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Red Tides

Red Tides. Marine Organisms. Trichodesmium erythraeum. Microscopic view. Present in the form of colonies Responsible for increased nitrogen fixation in the presence of Iron. Analysis of possible regulatory motifs. Fe2+/Zn2+ uptake regulation proteins (FUR).

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Red Tides

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  1. Red Tides

  2. Marine Organisms Trichodesmium erythraeum

  3. Microscopic view • Present in the form of colonies • Responsible for increased nitrogen fixation in the presence of Iron.

  4. Analysis of possible regulatory motifs • Fe2+/Zn2+ uptake regulation proteins (FUR) • Bacterioferritin ( cytochrome b1) • ABC-type Fe3+ transport system periplasmic component 9 known proteins known for iron regulation

  5. Upstream Sequences of Iron regulatory proteins 1) Periplasmic protein upstream sequence 2) Bacterioferritin upstream sequence 3) FUR upstream sequence T T T T A CT TCA CGGGTC A A G A TTTTTTCTCTCTC C CTTTTC CT T T TCTTC CTA A A T T CG G A C A TTTTA TC A CTC CTTA T A G CTTTTA A C C C A A G A TTG A G GTG A TTTG A TTTC C CTTTTTC A & T rich sequence What about similar genes in other organisms ?

  6. Upstream sequences of orthologs with similar motifs OrganismGenePositionUpstream Sequence AnabaenaA7120.all169189TCTTTCAAGAACTTCCTCAAGGCGAACACCTGAGTGCAGAAGATTTATAT Trichodesmium e. Tery.Te?422832 T T T T T C A A A A C C TG C C A A A AGGC A ATC AT C TGAGTG C C GAAGATC TTTAT Synechococcus e. S7942.ser226986TC TTTC A A A ATC TC C C AG C AGGTGAAC A C C TC AGTGC TGAGGAC C TTTA C Anabaena v. A29413.Av?048089TC TTTC AAGAAC TTC C TC AAGGC GAAC AC C TGAG C G C AGAAGATT TATAT Nostoc p. S6803.sll056789TTTTTC AAAATTTG C C GGAGGGGGAAC ATC TC AGTG C C GAGGAGTTA C A C Thermosynechococcus e. TeBP1.tll0048125TTTTC C AGAAT C TG C C TAAGGGC AAT C A C C TGAGTG C TGAAGA C C TC TA C Crocosphaera w. Cwat.Cw?5989161TA C TTC ATG C TC AAC AAGTGGGAGAAATTTTGA C TGGT T T AGAAGGC C AT Anabaena A7120.all3940161TA C T C C ATG C TC AAC AAGTAGGAGAAATTC TC A C AGGTTTAGATGGA C AT Anabaena v. A29413.Av?3012161TA C TTC ATG C C C AAC AAGTGGGAGAAATTC TC A C AGGATTAGATGGA C AT Crocosphaera w. Cwat.Cw?493589TC TTC C AAAATC TC C C TAGGGGGAATC ATTTGAGTGC TGAGGAATTGTTT Nostoc p. Npun.NpF6212161TA C TTC ATG C TGAAC AAGTAGGAGAAATTC TTAC C GGTTTAGATGGGC AT Trichodesmium e. Tery.Te?3328170TA C TTC ATG C TC AAC AAG C AGGAGAAATATTAAC AGGTTTAGAAGGTC AT Gloeobacter v. Gvi.glr330498TGTTC C AGGAGTTGC C GGAGGGC AATC A C C TC AATG C C GAGGAG C TG C A C Prochlorococcus m. PMED4.PMM0637104 TATTTGAGAATATTGGAG C AGGTAATC ATTTAAGTG C GGAAGAAGTTC AT

  7. What can we conclude from the information ? • Matches with 2 Trichodesmium genes Already knew……… • Matches with 2 nostoc and 4 anabaena genes…… not a surprise….. Both are rich in A and T nucleotides…… What are other matches ?........

  8. Other matches ? • Synechococcus e. • Thermosynechococcus e. • Crocosphaera w. (2 – Genes) • Gloeobacter v. • Prochlorococcus m. Iron regulatory upstream sequences somewhat similar to Trichodesmium……… Where else can we look for such matches ?

  9. Finding FE+ regulatory genes ? • Intergenic sequences in the genome of Trichodesmium • Orthologs of the other promising iron regulatory genes in Trichodesmium.

  10. Thanks To : Dr. Jeff Elhai Bioinformatics VCU Presented by : Sukalpa Dutta

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