Abstract
A novel actinomycete, designated strain 3C-HV12T, was isolated from the cuticle of an ant (Lasius fuliginosus L) and characterised using a polyphasic approach. 16S rRNA gene sequence similarity studies showed that strain 3C-HV12T belongs to the genus Nocardia with high sequence similarities to Nocardia soli DSM 44488T (99.2 %) and Nocardia cummidelens R89T (99.2 %), and phylogenetically clustered with these two species and Nocardia ignorata DSM 44496T (98.8 %), Nocardia salmonicida JCM 4826T (98.8 %), Nocardia fluminea S1T (98.8 %), Nocardia coubleae OFN N12T (98 %) and Nocardia camponoti 1H-HV4T (97.4 %). The morphological and chemotaxonomic properties of the strain are also consistent with those of members of the genus Nocardia. The strain was observed to form extensively branched substrate hyphae which fragmented into rod-shaped and non-motile elements. The cell wall was found to contain meso-diaminopimelic acid and the whole cell sugars were identified as arabinose and galactose. The predominant menaquinone was identified as MK-8(H4, ω-cycl). The phospholipid profile was found to consist of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. The major fatty acids were identified as C18:0 10-methyl, C16:0 and C16:1ω7c. Mycolic acids were found to be present. A combination of DNA–DNA hybridisation experiments and phenotypic tests were carried out between strain 3C-HV12T and its phylogenetically closely related strains, which further clarified their relatedness and demonstrated that 3C-HV12T could be distinguished from these strains. Therefore, the strain is concluded to represent a novel species of the genus Nocardia, for which the name Nocardia lasii sp. nov. is proposed. The type strain is 3C-HV12T (=DSM 100525T = CGMCC 4.7279T).
Similar content being viewed by others
References
Carr G, Poulsen M, Klassen JL, Hou YP, Wyche TP, Bugni TS, Currie CR, Clardy J (2012) Microtermolides A and B from termite-associated Streptomyces sp. and structural revision of Vinylamycin. Org Lett 14:2822–2825
Castellani A, Chalmers AJ (1919) Manual of tropical medicine, 3rd edn. Williams Wood, New York, pp 959–960
Collins MD (1985) Isoprenoid quinone analyses in bacterial classification and identification. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 267–284
Currie CR, Scott JA, Summerbell RC, Malloch D (2003) Fungus-growing ants use antibiotic-producing bacteria to control garden parasites. Nature 423:461
De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142
Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376
Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791
Gao RX, Liu CX, Zhao JW, Jia FY, Yu C, Yang LY, Wang XJ, Xiang WS (2014) Micromonospora jinlongensis sp. nov., isolated from muddy soil in China and emended description of the genus Micromonospora. Antonie Van Leeuwenhoek 105:307–315
Gerhardt P (1981) Manual of methods for general bacteriology. American Society for Microbiology, Washington, DC
Goodfellow M, Maldonado LA (2012) Genus I. Nocardia. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-i, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, the Actinobacteria, 2nd edn,. Springer, New York vol 5 pp. 376–418
Gordon RE (1967) The taxonomy of soil bacteria. In: Gray TRG, Parkinson D (eds) The ecology of soil bacteria. Liverpool University Press, Liverpool, pp 293–321
Gordon RE, Barnett DA, Handerhan JE, Pang C (1974) Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63
Hayakawa M, Nonomura H (1987) Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 65:501–509
Huss VAR, Festl H, Schleifer KH (1983) Studies on the spectrometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192
Jones KL (1949) Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 57:141–145
Kelly KL (1964) Inter-society color council-national bureau of standards color-name charts illustrated with centroid colors published in US
Kim SB, Brown R, Oldfield C, Gilbert SC, Iliarionov S, Goodfellow M (2000) Gordonia amicalis sp. nov., a novel dibenzothiophene-desulphurizing actinomycete. Int J Syst Evol Microbiol 50:2031–2036
Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH, Yi H, Won S, Chun J (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721
Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120
Lechevalier MP, Lechevalier HA (1980) The chemotaxonomy of actinomycetes. In: Dietz A, Thayer DW (eds) Actinomycete taxonomy special publication. Society of Industrial Microbiology, Arlington, pp 227–291
Lechevalier MP, De Bièvre C, Lechevalier HA (1977) Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5:249–260
Liu CX, Guan XJ, Li Y, Li WC, Ye L, Kong XX, Song J, Wang XJ, Xiang WS (2016) Nocardia camponoti sp. nov., a novel actinomycete isolated from the head of an ant (Camponotus japonicas Mayr). Int J Syst Evol Microbiol 66:1900–1905
Mandel M, Marmur J (1968) Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12B:195–206
McKerrow J, Vagg S, McKinney T, Seviour EM, Maszenan AM, Brooks P, Se-viour RJ (2000) A simple HPLC method for analysing diaminopimelic acid diastereomers in cell walls of Gram-positive bacteria. Lett Appl Microbiol 30:178–182
Minnikin DE, Hutchinson IG, Caldicott AB, Goodfellow M (1980) Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188:221–233
Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal K, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241
Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
Scott JJ, Oh DC, Yuceer MC, Klepzig KD, Clardy J, Currie CR (2008) Bacterial protection of beetle-fungus mutualism. Science 322:63
Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340
Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington DC, pp 607–654
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729
Thompson JD, Gibson TJ, Plewniak F (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 5:4876–4882
Uchida K, Kudo T, Suzuki K, Nakase T (1999) A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J Gen Appl Microbiol 45:49–56
Waksman SA (1967) The actinomycetes. a summary of current knowledge. Ronald Press, New York
Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE (1987) International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464
Wu C, Lu X, Qin M, Wang Y, Ruan J (1989) Analysis of menaquinone compound in microbial cells by HPLC. Microbiology [English translation of Microbiology (Beijing)] 16:176–178
Xiang WS, Liu CX, Wang XJ, Du J, Xi LJ, Huang Y (2011) Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). Int J Syst Evol Microbiol 61:1165–1169
Xie QY, Lin HP, Li L, Brown R, Goodfellow M, Deng Z, Hong K (2012) Verrucosispora wenchangensis sp. nov., isolated from mangrove soil. Antonie Van Leeuwenhoek 102:1–7
Yokota A, Tamura T, Hasegawa T, Huang LH (1993) Catenuloplanes japonicas gen. nov., sp. nov., nom. rev., a new genus of the order Actinomycetales. Int J Syst Bacteriol 43:805–812
Acknowledgments
This work was supported in part by Grants from the National Outstanding Youth Foundation (No. 31225024), the National Key Technology R&D Program (No. 2012BAD19B06), the National Natural Science Foundation of China (No. 31471832, 31171913, 31500010, 31572070 and 31372006), Chang Jiang Scholar Candidates Program for Provincial Universities in Heilongjiang (CSCP), the Youth Science Foundation of Heilongjiang Province (No. QC2014C013), the “Young Talents” Project of Northeast Agricultural University (14QC02), the Science and Technology Research Project of Heilongjiang Provincial Educational Commission (No. 12541001), the China Postdoctoral Science Foundation (2014M561319) and the Heilongjiang Postdoctoral Fund (LBH-Z14027). We are grateful to Prof. Aharon Oren for helpful advice on the specific epithet.
Author information
Authors and Affiliations
Corresponding authors
Additional information
Chongxi Liu and Lu Bai have contributed equally to this work.
Electronic supplementary material
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Liu, C., Bai, L., Ye, L. et al. Nocardia lasii sp. nov., a novel actinomycete isolated from the cuticle of an ant (Lasius fuliginosus L). Antonie van Leeuwenhoek 109, 1513–1520 (2016). https://doi.org/10.1007/s10482-016-0753-y
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10482-016-0753-y