1
|
Xia Y, Qian XF, Chen X, Wang B, Wang YX. Description of Massilia orientalis sp. nov., Isolated from Rhizosphere Soil of Ageratina adenophora. Curr Microbiol 2024; 82:51. [PMID: 39706918 DOI: 10.1007/s00284-024-04008-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Accepted: 11/20/2024] [Indexed: 12/23/2024]
Abstract
A novel bacteria strain, designated YIM B02787T, was isolated from rhizosphere soil of Ageratina adenophora, in Yunnan, southwest China. The strain was aerobic, Gram-stain-negative, rod-shaped and motile with one polar flagellum. Growth occurred at 4-45 °C (optimum, 20-30 °C) and pH 6.0-10.0 (optimum, 7.0-8.0), and in presence of 0-1% (w/v) NaCl. Phylogenetic analyses based on both 16S rRNA gene and genome sequences data revealed that strain YIM B02787T belongs to the genus Massilia, being closely related to Massilia phosphatilytica KCTC 52513T (98.93% similarity), M. putida KCTC 42761T (98.86%), and M. kyonggiensis JCM 19189T (98.78%). The DNA G+C content was 65.9%. The digital DNA-DNA hybridization and average nucleotide identity values between the isolate strain and aforementioned closely neighbors were low, at 35.8-48.9 and 88.5-92.5%, respectively. Strain YIM B02787T contained Q-8 as the ubiquinone and major fatty acids were summed feature 3 (C16:1ω7c and/or C16:1ω6c, 45.5%) and C16:0 (27.5%). The polar lipid profile consisted of phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, two unidentified phospholipids, two unidentified aminophospholipids, and one unidentified polar lipid. On the basis of its phylogenetic, phenotypic and chemotaxonomic characteristics, strain YIM B02787Trepresents a novel species of the genus Massilia, for which the name Massilia orientalis sp. nov. is proposed. The type strain is YIM B02787T (= NBRC 116628T = CGMCC 1.61539T).
Collapse
Affiliation(s)
- Yun Xia
- School of Agriculture and Life Sciences, Kunming University, Kunming, Yunnan, 650214, People's Republic of China
| | - Xing-Feng Qian
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, Yunnan, 650091, People's Republic of China
| | - Xin Chen
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, Yunnan, 650091, People's Republic of China
| | - Bo Wang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, Yunnan, 650091, People's Republic of China
| | - Yong-Xia Wang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming, Yunnan, 650091, People's Republic of China.
| |
Collapse
|
2
|
Jeon D, Jiang L, Kim KH, Peng Y, Cho D, Jeong RD, Kim CY, Jeong JC, Lee J. Bioplastic (poly-3-hydroxybutyrate)-producing Massilia endophytica sp. nov., isolated from Cannabis sativa L. 'Cheungsam'. Sci Rep 2023; 13:17767. [PMID: 37853022 PMCID: PMC10584911 DOI: 10.1038/s41598-023-44976-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Accepted: 10/14/2023] [Indexed: 10/20/2023] Open
Abstract
A rod-shaped, motile, Gram-negative bacterial strain named DM-R-R2A-13T was isolated from the plant Cannabis sativa L. 'Cheungsam'. The phylogenetic analysis of the 16S rRNA gene sequence revealed that strain DM-R-R2A-13T belongs to the family Oxalobacteraceae and is closely related to members of the genus Massilia, with Massilia flava (97.58% sequence similarity) and Massilia armeniaca (97.37% sequence similarity) being the closest members. The digital DNA-DNA hybridization (dDDH) values between strain DM-R-R2A-13T and Massilia flava CGMCC 1.10685T and Massilia armeniaca ZMN-3Twere 22.2% and 23.3%, while the average nucleotide identity (ANI) values were 78.85% and 79.63%, respectively. The DNA G+C content was measured to be 64.6 mol%. Moreover, the bacterium was found to contain polyhydroxyalkanoate (PHA) granules based on transmission electron microscopy, indicating its potential to produce bioplastic. Genome annotation revealed the presence of PHA synthase genes (phaC, phaR, phaP, and phaZ), and the biopolymer was identified as poly-3-hydroxybutyrate (PHB) based on nuclear magnetic resonance (NMR) and Fourier transform infrared spectroscopy (FTIR) analyses. Using maltose as a carbon source, the strain produced PHB of up to 58.06% of its dry cell weight. Based on the phenotypic, chemotaxonomic, and phylogenetic characteristics, it has been determined that DM-R-R2A-13T represents a novel species belonging to the genus Massilia. As such, the name Massilia endophytica sp. nov. is proposed for this newly identified species. The type strain is DM-R-R2A-13T (= KCTC 92072T = GDMCC 1.2920T).
Collapse
Affiliation(s)
- Doeun Jeon
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
- Department of Applied Biology, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Lingmin Jiang
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
| | - Ki-Hyun Kim
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
| | - Yuxin Peng
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
| | - Donghyun Cho
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
- Department of Applied Biology, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Rae-Dong Jeong
- Department of Applied Biology, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Cha Young Kim
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
| | - Jae Cheol Jeong
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea
| | - Jiyoung Lee
- Korean Collection for Type Cultures (KCTC), Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeongeup, 56212, Republic of Korea.
- Department of Biosystems and Bioengineering, KRIBB School of Biotechnology, University of Science and Technology (UST), Yuseong, Daejeon, 34113, Republic of Korea.
| |
Collapse
|
3
|
Huq MA, Ma J, Srinivasan S, Parvez MAK, Rahman MM, Naserkheil M, Abuhena M, Maitra P, Islam F, Nam K, Park JH, Akter S. Massilia agrisoli sp. nov., isolated from rhizospheric soil of banana. Int J Syst Evol Microbiol 2023; 73. [PMID: 37224056 DOI: 10.1099/ijsem.0.005897] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/26/2023] Open
Abstract
A Gram-stain-negative, aerobic, short rod-shaped and motile novel bacterial strain, designated MAHUQ-52T, was isolated from the rhizospheric soil of a banana plant. Colonies grew at 10-35 °C (optimum, 28 °C), pH 6.0-9.5 (optimum, pH 7.0-7.5), and in the presence of 0-1.0 % NaCl (optimum 0 %). The strain was positive for catalase and oxidase tests, as well as hydrolysis of gelatin, casein, starch and Tween 20. Based on the results of phylogenetic analysis using 16S rRNA gene and genome sequences, strain MAHUQ-52T clustered together within the genus Massilia. Strain MAHUQ-52T was closely related to Massilia soli R798T (98.6 %) and Massilia polaris RP-1-19T (98.3 %). The novel strain MAHUQ-52T has a draft genome size of 4 677 454 bp (25 contigs), annotated with 4193 protein-coding genes, 64 tRNA and 19 rRNA genes. The genomic DNA G+C content was 63.0 %. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain MAHUQ-52T and closely related type strains were ≤88.4 and 35.8 %, respectively. The only respiratory quinone was ubiquinone-8. The major fatty acids were identified as C16 : 0 and summed feature 3 (C15 : 0 iso 2-OH and/or C16 : 1 ω7c). Strain MAHUQ-52T contained phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol as the major polar lipids. On the basis of dDDH and ANI values, as well as genotypic, chemotaxonomic and physiological data, strain MAHUQ-52T represents a novel species within the genus Massilia, for which the name Massilia agrisoli sp. nov. is proposed, with MAHUQ-52T (=KACC 21999T=CGMCC 1.18577T) as the type strain.
