Culture-Independent Investigation of the Microbiome Associated with the Nematode Acrobeloides maximus

PLoS ONE

Volumn 8, Issue 7, 2013, Pages

  Baquiran, Jean Paul ^a,c   Thater, Brian ^a   Sedky, Sammy ^a   De Ley, Paul ^a   Crowley, David ^a   Orwin, Paul M ^b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b CALIFORNIA STATE UNIVERSITY   (United States)

^c UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S;

ACROBELOIDES MAXIMUS; ARTICLE; BACTERIAL CELL; BACTERIAL STRAIN; BACTERIUM; BACTERIUM CULTURE; CAENORHABDITIS ELEGANS; CHITINOPHAGA; CONTROLLED STUDY; ESCHERICHIA COLI; FLUORESCENCE IN SITU HYBRIDIZATION; GENE SEQUENCE; MICROBIOME; MICROCOSM; NEMATODE; NONHUMAN; NUCLEOTIDE SEQUENCE; OCHROBACTRUM; PEDOBACTER; PHYLOGENY; POPULATION DYNAMICS; POPULATION GROWTH; SOIL ORGANISM; SYMBIOSIS; TAXONOMIC IDENTIFICATION;

ANIMALS; BACTERIA; COCULTURE TECHNIQUES; DNA, BACTERIAL; DNA, RIBOSOMAL; MICROBIOTA; NEMATODA; PHYLOGENY; SOIL; SYMBIOSIS;

EID: 84880669908     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0067425     Document Type: Article

References (29)

1. Landmann F, Voronin D, Sullivan W, Taylor MJ, (2011) Anti-filarial Activity of Antibiotic Therapy Is Due to Extensive Apoptosis after Wolbachia Depletion from Filarial Nematodes. PLOS Pathogens 7 (11): e1002351 doi:10.1371/journal.ppat.1002351.
2. Ruby EG, (2008) Symbiotic conversations are revealed under genetic interrogation. Nat Rev Microbiol 6: 752-762.
3. An R, Grewal PS, (2010) Molecular mechanisms of persistence of mutualistic bacteria Photorhabdus in the entomopathogenic nematode host. PLoS One 5 (10): e13154 doi:10.1371/journal.pone.0013154.
4. Clarke DJ, (2008) Photorhabdus: a model for the analysis of pathogenicity and mutualism. Cellular Microbiology 10: 2159-2167.
5. Duchaud E, Rusniok C, Frangeul L, Buchrieser C, Givaudan A, et al. (2003) The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens. Nature Biotechnology 21: 1307-1313.
6. An R, Sreevatsan S, Grewal PS, (2009) Comparative in vivo gene expression of the closely related bacteria Photorhabdus temperata and Xenorhabdus koppenhoeferi upon infection of the same insect host, Rhizotrogus majalis. BMC Genomics 10: 433.
7. McFall-Ngai M, (2008) Are biologists in 'future shock'? Symbiosis integrates biology across domains. Nature Reviews Microbiology 6: 789-792.
8. Burnell AM, Stock SP, (2000) Heterorhabditis, Steinernema and their bacterial symbionts lethal pathogens of insects. Nematology 2: 31-42.
9. Hall-Stoodley L, Stoodley P, (2005) Biofilm formation and dispersal and the transmission of human pathogens. Trends Microbiol 13: 7-10.
10. Hilbi H, Weber SS, Ragaz C, Nyfeler Y, Urwyler S, (2007) Environmental predators as models for bacterial pathogenesis. Environ Microbiol 9: 563-575.
11. Troemel ER, Felix MA, Whiteman NK, Barriere A, Ausubel FM, (2008) Microsporidia are natural intracellular parasites of the nematode Caenorhabditis elegans. PLoS Biol 6: 2736-2752.
12. Dunbar J, Takala S, Barns SM, Davis JA, Kuske CR, (1999) Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning. Applied and Environmental Microbiology 65: 1662-1669.
13. Entchev EV, Kurzchalia TV. (2005). Requirement of sterols in the life cycle of the nematode Caenorhabditis elegans. Elsevier. pp. 175-182.
14. Van Bezooijen J (2006) Methods and Techniques for Nematology. Wageningen University. 112 p.
15. Vancoppenolle B, Borgonie G, Coomans A, (1999) Generation times of some free-living nematodes cultured at three temperatures. Nematology 1: 15-18.
16. Lane DJ, Pace B, Olsen GJ, Stahl DA, Sogin ML, et al. (1985) Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proc Natl Acad Sci U S A 82: 6955-6959.
17. DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, et al. (2006) Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB. Applied and Environmental Microbiology 72: 5069-5072.
18. DeSantis TZ Jr, Hugenholtz P, Keller K, Brodie EL, Larsen N, et al. (2006) NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. Nucleic Acids Research 34: W394-399.
19. Huelsenbeck JP, Ronquist F, (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
20. Hasegawa M, Kishino H, Yano T-a, (1985) Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of molecular evolution 22: 160-174.
21. Nour SM, Lawrence JR, Zhu H, Swerhone GDW, Welsh M, et al. (2003) Bacteria associated with cysts of the soybean cyst nematode (Heterodera glycines). Applied and Environmental Microbiology 69: 607-615.
22. Loy A, Maixner F, Wagner M, Horn M, (2007) probeBase-an online resource for rRNA-targeted oligonucleotide probes: new features 2007. Nucleic aids research 35: d800-d804.
23. Friedrich U, Van Langenhove H, Altendorf K, Lipski A, (2003) Microbial community and physicochemical analysis of an industrial waste gas biofilter and design of 16S rRNA targeting oligonucleotide probes. Environmental Microbiology 5: 183-201.
24. Demanèche S, Sanguin H, Poté J, Navarro E, Bernillon D, et al. (2008) Antibiotic-resistant soil bacteria in transgenic plant fields. Proceedings of the National Academy of Sciences 105: 3957-3962.
25. Vandekerckhove T, Coomans A, Cornelis K, Baert P, Gillis M, (2002) Use of the Verrucomicrobia-Specific Probe EUB338-III and Fluorescent In Situ Hybridization for Detection of "Candidatus Xiphinematobacter" Cells in Nematode Hosts. Applied and Environmental Microbiology 68: 3121.
26. Schloter M, Lebuhn M, Heulin T, Hartmann A, (2000) Ecology and evolution of bacterial microdiversity. FEMS Microbiol Rev 24: 647-660.
27. Tian X, Cheng X, Mao Z, Chen G, Yang J, et al. (2011) Composition of Bacterial Communities Associated with a Plant Parasitic Nematode, Bursaphelenchus mucronatus. Current Microbiology 6: 117-125.
28. Lauer A, Simon M, Banning J, Lam B, Harris R, (2008) Diversity of cutaneous bacteria with antifungal activity isolated from female four-toed salamanders. ISME Journal 2: 145-157.
29. Babic I, Fischer-Le Saux M, Giraud E, Boemare N, (2000) Occurrence of natural dixenic associations between the symbiont Photorhabdus luminescens and bacteria related to Ochrobactrum spp. in tropical entomopathogenic Heterorhabditis spp.(Nematoda, Rhabditida). Microbiology 146: 709.