1 / 10

Amphitrema flavum 3 no 18S rDNA sequence Arcella sp. 1 no 18S rDNA sequence

Amphitrema flavum 3 no 18S rDNA sequence Arcella sp. 1 no 18S rDNA sequence Assulina muscorum 55 AJ418791 Assulina seminulum 41 no 18S rDNA sequence Bullinularia indica 28 no 18S rDNA sequence Cetropyxis aerophila 1 no 18S rDNA sequence

aizza
Download Presentation

Amphitrema flavum 3 no 18S rDNA sequence Arcella sp. 1 no 18S rDNA sequence

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Amphitrema flavum 3 no 18S rDNA sequence Arcella sp. 1 no 18S rDNA sequence Assulina muscorum 55 AJ418791 Assulina seminulum 41 no 18S rDNA sequence Bullinularia indica 28 no 18S rDNA sequence Cetropyxis aerophila 1 no 18S rDNA sequence Centropyxis laevigata 39 no 18S rDNA sequence Corythion dubium 18 no 18S rDNA sequence Euglypha compressa 50 no 18S rDNA sequence (G) Euglypha laevis 1 no 18S rDNA sequence (G) Euglypha strigosa 8 no 18S rDNA sequence (G) Heleopera sylvatica 2 no 18S rDNA sequence Hyalosphenia elegans 55 no 18S rDNA sequence Hyalosphenia minuta 2 no 18S rDNA sequence Hyalosphenia papilio 56 no 18S rDNA sequence Nebela griseola 1 no 18S rDNA sequence Nebela miltaris 3 no 18S rDNA sequence Nebela tincta 57 no 18S rDNA sequence Phryganella acropodia 3 no 18S rDNA sequence Pseudodifflugia gracilis 42 AJ418794 (Mitchell et al. 2000)

  2. Euglypha rotunda Euglypha rotunda Euglypha filifera Euglypha tuberculata Euglypha rotunda Euglypha rotunda Euglypha acanthophorea Euglypha filifera Assulina muscorum Trachelocorythion pulchellum Trinema enchelys Tracheleuglypha dentata Cyphoderia ampulla Paulinella chromatophora Thaumatomonas sp. Cercomonas caudatus 0.01 Phylogeny of Euglyphid Testate Amoebae Order EUGLYPHIDA MONADOFILOSA

  3. DNA samples and PCR with EUK-primers 300-303 (triplicates) A 312-315 (triplicates) B intermediate 324-327 (triplicates) C tendency ombrotrophic 336-337 (triplicates) D intact 300 312 324 336 N 300 312 324 336 1 µl DNA (1:10) 2 µl DNA (1:10)

  4. Design of Euglyphida-specific PCR primers for 18S rRNA gene sequences Filosea100f Filosea1170r Filosea1630r Filosea1700r DNA 336 (D) 1:20, 1µl, 35 cycles Filosea 100f-1170r Filosea 100f-1630r Filosea 100f-1700r 51 54.2 56.2 57.3 51 54.2 56.2 57.3 51 54.2 56.2 57.3 300 312 324 336 N 300 312 324 336 1 µl DNA 2 µl DNA

  5. PCR on DNA from different sites: 100f-1630r Samples 312 (B intermediate) 1µl from each triplicate pooled > 1:20 > 1ml for PCR (30c) Samples 336 (D intact) 1µl from each triplicate pooled > 1:20 > 1ml for PCR (30c) 300 312 324 336 N 300 312 324 336 49.9 51 52.4 54.2 56.2 57.9 59.2 61 49.9 51 52.4 54.2 56.2 57.9 59.2 61 312 B 336 D 1 µl DNA 2 µl DNA

  6. PCR on DNA from different sites: 100f-1700r Samples 336 (D intact) 1µl from each triplicate pooled > 1:20 > 1ml for PCR (35c) 49.1 49.9 51 52.4 54.2 56.2 57.9 59.2 61

  7. Cloning and sequence analysis • Samples 336, 337, 338 (D intact) • 1µl from each triplicate pooled > 1:20 > 1ml for PCR (30c) • Each pooled DNA amplified (4x) with both primer sets • Separate clone libraries First Results • Primer sets seem to be specific • Sequence identities of clone sequences (500bp) • Trinema enchelys 95-98% • Euglypha rotunda 93-98% • Assulina muscorum 94% • Euglypha tuberculata 94-95%

  8. Next steps • Cloning DNA from all sampling points A-D in Chaux-d’Abel • Use sequence data to • Perform phylogenetic analysis of the Euglyphida-communities • Design probes for Fluorescence in situ Hybridization • Compare sequence data with sequences from isolates (?) • Compare molecular and direct observation approach • Use sequence data from non-Euglyphida isolates for new primers (?) • Develop a fingerprint screening method

More Related