- Home
- Publications
- International Journal of Systematic and Evolutionary Microbiology
- Volume 67, Issue 8
- Article

f Dictyobacter aurantiacus gen. nov., sp. nov., a member of the family Ktedonobacteraceae, isolated from soil, and emended description of the genus Thermosporothrix
- Authors: Shuhei Yabe1,2 , Yasuteru Sakai1,2 , Keietsu Abe1 , Akira Yokota1 , Akira Také3 , Atsuko Matsumoto3 , Arwan Sugiharto4 , Dwiningsih Susilowati5 , Moriyuki Hamada6 , Kazuhide Nara7 , I. Made Sudiana4 , Shigeto Otsuka8
-
- VIEW AFFILIATIONS
-
1 1Graduate School of Agricultural Sciences, Tohoku University, 468-1, Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-0845, Japan 2 2Hazaka Plant Research Center, Kennan Eisei Kogyo Co., Ltd., 44 Aza-Inariyama, Oaza-Ashitate, Murata-cho, Shibata-gun, Miyagi 989-1311, Japan 3 3Kitasato Institute for Life Sciences, Kitasato University, 5-9-1, Shirokane, Minato-ku, Tokyo 108-8641, Japan 4 4Research Center for Biology, Indonesian Institute of Sciences, Jl. Raya Bogor Km 46, Cibinong 16911, West Java, Indonesia 5 5Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development, Ministry of Agriculture, Jl. Tentara Pelajar No. 3A, Cimanggu Agricultural Research Campus, Bogor 16111, West Java, Indonesia 6 6NITE Biological Resource Center (NBRC), National Institute of Technology and Evaluation, 2-5-8 Kazusakamatari, Kisarazu, Chiba 292-0818, Japan 7 7Department of Natural Environmental Studies, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8563, Japan 8 8Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
- *Correspondence: Shuhei Yabe, [email protected] or [email protected]
- First Published Online: 31 July 2017, International Journal of Systematic and Evolutionary Microbiology 67: 2615-2621, doi: 10.1099/ijsem.0.001985
- Subject: New Taxa - Other Bacteria
- Received:
- Accepted:
- Cover date:




