‘Candidatus Moeniiplasma glomeromycotorum’, an endobacterium of arbuscular mycorrhizal fungi

International Journal of Systematic and Evolutionary Microbiology

Volumn 67, Issue 5, 2017, Pages 1177-1184

  Naito, Mizue ^a   Desirò, Alessandro ^b   González, Jonathan B ^a   Tao, Gang ^a   Morton, Joseph B ^c   Bonfante, Paola ^b   Pawlowska, Teresa E ^a  

^a Department of Obstetrics Gynecology   (United States)

^b UNIVERSITY OF TURIN   (Italy)

^c WEST VIRGINIA UNIVERSITY   (United States)

Author keywords

Arbuscular mycorrhiza; Glomeromycotina; Mycoplasmataceae; Symbiosis

Indexed keywords

RNA 16S; BACTERIAL DNA;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENOME; CANDIDATUS MOENIIPLASMA GLOMEROMYCOTORUM; CYTOPLASM; GENE CLUSTER; GENE SEQUENCE; INTRACELLULAR BACTERIUM; MOLECULAR EVOLUTION; MYCOPLASMATACEAE; MYCORRHIZA; NEW GENUS; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; BACTERIUM IDENTIFICATION; CLASSIFICATION; DNA BASE COMPOSITION; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLLICUTES; PLANT; SYMBIOSIS;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; EVOLUTION, MOLECULAR; MYCORRHIZAE; PHYLOGENY; PLANTS; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SYMBIOSIS; TENERICUTES;

EID: 85020402330     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijsem.0.001785     Document Type: Article

References (41)

