Description of Azotobacter chroococcum subsp. isscasi subsp. nov. isolated from paddy soil and establishment of Azotobacter chroococcum subsp. chroococcum subsp. nov.

References

1. Erisman JW, Sutton MA, Galloway J, Klimont Z, Winiwarter W. How a century of ammonia synthesis changed the world. Nat Geosci 2008; 1:636–639 [View Article]
   [Google Scholar]
2. Smil V. Nitrogen and food production: proteins for human diets. Ambio 2002; 31:126–131 [View Article]
   [Google Scholar]
3. Tilman D, Cassman KG, Matson PA, Naylor R, Polasky S. Agricultural sustainability and intensive production practices. Nature 2002; 418:671–677 [View Article]
   [Google Scholar]
4. Reed SC, Cleveland CC, Townsend AR. Functional ecology of free-living nitrogen fixation: a contemporary perspective. Annu Rev Ecol Evol Syst 2011; 42:489–512 [View Article]
   [Google Scholar]
5. Romero-Perdomo F, Abril J, Camelo M, Moreno-Galván A, Pastrana I et al. Azotobacter chroococcum as a potentially useful bacterial biofertilizer for cotton (Gossypium hirsutum): Effect in reducing N fertilization. Revista Argentina de Microbiología 2017; 49:377–383 [View Article]
   [Google Scholar]
6. Jalilian J, Modarres-Sanavy SAM, Saberali SF, Sadat-Asilan K. Effects of the combination of beneficial microbes and nitrogen on sunflower seed yields and seed quality traits under different irrigation regimes. Field Crops Research 2012; 127:26–34 [View Article]
   [Google Scholar]
7. Kennedy C, Rudnick P L et al. Azotobacter . In Whitman WB, Rainey F, Kämpfer P, Trujillo ME, Chun J et al. (editors) Bergey's Manual of Systematics of Archaea and Bacteria Hoboken: Wiley; 2015 pp 1–33
   [Google Scholar]
8. Gauri SS, Mandal SM, Mondal KC, Dey S, Pati BR. Enhanced production and partial characterization of an extracellular polysaccharide from newly isolated Azotobacter sp. SSB81. Bioresour Technol 2009; 100:4240–4243 [View Article]
   [Google Scholar]
9. Skerman VBD. McGowan V Sneath PHA Approved Lists of bacterial names. Int J Syst Evol Microbiol 1980; 30:225–420 [View Article]
   [Google Scholar]
10. Young JM, Park D-C. Probable synonymy of the nitrogen-fixing genus Azotobacter and the genus Pseudomonas . Int J Syst Evol Microbiol 2007; 57:2894–2901 [View Article]
    [Google Scholar]
11. Özen AI, Ussery DW. Defining the Pseudomonas genus: where do we draw the line with Azotobacter?. Microb Ecol 2012; 63:239–248 [View Article]
    [Google Scholar]
12. Rediers H, Vanderleyden J, De Mot R. Azotobacter vinelandii: a Pseudomonas in disguise?. Microbiology 2004; 150:1117–1119 [View Article]
    [Google Scholar]
13. Editor Validation of the publication of new names and new combinations previously effectively published outside the IJSB: list no. 6. Int J Syst Evol Microbiol 1981; 31:215–218
    [Google Scholar]
14. Page WJ, Shivprasad S. Azotobacter salinestris sp. nov., a sodium-dependent, microaerophilic, and aeroadaptive nitrogen-fixing bacterium. Int J Syst Bacteriol 1991; 41:369–376 [View Article]
    [Google Scholar]
15. Yarza P, Spröer C, Swiderski J, Mrotzek N, Spring S et al. Sequencing orphan species initiative (SOS): filling the gaps in the 16S rRNA gene sequence database for all species with validly published names. Syst Appl Microbiol 2013; 36:69–73 [View Article]
    [Google Scholar]
16. Wang X, Liu B, Ma J, Zhang Y, Hu T et al. Soil aluminum oxides determine biological nitrogen fixation and diazotrophic communities across major types of paddy soils in China. Soil Biology and Biochemistry 2019; 131:81–89 [View Article]
    [Google Scholar]
17. Brown ME, Burlingham SK, Jackson RM. Studies on Azotobacter species in soil: 1. Comparison of media and techniques for counting Azotobacter in soil. Plant Soil 1962; 17:309–319
    [Google Scholar]
18. Aquilanti L, Favilli F, Clementi F. Comparison of different strategies for isolation and preliminary identification of Azotobacter from soil samples. Soil Biology and Biochemistry 2004; 36:1475–1483 [View Article]
    [Google Scholar]
19. Poly F, Monrozier LJ, Bally R. Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil. Res Microbiol 2001; 152:95–103 [View Article]
    [Google Scholar]
