannose. The polar lipid profile comprises phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol and unidentified polar lipids. The major cellular fatty acids present are iso-C16:0 (44.2 %) and iso-C15:0 (12.4 %). The DNA G+C content is 71.2 mol%. Furthermore, a combination of DNA-DNA relatedness and some physiological and biochemical properties indicated that the novel strain could be readily distinguished from the closely related species. On the basis of these phenotypic and genotypic data, strain 2803GPT1-18(T) represents a novel species of the genus Micromonospora, for which the name Micromonospora mangrovi sp. nov. is proposed. The type strain is 2803GPT1-18(T) (=CCTCC AA2012012(T) = DSM45761(T)).
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Affiliation(s)
- Qing-Yi Xie
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China.,Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou, 571101, People's Republic of China
| | - Jian Ren
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Lei Li
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Yu Li
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou, 571101, People's Republic of China
| | - Zi-Xin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, People's Republic of China.
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18
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Thawai C, Kittiwongwattana C, Thanaboripat D, Laosinwattana C, Koohakan P, Parinthawong N. Micromonospora soli sp. nov., isolated from rice rhizosphere soil. Antonie van Leeuwenhoek 2016; 109:449-56. [DOI: 10.1007/s10482-016-0651-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2015] [Accepted: 01/13/2016] [Indexed: 10/22/2022]
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19
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Zhang L, Ruan C, Peng F, Deng Z, Hong K. Streptomyces arcticus sp. nov., isolated from frozen soil. Int J Syst Evol Microbiol 2016; 66:1482-1487. [PMID: 26790712 DOI: 10.1099/ijsem.0.000907] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Actinomycete strain ZLN234T was isolated from a frozen soil sample, which was collected from a glacier front in the Arctic. Chemotaxonomic and morphological characteristics were found to be typical of members of the genus Streptomyces. The strain formed a distinct phyletic line in the 16S rRNA gene tree and was closely related to Streptomyces olivochromogenes ATCC 3336T (98.63 % similarity) and Streptomyces aureus B7319T (98.56 %). Phylogenetic analysis based on the gyrB gene also showed clearly that strain ZLN234T was different from all recognized Streptomyces species. The whole-cell sugars were galactose, glucose, ribose and rhamnose. The whole-cell-wall amino acids included alanine, glutamine, glycine and meso-diaminopimelic acid with a minor amount of ll-diaminopimelic acid. The characteristic polar lipids were identified as diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and unknown phospholipids. The major menaquinones were MK-9(H10), MK-9(H8) and MK-9(H4). The major cellular fatty acids comprised anteiso-C15 : 0, iso-C16 : 0 and C16 : 0 with a small amount of iso-C16 : 1ω7 and anteiso-C14 : 0. The DNA G+C content of strain ZLN234T was 77.5 mol%. On the basis of these phenotypic, phylogenetic and chemotaxonomic characteristics, strain ZLN234T ( = CCTCC AA 2015005T = DSM 100713T) is the type strain of a novel species of the genus Streptomyces, for which the name Streptomyces arcticus sp. nov. is proposed.
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Affiliation(s)
- Li Zhang
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Changying Ruan
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Fang Peng
- China Center for Type Culture Collection, Wuhan, 430071, PR China
| | - Zixin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
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20
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Damtab J, Nutaratat P, Boontham W, Srisuk N, Duangmal K, Yurimoto H, Sakai Y, Muramatsu Y, Nakagawa Y. Roseomonas elaeocarpi sp. nov., isolated from olive (Elaeocarpus hygrophilus Kurz.) phyllosphere. Int J Syst Evol Microbiol 2016; 66:474-480. [DOI: 10.1099/ijsem.0.000748] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Jenjira Damtab
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Pumin Nutaratat
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
- Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Wanatchaporn Boontham
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Nantana Srisuk
- Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Kannika Duangmal
- Department of Microbiology, Faculty of Science, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
- Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok 10900, Thailand
| | - Hiroya Yurimoto
- Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kitashirakawa-Oiwake, Sakyo-ku, Kyoto 606-8502, Japan
| | - Yasuyoshi Sakai
- Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kitashirakawa-Oiwake, Sakyo-ku, Kyoto 606-8502, Japan
| | - Yuki Muramatsu
- Biological Resource Center (NBRC), National Institute of Technology and Evaluation, 2-5-8 Kazusakamatari, Kisarazu, Chiba 292-0818, Japan
| | - Yasuyoshi Nakagawa
- Biological Resource Center (NBRC), National Institute of Technology and Evaluation, 2-5-8 Kazusakamatari, Kisarazu, Chiba 292-0818, Japan
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21
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Zhang L, Li L, Deng Z, Hong K. Micromonospora zhanjiangensis sp. nov., isolated from mangrove forest soil. Int J Syst Evol Microbiol 2015; 65:4880-4885. [DOI: 10.1099/ijsem.0.000667] [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 novel actinomycete, designated strain 2902at01T was isolated from soil collected at a mangrove forest in Zhanjiang, Guangdong province, China. The strain was identified using a polyphasic classification method. The 16S rRNA gene sequence of strain 2902at01T showed the highest similarity to Micromonospora equina Y22T (98.3 %) and Micromonospora pattaloongensis TJ2-2T (98.1 %). Phylogenetic analysis based on the gyrB gene sequence also clearly showed that the strain was different from any previously discovered species of the genus Micromonospora. The characteristic whole-cell sugars were ribose and xylose. The cell-wall hydrolysates contained alanine, asparagine, glycine and meso-diaminopimelic acid. MK-10(H6) and MK-10(H8) were the major menaquinones of the novel strain. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0 and iso-C16 : 0. The characteristic polar lipids of strain 2902at01T were phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside and diphosphatidylglycerol. The DNA G+C content was 70.2 mol%. DNA–DNA hybridization data combined with other physiological and biochemical features could distinguish strain 2902at01T from the reference strains M. equina Y22T and M. pattaloongensis TJ2-2 T. On the basis of these phenotypic and genotypic data, strain 2902at01T represents a novel species of the genus Micromonospora, for which the name Micromonospora zhanjiangensis sp. nov. is proposed. The type strain is 2902at01T ( = CCTCC AA2014018T = DSM 45902T).