Collapse
Affiliation(s)
- Md Amdadul Huq
- Department of Food and Nutrition, College of Biotechnology and Natural Resource, Chung-Ang University, Anseong-si, Gyeonggi-do, 17546, Republic of Korea
| | - Juncai Ma
- World Data Center for Microorganisms (WDCM); Institute of Microbiology, Chinese Academy of Sciences (IMCAS), PR China
| | - Sathiyaraj Srinivasan
- Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University, Seoul, 01797, Republic of Korea
| | | | - M Mizanur Rahman
- Department of Biotechnology and Genetic Engineering, Faculty of Biological Science, Islamic University, Kushtia-7003, Bangladesh
| | - Masoumeh Naserkheil
- Animal Breeding and Genetics Division, National Institute of Animal Science, Cheonan 31000, Republic of Korea
| | - Md Abuhena
- Department of Research & Development, Apex Biofertilizers & Biopesticides Limited, Gobindaganj-5740, Gaibandha, Bangladesh
| | - Pulak Maitra
- Institute of Dendrology, Polish Academy of Sciences, 62-035 Kórnik, Poland
| | - Fahadul Islam
- Department of Pharmacy, Faculty of Allied Health Sciences, Daffodil International University, Dhaka, Bangladesh
| | - Kihong Nam
- Department of Horticultural Life Science, Hankyong National University, Anseong-si, Gyeonggi-do, 17579, Republic of Korea
| | - Jong-Hyun Park
- Department of Food Science and Biotechnology, Gachon University, Seongnam, 461-701, Republic of Korea
| | - Shahina Akter
- Department of Food Science and Biotechnology, Gachon University, Seongnam, 461-701, Republic of Korea
| |
Collapse
|
4
|
Yue J, Yang F, Wang S, Yuan J, Li L, Liu L. Massilia phyllostachyos sp. nov., Isolated from the Roots of Moso Bamboo in China. Curr Microbiol 2022; 80:54. [PMID: 36585979 DOI: 10.1007/s00284-022-03163-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Accepted: 12/22/2022] [Indexed: 01/01/2023]
Abstract
A Gram-negative, strictly aerobic, motile, and rod-shaped bacterial strain G4R7T was isolated from the roots of moso bamboo (Phyllostachys edulis) in Zhejiang, Hangzhou Province, China. After comparing 16S rRNA gene sequences, strain G4R7T exhibited the highest similarities with Massilia neuiana PTW21T (98.3%), followed by M. agri K-3-1T (98.3%), M. consociate CCUG 58010T (97.7%), M. niastensis 5516S-1T (97.7%) and M. yuzhufengensis ZD1-4T (97.6%). The phylogenetic analysis revealed that strain G4R7T belonged to the genus Massilia. The draft genome of strain G4R7T was 5.81 Mb, and the G+C content was 64.4%. The average nucleotide identity values between G4R7T and another related member of the genus Massilia ranged from 76.6 to 87.2%, and the digital DNA-DNA hybridization ranged from 20.7 to 27.9%. Strain G4R7T grew at 15-37 °C (optimum 25-30 °C) and pH 6.0-9.0 (optimum pH 7.0) in the presence of 0-3% (w/v) NaCl (optimum 0%). The respiratory quinone was Q-8, and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, and aminophospholipid. The major cellular fatty acids were C10:0 3OH, C12:0, C12:0 2OH, and C16:0, summed feature 3 (C16:1 ω6c and/or C16:1 ω7c). As per the data from chemotaxonomic, phylogenetic, and phenotypic evidence, strain G4R7T represents a new species of genus Massilia, for which the name Massilia phyllostachyos sp. nov. is proposed. The type strain is G4R7T (=ACCC 61911T=GDMCC 1.2961T=JCM 35225T).
Collapse
Affiliation(s)
- Jinjun Yue
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Fuyang, 311400, China
| | - Fu Yang
- Key Laboratory of Tree Breeding and Cultivation of State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China
| | - Siyu Wang
- Key Laboratory of Tree Breeding and Cultivation of State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China
| | - Jinling Yuan
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Fuyang, 311400, China
| | - Lubin Li
- Key Laboratory of Tree Breeding and Cultivation of State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China
| | - Lei Liu
- Key Laboratory of Tree Breeding and Cultivation of State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.
| |
Collapse
|
5
|
Lu H, Song D, Deng T, Mei C, Xu M. Duganella vulcania sp. nov., Rugamonas fusca sp. nov., Rugamonas brunnea sp. nov. and Rugamonas apoptosis sp. nov., isolated from subtropical streams, and phylogenomic analyses of the genera Janthinobacterium, Duganella, Rugamonas, Pseudoduganella and Massilia. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Six Gram-stain-negative, catalase- and oxidase-positive, rod-shaped and motile strains (FT81WT, FT82W, FT107W, FT3ST, LX20WT and LX47WT) sharing high 16S rRNA gene sequence similarities with species of the genera
Janthinobacterium
(97.0–98.3 %),
Duganella
(96.3–98.8 %),
Rugamonas
(97.8–98.6 %),
Pseudoduganella
(96.8–97.5 %) and
Massilia
(94.5–98.6 %) were isolated from subtropical streams in PR China. The phylogenetic trees reconstructed using the 16S rRNA gene sequences indicated that the species of above five genera often mix together, indicating that the taxonomic statuses of some species were questionable. Phylogenomic reconstruction based on 369 single-copy orthologous clusters indicated that the species of the genus
Janthinobacterium
form a distinct cluster, strains FT81WT, FT82W and FT107W form a tight cluster with the species of the genus
Duganella
, and strains FT3ST, LX20WT and LX47WT form a tight cluster with the species of genus
Rugamonas
, and the species of genus
Pseudoduganella
form a tight cluster with
Massilia guangdongensis
,
Massilia ginsengisoli
,
Massilia rivuli
,
Massilia namucuonensis
,
Massilia aquatica
sensu Lu et al.,
Massilia buxea
,
Massilia armeniaca
,
Massilia plicata
,
Massilia flava
,
Massilia lurida
,
Massilia dura
,
Massilia lutea
,
Massilia umbonata
,
Massilia albidiflava
and
Massilia violacea
. It should be noted that
Massilia aquatica
Lu et al. 2020 non
Massilia aquatica
Holochová et al. 2020 is a later homonym and an illegitimate name. The GTDB Release 202 also supported the proposal that
M. guangdongensis
,
M. ginsengisoli
,
M. rivuli
,
M. namucuonensis
,
M. aquatica
sensu Lu et al.,
M. buxea
,
M. armeniaca
,
M. plicata
,
M. flava
,
M. lurida
,
M. dura
,
M. lutea
,
M. umbonata
,
M. albidiflava
and
M. violacea
should be transferred into the genus
Pseudoduganella
. The calculated pairwise orthologous average nucleotide identity by usearch (OrthoANIu) values were between 95.0 % and 95.6 % among strains FT81WT, FT82W and FT107W, but were less than 91.5 % among strains FT3ST, LX20WT, LX47WT and other related strains. Combining the results of phylogenomic analyses, phenotypic, biochemical and genotypic characteristics, strains FT81WT, FT82W and FT107W should represent a novel species of the genus
Duganella
, and strains FT3ST, LX20WT and LX47WT should represent three novel species of the genus
Rugamonas
, for which the names Duganella vulcania sp. nov. (type strain FT81WT=GDMCC 1.1679T =KACC 21471T), Rugamonas fusca sp. nov. (type strain FT3ST=GDMCC 1.1907T =KACC 21952T), Rugamonas brunnea sp. nov. (type strain LX20WT=GDMCC 1.1911T =KACC 21956T) and Rugamonas apoptosis sp. nov. (type strain LX47WT=GDMCC 1.1914T =KACC 21959T) are proposed.