Dictyobacter aurantiacus gen. nov., sp. nov., a member of the family Ktedonobacteraceae, isolated from soil, and emended description of the genus Thermosporothrix, Page 1 of 1
< Previous page | Next page > /docserver/preview/fulltext/ijsem/67/8/2615_ijsem001985-1.gif
-
A mesophilic, Gram-stain-positive, spore-forming bacterium that formed branched mycelia was isolated from paddy soil in Gunung Salak (Mount Salak), West Java, Indonesia. This strain, designated S-27T, grew at temperatures between 20 and 37 °C; the optimum growth temperature was 25 to 30 °C, and no growth was observed at 15 or 45 °C. The pH range for growth was pH 3.5 to 8.6; the optimum pH was 6.0, and no growth was observed at pH 3.0 or 9.2. Strain S-27T was able to hydrolyse polysaccharides such as starch, cellulose and xylan. The G+C content of the DNA of strain S-27T was 55.7 mol%. The major fatty acids were iso-C17 : 0 and C16 : 1 2-OH, and the major menaquinone was MK-9 (H2). The cell wall of strain S-27T contained d-glutamic acid, glycine, l-alanine, d-alanine, l-ornithine and β-alanine in a molar ratio of 1.0 : 1.6 : 1.4 : 0.6 : 0.9 : 1.1. The polar lipids consisted of phosphatidylglycerol, phosphatidylinositol and two glycolipids. The major cell-wall sugar was arabinose. Detailed phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S-27T belongs to the order Ktedonobacterales and is most closely related to Ktedonobacter racemifer SOSP1-21T (89.6 % sequence identity). On the basis of its chemotaxonomic and phenotypic features and phylogenetic position, we concluded that strain S-27T represents a novel genus and species, for which we propose the name Dictyobacter aurantiacus gen. nov., sp. nov. The type strain of Dictyobacter aurantiacus is strain S-27T (=NBRC 109595T=InaCC B312T). Emendation of the description of the genus Thermosporothrix is also provided.
-
The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain S-27T is LC210808.
-
Two supplementary figures and one supplementary table are available with the online Supplementary Material.
- Keyword(s): Ktedonobacteria
© 2017 IUMS | Published by the Microbiology Society
-
1. Cavaletti L, Monciardini P, Bamonte R, Schumann P, Rohde M et al. New lineage of filamentous, spore-forming, gram-positive bacteria from soil. Appl Environ Microbiol 2006;72:4360–4369 [CrossRef][PubMed]
-
2. Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A. Thermosporothrix hazakensis gen. nov., sp. nov., isolated from compost and description of Thermosporotrichaceae fam. nov. within the class Ktedonobacteria. Int J Syst Evol Microbiol 2010;60:1794–1801[CrossRef]
-
3. Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A. Thermogemmatispora onikobensis gen. nov., sp. nov. and Thermogemmatispora foliorum sp. nov., isolated from fallen leaves on geothermal soils, and description of Thermogemmatisporaceae fam. nov. and Thermogemmatisporales ord. nov. within the class Ktedonobacteria. Int J Syst Evol Microbiol 2011;61:903–910 [CrossRef][PubMed]
-
4. Yabe S, Sakai Y, Yokota A. Thermosporothrix narukonensis sp. nov., belonging to the class Ktedonobacteria, isolated from fallen leaves on geothermal soil, and emended description of the genus Thermosporothrix. Int J Syst Evol Microbiol 2016;66:2152–2157 [CrossRef][PubMed]
-
5. King CE, King GM. Description of Thermogemmatispora carboxidivorans sp. nov., a carbon-monoxide-oxidizing member of the class Ktedonobacteria isolated from a geothermally heated biofilm, and analysis of carbon monoxide oxidation by members of the class Ktedonobacteria. Int J Syst Evol Microbiol 2014;64:1244–1251 [CrossRef][PubMed]
-
6. Stott MB, Crowe MA, Mountain BW, Smirnova AV, Hou S et al. Isolation of novel bacteria, including a candidate division, from geothermal soils in New Zealand. Environ Microbiol 2008;10:2030–2041 [CrossRef][PubMed]
-
7. Yabe S, Aiba Y, Sakai Y, Hazaka M, Yokota A. A life cycle of branched aerial mycelium- and multiple budding spore-forming bacterium Thermosporothrix hazakensis belonging to the phylum Chloroflexi. J Gen Appl Microbiol 2010;56:137–141 [CrossRef][PubMed]
-
8. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966;16:313–340 [CrossRef]
-
9. Smiber RM, Krieg NL. Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994
-
10. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
-
11. Hamada M, Yamamura H, Komukai C, Tamura T, Suzuki K et al. Luteimicrobium album sp. nov., a novel actinobacterium isolated from a lichen collected in Japan, and emended description of the genus Luteimicrobium. J Antibiot 2012;65:427–431 [CrossRef][PubMed]
-
12. Tamaoka J, Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 1984;25:125–128 [CrossRef]
-
13. Schleifer KH, Kandler O. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 1972;36:407–477[PubMed]
-
14. Harper JJ, Davis GHG. Two-dimensional thin-layer chromatography for amino acid analysis of bacterial cell walls. Int J Syst Bacteriol 1979;29:56–58 [CrossRef]
-
15. Yokota A, Tamura T, Nishii T, Hasegawa T. Kineococcus aurantiacus gen. nov., sp. nov., a new aerobic, Gram-positive, motile coccus with meso-diaminopimelic acid and arabinogalactan in the cell wall. Int J Syst Bacteriol 1993;43:52–57 [CrossRef]
-
16. Také A, Nakashima T, Inahashi Y, Shiomi K, Takahashi Y et al. Analyses of the cell-wall peptidoglycan structures in three genera Micromonospora, Catenuloplanes, and Couchioplanes belonging to the family Micromonosporaceae by derivatization with FDLA and PMP using LC/MS. J Gen Appl Microbiol 2016;62:199–205 [CrossRef][PubMed]
-
17. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990;13:128–130 [CrossRef]
-
18. Tindall BJ. Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 1990;66:199–202 [CrossRef]
-
19. Lane D. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester, UK: John Wiley and Sons; 1991; pp.115–175
-
20. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994;22:4673–4680 [CrossRef][PubMed]
-
21. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Window 95/98/NT. Nucleic Acids Symp Ser 1999;41:95–98
-
22. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993;10:512–526[PubMed]
-
23. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425[PubMed]
-
24. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef]
-
25. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef]
-
26. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980;16:111–120 [CrossRef]

Supplementary Data
Data loading....

Article metrics loading...

Full text loading...
Author and Article Information
-
This Journal
/content/journal/ijsem/10.1099/ijsem.0.001985dcterms_title,dcterms_subject,pub_serialTitlepub_serialIdent:journal/ijsem AND -contentType:BlogPost104 -
Other Society Journals
/content/journal/ijsem/10.1099/ijsem.0.001985dcterms_title,dcterms_subject-pub_serialIdent:journal/ijsem AND -contentType:BlogPost104 -
PubMed
-
Google Scholar
Figure data loading....