Nocardia panacis sp. nov., a novel actinomycete with antiphytopathogen activity isolated from the rhizosphere of Panax notoginseng

Strain YIM PH21724 T was isolated from the rhizosphere of Panax notoginseng . Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain exhibits close phylogenetic relatedness to Nocardia kroppenstedtii N1286 T (97.70%), Nocardia farcinica NCTC 11134 T (97.67%) and Nocardia puris...

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Published in:Antonie van Leeuwenhoek 2020-02, Vol.113 (2), p.165-174
Main Authors: Hu, Jia-Yun, Li, Lei, Peng, Guang, Li, Yi-Qing, Xu, Li-Hua, Guan, Hui-Lin, Zhao, Li-Xing, Miao, Cui-Ping
Format: Article
Language:English
Subjects:
Biomedical and Life Sciences
Cardiolipin
Deoxyribonucleic acid
DNA
Fatty acids
Gene sequencing
Life Sciences
Lipids
Medical Microbiology
Menaquinones
Microbiology
New species
Nocardia
Original Paper
Panax notoginseng
Phosphatidylethanolamine
Phosphatidylinositol
Phylogenetics
Phylogeny
Plant Sciences
Rhizosphere
rRNA 16S
Soil Science & Conservation
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cited_by cdi_FETCH-LOGICAL-c375t-900327bf09395a0c2f324c7501768a9529bb4e521f326bc8413fd18248de98913
cites cdi_FETCH-LOGICAL-c375t-900327bf09395a0c2f324c7501768a9529bb4e521f326bc8413fd18248de98913
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container_title Antonie van Leeuwenhoek
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creator Hu, Jia-Yun
Li, Lei
Peng, Guang
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Zhao, Li-Xing
Miao, Cui-Ping
description Strain YIM PH21724 T was isolated from the rhizosphere of Panax notoginseng . Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain exhibits close phylogenetic relatedness to Nocardia kroppenstedtii N1286 T (97.70%), Nocardia farcinica NCTC 11134 T (97.67%) and Nocardia puris DSM 44599 T (97.40%). The menaquinones were identified as MK-9 (H 4 ), MK-8 (H 4 , ω -cyclo) and MK-8 (H 4 ), and the major fatty acids (> 10%) were identified as C 16:0 , C 18:1 ω9 c and C 18:0 10-methyl. The polar lipids were found to be composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and an unidentified lipid. The G + C content of the genomic DNA was determined to be 67.01 mol%. The phenotypic, chemotaxonomic, phylogenetic and genomic results clearly show strain YIM PH21724 T should be classified in the genus Nocardia and represents a novel species, for which the name Nocardia panacis sp. nov. is proposed. The type strain is YIM PH21724 T (= DSM 105904 T  = KCTC 49030 T  = CCTCC AA 2017043 T ).
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Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain exhibits close phylogenetic relatedness to Nocardia kroppenstedtii N1286 T (97.70%), Nocardia farcinica NCTC 11134 T (97.67%) and Nocardia puris DSM 44599 T (97.40%). The menaquinones were identified as MK-9 (H 4 ), MK-8 (H 4 , ω -cyclo) and MK-8 (H 4 ), and the major fatty acids (&gt; 10%) were identified as C 16:0 , C 18:1 ω9 c and C 18:0 10-methyl. The polar lipids were found to be composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and an unidentified lipid. The G + C content of the genomic DNA was determined to be 67.01 mol%. The phenotypic, chemotaxonomic, phylogenetic and genomic results clearly show strain YIM PH21724 T should be classified in the genus Nocardia and represents a novel species, for which the name Nocardia panacis sp. nov. is proposed. The type strain is YIM PH21724 T (= DSM 105904 T  = KCTC 49030 T  = CCTCC AA 2017043 T ).</description><identifier>ISSN: 0003-6072</identifier><identifier>EISSN: 1572-9699</identifier><identifier>DOI: 10.1007/s10482-019-01326-z</identifier><identifier>PMID: 31552514</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Biomedical and Life Sciences ; Cardiolipin ; Deoxyribonucleic acid ; DNA ; Fatty acids ; Gene sequencing ; Life Sciences ; Lipids ; Medical Microbiology ; Menaquinones ; Microbiology ; New species ; Nocardia ; Original Paper ; Panax notoginseng ; Phosphatidylethanolamine ; Phosphatidylinositol ; Phylogenetics ; Phylogeny ; Plant Sciences ; Rhizosphere ; rRNA 16S ; Soil Science &amp; Conservation</subject><ispartof>Antonie van Leeuwenhoek, 2020-02, Vol.113 (2), p.165-174</ispartof><rights>Springer Nature Switzerland AG 2019</rights><rights>Antonie van Leeuwenhoek is a copyright of Springer, (2019). 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Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain exhibits close phylogenetic relatedness to Nocardia kroppenstedtii N1286 T (97.70%), Nocardia farcinica NCTC 11134 T (97.67%) and Nocardia puris DSM 44599 T (97.40%). The menaquinones were identified as MK-9 (H 4 ), MK-8 (H 4 , ω -cyclo) and MK-8 (H 4 ), and the major fatty acids (&gt; 10%) were identified as C 16:0 , C 18:1 ω9 c and C 18:0 10-methyl. The polar lipids were found to be composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and an unidentified lipid. The G + C content of the genomic DNA was determined to be 67.01 mol%. The phenotypic, chemotaxonomic, phylogenetic and genomic results clearly show strain YIM PH21724 T should be classified in the genus Nocardia and represents a novel species, for which the name Nocardia panacis sp. nov. is proposed. 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Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain exhibits close phylogenetic relatedness to Nocardia kroppenstedtii N1286 T (97.70%), Nocardia farcinica NCTC 11134 T (97.67%) and Nocardia puris DSM 44599 T (97.40%). The menaquinones were identified as MK-9 (H 4 ), MK-8 (H 4 , ω -cyclo) and MK-8 (H 4 ), and the major fatty acids (&gt; 10%) were identified as C 16:0 , C 18:1 ω9 c and C 18:0 10-methyl. The polar lipids were found to be composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and an unidentified lipid. The G + C content of the genomic DNA was determined to be 67.01 mol%. The phenotypic, chemotaxonomic, phylogenetic and genomic results clearly show strain YIM PH21724 T should be classified in the genus Nocardia and represents a novel species, for which the name Nocardia panacis sp. nov. is proposed. 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subjects Biomedical and Life Sciences
Cardiolipin
Deoxyribonucleic acid
DNA
Fatty acids
Gene sequencing
Life Sciences
Lipids
Medical Microbiology
Menaquinones
Microbiology
New species
Nocardia
Original Paper
Panax notoginseng
Phosphatidylethanolamine
Phosphatidylinositol
Phylogenetics
Phylogeny
Plant Sciences
Rhizosphere
rRNA 16S
Soil Science & Conservation
title Nocardia panacis sp. nov., a novel actinomycete with antiphytopathogen activity isolated from the rhizosphere of Panax notoginseng
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