Collapse
Affiliation(s)
- Huibin Lu
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, PR China
- Yunnan Key Laboratory of Plateau Geographical Process and Environmental Changes, School of Tourism and Geography, Yunnan Normal University, Kunming, PR China
- Guangdong Open Laboratory of Applied Microbiology, Guangzhou, PR China
- State Key Laboratory of Applied Microbiology Southern China, Guangzhou, PR China
| | - Da Song
- Guangdong Open Laboratory of Applied Microbiology, Guangzhou, PR China
- State Key Laboratory of Applied Microbiology Southern China, Guangzhou, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, PR China
| | - Tongchu Deng
- Guangdong Open Laboratory of Applied Microbiology, Guangzhou, PR China
- State Key Laboratory of Applied Microbiology Southern China, Guangzhou, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, PR China
| | - Chengfang Mei
- Guangdong Open Laboratory of Applied Microbiology, Guangzhou, PR China
- State Key Laboratory of Applied Microbiology Southern China, Guangzhou, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, PR China
| | - Meiying Xu
- State Key Laboratory of Applied Microbiology Southern China, Guangzhou, PR China
- Guangdong Open Laboratory of Applied Microbiology, Guangzhou, PR China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, PR China
| |
Collapse
|
6
|
Sedláček I, Holochová P, Busse HJ, Koublová V, Králová S, Švec P, Sobotka R, Staňková E, Pilný J, Šedo O, Smolíková J, Sedlář K. Characterisation of Waterborne Psychrophilic Massilia Isolates with Violacein Production and Description of Massilia antarctica sp. nov. Microorganisms 2022; 10:microorganisms10040704. [PMID: 35456753 PMCID: PMC9028926 DOI: 10.3390/microorganisms10040704] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 03/22/2022] [Accepted: 03/22/2022] [Indexed: 11/16/2022] Open
Abstract
A group of seven bacterial strains producing blue-purple pigmented colonies on R2A agar was isolated from freshwater samples collected in a deglaciated part of James Ross Island and Eagle Island, Antarctica, from 2017–2019. The isolates were psychrophilic, oligotrophic, resistant to chloramphenicol, and exhibited strong hydrolytic activities. To clarify the taxonomic position of these isolates, a polyphasic taxonomic approach was applied based on sequencing of the 16S rRNA, gyrB and lepA genes, whole-genome sequencing, rep-PCR, MALDI-TOF MS, chemotaxonomy analyses and biotyping. Phylogenetic analysis of the 16S rRNA gene sequences revealed that the entire group are representatives of the genus Massilia. The closest relatives of the reference strain P8398T were Massilia atriviolacea, Massilia violaceinigra, Massilia rubra, Massilia mucilaginosa, Massilia aquatica, Massilia frigida, Massilia glaciei and Massilia eurypsychrophila with a pairwise similarity of 98.6–100% in the 16S rRNA. The subsequent gyrB and lepA sequencing results showed the novelty of the analysed group, and the average nucleotide identity and digital DNA–DNA hybridisation values clearly proved that P8398T represents a distinct Massilia species. After all these results, we nominate a new species with the proposed name Massilia antarctica sp. nov. The type strain is P8398T (= CCM 8941T = LMG 32108T).
Collapse
Affiliation(s)
- Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
- Correspondence: ; Tel.: +420-549-496-922
| | - Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität Wien, Veterinärplatz 1, A-1210 Wien, Austria;
| | - Vendula Koublová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Roman Sobotka
- Centrum Algatech, Institute of Microbiology, Czech Academy of Sciences, Opatovický mlýn, 379 01 Třeboň, Czech Republic; (R.S.); (J.P.)
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; (P.H.); (V.K.); (S.K.); (P.Š.); (E.S.)
| | - Jan Pilný
- Centrum Algatech, Institute of Microbiology, Czech Academy of Sciences, Opatovický mlýn, 379 01 Třeboň, Czech Republic; (R.S.); (J.P.)
| | - Ondrej Šedo
- Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic;
| | - Jana Smolíková
- Department of Physical Geography and Geoecology, Faculty of Science, Charles University, Albertov 6, 128 00 Praha, Czech Republic;
| | - Karel Sedlář
- Department of Biomedical Engineering, Faculty of Electrical Engineering and Communication, Brno University of Technology, Technická 12, 616 00 Brno, Czech Republic;
- Institute of Bioinformatics, Department of Informatics, Ludwig-Maximilians-Universität München, Amalienstraße 17, 803 33 Munich, Germany
| |
Collapse
|
7
|
Yang R, Zhou D, Wang Q, Peng W, Gong W, Zhao M, Ji A, Wang X, Yan L, Lv J, Sheng J. Massilia puerhi sp. nov., isolated from soil of Pu-erh tea cellar. Int J Syst Evol Microbiol 2021; 71. [PMID: 34499597 DOI: 10.1099/ijsem.0.004992] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-negative, yellow-pigmented, non-spore-forming rod, aerobic, motile bacterium, designated SJY3T, was isolated from soil samples collected from a Pu-erh tea cellar in Bolian Pu-erh tea estate Co. Ltd. in Pu'er city, Yunnan, south-west China. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate belonged to the genus Massilia. The closest phylogenetic relative was Massilia arenae CICC 24458T (99.5 %), followed by M. timonae CCUG45783T (97.9 %), M. oculi CCUG43427AT (97.8 %), and M. aurea DSM 18055T (97.8 %). The major fatty acids were C16 : 0 and C16 : 1 ω7c and/or C16 : 1 ω6c. The major respiratory quinone was ubiquinone Q-8 and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. Genome sequencing revealed a genome size of 5.97 M bp and a G+C content of 65.4 mol%. Pairwise determined whole genome average nucleotide identity (gANI) values and digital DNA-DNA hybridization (dDDH) values were all below the threshold. Although the 16S rRNA gene similarity of stain SJY3T and Massilia arenae CICC 24458T was more than 99 %, the gANI, dDDH values and genomic tree clearly indicated that they were not of the same species. In summary, strain SJY3T represents a new species, for which we propose the name Massilia puerhi sp. nov. with the type strain SJY3T (=CGMCC 1.17158T=KCTC 82193T).
Collapse
Affiliation(s)
- Ruijuan Yang
- Key Laboratory of Pu-er Tea Science, Ministry of Education, Yunnan Agricultural University, Kunming 650201, PR China.,College of Food Science and Technology, Yunnan Agricultural University, Kunming 650201, PR China.,College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - De Zhou
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 100029, PR China
| | - Qiaomei Wang
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Wenshu Peng
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Wanying Gong
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Miaomiao Zhao
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Aibing Ji
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Xuanjun Wang
- Key Laboratory of Pu-er Tea Science, Ministry of Education, Yunnan Agricultural University, Kunming 650201, PR China.,College of Science, Yunnan Agricultural University, Kunming 650201, PR China.,State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Kunming 650201, PR China
| | - Liang Yan
- College of Tea (Pu'er), West Yunnan University of Applied Sciences, Pu'er, Yunnan 665000, PR China.,Pu'er Institute of Pu-erh Tea, Pu'er, Yunnan 665000, PR China
| | - Jie Lv
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing 100029, PR China
| | - Jun Sheng
- Key Laboratory of Pu-er Tea Science, Ministry of Education, Yunnan Agricultural University, Kunming 650201, PR China.,State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Kunming 650201, PR China
| |
Collapse
|
8
|
Holochová P, Mašlaňová I, Sedláček I, Švec P, Králová S, Kovařovic V, Busse HJ, Staňková E, Barták M, Pantůček R. Description of Massilia rubra sp. nov., Massilia aquatica sp. nov., Massilia mucilaginosa sp. nov., Massilia frigida sp. nov., and one Massilia genomospecies isolated from Antarctic streams, lakes and regoliths. Syst Appl Microbiol 2020; 43:126112. [PMID: 32847787 DOI: 10.1016/j.syapm.2020.126112] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Revised: 07/01/2020] [Accepted: 07/02/2020] [Indexed: 11/24/2022]
Abstract
Bacteria of the genus Massilia often colonize extreme ecosystems, however, a detailed study of the massilias from the Antarctic environment has not yet been performed. Here, sixty-four Gram-stain-negative, aerobic, motile rods isolated from different environmental samples on James Ross Island (Antarctica) were subjected to a polyphasic taxonomic study. The psychrophilic isolates exhibited slowly growing, moderately slimy colonies revealing bold pink-red pigmentation on R2A agar. The set of strains exhibited the highest 16S rRNA gene sequence similarities (99.5-99.9%) to Massilia violaceinigra B2T and Massilia atriviolacea SODT and formed several phylogenetic groups based on the analysis of gyrB and lepA genes. Phenotypic characteristics allowed four of them to be distinguished from each other and from their closest relatives. Compared to the nearest phylogenetic neighbours the set of six genome-sequenced representatives exhibited considerable phylogenetic distance at the whole-genome level. Bioinformatic analysis of the genomic sequences revealed a high number of putative genes involved in oxidative stress response, heavy-metal resistance, bacteriocin production, the presence of putative genes involved in nitrogen metabolism and auxin biosynthesis. The identification of putative genes encoding aromatic dioxygenases suggests the biotechnology potential of the strains. Based on these results four novel species and one genomospecies of the genus Massilia are described and named Massilia rubra sp. nov. (P3094T=CCM 8692T=LMG 31213T), Massilia aquatica sp. nov. (P3165T=CCM 8693T=LMG 31211T), Massilia mucilaginosa sp. nov. (P5902T=CCM 8733T=LMG 31210T), and Massilia frigida sp. nov. (P5534T=CCM 8695T=LMG 31212T).
