1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 67, Issue 5

sp. nov., isolated from rhizosphere of tomato Free

Abstract

A bacterial strain, designated T20R-70, was isolated from tomato rhizosphere soil collected in Yecheon-gun, Gyeongsangbuk-do in South Korea. Growth was observed within the ranges 10–40 °C (optimally at 28–30 °C), pH 7.0–8.0 (optimally at pH 7.0) and 0–1 % NaCl (optimally at 0 %). The 16S rRNA gene sequence showed the highest similarities with those of KTCe-2 (98.7 %), KCTC 12130 (98.0 %), ‘' Dae08 (97.2 %) and 107-E2 (97.1 %). The phylogenetic tree showed that strain T20R-70 formed a clade with KTCe-2 and KCTC 12130. The dominant fatty acids (>10 %) were iso-C, iso-C, iso-Cω9 and summed feature 3 (including iso-C 2-OH and/or iso-Cω7). The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The major respiratory quinone was Q-8. DNA–DNA hybridization data revealed that strain T20R-70 had a hybridization value of 42±4 % (mean±) to the most closely related species of the genus . The DNA G+C content was 63.0 mol%. The physiological, biochemical and chemotaxonomic data allowed the discrimination of the new isolate from its phylogenetic relatives. Strain T20R-70 is thus considered to be a representative of a novel species of the genus , for which the name sp. nov. is proposed. The type strain is T20R-70 (=KACC 18656=NBRC 111881).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): 16S rRNA gene , Lysobactersolanacearum , polar lipid and quinone
© 2017 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001729
2017-05-01
2024-04-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/5/1102.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001729&mimeType=html&fmt=ahah

References

  1. Christensen P, Cook FD. Lysobacter, a new genus of nonfruiting, gliding bacteria with a high base ratio. Int J Syst Bacteriol 1978; 28:367–393 [CrossRef]
     [Google Scholar]
  2. Park JH, Kim R, Aslam Z, Jeon CO, Chung YR. Lysobacter capsici sp. nov., with antimicrobial activity, isolated from the rhizosphere of pepper, and emended description of the genus Lysobacter. Int J Syst Evol Microbiol 2008; 58:387–392 [View Article][PubMed]
     [Google Scholar]
  3. Choi JH, Seok JH, Cha JH, Cha CJ. Lysobacter panacisoli sp. nov., isolated from ginseng soil. Int J Syst Evol Microbiol 2014; 64:2193–2197 [View Article][PubMed]
     [Google Scholar]
  4. Singh H, du J, Won KH, Yang JE, Akter S et al. Lysobacter novalis sp. nov., isolated from fallow farmland soil. Int J Syst Evol Microbiol 2015; 65:3131–3136 [View Article][PubMed]
     [Google Scholar]
  5. Kim SJ, Ahn JH, Weon HY, Hong SB, Seok SJ et al. Lysobacter terricola sp. nov., isolated from greenhouse soil. Int J Syst Evol Microbiol 2016; 66:1401–1406 [CrossRef]
     [Google Scholar]
  6. Siddiqi MZ, Im WT. Lysobacter hankyongensis sp. nov., isolated from activated sludge and Lysobacter sediminicola sp. nov., isolated from freshwater sediment. Int J Syst Evol Microbiol 2016; 66:212–218 [View Article][PubMed]
     [Google Scholar]
  7. Felske A, Rheims H, Wolterink A, Stackebrandt E, Akkermans AD. Ribosome analysis reveals prominent activity of an uncultured member of the class Actinobacteria in grassland soils. Microbiology 1997; 143:2983–2989 [View Article][PubMed]
     [Google Scholar]
  8. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
     [Google Scholar]
  9. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012; 28:1823–1829 [View Article][PubMed]
     [Google Scholar]
  10. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
     [Google Scholar]
  11. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
     [Google Scholar]
  12. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376[PubMed] [CrossRef]
     [Google Scholar]
  13. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [CrossRef]
     [Google Scholar]
  14. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids MIDI Technical Note 101 Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  15. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [CrossRef]
     [Google Scholar]
  16. Gonzalez JM, Saiz-Jimenez C. A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 2002; 4:770–773[PubMed] [CrossRef]
     [Google Scholar]
  17. Seldin L, Dubnau D. Deoxyribonucleic acid homology among Bacillus polymyxa, Bacillus macerans, Bacillus azotofixans, and other nitrogen-fixing Bacillus strains. Int J Syst Bacteriol 1985; 35:151–154 [CrossRef]
     [Google Scholar]
  18. Stackebrandt E, Goebel BM. Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 1994; 44:846–849 [CrossRef]
     [Google Scholar]
  19. Ten LN, Jung HM, Im WT, Yoo SA, Lee ST. Lysobacter daecheongensis sp. nov., isolated from sediment of stream near the Daechung dam in South Korea. J Microbiol 2008; 46:519–524 [View Article][PubMed]
     [Google Scholar]
  20. Oh KH, Kang SJ, Jung YT, Oh TK, Yoon JH. Lysobacter dokdonensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2011; 61:1089–1093 [View Article][PubMed]
     [Google Scholar]
  21. Fukuda W, Kimura T, Araki S, Miyoshi Y, Atomi H et al. Lysobacter oligotrophicus sp. nov., isolated from an Antarctic freshwater lake in Antarctica. Int J Syst Evol Microbiol 2013; 63:3313–3318 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001729
Loading
Lysobacter solanacearum sp. nov., isolated from rhizosphere of tomato
Int J Syst Evol Microbiol 67, 1102 (2017); https://doi.org/10.1099/ijsem.0.001729
/content/journal/ijsem/10.1099/ijsem.0.001729
/content/journal/ijsem/10.1099/ijsem.0.001729
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error