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Affiliation(s)
- Li Zhang
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Lei Li
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Zixin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
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22
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Li L, Hong K. Micromonospora ovatispora sp. nov. isolated from mangrove soil. Int J Syst Evol Microbiol 2015; 66:889-893. [PMID: 26620702 DOI: 10.1099/ijsem.0.000808] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
An oval spore-forming actinomycete, designated 2701SIM06T, was isolated from mangrove soil in Sanya, Hainan province, China. The 16S rRNA gene sequence of strain 2701SIM06T showed highest similarity to Micromonospora pattaloongensis TJ2-2T (98.6 %), Micromonospora polyrhachis NEAU-ycm2T (98.6 %) and Micromonospora sonneratiae 274745T (98.5 %). Phylogenetic analysis based on both the 16S rRNA gene and the gyrB gene supported this relationship. The chemotaxonomic results confirmed the isolate as a member of the genus Micromonospora, but morphological, physiological and biochemical properties differentiated it from its closest relatives. Based on these observations, strain 2701SIM06T represents a novel species, for which the name Micromonospora ovatispora sp. nov. is proposed. The type strain is 2701SIM06T ( = CCTCC AA 2012009T = DSM 45759T).
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Affiliation(s)
- Lei Li
- Key Laboratory for Marine Drugs, Department of Pharmacy, Ren Ji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, PR China.,Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
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23
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Wu H, Liu B. Nonomuraea thermotolerans sp. nov., a thermotolerant actinomycete isolated from mushroom compost. Int J Syst Evol Microbiol 2015; 66:894-900. [PMID: 26620829 DOI: 10.1099/ijsem.0.000809] [Citation(s) in RCA: 10] [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 novel thermotolerant actinomycete, designated strain 3-33-9BT, was isolated from mushroom compost in Nanning, Guangxi province, China. The strain grew at 25-60 °C, pH 7.0-11.0 and with 0-2.0 % (w/v) NaCl. Strain 3-33-9BT formed extensively branched aerial mycelia and substrate mycelia. Spiral spore chains with one to three turns were composed of about 3-15 non-motile spores with a wrinkled surface. The organism contained meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. Whole-cell hydrolysates contained madurose, galactose, glucose and ribose. The cellular fatty acid profile mainly consisted of iso-C16 : 0 and C17 : 0. The quinone system was predominantly composed of MK-9(H4). The DNA G+C content of strain 3-33-9BT was 72.5 mol%. The organism showed a combination of morphological and chemotaxonomic properties typical of members of the genus Nonomuraea. Moreover, 16S rRNA gene sequence analysis also showed that the organism belonged to the genus Nonomuraea; in the 16S rRNA gene tree of the genus Nonomuraea, strain 3-33-9BT formed a distinct phyletic line and was most closely related to Nonomuraea fastidiosa NBRC 14680T (97.3 % 16S rRNA gene sequence similarity). However, phenotypic characteristics of strain 3-33-9BT were significantly different from N. fastidiosa NBRC 14680T, and DNA-DNA hybridization showed little relatedness (31.6-35.2 %) between the two strains. Based on the phenotypic and phylogenetic data, strain 3-33-9BT represents a novel species of the genus Nonomuraea, for which the name Nonomuraea thermotolerans sp. nov. is proposed. The type strain is 3-33-9BT ( = ATCC BAA-2629T = CGMCC 4.7161T).
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Affiliation(s)
- Hao Wu
- College of Life Science and Technology, Guangxi University, Nanning, PR China.,Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Bin Liu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
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24
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Zhao J, Guo L, Liu C, Zhang Y, Guan X, Li J, Xu S, Xiang W, Wang X. Micromonospora lycii sp. nov., a novel endophytic actinomycete isolated from wolfberry root (Lycium chinense Mill). J Antibiot (Tokyo) 2015; 69:153-8. [DOI: 10.1038/ja.2015.109] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2015] [Revised: 07/21/2015] [Accepted: 09/29/2015] [Indexed: 01/02/2023]
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25
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Wu H, Liu B. Actinokineospora guangxiensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2015; 65:4650-4654. [PMID: 26410559 DOI: 10.1099/ijsem.0.000627] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel actinomycete, designated strain GK-6T, was isolated from a soil sample from Nanning, Guangxi province, PR China. The strain grew at 20-40 °C, pH 6.0-11.0 and with 0-7.0 % NaCl. It formed well-developed aerial and vegetative mycelia. The aerial mycelium was white and the vegetative mycelium was yellow. The long branching aerial mycelia yielded rod-shaped arthrospores, the spores had smooth surfaces and were non-motile. Strain Gk-6T contained meso-diaminopimelic acid as the diagnostic diamino acid, the whole-cell sugars were galactose, glucose and arabinose. Major fatty acids were iso-C16 : 0, iso-C15 : 0 and C17 : 0. MK-9(H4) was the predominant menaquinone. The polar phospholipids were phosphatidylethanolamine, phosphatidylethanolamine-containing hydroxylated fatty acids, diphosphatidylglycerol, ninhydrin-positive glycophospholipid and an unknown phospholipid. The G+C content of the genomic DNA was 73.4 mol%. The 16S rRNA gene sequence analysis indicated that the organism was a member of the genus Actinokineospora and its closest relative among recognized species was Actinokineospora soli JCM 17695T (97.7 % sequence similarity). But the phenotypic characteristics of strain Gk-6T were significantly different from those of A. soli JCM 17695T, and DNA-DNA hybridization showed low relatedness (22.6-28.3 %) between strain Gk-6T and JCM 17695T. On the basis of the phenotypic and phylogenetic data, strain Gk-6T represents a novel species of the genus Actinokineospora, and the name Actinokineospora guangxiensis sp. nov. is proposed. The type strain is Gk-6T ( = DSM 46779 T = CGMCC 4.7154T).