Collapse
Affiliation(s)
- Pavla Holochová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Ivana Mašlaňová
- Department of Experimental Biology, Section of Genetics and Molecular Biology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic
| | - Ivo Sedláček
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Pavel Švec
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Stanislava Králová
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Vojtěch Kovařovic
- Department of Experimental Biology, Section of Genetics and Molecular Biology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic
| | - Hans-Jürgen Busse
- Institut für Mikrobiologie, Veterinärmedizinische Universität Wien, A-1210 Wien, Austria
| | - Eva Staňková
- Department of Experimental Biology, Czech Collection of Microorganisms, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Miloš Barták
- Department of Experimental Biology, Section of Experimental Plant Biology, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Roman Pantůček
- Department of Experimental Biology, Section of Genetics and Molecular Biology, Faculty of Science, Masaryk University, 611 37 Brno, Czech Republic.
| |
Collapse
|
9
|
Abstract
High-quality draft genome sequences were determined for 6 Massilia sp. type strains. The genomes of these strains show considerable biosynthetic potential for producing secondary metabolites. High-quality draft genome sequences were determined for 6 Massilia sp. type strains. The genomes of these strains show considerable biosynthetic potential for producing secondary metabolites.
Collapse
|
10
|
Drivers of the composition of active rhizosphere bacterial communities in temperate grasslands. ISME JOURNAL 2019; 14:463-475. [PMID: 31659233 PMCID: PMC6976627 DOI: 10.1038/s41396-019-0543-4] [Citation(s) in RCA: 89] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/29/2019] [Revised: 10/14/2019] [Accepted: 10/16/2019] [Indexed: 12/25/2022]
Abstract
The active bacterial rhizobiomes and root exudate profiles of phytometers of six plant species growing in central European temperate grassland communities were investigated in three regions located up to 700 km apart, across diverse edaphic conditions and along a strong land use gradient. The recruitment process from bulk soil communities was identified as the major direct driver of the composition of active rhizosphere bacterial communities. Unexpectedly, the effect of soil properties, particularly soil texture, water content, and soil type, strongly dominated over plant properties and the composition of polar root exudates of the primary metabolism. While plant species-specific selection of bacteria was minor, the RNA-based composition of active rhizosphere bacteria substantially differed between rhizosphere and bulk soil. Although other variables could additionally be responsible for the consistent enrichment of particular bacteria in the rhizosphere, distinct bacterial OTUs were linked to the presence of specific polar root exudates independent of individual plant species. Our study also identified numerous previously unknown taxa that are correlated with rhizosphere dynamics and hence represent suitable targets for future manipulations of the plant rhizobiome.
Collapse
|
11
|
Yang E, Zhao M, Li S, Wang Y, Sun L, Liu J, Wang W. Massilia atriviolacea sp. nov., a dark purple-pigmented bacterium isolated from soil. Int J Syst Evol Microbiol 2019; 69:2135-2141. [PMID: 31140962 DOI: 10.1099/ijsem.0.003449] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial strain, designated SODT, with Gram-stain-negative and motile rod-shaped cells, was isolated from soil in Hefei, PR China, and was characterized using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SODT belonged to the genus Massilia and showed the highest similarities to Massilia violaceinigra B2T (99.3 %), followed by Massilia glaciei B448-2T (98.7 %), Massilia eurypsychrophila CGMCC 1.12828T (98.6 %) and Rugamonas rubra CCM3730T (97.8 %). Average nucleotide identity and digital DNA-DNA hybridization values between genome sequences of strain SODT and the closely related species ranged from 77.1 to 89.3% and from 22.2 to 34.7 %. The DNA G+C content of strain SODT was 65.4 mol%. Strain SODT contained Q-8 as the major ubiquinone and the dominant fatty acids were summed feature 3 (C16 : 1ω7c and/or C15 : 0iso 2-OH; 58.5 %), C16 : 0 (26.8 %) and C18 : 1ω7c (5.0 %). The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. On the basis of the evidence presented in this study, strain SODT represents a novel species of the genus Massilia, for which the name Massiliaatriviolacea sp. nov. is proposed. The type strain is SODT (=KCTC 62720T=LMG 30840T).
Collapse
Affiliation(s)
- Endong Yang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Meiyi Zhao
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Shanshan Li
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Yanxiang Wang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Leni Sun
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Jing Liu
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Weiyun Wang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| |
Collapse
|
12
|
Ren M, Li X, Zhang Y, Jin Y, Li S, Huang H. Massilia armeniaca sp. nov., isolated from desert soil. Int J Syst Evol Microbiol 2018; 68:2319-2324. [DOI: 10.1099/ijsem.0.002836] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Mengnan Ren
- College of Agronomy and Resources and Environment, Tianjin Agricultural University, Tianjin 300384, PR China
| | - Xiaoyan Li
- College of Food Science and Engineering, Tianjin Agricultural University, Tianjin 300384, PR China
| | - Yueqi Zhang
- Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming 650091, PR China
| | - Yu Jin
- College of Agronomy and Resources and Environment, Tianjin Agricultural University, Tianjin 300384, PR China
| | - Siqi Li
- College of Agronomy and Resources and Environment, Tianjin Agricultural University, Tianjin 300384, PR China
| | - Haidong Huang
- College of Agronomy and Resources and Environment, Tianjin Agricultural University, Tianjin 300384, PR China
| |
Collapse
|
13
|
Zhou GW, Yang XR, Su JQ, Zheng BX, Zhu YG. Bacillus ferrooxidans sp. nov., an iron(II)-oxidizing bacterium isolated from paddy soil. J Microbiol 2018; 56:472-477. [PMID: 29948824 DOI: 10.1007/s12275-018-7543-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Revised: 04/25/2018] [Accepted: 05/03/2018] [Indexed: 10/14/2022]
Abstract
An endospore-forming bacterium, designated YT-3T, was isolated from a paddy soil in Yingtan, Jiangxi, China. Cells of strain YT-3T were Gram-positive, rod-shaped, facultative anaerobic, catalase, and oxidase positive. The optimum growth temperature and pH were 30°C (ranged from 15 to 50°C) and 6.5-7.0 (ranged from 3 to 11), respectively. Analysis of the 16S rRNA gene sequence showed that strain YT-3T was affiliated to the genus Bacillus and displayed the highest similarity to that of Bacillus drentensis JCM 21707T (98.3%), followed by B. ginsengisoli JCM 17335T (97.8%) and B. fumarioli JCM 21708T (97.0%). The similarity of rpoB gene sequence between strain YT-3T and B. drentensis JCM 21707T, B. ginsengisoli JCM 17335T and B. fumarioli JCM 21708T was 80.4%, 81.5%, and 82.1%, respectively. The genomic DNA G + C content was 44.9 mol%. The predominant respiratory quinone was Menaquinone-7, and meso-diaminopimelic acid was present in the peptidoglycan layer of cell wall. The major fatty acids were C15:0 anteiso (36.2%), C14:0 iso (19.6%), C15:0 iso (17.4%), and C16:0 iso (9.8%). The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phospholipids, and ammoniac phospholipids. The DNA-DNA hybridization values between isolate YT-3T and B. drentensis (JCM 21707T), B. ginsengisoli (JCM 17335T), and B. fumarioli (JCM 21708T) were 36.3%, 30.3%, and 25.3%, respectively. On the basis of physiological, genetic and biochemical data, strain YT-3T represented a novel species of the genus Bacillus, for which the name Bacillus ferrooxidans sp. nov was proposed. The type strain is YT-3T (= KCTC 33875T = CCTCC AB 2017049T).
