The potential of genomic approaches to rotifer ecology

Hydrobiologia

Volumn 546, Issue 1, 2005, Pages 101-108

  Mark Welch, David B ^a   Mark Welch, Jessica L ^a  

^a MARINE BIOLOGICAL LABORATORY   (United States)

Author keywords

Biological diversity; Ecological genomics; Genetic variation

Indexed keywords

ARRAYS; BIODIVERSITY; DNA SEQUENCES; ECOSYSTEMS; GENETIC ENGINEERING; MARINE BIOLOGY; SURVEYS;

ECOLOGICAL GENOMICS; FRESHWATER ECOSYSTEMS; GENETIC VARIATION; ROTIFERS;

ECOLOGY;

COMMUNITY COMPOSITION; DNA; GENETIC VARIATION; GENOMICS; IDENTIFICATION METHOD;

BDELLOIDA; ROTIFERA;

EID: 24144458905     PISSN: 00188158     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10750-005-4105-6     Document Type: Conference Paper

References (34)

1. I. Alexandre S. Hamels S. Dufour J. Collet N. Zammatteo F. Longueville J. L. Gala J. Remacle 2001 Colorimetric silver detection of DNA microarrays Analytical Biochemistry 295 1 8
2. L. A. Amaral Zettler F. Gomez E. Zettler B. G. Keenan R. Amils M. L. Sogin 2002 Eukaryotic diversity in Spain's River of Fire Nature 417 137
3. H. Arndt 1993 Rotifers as predators on components of the microbial web (bacteria, heterotrophic flagellates, ciliates) - a review Hydrobiologia 255/256 231 246
4. Y. Belosludtsev B. Iverson S. Lemeshko R. Eggers R. Wiese S. Lee T. Powdrill M. Hogan 2001 DNA microarrays based on noncovalent oligonucleotide attachment and hybridization in two dimensions Analytical Biochemistry 292 250 256
5. C. W. Birky C. Wolf H. Maugham L. Herbertson E. Henry 2005 Speciation and selection without sex Hydrobiologia 546 29 45
6. D. D. Bowtell 1999 Options available - from start to finish - for obtaining expression data by microarray Nature Genetics 21 25 32
7. D. R. Call M. K. Borucki F. J. Loge 2003 Detection of bacterial pathogens in environmental samples using DNA microarrays Journal of Microbiological Methods 53 235 243
8. D. P. Chandler G. J. Newton J. A. Small D. S. Daly 2003 Sequence versus structure for the direct detection of 16S rRNA on planar oligonucleotide microarrays Applied and Environmental Microbiology 69 2950 2958
9. B. C. Christner B. H. Kvitko 2nd J. N. Reeve 2003 Molecular identification of Bacteria and Eukarya inhabiting an Antarctic cryoconite hole Extremophiles 7 177 83
10. A. Gómez 2005 Molecular ecology of rotifers: from population differentiation to speciation Hydrobiologia 546 83 99
11. A. Gomez M. Serra G. R. Carvalho D. H. Lunt 2002a Speciation in ancient cryptic species complexes: evidence from the molecular phylogeny of Brachionus plicatilis (Rotifera) Evolution 56 1431 1444
12. A. Gomez G. J. Adcock D. H. Lunt G. R. Carvalho 2002b The interplay between colonization history and gene flow in passively dispersing zooplankton: microsatellite analysis of rotifer resting egg banks Journal of Evolutionary Biology 15 158 171
13. G. E. Hutchinson 1967 A Treatise on Limnology vol. 2 John Wiley and Sons New York 115
14. S. L. Karsten V. M. Deerlin C. Sabatti L. H. Gill D. H. Geschwind 2002 An evaluation of tyramide signal amplification and archived fixed and frozen tissue in microarray gene expression analysis Nucleic Acids Research 30 E4
15. D. T. Kysela C. Palacios M. L. Sogin 2005 Serial analysis of V6/ribosomal sequence tags (SARST-V6): A novel method for efficient, high-throughput analysis of microbial community composition Environmental Microbiology 7 356 364