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Affiliation(s)
- Hao Wu
- School of Life Science and Technology, Guangxi University, Nanning, PR China.,Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
| | - Bin Liu
- Institute of Applied Microbiology, College of Agriculture, Guangxi University, Nanning, PR China
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Wu H, Liu B, Pan S. Thermoactinomyces guangxiensis sp. nov., a thermophilic actinomycete isolated from mushroom compost. Int J Syst Evol Microbiol 2015; 65:2859-2864. [DOI: 10.1099/ijs.0.000342] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel thermophilic actinomycete, designated strain CD-1T, was isolated from mushroom compost in Nanning, Guangxi province, China. The strain grew at 37–55 °C (optimum 45–50 °C), pH 6.0–11.0 (optimum pH 7.0–9.0) and with 0–2.0 % NaCl (optimum 0–1.0 %), formed well-developed white aerial mycelium and pale-yellow vegetative mycelium, and single endospores (0.8–1.0 μm diameter) were borne on long sporophores (2–3 μm length). The endospores were spherical-polyhedron in shape with smooth surface. Based on its phenotypic and phylogenetic characteristics, strain CD-1T is affiliated to the genus Thermoactinomyces. It contained meso-diaminopimelic acid as the diagnostic diamino acid; the whole-cell sugars were ribose and glucose. Major fatty acids were iso-C15 : 0, C16 : 0, anteiso-C15 : 0 and iso-C17 : 0. MK-7 was the predominant menaquinone. The polar phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylethanolamine containing hydroxylated fatty acids, ninhydrin-positive glycophospholipid, an unknown phospholipid and glycolipids. The G+C content of the genomic DNA was 48.8 %. 16S rRNA gene sequence analysis showed that the organism was closely related to Lihuaxuella thermophila YIM 77831T (95.69 % sequence similarity), Thermoactinomyces daqus H-18T (95.49 %), Laceyella putida KCTC 3666T (95.05 %), Thermoactinomyces vulgaris KCTC 9076T (95.01 %) and Thermoactinomyces intermedius JCM 3312T (94.55 %). Levels of DNA–DNA relatedness between strain CD-1T and Lihuaxuella thermophila JCM 18059T, Thermoactinomyces daqus DSM 45914T, Laceyella putida JCM 8091T, Thermoactinomyces vulgaris JCM 3162T and Thermoactinomyces intermedius JCM 3312T were low (22.8, 33.3, 24.7, 29.4 and 30.0 %, respectively). A battery of phenotypic, genotypic and DNA–DNA relatedness data indicated that strain CD-1T represented a novel species of the genus Thermoactinomyces, for which the name Thermoactinomyces guangxiensis sp. nov. is proposed. The type strain is CD-1T ( = ATCC BAA-2630T = CGMCC 4.7156T).
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Affiliation(s)
- Hao Wu
- Institute of Applied Microbiology, Guangxi University, Nanning, PR China
- School of life science and technology, Guangxi University, Nanning, PR China
| | - Bin Liu
- Institute of Applied Microbiology, Guangxi University, Nanning, PR China
| | - Shangli Pan
- Institute of Applied Microbiology, Guangxi University, Nanning, PR China
- School of life science and technology, Guangxi University, Nanning, PR China
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Azman AS, Othman I, Velu SS, Chan KG, Lee LH. Mangrove rare actinobacteria: taxonomy, natural compound, and discovery of bioactivity. Front Microbiol 2015; 6:856. [PMID: 26347734 PMCID: PMC4542535 DOI: 10.3389/fmicb.2015.00856] [Citation(s) in RCA: 79] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2015] [Accepted: 08/06/2015] [Indexed: 11/13/2022] Open
Abstract
Actinobacteria are one of the most important and efficient groups of natural metabolite producers. The genus Streptomyces have been recognized as prolific producers of useful natural compounds as they produced more than half of the naturally-occurring antibiotics isolated to-date and continue as the primary source of new bioactive compounds. Lately, Streptomyces groups isolated from different environments produced the same types of compound, possibly due to frequent genetic exchanges between species. As a result, there is a dramatic increase in demand to look for new compounds which have pharmacological properties from another group of Actinobacteria, known as rare actinobacteria; which is isolated from special environments such as mangrove. Recently, mangrove ecosystem is becoming a hot spot for studies of bioactivities and the discovery of natural products. Many novel compounds discovered from the novel rare actinobacteria have been proven as potential new drugs in medical and pharmaceutical industries such as antibiotics, antimicrobials, antibacterials, anticancer, and antifungals. This review article highlights the latest studies on the discovery of natural compounds from the novel mangrove rare actinobacteria and provides insight on the impact of these findings.
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Affiliation(s)
- Adzzie-Shazleen Azman
- Jeffrey Cheah School of Medicine and Health Sciences, Monash University Sunway Campus Selangor, Malaysia
| | - Iekhsan Othman
- Jeffrey Cheah School of Medicine and Health Sciences, Monash University Sunway Campus Selangor, Malaysia
| | - Saraswati S Velu
- Jeffrey Cheah School of Medicine and Health Sciences, Monash University Sunway Campus Selangor, Malaysia
| | - Kok-Gan Chan
- Division of Genetics and Molecular Biology, Faculty of Science, Institute of Biological Sciences, University of Malaya Kuala Lumpur, Malaysia
| | - Learn-Han Lee
- Jeffrey Cheah School of Medicine and Health Sciences, Monash University Sunway Campus Selangor, Malaysia
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Thanaboripat D, Thawai C, Kittiwongwattana C, Laosinwattana C, Koohakan P, Parinthawong N. Micromonospora endophytica sp. nov., an endophytic actinobacteria of Thai upland rice (Oryza sativa). J Antibiot (Tokyo) 2015; 68:680-4. [PMID: 25966850 DOI: 10.1038/ja.2015.57] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2014] [Revised: 04/12/2015] [Accepted: 04/14/2015] [Indexed: 11/09/2022]
Abstract
An actinobacterial strain, DCWR9-8-2(T), was isolated from a leaf of Thai upland rice (Oryza sativa) collected in Chumporn province, Thailand. Strain DCWR9-8-2(T) is Gram-stain-positive aerobic bacteria that produce single spores directly on the vegetative hypha. Cell wall peptidoglycan of this strain exhibits meso-diaminopimelic acid and glycine, the reducing sugars of whole-cell hydrolysate are arabinose, glucose, ribose, xylose and small amount of mannose. The phospholipid profiles in the membrane are comprised of phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides. The major menaquinones are MK-9(H4) and MK-10(H6). The diagnostic cellular fatty acids are iso-C16:0 and iso-C15:0. The G+C content of the genomic DNA is 72.5 mol%. The result of 16S rRNA sequence analysis of the strain revealed that this strain was closely related to Micromonospora auratinigra TT1-11(T) (99.25%). On the other hand, the result of gyrB gene sequence analysis revealed that this strain was closed to M. eburnea JCM 12345(T) (96.30%). In addition, a combination of DNA-DNA hybridization results and some phenotypic properties supported that this strain should be judged as a novel species of the genus Micromonospora, for which the name M. endophytica sp. nov. is proposed. The type strain is DCWR9-8-2(T) (=BCC 67267(T)=NBRC 110008(T)).