Collapse
Affiliation(s)
- Guo-Wei Zhou
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, P. R. China.,Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, P. R. China
| | - Xiao-Ru Yang
- Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, P. R. China.
| | - Jian-Qiang Su
- Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, P. R. China
| | - Bang-Xiao Zheng
- Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, P. R. China.,University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Yong-Guan Zhu
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, P. R. China.,Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, P. R. China
| |
Collapse
|
14
|
Sun LN, Yang ED, Cui DX, Ni YW, Wang YB, Sun DD, Wang WY. Massilia buxea sp. nov., isolated from a rock surface. Int J Syst Evol Microbiol 2017; 67:4390-4396. [PMID: 28933315 DOI: 10.1099/ijsem.0.002301] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, rod-shaped and motile bacterial strain, designated A9T, was isolated from the surface of rock collected from the shore of Nvshan lake in Mingguang, Anhui province, China. Phylogenetic analysis based on 16S rDNA sequence data showed that strain A9T was affiliated with the genus Massilia and showed the highest sequence similarities to Massilia plicata KCTC 12344T (98.8 %) and Massilia lurida CGMCC 1.10822T (97.9 %). The major fatty acids (>5 %) were summed feature 3 (C16 : 1ω7c and/or C15 : 0 iso 2-OH), C16 : 0 and C18 : 1ω7c. Strain A9T contained Q-8 as the predominant ubiquinone and diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminophospholipid as the predominant polar lipids. The DNA G+C content was 69.9 mol%. Mean DNA-DNA relatedness values between strain A9T and its closest phylogenetic relatives, M. plicata KCTC 12344T and M. lurida CGMCC 1.10822T, were 38.8 % and 23.23 %, respectively. On the basis of the results obtained in this study, strain A9T is considered to represent a novel species of the genus Massilia, for which the name Massilia buxea sp. nov. is proposed. The type strain is A9T (=DSM 103547T=CGMCC 1.15931T=KCTC 52429T).
Collapse
Affiliation(s)
- Le-Ni Sun
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - En-Dong Yang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Dan-Xi Cui
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Ye-Wen Ni
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Yu-Bo Wang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Dong-Dong Sun
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| | - Wei-Yun Wang
- School of Life Science, Anhui Agricultural University, Hefei 230036, PR China
| |
Collapse
|
15
|
Zheng BX, Bi QF, Hao XL, Zhou GW, Yang XR. Massilia phosphatilytica sp. nov., a phosphate solubilizing bacteria isolated from a long-term fertilized soil. Int J Syst Evol Microbiol 2017; 67:2514-2519. [PMID: 28853679 DOI: 10.1099/ijsem.0.001916] [Citation(s) in RCA: 66] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative and rod-shaped bacterial strain, 12-OD1T, with rock phosphate solubilizing ability was isolated from agricultural soil in Hailun, Heilongjiang, PR China. The isolate was affiliated to the genus Massilia, based on 16S rRNA gene sequence alignments, having the highest similarities with Massilia putida6 NM-7T (98.67 %), Massilia kyonggiensis TSA1T (98.28 %), and Massilia norwichensis NS9T (98.07 %), respectively. The DNA G+C content was 67.72 mol% and DNA-DNA hybridization showed low relatedness values (less than 47 %) between strain 12-OD1T and other phylogenetically related species of the genus Massilia. The predominant isoprenoid quinone was Q-8 and the polar lipid profile comprised diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The major fatty acids were C17 : 0 cyclo (25.4 %), C16 : 0 (23.4 %) and summed feature 3 (C16 : 1ω7c and/or C16 : 1 ω6c) (22.5 %), which differentiates it from close relatives within the genus Massilia. Combined genetic, physiological and biochemical properties indicate that strain 12-OD1T is a novel species of the genus Massilia, for which the name Massilia phosphatilytica sp. nov., is proposed, with the type strain 12-OD1T (=CCTCC AB 2016251T=LMG 29956T=KCTC 52513T).
Collapse
Affiliation(s)
- Bang-Xiao Zheng
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China.,University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Qing-Fang Bi
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China.,MOE Key Laboratory of Environment Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, PR China
| | - Xiu-Li Hao
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China.,Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg 1871, Denmark
| | - Guo-Wei Zhou
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China.,University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Xiao-Ru Yang
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China
| |
Collapse
|
16
|
Cho J, Kim KH, Kim JO, Hong JS, Jeong SH, Lee K. Massilia varians Isolated from a Clinical Specimen. Infect Chemother 2017; 49:219-222. [PMID: 28608658 PMCID: PMC5620389 DOI: 10.3947/ic.2017.49.3.219] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2016] [Accepted: 06/09/2016] [Indexed: 11/24/2022] Open
Abstract
We report a case of Massilia varians isolated from a deep finger wound following orthopedic surgery on an immunocompetent patient. The bacterium was identified by 16S rDNA sequence analysis. This is the first case of M. varians isolated from a clinical specimen since the first report in 2008.
Collapse
Affiliation(s)
- Jooyoung Cho
- Department of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, Seoul, Korea.,Department of Laboratory Medicine, Gangnam Severance Hospital, Yonsei University College of Medicine, Seoul, Korea
| | - Keon Han Kim
- Department of Laboratory Medicine, Gangnam Severance Hospital, Yonsei University College of Medicine, Seoul, Korea
| | - Jung Ok Kim
- Department of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, Seoul, Korea
| | - Jun Sung Hong
- Department of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, Seoul, Korea
| | - Seok Hoon Jeong
- Department of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, Seoul, Korea.,Department of Laboratory Medicine, Gangnam Severance Hospital, Yonsei University College of Medicine, Seoul, Korea.
| | - Kyungwon Lee
- Department of Laboratory Medicine and Research Institute of Bacterial Resistance, Yonsei University College of Medicine, Seoul, Korea
| |
Collapse
|
17
|
Altankhuu K, Kim J. Massilia pinisoli sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 2016; 66:3669-3674. [DOI: 10.1099/ijsem.0.001249] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Khulan Altankhuu
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon 16227, Republic of Korea
| | - Jaisoo Kim
- Department of Life Science, College of Natural Sciences, Kyonggi University, Suwon 16227, Republic of Korea
| |
Collapse
|
18
|
Guo B, Liu Y, Gu Z, Shen L, Liu K, Wang N, Xing T, Liu H, Zhou Y, Li J. Massilia psychrophila sp. nov., isolated from an ice core. Int J Syst Evol Microbiol 2016; 66:4088-4093. [PMID: 27432318 DOI: 10.1099/ijsem.0.001315] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, rod-shaped, motile bacterium, strain B1555-1T, was isolated from an ice core drilled from Ulugh Muztagh Glacier, China. The optimum growth temperature of strain B1555-1T was 15 °C and optimum pH was 7. The major fatty acids of strain B1555-1T were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The predominant respiratory quinone was Q-8. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The DNA G+C content of strain B1555-1T was 66.0 mol%. In 16S rRNA gene sequence comparisons, strain B1555-1T was affiliated to the genus Massilia and shared 98.30 and 97.13 % similarity with Massilia eurypsychrophila B528-3T and Massilia niabensis 5420S-26T, respectively. The results of DNA-DNA hybridization revealed that strain B1555-1T showed 49.8 % relatedness with M. eurypsychrophila B528-3T and 38.5 % with M. niabensis 5420S-26T. Based on the genotypic and phenotypic evidence presented in this study, strain B1555-1T represents a novel species of the genus Massilia, for which the name Massilia psychrophila sp. nov. is proposed. The type strain is B1555-1T (=CGMCC 1.15196T=JCM 30813T).