16. Liu, W-T., & D. A. Stahl, 2001. Molecular approaches for the measurement of density, diversity, and phylogeny. In Manual of Environmental Microbiology, 2nd edn. ASM Press, Washington, DC, 114-134
17. D. B. Mark Welch 2000 Evidence from a protein-coding gene that acanthocephalans are rotifers Invertebrate Biology 119 17 26
18. D. B. Mark Welch M. Meselson 2000 Evidence for the evolution of bdelloid rotifers without sexual recombination or genetic exchange Science 288 1211 1215
19. J. L. Mark Welch D. B. Mark Welch M. Meselson 2004 Cytogenetic evidence for asexual evolution of bdelloid rotifers Proceedings of the National Academy of Sciences (USA) 101 1618 1621
20. M. F. Polz S. Bertilsson S. G. Acinas D. Hunt 2003 A(r)ray of hope in analysis of the function and diversity of microbial communities Biological Bulletin 204 196 199
21. J. Quackenbush 2002 Microarray data normalization and transformation Nature Genetics 32 supplement 496 501
22. C. Ricci M. Balsamo 2000 The biology and ecology of lotic rotifers and gastrotrichs Freshwater Biology 44 15 28
23. P. A. Rublee 1998 Rotifers in arctic North America with particular reference to their role in microplankton community structure and response to ecosystem perturbations in Alaskan Arctic LTER lakes Hydrobiologia 387/388 153 160
24. J. Sambrook E. F. Fritsch T. Maniatis 1989 Molecular Cloning: A Laboratory Manual, 2nd edn Cold Spring Harbor Press New York
25. M. Schena D. Shalon R. Heller A. Chai P. O. Brown R. W. Davis 1996 Parallel human genome analysis: microarray-based expression monitoring of 1000 genes Proceedings of the National Academy of Sciences USA 93 10614 10619
26. A. Schmalenberger F. Schwieger C. C. Tebbe 2001 Effect of primers hybridizing to different evolutionarily conserved regions of the small-subunit rRNA gene in PCR-based microbial community analyses and genetic profiling Applied and Environmental Microbiology 617 3557 3563
27. H. Segers R. J. Shiel 2005 Tale of a sleeping beauty: a new and easily cultured organism for experimental studies on bdelloid rotifers Hydrobiologia 546 141 145
28. J. Small D. R. Call F. J. Brockman T. M. Straub D. P. Chandler 2001 Direct detection of 16S rRNA in soil extracts by using oligonucleotide microarrays Applied and Environmental Microbiology 67 4708 4716
29. J. R. Spear R. E. Ley A. B. Berger N. R. Pace 2003 Complexity in natural microbial ecosystems: the Guerrero Negro experience Biological Bulletin 204 168 173
30. A. Teske K-U. Hinrichs V. Edgcomb A. Vera Gomez D. Kysela S. P. Sylva M. L. Sogin H. W. Jannasch 2002 Microbial diversity of hydrothermal sediments in the Guaymas basin: evidence for anaerobic methanotrophic communities Applied and Environmental Microbiology 68 1994 2007
31. R. L. Wallace C. Ricci 2002 Rotifera S. D., Rundle A. L. Robertson J. M. Schmid-Araya Freshwater Meiofauna: Biology and Ecology Backhuys Publishers Leiden (The Netherlands) 15 44
32. C. E. Williamson 1983 Invertebrate predation on planktonic rotifers Hydrobiologia 104 385 396
33. L. Wu D. K. Thompson G. Li R. A. Hurt J. M. Tiedje J. Zhou 2001 Development and evaluation of functional gene arrays for detection of selected genes in the environment Applied and Environmental Microbiology 67 5780 5790
34. R. W. Ye T. Wang L. Bedzyk K. M. Croker 2001 Applications of DNA microarrays in microbial systems Journal of Microbiological Methods 47 257 272