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Affiliation(s)
- Dusanee Thanaboripat
- Department of Biology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
| | - Chitti Thawai
- Department of Biology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand.,Actinobacterial Research Unit, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
| | - Chokchai Kittiwongwattana
- Department of Biology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand.,Actinobacterial Research Unit, Faculty of Science, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
| | - Chamroon Laosinwattana
- Department of Plant Production Technology, Faculty of Agricultural Technology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
| | - Prommart Koohakan
- Department of Plant Production Technology, Faculty of Agricultural Technology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
| | - Nonglak Parinthawong
- Department of Plant Production Technology, Faculty of Agricultural Technology, King Mongkut's Institute of Technology Ladkrabang (KMITL), Bangkok, Thailand
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Suksaard P, Duangmal K, Srivibool R, Xie Q, Hong K, Pathom-Aree W. Jiangella mangrovi sp. nov., isolated from mangrove soil. Int J Syst Evol Microbiol 2015; 65:2569-2573. [PMID: 25948618 DOI: 10.1099/ijs.0.000303] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An aerobic, Gram-stain-positive actinomycete, designated strain 3SM4-07T, was characterized using a polyphasic taxonomic approach. The strain produced branching mycelium which fragmented into short or elongated rods. The whole-cell hydrolysates contained ll-2,6-diaminopimelic acid as the diagnostic diamino acid, with glucose and ribose as the main sugars. The predominant cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0 and iso-C16 : 0.The predominant menaquinone was MK-9(H4). Phospholipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylinositol and phosphatidylinositol mannoside. Mycolic acids were absent. The DNA G+C content was 72.3 mol%. Strain 3SM4-07T formed a phylogenetic line within the genus Jiangella and its 16S rRNA gene sequence was related most closely to Jiangella alkaliphila D8-87T (99.0% similarity), Jiangella muralis 15-Je-017T (98.8%), Jiangella alba YIM 61503T (98.6%) and Jiangella gansuensis YIM 002T (98.6%). However, mean DNA-DNA hybridization values revealed that strain 3SM4-07T differed from the closest species previously described in this genus. Data from phenotypic, chemotaxonomic and molecular analyses between strain 3SM4-07T and recognized species of the genus Jiangella indicate that strain 3SM4-07T is a representative of a novel species of the genus Jiangella, for which the name Jiangella mangrovi sp. nov. is proposed. The type strain is 3SM4-07T ( = BCC 60398T = NBRC 109648T).
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Affiliation(s)
- Paweena Suksaard
- Department of Microbiology, Faculty of Science, Kasetsart University, Bangkok, Thailand
| | - Kannika Duangmal
- Center for Advanced Studies in Tropical Natural Resources, NRU-KU, Kasetsart University, Chatuchak, Bangkok, Thailand.,Department of Microbiology, Faculty of Science, Kasetsart University, Bangkok, Thailand
| | | | - Qingyi Xie
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou City, PR China
| | - Kui Hong
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou City, PR China.,School of Pharmaceutical Sciences, Wuhan University, Wuhan, PR China
| | - Wasu Pathom-Aree
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
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Streptomyces ferrugineus sp. nov., isolated from mangrove soil in Thailand. Antonie van Leeuwenhoek 2014; 107:39-45. [PMID: 25331336 DOI: 10.1007/s10482-014-0301-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2014] [Accepted: 10/06/2014] [Indexed: 10/24/2022]
Abstract
Bacterial strain HV38(T) was isolated from mangrove soil, which was collected from Thailand. Chemotaxonomic and morphological characteristics were found to be typical of members of the genus Streptomyces. The strain was found to form a distinct phyletic line in the Streptomyces 16S rRNA gene tree and to be closely associated with the type strains of Streptomyces coeruleofuscus CGMCC 4.1667(T) (98.84 % sequence similarity), Streptomyces chromofuscus CGMCC 4.1451(T) (98.63 %) and Streptomyces albidoflavus CGMCC 4.1291(T) (98.56 %). The major menaquinones were identified as MK-9(H8) and MK-9(H10). Its major cellular fatty acids were found to be iso-C14:0, iso-C15:0, anteiso-C15:0, iso-C16:1ω8c, C16:0, anteiso-C16:1ω8c, iso-C16:0 and anteiso-C16:0. The DNA-DNA hybridization values between strain HV38(T) with S. coeruleofuscus CGMCC 4.1667(T), S. chromofuscus CGMCC 4.1451(T) and S. albidoflavus CGMCC 4.1291(T) were 32.7 ± 0.9, 21.8 ± 0.3 and 19.9 ± 0.9 %, respectively, which clearly supported the conclusion that they belong to separate genomic species. Cumulatively, the data indicated that strain HV38(T) represents a novel species of the genus Streptomyces, for which the name Streptomyces ferrugineus sp. nov. is proposed. The type strain is HV38(T) (=CCTCC AA2014009(T )= DSM 42152(T)).
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Zhao J, Guo L, He H, Liu C, Zhang Y, Li C, Wang X, Xiang W. Micromonospora taraxaci sp. nov., a novel endophytic actinomycete isolated from dandelion root (Taraxacum mongolicum Hand.-Mazz.). Antonie van Leeuwenhoek 2014; 106:667-74. [DOI: 10.1007/s10482-014-0237-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2014] [Accepted: 07/14/2014] [Indexed: 11/29/2022]
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Carro L, Pujic P, Trujillo ME, Normand P. Micromonospora is a normal occupant of actinorhizal nodules. J Biosci 2014; 38:685-93. [PMID: 24287646 DOI: 10.1007/s12038-013-9359-y] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
Actinorhizal plants have been found in eight genera belonging to three orders (Fagales, Rosales and Cucurbitales). These all bear root nodules inhabited by bacteria identified as the nitrogen-fixing actinobacterium Frankia. These nodules all have a peripheral cortex with enlarged cells filled with Frankia hyphae and vesicles. Isolation in pure culture has been notoriously difficult, due in a large part to the growth of fast-growing contaminants where, it was later found, Frankia was slow-growing. Many of these contaminants, which were later found to be Micromonospora, were obtained from Casuarina and Coriaria. Our study was aimed at determining if Micromonospora were also present in other actinorhizal plants. Nodules from Alnus glutinosa, Alnus viridis, Coriaria myrtifolia, Elaeagnus x ebbingei, Hippophae rhamnoides, Myrica gale and Morella pensylvanica were tested and were all found to contain Micromonospora isolates. These were found to belong to mainly three species: Micromonospora lupini, Micromonospora coriariae and Micromonospora saelicesensis. Micromonospora isolates were found to inhibit some Frankia strains and to be innocuous to other strains.