Collapse
Affiliation(s)
- Bixi Guo
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Yongqin Liu
- CAS Center for Excellence in Tibetan Plateau Earth Sciences, Beijing 100085, PR China.,Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Zhengquan Gu
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Liang Shen
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Keshao Liu
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Ningliang Wang
- CAS Center for Excellence in Tibetan Plateau Earth Sciences, Beijing 100085, PR China.,State Key Laboratory of Cryospheric Sciences, Cold and Arid Regions Environmental and Engineering Research Institute, Lanzhou 73000, PR China
| | - Tingting Xing
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Hongcan Liu
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yuguang Zhou
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Jiule Li
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
| |
Collapse
|
19
|
Singh H, Du J, Won K, Yang JE, Yin C, Kook M, Yi TH. Massilia arvi sp. nov., isolated from fallow-land soil previously cultivated with Brassica oleracea, and emended description of the genus Massilia. Int J Syst Evol Microbiol 2016. [PMID: 26220552 DOI: 10.1099/ijsem.0.000477] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel bacterial strain, designated THG-RS2OT, was isolated from fallow-land soil previously cultivated with Brassica oleracea in Yongin, South Korea. Cells were Gram-stain-negative, aerobic, non-motile rods, catalase- and oxidase-positive. Strain THG-RS2OT grew optimally at 25–37 °C, at pH 7.0 and in the absence of NaCl. 16S rRNA gene sequence analysis demonstrated that strain THG-RS2OT shows highest sequence similarity with Massilia kyonggiensis KACC 17471T followed by Massilia aerilata KACC 12505T, Massilia niastensis KACC 12599T, Massilia tieshanensis KACC 14940T and Massilia haematophila KCTC 32001T. Levels of DNA–DNA relatedness between strain THG-RS2OT and the closest phylogenetic neighbours were below 55.0 % and the DNA G+C content of strain THG-RS2OT was 63.2 mol%. Major fatty acids were C16 : 0, cyclo-C17 : 0 and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c). The major respiratory quinone was identified as ubiquonone-8 and predominant polar lipids were determined to be diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Characterization by 16S rRNA gene sequence analysis, DNA–DNA hybridization, ubiquinone, polar lipid, fatty acid composition, and physiological and biochemical parameters revealed that strain THG-RS2OT represents a novel species of the genus Massilia. Hence, the present study describes a novel species for which the name Massilia arvi sp. nov. is proposed. The type strain is THG-RS2OT ( = KCTC 42609T = CCTCC AB 2015115T).
Collapse
Affiliation(s)
- Hina Singh
- Department of Oriental Medicine Biotechnology, College of Life science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Juan Du
- Department of Oriental Medicine Biotechnology, College of Life science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - KyungHwa Won
- Department of Oriental Medicine Biotechnology, College of Life science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Jung-Eun Yang
- Department of Oriental Medicine Biotechnology, College of Life science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - ChangShik Yin
- Acupunture and Meridian Science Research Center, College of Korean Medicine, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - MooChang Kook
- Department of Marine Biotechnology, Anyang University, Incheon 417-833, Republic of Korea
| | - Tae-Hoo Yi
- Department of Oriental Medicine Biotechnology, College of Life science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| |
Collapse
|
20
|
Embarcadero-Jiménez S, Peix Á, Igual JM, Rivera-Orduña FN, Tao Wang E. Massilia violacea sp. nov., isolated from riverbank soil. Int J Syst Evol Microbiol 2016; 66:707-711. [DOI: 10.1099/ijsem.0.000776] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Salvador Embarcadero-Jiménez
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Mexico City, Mexico
| | - Álvaro Peix
- Instituto de Recursos Naturales y Agrobiología de Salamanca, Consejo Superior de Investigaciones Científicas (IRNASA-CSIC), Salamanca, Spain
- Unidad Asociada Grupo de Interacción Planta-Microorganismo, Universidad de Salamanca-IRNASA (CSIC), Salamanca, Spain
| | - José Mariano Igual
- Instituto de Recursos Naturales y Agrobiología de Salamanca, Consejo Superior de Investigaciones Científicas (IRNASA-CSIC), Salamanca, Spain
- Unidad Asociada Grupo de Interacción Planta-Microorganismo, Universidad de Salamanca-IRNASA (CSIC), Salamanca, Spain
| | - Flor N. Rivera-Orduña
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Mexico City, Mexico
| | - En Tao Wang
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Mexico City, Mexico
| |
Collapse
|
21
|
Hong C, Si Y, Xing Y, Li Y. Illumina MiSeq sequencing investigation on the contrasting soil bacterial community structures in different iron mining areas. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:10788-99. [PMID: 25761991 DOI: 10.1007/s11356-015-4186-3] [Citation(s) in RCA: 127] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Accepted: 01/29/2015] [Indexed: 05/19/2023]
Abstract
Mine activities leaked heavy metals into surrounding soil and may affected indigenous microbial communities. In the present study, the diversity and composition of the bacterial community in soil collected from three regions which have different pollution degree, heavy pollution, moderate pollution, and non-pollution, within the catchment of Chao River in Beijing City, were compared using the Illumina MiSeq sequencing technique. Rarefaction results showed that the polluted area had significant higher bacterial alpha diversity than those from unpolluted area. Principal component analysis (PCA) showed that microbial communities in the polluted areas had significant differences compared with the unpolluted area. Moreover, PCA at phylum level and Matastats results demonstrated that communities in locations shared similar phyla diversity, indicating that the bacterial community changes under metal pollution were not reflected on phyla structure. At genus level, the relative abundance of dominant genera changed in sites with degrees of pollution. Genera Bradyrhizobium, Rhodanobacter, Reyranella, and Rhizomicrobium significantly decreased with increasing pollution degree, and their dominance decreased, whereas several genera (e.g., Steroidobacter, Massilia, Arthrobacter, Flavisolibacter, and Roseiflexus) increased and became new dominant genera in the heavily metal-polluted area. The potential resistant bacteria, found within the genera of Thiobacillus, Pseudomonas, Arthrobacter, Microcoleus, Leptolyngbya, and Rhodobacter, are less than 2.0 % in the indigenous bacterial communities, which play an important role in soil ecosystem. This effort to profile the background diversity may set the first stage for better understanding the mechanism underlying the community structure changes under in situ mild heavy metal pollution.
Collapse
Affiliation(s)
- Chen Hong
- School of Civil and Environmental Engineering, and Key Laboratory of Metal and Mine Efficiently Exploiting and Safety, Ministry of Education, University of Science and Technology Beijing, 100083, Beijing, People's Republic of China
| | | | | | | |
Collapse
|
22
|
Shen L, Liu Y, Gu Z, Xu B, Wang N, Jiao N, Liu H, Zhou Y. Massilia eurypsychrophila sp. nov. a facultatively psychrophilic bacteria isolated from ice core. Int J Syst Evol Microbiol 2015; 65:2124-2129. [DOI: 10.1099/ijs.0.000229] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strain B528-3T, a Gram-stain-negative, rod-shaped, aerobic, facultatively psychrophilic bacterium with polar flagella, was isolated from an ice core drilled from Muztagh Glacier, Xinjiang, China. The novel isolate was classified into the genus Massilia. The 16S rRNA gene sequence of the novel isolate shares a pairwise similarity of less than 97 % with those of all the type strains of the genus Massilia. The major fatty acids of strain B528-3T were summed feature 3 (C16:1ω7c and/or iso-C15:0 2-OH) (57.31 %), C16:0 (11.46 %) and C18:1ω7c (14.72 %). The predominant isoprenoid quinone was Q-8. The DNA G+C content was 62.2 mol% (T
m). The major polar lipids of this bacterium were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. From the genotypic and phenotypic data, it is evident that strain B528-3T represents a novel species of the genus Massilia, for which the name Massilia eurypsychrophila sp. nov. is proposed. The type strain is B528-3T ( = JCM 30074T = CGMCC 1.12828T).