1. Smith SE, Read DJ. Mycorrhizal Symbiosis, 3rd ed. New York: Academic Press; 2008.
2. Gutjahr C, Parniske M. Cell and developmental biology of arbuscular mycorrhiza symbiosis. Annu Rev Cell Dev Biol 2013;29:593–617.
3. Mosse B. Honey-coloured, sessile Endogone spores: II. Changes in fine structure during spore development. Archiv Mikrobiol 1970; 74:129–145.
4. Macdonald RM, Chandler MR. Bacterium-like organelles in the vesicular-arbuscular mycorrhizal fungus Glomus caledonius. New Phytol 1981;89:241–246.
5. Macdonald RM, Chandler MR, Mosse B. The occurrence of bacterium- like organelles in vesicular-arbuscular mycorrhizal fungi. New Phytol 1982;90:659–663.
6. Scannerini S, Bonfante P. Bacteria and bacteria-like objects in endomycorrhizal fungi (Glomaceae). In: Margulis L and Fester R (editors). Symbiosis as a Source of Evolutionary Innovation: Speciation and Morphogenesis. Cambridge, MA: MIT Press; 1991. pp. 273–287.
7. Naumann M, Schüßler A, Bonfante P. The obligate endobacteria of arbuscular mycorrhizal fungi are ancient heritable components related to the Mollicutes. ISME J 2010;4:862–871.
8. Desirò A, Naumann M, Epis S, Novero M, Bandi C et al. Mollicutes -related endobacteria thrive inside liverwort-associated arbuscular mycorrhizal fungi. Environ Microbiol 2013;15:822–836.
9. Desirò A, Salvioli A, Ngonkeu EL, Mondo SJ, Epis S et al. Detection of a novel intracellular microbiome hosted in arbuscular mycorrhizal fungi. ISME J 2014;8:257–270.
10. Toomer KH, Chen X, Naito M, Mondo SJ, den Bakker HC et al. Molecular evolution patterns reveal life history features of mycoplasma- related endobacteria associated with arbuscular mycorrhizal fungi. Mol Ecol 2015;24:3485–3500.
11. Naito M, Morton JB, Pawlowska TE. Minimal genomes of mycoplasma- related endobacteria are plastic and contain host-derived genes for sustained life within Glomeromycota. Proc Natl Acad Sci USA 2015;112:7791–7796.
12. Torres-Cortés G, Ghignone S, Bonfante P, Schüßler A. Mosaic genome of endobacteria in arbuscular mycorrhizal fungi: transkingdom gene transfer in an ancient mycoplasma-fungus association. Proc Natl Acad Sci USA 2015;112:7785–7790.
13. Wu D, Hugenholtz P, Mavromatis K, Pukall R, Dalin E et al. A phylogeny- driven genomic encyclopaedia of bacteria and archaea. Nature 2009;462:1056–1060.
14. Markowitz VM, Chen I-MA, Palaniappan K, Chu K, Szeto E et al. IMG: the integrated microbial genomes database and comparative analysis system. Nucleic Acids Res 2012;40:D115–D122.
15. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004;32:1792–1797.
16. Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol 2012;61:539–542.
17. Tavaré S. Some probabilistic and statistical problems in the analysis of DNA sequences. Lect Math Life Sci 1986;17:57–86.
18. Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W et al. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 2010;59:307–321.
19. Dimmic MW, Rest JS, Mindell DP, Goldstein RA. rtREV: an amino acid substitution matrix for inference of retrovirus and reverse transcriptase phylogeny. J Mol Evol 2002;55:65–73.
20. Morton JB, Bentivenga SP, Wheeler WW. Germplasm in the International Collection of Arbuscular and Vesicular-Arbuscular Mycorrhizal Fungi (INVAM) and procedures for culture development, documentation and storage. Mycotaxon 1993;48:491–528.
21. Cranenbrouck S, Voets L, Bivort C, Renard L, Strullu DG et al. Methodologies for in vitro cultivation of arbuscular mycorrhizal fungi with root organs. In: Declerck S, Strullu DG and Fortin A (editors). In Vitro Culture of Mycorrhizas. Berlin, Heidelberg: Springer-Verlag; 2005. pp. 341–375.
22. Brown DR, Whitcomb RF, Bradbury JM. Revised minimal standards for description of new species of the class Mollicutes (division Tenericutes). Int J Syst Evol Microbiol 2007;57:2703–2719.
23. Murray RG, Stackebrandt E. Taxonomic note: implementation of the provisional status Candidatus for incompletely described procaryotes. Int J Syst Bacteriol 1995;45:186–187.
24. Naito M. The Biology and Evolution of the Mollicutes/Mycoplasma- Related Endobacteria of Arbuscular Mycorrhizal Fungi. PhD Dissertation. Cornell University, Ithaca, NY; 2014.
25. Amann R. I, Binder BJ, Olson RJ, Chisholm SW, Devereux R et al. Combination of 16S ribosomal RNA-targeted oligonucleotide probes with flow-cytometry for analyzing mixed microbial-populations. Appl Environ Microb 1990;56:1919–1925.
26. Desirò A, Salvioli A, Bonfante P. Investigating the endobacteria which thrive in arbuscular mycorrhizal fungi. In: Martin F and Uroz SP (editors). Microbial Environmental Genomics. New York: Springer Science+Business Media; 2016. pp. 29–53.
27. Fraser CM, Gocayne JD, White O, Adams MD, Clayton RA et al. The minimal gene complement of Mycoplasma genitalium. Science 1995;270:397–404.
28. Sasaki Y, Ishikawa J, Yamashita A, Oshima K, Kenri T et al. The complete genomic sequence of Mycoplasma penetrans, an intracellular bacterial pathogen in humans. Nucleic Acids Res 2002;30: 5293–5300.
29. Razin S, Yogev D, Naot Y. Molecular biology and pathogenicity of mycoplasmas. Microbiol Mol Biol Rev 1998;62:1094–1156.
30. Marenda MS. Genomic mosaics. In: Browning GF and Citti C (editors). Mollicutes Molecular Biology and Pathogenesis. Norfolk, UK: Caister Academic Press; 2014. pp. 15–54.
31. Naito M, Pawlowska TE. The role of mobile genetic elements in evolutionary longevity of heritable endobacteria. Mob Genet Elements 2016;6:e1136375.
32. Moran NA, Mccutcheon JP, Nakabachi A. Genomics and evolution of heritable bacterial symbionts. Annu Rev Genet 2008;42:165–190.
33. Naito M, Pawlowska TE. Defying Muller’s Ratchet: ancient heritable endobacteria escape extinction through retention of recombination and genome plasticity. MBio 2016;7:e02057-15.
34. Daniels BA, Skipper HD. Methods for the recovery and quantitative estimation of propagules from soil. In: Schenck NC (editor). Methods and Principles of Mycorrhizal Research. St. Paul, MN: The American Phytopathological Society; 1982. pp. 29–35.
35. Mondo SJ, Toomer KH, Morton JB, Lekberg Y, Pawlowska TE. Evolutionary stability in a 400-million-year-old heritable facultative mutualism. Evolution 2012;66:2564–2576.
36. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M et al. Introducing mothur: open-source, platform-independent, community- supported software for describing and comparing microbial communities. Appl Environ Microbiol 2009;75:7537–7541.
37. Rosendahl S, Mcgee P, Morton JB. Lack of global population genetic differentiation in the arbuscular mycorrhizal fungus Glomus mosseae suggests a recent range expansion which may have coincided with the spread of agriculture. Mol Ecol 2009;18:4316–4329.
38. den Bakker HC, Vankuren NW, Morton JB, Pawlowska TE. Clonality and recombination in the life history of an asexual arbuscular mycorrhizal fungus. Mol Biol Evol 2010;27:2474–2486.
39. Munson MA, Baumann P, Kinsey MG. Buchnera gen. nov. and Buchnera aphidicola sp. nov., a taxon consisting of the mycetocyteassociated, primary endosymbionts of aphids. Int J Syst Bacteriol 1991;41:566–568.
40. Lo N, Paraskevopoulos C, Bourtzis K, O’Neill SL, Werren JH et al. Taxonomic status of the intracellular bacterium Wolbachia pipientis. Int J Syst Evol Microbiol 2007;57:654–657.
41. Labeda DP. Judicial Commission of the International Committee on Systematic Bacteriology VIIIth International Congress of Microbiology and Applied Bacteriology: minutes of the meetings, 17 and 22 August 1996, Jerusalem, Israel. Int J Syst Bacteriol 1997;47: 240–241.