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Affiliation(s)
- Lorena Carro
- Universite Lyon 1, Universite de Lyon, CNRS, Ecologie Microbienne UMR5557, Villeurbanne 69622 Cedex, France
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33
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Liu Y, Xie QY, Shi W, Li L, An JY, Zhao YM, Hong K. Brachybacterium huguangmaarense sp. nov., isolated from Lake sediment. Int J Syst Evol Microbiol 2014; 64:1673-1678. [PMID: 24532648 DOI: 10.1099/ijs.0.052464-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain positive strain, M1T, was isolated from the sediment of Maar Lake in Zhanjiang, Guangdong Province, China. The diagnostic cell-wall diamino acid was meso-diaminopimelic acid, and mycolic acids were not detected. The polar lipid profile of strain M1T consisted of diphosphatidylglycerol, phosphatidylglycerol, an unidentified phospholipid and an unknown glycolipid. The predominant quinone was MK-7, with MK-6 as a minor component. The major fatty acids were anteiso-C15:0 and anteiso-C17:0, with iso-C18:0 as a minor component. The DNA G+C content of the genomic DNA was 71.0 mol%. 16S rRNA gene sequence analysis showed that strain M1T belongs to the family Dermabacteraceae, sharing highest sequence similarity with Brachybacterium nesterenkovii JCM 11648T (98.1%). Furthermore, a combination of DNA-DNA relatedness and physiological and biochemical properties indicated that the novel strain could be readily distinguished from its closest phylogenetic relatives. On the basis of these phenotypic and genotypic data, strain M1T represents a novel species of the genus Brachybacterium, for which the name Brachybacterium huguangmaarense sp. nov. is proposed. The type strain is M1T (=CCTCC AB 2012866T=DSM 26370T).
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Affiliation(s)
- Ying Liu
- College of Food Science and Technology, Guangdong Ocean University, Zhanjiang 524088, PR China
| | - Qing-Yi Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences/Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Haikou 571101, PR China
| | - Wei Shi
- Guangdong Huankai Microbial Sci. & Tech. Co., Ltd, Guangzhou 510663, PR China
| | - Lei Li
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071 PR China
| | - Jun-Ying An
- College of Food Science and Technology, Guangdong Ocean University, Zhanjiang 524088, PR China
| | - Ya-Mei Zhao
- College of Food Science and Technology, Guangdong Ocean University, Zhanjiang 524088, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071 PR China
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34
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Bouizgarne B, Ait Ben Aouamar A. Diversity of Plant Associated Actinobacteria. SUSTAINABLE DEVELOPMENT AND BIODIVERSITY 2014. [DOI: 10.1007/978-3-319-05936-5_3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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35
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Li C, Liu C, Zhao J, Zhang Y, Gao R, Zhang X, Yao M, Wang X, Xiang W. Micromonospora maoerensis sp. nov., isolated from a Chinese pine forest soil. Antonie van Leeuwenhoek 2013; 105:451-9. [DOI: 10.1007/s10482-013-0096-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2013] [Accepted: 12/07/2013] [Indexed: 11/25/2022]
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36
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Subramani R, Aalbersberg W. Culturable rare Actinomycetes: diversity, isolation and marine natural product discovery. Appl Microbiol Biotechnol 2013; 97:9291-321. [DOI: 10.1007/s00253-013-5229-7] [Citation(s) in RCA: 116] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2013] [Revised: 08/29/2013] [Accepted: 09/02/2013] [Indexed: 11/30/2022]
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37
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Paracoccus siganidrum sp. nov., isolated from fish gastrointestinal tract. Antonie van Leeuwenhoek 2013; 103:1133-9. [DOI: 10.1007/s10482-013-9894-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2012] [Accepted: 02/02/2013] [Indexed: 10/27/2022]
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38
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Li L, Mao YJ, Xie QY, Deng Z, Hong K. Micromonospora avicenniae sp. nov., isolated from a root of Avicennia marina. Antonie van Leeuwenhoek 2013; 103:1089-96. [DOI: 10.1007/s10482-013-9888-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2012] [Accepted: 01/28/2013] [Indexed: 10/27/2022]
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39
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Carro L, Pukall R, Spröer C, Kroppenstedt RM, Trujillo ME. Micromonospora cremea sp. nov. and Micromonospora zamorensis sp. nov., isolated from the rhizosphere of Pisum sativum. Int J Syst Evol Microbiol 2012; 62:2971-2977. [PMID: 22286910 DOI: 10.1099/ijs.0.038695-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Three actinobacterial strains, CR30(T), CR36 and CR38(T), were isolated from rhizosphere soil of Pisum sativum plants collected in Spain. The strains were filamentous, Gram-stain-positive and produced single spores. Phylogenetic, chemotaxonomic and morphological analyses confirmed that the three strains belonged to the genus Micromonospora. 16S rRNA gene sequence analysis of strains CR30(T) and CR36 showed a close relationship to Micromonospora coriariae NAR01(T) (99.3% similarity) while strain CR38(T) had a similarity of 99.0% with Micromonospora saelicesensis Lupac 09(T). In addition, gyrB gene phylogeny clearly differentiated the novel isolates from recognized Micromonospora species. DNA-DNA hybridization, BOX-PCR and ARDRA profiles confirmed that these strains represent novel genomic species. The cell-wall peptidoglycan of strains CR30(T) and CR38(T) contained meso-diaminopimelic acid. Both strains had MK-10(H(4)) as the main menaquinone and a phospholipid type II pattern. An array of physiological tests also differentiated the isolates from their closest neighbours. Considering all the data obtained, it is proposed that strains CR30(T) and CR36 represent a novel species under the name Micromonospora cremea sp. nov. (type strain CR30(T) = CECT 7891(T) = DSM 45599(T)), whereas CR38(T) represents a second novel species, for which the name Micromonospora zamorensis sp. nov. is proposed, with CR38(T) ( = CECT 7892(T) = DSM 45600(T)) as the type strain.