Collapse
Affiliation(s)
- Liang Shen
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yongqin Liu
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
- CAS Center for Excellence in Tibetan Plateau Earth Sciences Chinese Academy of Sciences Center for Excellence in Tibetan Plateau Earth Sciences
| | - Zhengquan Gu
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Baiqing Xu
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, PR China
- CAS Center for Excellence in Tibetan Plateau Earth Sciences Chinese Academy of Sciences Center for Excellence in Tibetan Plateau Earth Sciences
| | - Ninglian Wang
- Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou 730000, PR China
| | - Nianzhi Jiao
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361005, PR China
| | - Hongcan Liu
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yuguang Zhou
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| |
Collapse
|
23
|
Orthová I, Kämpfer P, Glaeser SP, Kaden R, Busse HJ. Massilia norwichensis sp. nov., isolated from an air sample. Int J Syst Evol Microbiol 2014; 65:56-64. [PMID: 25273514 DOI: 10.1099/ijs.0.068296-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-negative, rod-shaped and motile bacterial isolate, designated strain NS9(T), isolated from air of the Sainsbury Centre for Visual Arts in Norwich, UK, was subjected to a polyphasic taxonomic study including phylogenetic analyses based on partial 16S rRNA, gyrB and lepA gene sequences and phenotypic characterization. The 16S rRNA gene sequence of NS9(T) identified Massilia haematophila CCUG 38318(T), M. niastensis 5516S-1(T) (both 97.7% similarity), M. aerilata 5516S-11(T) (97.4%) and M. tieshanensis TS3(T) (97.4%) as the next closest relatives. In partial gyrB and lepA sequences, NS9(T) shared the highest similarities with M. haematophila CCUG 38318(T) (94.5%) and M. aerilata 5516-11(T) (94.3%), respectively. These sequence data demonstrate the affiliation of NS9(T) to the genus Massilia. The detection of the predominant ubiquinone Q-8, a polar lipid profile consisting of the major compounds diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol and a polyamine pattern containing 2-hydroxyputrescine and putrescine were in agreement with the assignment of strain NS9(T) to the genus Massilia. Major fatty acids were summed feature 3 (C16:1ω7c and/or iso-C15 : 0 2-OH), C16:0, C18: 1ω7c and C10:0 3-OH. Dissimilarities in partial lepA and gyrB gene sequences as well as results from DNA-DNA hybridizations demonstrate that strain NS9(T) is a representative of an as-yet undescribed species of the genus Massilia that is also distinguished from its close relatives based on physiological and biochemical traits. Hence, we describe a novel species, for which we propose the name Massilia norwichensis sp. nov., with the type strain NS9(T) ( = CCUG 65457(T) =LMG 28164(T)).
Collapse
Affiliation(s)
- Ivana Orthová
- Institut für Bakteriologie, Mykologie und Hygiene, Veterinärmedizinische Universität, A-1210 Wien, Austria
| | - Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
| | - Stefanie P Glaeser
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
| | - René Kaden
- Department of Medical Sciences, Clinical Bacteriology, University of Uppsala, SE-75185 Uppsala, Sweden
| | - Hans-Jürgen Busse
- Institut für Bakteriologie, Mykologie und Hygiene, Veterinärmedizinische Universität, A-1210 Wien, Austria
| |
Collapse
|
24
|
Han X, Satoh Y, Kuriki Y, Seino T, Fujita S, Suda T, Kobayashi T, Tajima K. Polyhydroxyalkanoate production by a novel bacterium Massilia sp. UMI-21 isolated from seaweed, and molecular cloning of its polyhydroxyalkanoate synthase gene. J Biosci Bioeng 2014; 118:514-9. [PMID: 24932969 DOI: 10.1016/j.jbiosc.2014.04.022] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Revised: 04/23/2014] [Accepted: 04/30/2014] [Indexed: 11/29/2022]
Abstract
We successfully isolated one microorganism (UMI-21) from Ulva, a green algae that contains starch. The strain UMI-21 can produce polyhydroxyalkanoate (PHA) from starch, maltotriose, or maltose as a sole carbon source. Taxonomic studies and 16S rDNA sequence analysis revealed that strain UMI-21 was phylogenetically related to species of the genus Massilia. The PHA content under the cultivation condition using a 10-L jar fermentor was 45.5% (w/w). This value was higher than that obtained after cultivation in a flask, suggesting the possibility of large-scale PHA production by UMI-21 from starch. A major issue for the industrial production of microbial PHAs is the very high production cost. Starch is a relatively inexpensive substrate that is also found in abundant seaweeds such as Ulva. Therefore, the strain isolated in this study may be very useful for producing PHA from seaweeds containing polysaccharides such as starch. In addition, a 3.7-kbp DNA fragment containing the whole PHA synthase gene (phaC) was obtained from the strain UMI-21. The results of open reading frame (ORF) analysis suggested that the DNA fragment contained two ORFs, which were composed of 1740 (phaC) and 564 bp (phaR). The deduced amino acid sequence of PhaC from strain UMI-21 shared high similarity with PhaC from Ralstonia eutropha, which is a representative PHA-producing bacterium with a class I PHA synthase. This is the first report for the cloning of the PHA synthase gene from Massilia species.
Collapse
Affiliation(s)
- Xuerong Han
- Faculty of Engineering, Hokkaido University, N13W8, Kita-ku, Sapporo 060-8628, Japan
| | - Yasuharu Satoh
- Faculty of Engineering, Hokkaido University, N13W8, Kita-ku, Sapporo 060-8628, Japan
| | - Yumi Kuriki
- Faculty of Engineering, Hokkaido University, N13W8, Kita-ku, Sapporo 060-8628, Japan
| | - Teruyuki Seino
- Hakodate National College of Technology, 14-1 Tokura-chou, Hakodate 042-8501, Japan
| | - Shinji Fujita
- Graduate School of Fisheries Science and Environmental Studies, Nagasaki University, 1-4 Bunkyo-chou, Nagasaki 852-8521, Japan
| | - Takanori Suda
- Faculty of Engineering, Hokkaido University, N13W8, Kita-ku, Sapporo 060-8628, Japan
| | - Takanori Kobayashi
- Hokkaido Industrial Technology Center, 379 Kikyou-chou, Hakodate 041-0801, Japan
| | - Kenji Tajima
- Faculty of Engineering, Hokkaido University, N13W8, Kita-ku, Sapporo 060-8628, Japan.
| |
Collapse
|
25
|
Massilia kyonggiensis sp. nov., isolated from forest soil in Korea. J Microbiol 2014; 52:378-83. [DOI: 10.1007/s12275-014-4010-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2014] [Revised: 02/21/2014] [Accepted: 03/06/2014] [Indexed: 11/26/2022]
|
26
|
Rodríguez-Díaz M, Cerrone F, Sánchez-Peinado M, SantaCruz-Calvo L, Pozo C, López JG. Massilia umbonata sp. nov., able to accumulate poly-β-hydroxybutyrate, isolated from a sewage sludge compost-soil microcosm. Int J Syst Evol Microbiol 2013; 64:131-137. [PMID: 24030691 DOI: 10.1099/ijs.0.049874-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial strain, designated strain LP01(T), was isolated from a laboratory-scale microcosm packed with a mixture of soil and sewage sludge compost designed to study the evolution of microbial biodiversity over time. The bacterial strain was selected for its potential ability to store polyhydroxyalkanoates (PHAs) as intracellular granules. The cells were aerobic, Gram-stain-negative, non-endospore-forming motile rods. Phylogenetically, the strain was classified within the genus Massilia, as its 16S rRNA gene sequence had similarity of 99.2 % with respect to those of Massilia albidiflava DSM 17472(T) and M. lutea DSM 17473(T). DNA-DNA hybridization showed low relatedness of strain LP01(T) to the type strains of other, phylogenetically related species of the genus Massilia. It contained Q-8 as the predominant ubiquinone and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) as the major fatty acid(s). It was found to contain small amounts of the fatty acids C18 : 0 and C14 : 0 2-OH, a feature that served to distinguish it from its closest phylogenetic relatives within the genus Massilia. The DNA G+C content was 66.0 mol%. Phylogenetic, phenotypic and chemotaxonomic data obtained in this study suggest that strain LP01(T) represents a novel species of the genus Massilia, for which the name Massilia umbonata sp. nov. is proposed. The type strain is LP01(T) ( = CECT 7753(T) = DSM 26121(T)).