20. Bellenger JP, Xu Y, Zhang X, Morel FMM, Kraepiel AML. Possible contribution of alternative nitrogenases to nitrogen fixation by asymbiotic N₂-fixing bacteria in soils. Soil Biology and Biochemistry 2014; 69:413–420 [View Article]
    [Google Scholar]
21. Kızılkaya R. Yield response and nitrogen concentrations of spring wheat (Triticum aestivum) inoculated with Azotobacter chroococcum strains. Ecol Eng 2008; 33:150–156 [View Article]
    [Google Scholar]
22. Lin L, Li Z, Hu C, Zhang X, Chang S et al. Plant growth-promoting nitrogen-fixing enterobacteria are in association with sugarcane plants growing in Guangxi, China. Microbes and environments 2012; 27:391–398 [View Article]
    [Google Scholar]
23. Lane DJ. 16S /23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic acid techniques in bacterial systematics New York: Wiley; 1991 pp 115–175
    [Google Scholar]
24. Kim O-S, Cho Y-J, Lee K, Yoon S-H, 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]
    [Google Scholar]
25. Chun J, Lee J-H, Jung Y, Kim M, Kim S et al. Eztaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 2007; 57:2259–2261 [View Article]
    [Google Scholar]
26. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article]
    [Google Scholar]
27. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article]
    [Google Scholar]
28. Kim M, Oh H-S, Park S-C, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article]
    [Google Scholar]
29. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of Computational Biology 2012; 19:455–477 [View Article]
    [Google Scholar]
30. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article]
    [Google Scholar]
31. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article]
    [Google Scholar]
32. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article]
    [Google Scholar]
33. Rodriguez-R LM, Konstantinidis KT. The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes. PeerJ Preprints 2016; 4:e1900v1 [View Article]
    [Google Scholar]
34. Deloger M, El Karoui M, Petit M-A. A genomic distance based on MUM indicates discontinuity between most bacterial species and genera. J Bacteriol 2009; 191:91–99 [View Article]
    [Google Scholar]
35. Na I, Kim YO, Yoon S-H, Ha S-m, Baek I et al. UBCG: up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285 [View Article]
    [Google Scholar]
36. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [View Article]
    [Google Scholar]
37. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article]
    [Google Scholar]
38. Konstantinidis KT, Tiedje JM. Towards a genome-based taxonomy for prokaryotes. J Bacteriol 2005; 187:6258–6264 [View Article]
    [Google Scholar]
39. Meier-Kolthoff JP, Klenk H-P, Göker M. Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age. Int J Syst Evol Microbiol 2014; 64:352–356 [View Article]
    [Google Scholar]
40. Meier-Kolthoff JP, Hahnke RL, Petersen J, Scheuner C, Michael V et al. Complete genome sequence of DSM 30083^T, the type strain (U5/41^T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy. Stand Genomic Sci 2014; 9:2 [View Article]
    [Google Scholar]
41. Glickmann E, Dessaux Y. A critical examination of the specificity of the salkowski reagent for indolic compounds produced by phytopathogenic bacteria. Appl Environ Microbiol 1995; 61:793–796 [View Article]
    [Google Scholar]
42. Collavino MM, Sansberro PA, Mroginski LA, Aguilar OM. Comparison of in vitro solubilization activity of diverse phosphate-solubilizing bacteria native to acid soil and their ability to promote Phaseolus vulgaris growth. Biol Fertil Soils 2010; 46:727–738 [View Article]
    [Google Scholar]
43. Schwyn B, Neilands JB. Universal chemical assay for the detection and determination of siderophores. Anal Biochem 1987; 160:47–56 [View Article]
    [Google Scholar]
44. Kuykendall LD, Roy MA, O'NEILL JJ, Devine TE. Fatty acids, antibiotic resistance, and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum . Int J Syst Bacteriol 1988; 38:358–361 [View Article]
    [Google Scholar]
45. 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 [View Article]
    [Google Scholar]
46. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
    [Google Scholar]