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Affiliation(s)
- Lorena Carro
- Departamento de Microbiología y Genética, Edificio Departamental, Lab. 205, Campus Miguel de Unamuno, Universidad de Salamanca, 37007 Salamanca, Spain
| | - Rüdiger Pukall
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Inhoffenstrasse 7B, 38124 Braunschweig, Germany
| | - Cathrin Spröer
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Inhoffenstrasse 7B, 38124 Braunschweig, Germany
| | - Reiner M Kroppenstedt
- DSMZ - Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Inhoffenstrasse 7B, 38124 Braunschweig, Germany
| | - Martha E Trujillo
- Departamento de Microbiología y Genética, Edificio Departamental, Lab. 205, Campus Miguel de Unamuno, Universidad de Salamanca, 37007 Salamanca, Spain
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Ren J, Li L, Wei B, Tang YL, Deng ZX, Sun M, Hong K. Micromonospora wenchangensis sp. nov., isolated from mangrove soil. Int J Syst Evol Microbiol 2012. [PMID: 23178730 DOI: 10.1099/ijs.0.045476-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
An actinomycete, strain 2602GPT1-05(T), was isolated from a composite mangrove soil sample collected from Wenchang, Hainan province, China. Strain 2602GPT1-05(T) showed closest 16S rRNA gene sequence similarity to Micromonospora haikouensis 232617(T) (99.05 %), and phylogenetically clustered with Micromonospora haikouensis 232617(T), Micromonospora matsumotoense IMSNU 22003(T) (98.7 %) and Micromonospora rifamycinica AM105(T) (98.6 %) based on the 16S rRNA and gyrB gene sequence phylogenetic analysis. The strain harboured meso-DAP and glycine as major cell-wall amino acids, and MK-10(H6) and MK-9(H6) as predominant menaquinones. The characteristic whole-cell sugars were xylose, arabinose, glucose and galactose. The polar lipid profile comprised phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylglycerol, phosphatidylinositol mannosides, unknown phospholipid and an unknown phosphoglycolipid. The major cellular fatty acids were C18 : 1ω9c, iso-C15 : 0, 10-methyl C18 : 0 (tuberculostearic acid), C16 : 0, C18 : 0 and iso-C16 : 0. The DNA G+C content was 71.7 mol%. Furthermore, some physiological and biochemical properties and low DNA-DNA relatedness values enabled the strain to be differentiated from members of closely related species. On the basis of these phenotypic, genotypic and chemotaxonomic data, strain 2602GPT1-05(T) represents a novel species of the genus Micromonospora, for which the name Micromonospora wenchangensis sp. nov. is proposed. The type strain is 2602GPT1-05(T) ( = CCTCC AA 2012002(T) = DSM 45709(T)).
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Affiliation(s)
- Jian Ren
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China.,Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Lei Li
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Bin Wei
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Yi-Li Tang
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Zi-Xin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Ming Sun
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
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Li L, Tang YL, Wei B, Xie QY, Deng Z, Hong K. Micromonospora sonneratiae sp. nov., isolated from a root of Sonneratia apetala. Int J Syst Evol Microbiol 2012. [PMID: 23178729 DOI: 10.1099/ijs.0.043570-0] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel endophytic actinomycete, strain 274745(T), was isolated from a root of Sonneratia apetala collected in a mangrove forest in Sanya, Hainan province, China. The 16S rRNA gene sequence of strain 274745(T) showed the greatest similarity to Micromonospora pattaloongensis TJ2-2(T) (98.3 %). Phylogenetic analysis based on the gyrB gene also supported the close relationship of these two strains. The predominant menaquinone was MK-10(H8) and the major fatty acids were iso-C15 : 0, C17 : 0 and anteiso-C15 : 0. The characteristic whole-cell sugars were xylose and mannose. The cell wall contained meso-diaminopimelic acid and glycine. The polar lipid profile mainly comprised phosphatidylethanolamine, phosphatidylinositol and diphosphatidylglycerol. The DNA G+C content was 71.6 mol%. Furthermore, a combination of DNA-DNA relatedness and some physiological and biochemical properties indicated that the novel strain could be readily distinguished from the closest phylogenetic relatives. On the basis of these phenotypic and genotypic data, strain 274745(T) represents a novel species of the genus Micromonospora, for which the name Micromonospora sonneratiae sp. nov. is proposed. The type strain is 274745(T) ( = CCTCC AA 2012003(T) = DSM 45704(T)).
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Affiliation(s)
- Lei Li
- College of Agronomy, Hainan University, Haikou 570228, PR China.,Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Yi-Li Tang
- College of Agronomy, Hainan University, Haikou 570228, PR China.,Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Bin Wei
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Qing-Yi Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Zixin Deng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
| | - Kui Hong
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China.,College of Agronomy, Hainan University, Haikou 570228, PR China.,Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
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42
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Xu XX, Wang HL, Lin HP, Wang C, Qu Z, Xie QY, Ruan JS, Hong K. Microbispora hainanensis sp. nov., isolated from rhizosphere soil of Excoecaria agallocha in a mangrove. Int J Syst Evol Microbiol 2012; 62:2430-2434. [DOI: 10.1099/ijs.0.037267-0] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain 211020T was isolated from rhizosphere soil of Excoecaria agallocha in a mangrove in Hainan, China. The strain produced longitudinal pair spores branching from aerial hyphae. 16S rRNA gene sequence analysis showed that the isolate belonged to the genus
Microbispora
, exhibiting the highest 16S rRNA gene sequence similarity (98.75 %) to
Microbispora corallina
JCM 10267T with a low DNA–DNA relatedness value (13±0.6 %). The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid but madurose was not detected. The predominant menaquinones were MK-9(H4), MK-9(H2) and MK-9(H0), and the major fatty acids were iso-C16 : 0, iso-C15 : 0 and C17 : 0. The phospholipid profile of strain 211020T comprised phosphatidylinositol mannoside, phosphatidylethanolamine, diphosphatidylglycerol and phospholipids of unknown structure containing glucosamine. The DNA G+C content was 70.8 mol%. On the basis of phenotypic and genotypic data, strain 211020T can be distinguished as a novel species of the genus
Microbispora
, for which the name Microbispora hainanensis sp. nov., is proposed. The type strain is 211020T ( = CGMCC 4.5595T = DSM 45428T).