Collapse
Affiliation(s)
- Marina Rodríguez-Díaz
- Max-Planck-Institut für Marine Mikrobiologie, Celsiusstrasse 1, 28359 Bremen, Germany
- Department of Microbiology, University of Granada, Granada, Spain
| | | | | | | | - Clementina Pozo
- Water Research Institute, University of Granada, Granada, Spain
- Department of Microbiology, University of Granada, Granada, Spain
| | - Jesús González López
- Water Research Institute, University of Granada, Granada, Spain
- Department of Microbiology, University of Granada, Granada, Spain
| |
Collapse
|
27
|
Luo X, Xie Q, Wang J, Pang H, Fan J, Zhang J. Massilia lurida sp. nov., isolated from soil. Int J Syst Evol Microbiol 2013; 63:2118-2123. [DOI: 10.1099/ijs.0.047068-0] [Citation(s) in RCA: 17] [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 bacterial isolate, designated strain D5T, was isolated from a soil sample collected from the Inner Mongolia Autonomous Region, China, and subjected to a taxonomic investigation using a polyphasic approach. Strain D5T was aerobic, Gram-stain-negative, rod-shaped and motile. Strain D5T fell within the evolutionary radius of the genus
Massilia
in the phylogenetic tree based on 16S rRNA gene sequences and was most closely related to
Massilia plicata
76T with 97.3 % 16S rRNA gene sequence similarity. The predominant quinone of strain D5T was Q-8. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C16 : 0. These chemotaxonomic data supported the affiliation of strain D5T to the genus
Massilia
. The genomic DNA G+C content was 65.9 mol%. Mean DNA–DNA relatedness values between strain D5T and the phylogenetically most closely related species of the genus
Massilia
,
Massilia plicata
KCTC 12344T and
Massilia dura
KCTC 12342T, were 26 and 21 %, respectively. Strain D5T could be differentiated from recognized species of the genus
Massilia
by several phenotypic characteristics. It is clear from the data presented that strain D5T represents a novel species of the genus
Massilia
, for which the name Massilia lurida sp. nov. is proposed. The type strain is D5T ( = CGMCC 1.10822T = KCTC 23880T).
Collapse
Affiliation(s)
- Xiaonan Luo
- School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Qiong Xie
- State Key Lab of Space Medicine Fundamentals and Application, China Astronaut Research and Training Center, Beijing 100094, PR China
| | - Jiewei Wang
- School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Huancheng Pang
- Institute of Agri-resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Jinping Fan
- School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Jianli Zhang
- School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| |
Collapse
|
28
|
Shen L, Liu Y, Wang N, Yao T, Jiao N, Liu H, Zhou Y, Xu B, Liu X. Massilia
yuzhufengensis sp. nov., isolated from an ice core. Int J Syst Evol Microbiol 2013; 63:1285-1290. [DOI: 10.1099/ijs.0.042101-0] [Citation(s) in RCA: 20] [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-negative, rod-shaped, aerobic, motile bacterium, strain Y1243-1T, was isolated from an ice core drilled from Yuzhufeng Glacier, Tibetan Plateau, China. Cells had polar flagella. The novel strain shared 94.7–97.6 % 16S rRNA gene sequence similarity with the type strains of species of the genus
Massilia
. The novel isolate is thus classified in the genus
Massilia
. The major fatty acids of strain Y1243-1T were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) (43.98 %), C16 : 0 (27.86 %), C10 : 0 3-OH (7.10 %), C18 : 0 (6.95 %) and C18 : 1ω7c (5.01 %). The predominant isoprenoid quinone was Q-8. The DNA G+C content of strain Y1243-1T was 65.7 mol% (T
m). The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. A number of phenotypic characteristics distinguished the novel isolate from the type strains of recognized
Massilia
species. Furthermore, in DNA–DNA hybridization tests, strain Y1243-1T shared 45 % relatedness with its closest phylogenetic relative,
Massilia consociata
CCUG 58010T. From the genotypic and phenotypic data, it is evident that strain Y1243-1T represents a novel species of the genus
Massilia
, for which the name
Massilia
yuzhufengensis sp. nov. is proposed. The type strain is Y1243-1T ( = KACC 16569T = CGMCC 1.12041T).
Collapse
Affiliation(s)
- Liang Shen
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Yongqin Liu
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Ninglian Wang
- Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou 730000, PR China
| | - Tandong Yao
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Nianzhi Jiao
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361005, PR China
| | - Hongcan Liu
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yuguang Zhou
- Institute of Microbiology, China General Microbiological Culture Collection Center, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Baiqing Xu
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Xiaobo Liu
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, PR China
| |
Collapse
|
29
|
Du Y, Yu X, Wang G. Massilia tieshanensis sp. nov., isolated from mining soil. Int J Syst Evol Microbiol 2012; 62:2356-2362. [DOI: 10.1099/ijs.0.034306-0] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A bacterial isolate, designated strain TS3T, was isolated from soil collected from a metal mine in Tieshan District, Daye City, Hubei Province, in central China. Cells of this strain were Gram-negative, motile and rod-shaped. The strain had ubiquinone Q-8 as the predominant respiratory quinone, phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol as the major polar lipids and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0 and C18 : 1ω7c as the major fatty acids. The G+C content was 65.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain TS3T was most closely related to
Massilia niastensis
5516S-1T (98.5 %),
Massilia consociata
CCUG 58010T (97.6 %),
Massilia aerilata
5516S-11T (97.4 %) and
Massilia varians
CCUG 35299T (97.2 %). DNA–DNA hybridization revealed low relatedness between strain TS3T and
M. niastensis
KACC 12599T (36.5 %),
M. consociata
CCUG 58010T (27.1 %),
M. aerilata
KACC 12505T (22.7 %) and
M. varians
CCUG 35299T (46.5 %). On the basis of phenotypic and phylogenetic characteristics, strain TS3T belongs to the genus
Massilia
, but is clearly differentiated from other members of the genus. The strain represents a novel species, for which the name Massilia tieshanensis sp. nov. is proposed. The type strain is TS3T ( = CCTCC AB 2010202T = KACC 14940T).
Collapse
Affiliation(s)
- Yan Du
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China
| | - Xiang Yu
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China
| | - Gejiao Wang
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China
| |
Collapse
|
30
|
Kong BH, Li YH, Liu M, Liu Y, Li CL, Liu L, Yang ZW, Yu R. Massilia namucuonensis sp. nov., isolated from a soil sample. Int J Syst Evol Microbiol 2012; 63:352-357. [PMID: 22447703 DOI: 10.1099/ijs.0.039255-0] [Citation(s) in RCA: 22] [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-staining-negative, rod-shaped and non-spore-forming bacterium, designated strain 333-1-0411(T), was isolated from a soil sample collected from Namucuo, Tibet Autonomous Region, China and characterized in a taxonomic study using a polyphasic approach. The major fatty acid components of strain 333-1-0411(T) were summed feature 3 (C(16 : 1)ω7c and/or C(16 : 1)ω6c) and C(16 : 0); its major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. Q-8 was the dominant ubiquinone, and the G+C content of the genomic DNA was 66.7 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain 333-1-0411(T) fell within the evolutionary radiation encompassed by the genus Massilia. The 16S rRNA gene sequence similarities between strain 333-1-0411(T) and recognized species of the genus Massilia ranged from 95.4 % to 97.2 %, and the most closely related strains were Massilia flava Y9(T) (97.2 %) and Massilia albidiflava 45(T) (97.0 %). However, the DNA-DNA relatedness values between strain 333-1-0411(T) and M. flava Y9(T) and M. albidiflava 45(T) were 20.2 % and 27.2 %, respectively. Based on the phenotypic, chemotaxonomic and phylogenetic properties, strain 333-1-0411(T) is considered to represent a novel species of the genus Massilia, for which the name Massilia namucuonensis sp. nov. is proposed. The type strain is 333-1-0411(T) (= CGMCC 1.11014(T) = DSM 25159(T)).
Collapse
Affiliation(s)
- Bi He Kong
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Yan Hong Li
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Min Liu
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Yang Liu
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Chun Li Li
- New Technique Centre, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Lei Liu
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Zhi Wei Yang
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| | - Rong Yu
- College of Life Science, Capital Normal University, Beijing 100048, PR China
| |
Collapse
|
31
|
Bassas-Galia M, Nogales B, Arias S, Rohde M, Timmis K, Molinari G. Plant original Massilia isolates producing polyhydroxybutyrate, including one exhibiting high yields from glycerol. J Appl Microbiol 2012; 112:443-54. [DOI: 10.1111/j.1365-2672.2011.05228.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|