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Do Halomicrobium mukohataei use potassium homeostasis to maintain life in a high salinity environment?

Do Halomicrobium mukohataei use potassium homeostasis to maintain life in a high salinity environment?. Karen Hasty October 1 st , 2009 Laboratory Methods in Genomics. Introduction. Equalizing osmotic pressures H. salinarum Inorganic solute (K+) KdpFABC Salinibacter ruber

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Do Halomicrobium mukohataei use potassium homeostasis to maintain life in a high salinity environment?

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  1. Do Halomicrobiummukohataeiuse potassium homeostasis to maintain life in a high salinity environment? Karen Hasty October 1st, 2009 Laboratory Methods in Genomics

  2. Introduction • Equalizing osmotic pressures • H. salinarum • Inorganic solute (K+) • KdpFABC • Salinibacter ruber • High K+ concentrations inside cell • Low organic solute concentrations

  3. Research question/hypothesis • Our species survival in high salinity environments • Use of organic or inorganic solutes?

  4. Methods • Determination of genes related to K+ • JGI • RAST • Comparison of RAST v JGI genes • BLASTn and RAST comparisons with other species • H. salinarum KdpFABC • Literature review

  5. Results RAST JGI • RAST called genes • 13 related to K+ • 7 unique to RAST • JGI called genes • 10 related to K+ • 4 unique to JGI • Lack of overlap intriguing 7 6 4 Both

  6. Results • Blastn and species comparison in RAST revealed sequence similarity with 7 other species • Halorhabdus utahensis • Halorubrum lacusprofundi • Halobacterium sp. NRC-1 • Halobacterium salinarum • Haloarcula marismortui • Natronomonas pharaonis • Halogeometricum borinquense

  7. RAST comparison In SEED, each gene called has this chart showing other species that also have this gene. Only genomes sequenced with RAST are included.

  8. BLASTn comparison This is a screenshot of the Blastn results for a K+ transport system gene called in JGI. The similar sequence shown here is from the species H. marismortui.

  9. Results • KdpFABC blastx comparison • Only 3 regions of similarity found • All within gene B of operon • None suggesting part of a K+ system

  10. Blastx comparison Amino acid similarity is only for a small portion of KdpFABC. All regions of similarity are within the heavy metal translocating P-type ATPase of H. mukohataei. Unlikely to be related to potassium transport.

  11. Results • Other species with potassium transport genes related to H. mukohataei: • No mention of K+ transport systems in literature • Probably not important

  12. Discussion • Potassium transport highly conserved • In our species, probably does not play a large role in maintaining life in high salinity • Future research: differences in called genes between JGI and RAST • Why are they different? • Called correctly? • Other genes?

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