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Affiliation(s)
- Xiao-Xiong Xu
- Hainan Key Laboratory for Herpetological Research, Department of Life Sciences, Qiongzhou University, Sanya, 572022, PR China
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Hai-Long Wang
- Fujian Institute of Microbiology, Jinbu Road 25, Cangshan District, Fuzhou, Fujian Province, 350007, PR China
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Hai-Peng Lin
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Cheng Wang
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Zhi Qu
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Qing-Yi Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Ji-Sheng Ruan
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan, 430071, PR China
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
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Songsumanus A, Tanasupawat S, Igarashi Y, Kudo T. Micromonospora maritima sp. nov., isolated from mangrove soil. Int J Syst Evol Microbiol 2012; 63:554-559. [PMID: 22523171 DOI: 10.1099/ijs.0.039180-0] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain D10-9-5(T) was isolated from mangrove soil in Samut Sakhon province, Thailand. A polyphasic approach was used to determine the taxonomic position of the strain. The strain presented single rough spores on substrate mycelium and no aerial mycelium. Chemotaxonomic data supported the assignment of strain D10-9-5(T) to the genus Micromonospora based on the presence of meso-diaminopimelic acid and glycolyl muramic acid in the peptidoglycan, ribose, mannose, galactose, xylose and glucose as whole-cell sugars, MK-10(H(4)) (14.8 %), MK-10(H(6)) (46.7 %) and MK-10(H(8)) (27.5 %) as the predominant isoprenoid quinones, iso-C(15 : 0) (17.9 %), anteiso-C(17 : 0) (14.6 %), iso-C(17 : 0) (9.6 %), C(17 : 0) (8.0 %), iso-C(16 : 0) (7.7 %) and C(17 : 1)ω8c (7.0 %) as the major cellular fatty acids, and diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides and phosphatidylethanolamine as the predominant phospholipids in the cell wall. The 16S rRNA gene sequence and phylogenetic analysis showed that strain D10-9-5 was closely related to Micromonospora marina JCM 12870(T) (99.6 %), Micromonospora coxensis JCM 13248 (T) (99.4 %), Micromonospora aurantiaca JCM 10878(T) (99.3 %), Micromonospora humi JCM15292(T) (99.3 %), Micromonospora halophytica JCM 3125(T) (99.1%) and Micromonospora chalcea JCM 3031(T) (99.1 %). Strain D10-9-5(T) could be clearly distinguished from related members of the genus Micromonospora by its physiological and biochemical characteristics as well as its phylogenetic position and level of DNA-DNA relatedness. Therefore, the strain represents a novel species for which the name Micromonospora maritima sp. nov. is proposed; the type strain is D10-9-5(T) ( = JCM 17013(T) = NBRC 108767(T) = PCU 322(T) = TISTR 2000(T)).
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Affiliation(s)
- Apakorn Songsumanus
- Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
| | - Somboon Tanasupawat
- Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
| | - Yasuhiro Igarashi
- Biotechnology Research Center, Toyama Prefectural University, 5180 Kurokawa, Kosugi, Toyama 939 0398, Japan
| | - Takuji Kudo
- Japan Collection of Microorganisms, RIKEN BioResource Center, Wako, Saitama 351-0198, Japan
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Xie QY, Lin HP, Li L, Brown R, Goodfellow M, Deng Z, Hong K. Verrucosispora wenchangensis sp. nov., isolated from mangrove soil. Antonie van Leeuwenhoek 2012; 102:1-7. [DOI: 10.1007/s10482-012-9707-1] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2011] [Accepted: 02/01/2012] [Indexed: 10/28/2022]
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Micromonospora haikouensis sp. nov., isolated from mangrove soil. Antonie van Leeuwenhoek 2012; 101:649-55. [DOI: 10.1007/s10482-011-9682-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2011] [Accepted: 11/30/2011] [Indexed: 10/14/2022]
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46
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Xu XX, Qu Z, Wang H, Lin HP, Wang C, Xie QY, Ruan JS, Hong K. Asanoa hainanensis sp. nov., isolated from rhizosphere soil of Acrostichum speciosum in a mangrove, and emended description of the genus Asanoa. Int J Syst Evol Microbiol 2011; 61:2384-2388. [DOI: 10.1099/ijs.0.025825-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-positive, non-motile actinobacterium, designated strain 210121T, was isolated from rhizosphere soil of the mangrove fern Acrostichum speciosum. 16S rRNA gene sequence analysis showed that the isolate belonged to the genus Asanoa. DNA–DNA relatedness values between strain 210121T and the type strains of the three recognized species of the genus Asanoa were below the 70 % threshold recommended for distinguishing bacterial genomic species. The novel isolate contained glutamic acid, glycine, alanine and meso-A2pm as cell-wall amino acids, indicating peptidoglycan type A1γ. The characteristic whole-cell sugars were xylose, ribose, glucose and mannose. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H8). The major fatty acids were iso-C16 : 0 (30.9 %), C17 : 0 (23.0 %), anteiso-C15 : 0 (14.9 %) and iso-C15 : 0 (12.3 %). The phospholipid profile comprised phosphatidylethanolamine, phosphatidylinositol mannosides and phospholipids of unknown structure containing glucosamine. The G+C content of the DNA was 70.3 mol%. On the basis of the phenotypic and genotypic data, strain 210121T ( = CGMCC 4.5593T = DSM 45427T) represents a novel species of the genus Asanoa, for which the name Asanoa hainanensis sp. nov., is proposed. An emended description of the genus Asanoa is also proposed.
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Affiliation(s)
- Xiao-Xiong Xu
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Zhi Qu
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Hailong Wang
- Fujian Institute of Microbiology, Jinbu Road 25, Cangshan District, Fuzhou, Fujian Province 350007, PR China
| | - Hai-Peng Lin
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Cheng Wang
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Qing-Yi Xie
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Ji-Sheng Ruan
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Kui Hong
- Lab of Tropical Microbial Resource, Hainan Province; Key Lab of Tropical Crop Biotechnology, Ministry of Agriculture; Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
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Streptomyces shenzhenensis sp. nov., a novel actinomycete isolated from mangrove sediment. Antonie van Leeuwenhoek 2011; 100:631-7. [PMID: 21732032 DOI: 10.1007/s10482-011-9618-6] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2011] [Accepted: 06/23/2011] [Indexed: 10/18/2022]
Abstract
An actinomycete strain, which was designated 172115(T), was isolated from mangrove soil in Shenzhen, China. Strain 172115(T) fell within the genus Streptomyces in the 16S rRNA gene tree and could be grouped into this genus based on its chemotaxonomic and morphological data. The strain shared the highest 16S rRNA gene sequence similarities with Streptomyces lanatus NBRC 12787(T) (AB184845) (98.29%) and Streptomyces lucensis NBRC 13056(T) (AB184280) (98.26%). The DNA-DNA hybridization values between strain 172115(T) and the two most closely related type strains were low enough to justify the assignment of the strain to a novel species. On the basis of these phenotypic, phylogenetic and chemotaxonomic characteristics, 172115(T) represents a novel species of the genus Streptomyces, for which, the name Streptomyces shenzhenensis sp. nov. is proposed for strain 172115(T) (=CCTCC AA 2011001(T)=DSM 42034(T)).
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48
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Wang F, Xu XX, Qu Z, Wang C, Lin HP, Xie QY, Ruan JS, Sun M, Hong K. Nonomuraea wenchangensis sp. nov., isolated from mangrove rhizosphere soil. Int J Syst Evol Microbiol 2011; 61:1304-1308. [DOI: 10.1099/ijs.0.025742-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain 210417T, which forms highly branched substrate and aerial mycelia, is a Gram-positive, aerobic and non-motile actinomycete isolated from mangrove rhizosphere soil. 16S rRNA gene sequence analysis showed that the strain should be classified in the genus Nonomuraea, being most closely related to the type strains of Nonomuraea coxensis (99.6 %) and Nonomuraea bangladeshensis (99.3 %). Chemotaxonomic properties [madurose as the major sugar in the cell wall; meso-diaminopimelic acid and N-acetylmuramic acid in the peptidoglycan; MK-9(H4) as the major menaquinone; iso-C16 : 0 (24.1 %) as major fatty acid; and phospholipid pattern type IV] are consistent with the assignment of strain 210417T to the genus Nonomuraea. Strain 210417T could be differentiated from the closely related species N. coxensis and N. bangladeshensis by morphological, physiological, biochemical and chemotaxonomic properties, 16S rRNA gene sequence analysis and DNA–DNA hybridization results. It is therefore proposed that strain 210417T represents a novel species of the genus Nonomuraea, for which the name Nonomuraea wenchangensis sp. nov. is given; the type strain is 210417T ( = CGMCC 4.5598T = DSM 45477T).
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Affiliation(s)
- Fan Wang
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430000, PR China
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Xiao-Xiong Xu
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Zhi Qu
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Cheng Wang
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Hai-Peng Lin
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Qing-Yi Xie
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Ji-Sheng Ruan
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Ming Sun
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430000, PR China
| | - Kui Hong
- Laboratory of Tropical Microbial Resource, Hainan Province, Key Laboratory of Tropical Crop Biotechnology, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
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49
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Songsumanus A, Tanasupawat S, Thawai C, Suwanborirux K, Kudo T. Micromonospora humi sp. nov., isolated from peat swamp forest soil. Int J Syst Evol Microbiol 2011; 61:1176-1181. [DOI: 10.1099/ijs.0.024281-0] [Citation(s) in RCA: 14] [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 novel actinomycete, strain P0402T, was isolated from peat swamp forest soil collected in Thailand. Its taxonomic position was determined by using a polyphasic taxonomic approach. The chemotaxonomic characteristics of this strain matched those of the genus Micromonospora, i.e. the presence of meso-diaminopimelic acid and N-glycolyl muramic acid in the peptidoglycan, whole-cell sugar pattern D, phospholipid type II, and cellular fatty acid type 3b. Phylogenetic analysis based on 16S rRNA gene sequences revealed a close relationship between strain P0402T and Micromonospora coxensis JCM 13248T (99.0 % similarity), Micromonospora eburnea JCM 12345T (99.0 %), Micromonospora marina JCM 12870T (98.9 %), Micromonospora halophytica JCM 3125T (98.7 %), Micromonospora chalcea JCM 3031T (98.7 %), Micromonospora purpureochromogenes JCM 3156T (98.6 %) and Micromonospora aurantiaca JCM 10878T (98.5 %). It could be clearly distinguished from these type strains based on low levels of DNA–DNA relatedness and phenotypic differences. On the basis of the data presented, strain P0402T is suggested to represent a novel species of the genus Micromonospora, for which the name Micromonospora humi sp. nov. is proposed. The type strain is P0402T ( = JCM 15292T = PCU 315T = TISTR 1883T).
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Affiliation(s)
- Apakorn Songsumanus
- Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
| | - Somboon Tanasupawat
- Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
| | - Chitti Thawai
- Department of Biology and Microbiol Resource Management Unit, Scientific Instrument Center, Faculty of Science, King Mongkut’s Institute of Technology, Ladkrabang, Bangkok 10520, Thailand
| | - Khanit Suwanborirux
- Department of Pharmacognosy and Pharmaceutical Botany, Faculty of Pharmaceutical Sciences, Chulalongkorn University, Bangkok 10330, Thailand
| | - Takuji Kudo
- Japan Collection of Microorganisms, RIKEN BioResource Center, Wako, Saitama 351-0198, Japan
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Hu H, Lin HP, Xie Q, Li L, Xie XQ, Hong K. Streptomyces qinglanensis sp. nov., isolated from mangrove sediment. Int J Syst Evol Microbiol 2011; 62:596-600. [PMID: 21515699 DOI: 10.1099/ijs.0.032201-0] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Streptomyces-like strain, 172205(T), was obtained from mangrove soil collected at Qinglan Harbour, Wenchang, Hainan, China. The strain was characterized by white aerial mycelium and long spore chains. Comparison of 16S rRNA gene sequences indicated that the strain represents a novel member of the genus Streptomyces, exhibiting highest levels of similarity (<98.29%) to the type strains of members of the genus Streptomyces. However, DNA-DNA relatedness and phenotypic data readily distinguished strain 172205(T) from phylogenetically related type strains. The predominant menaquinones were MK-9(H(6)) and MK-9(H(8)). The major fatty acids were iso-C(15:0) (10.31%), anteiso-C(15:0) (35.19%), iso-C(16:0) (20.24%) and anteiso-C(17:0) (10.05%). The diagnostic phospholipid was phosphatidylethanolamine. The cell wall contained ll-diaminopimelic acid and meso-diaminopimelic acid and whole-cell hydrolysates contained ribose, galactose and glucose. The results of DNA-DNA hybridization, physiological and biochemical tests allowed the genotypic and phenotypic differentiation of strain 172205(T) from phylogenetically related type strains. Therefore, strain 172205(T) is considered to represent a novel species of the genus Streptomyces, for which the name Streptomyces qinglanensis sp. nov. is proposed. The type strain is 172205(T) (=CGMCC 4.6825(T) =DSM 42035(T)).
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Affiliation(s)
- Huo Hu
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Hai-Peng Lin
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Qingyi Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Lei Li
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Xin-Qiang Xie
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
| | - Kui Hong
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, and Wuhan University School of Pharmaceutical Sciences, Wuhan 430071, PR China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, PR China
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agriculture Sciences, Haikou 571101, PR China
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