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recA

recA. an evolutionary investigation Andrew Lloyd Bacterial Gene Day 2006. Why recA. Lloyd, A.T. and Sharp, P.M. (1993) Evolution of the recA gene and the molecular phylogeny of bacteria. J. Mol. Evol. 37:399-407. It was the most widely sequenced protein 23 genes available in 1993

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recA

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  1. recA an evolutionary investigation Andrew Lloyd Bacterial Gene Day 2006

  2. Why recA • Lloyd, A.T. and Sharp, P.M. (1993) Evolution of the recA gene and the molecular phylogeny of bacteria. J. Mol. Evol. 37:399-407. • It was the most widely sequenced protein • 23 genes available in 1993 • 62 two years later

  3. recA – protein trees vs RNA trees recA SS-rRNA Eisen 1995 enteric bacteria only: Trees match pretty good

  4. MSA Ecoli vs Bacsu RECA_ECOLI MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMG RECA_BACSU ---MSDRQAALDMALKQIEKQFGKGSIMKLGEKTDTRISTVPSGSLALDTALGIGGYPRG .::* ** ** ************:***. . :.*:.:***:** *** ** * * RECA_ECOLI RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQP RECA_BACSU RIIEVYGPESSGKTTVALHAIAEVQQQ-RTSAFIDAEHALDPVYAQKLGVNIEELLLSQP **:*:**********::*:.** .*:: :*.***********:**:****:*::** *** RECA_ECOLI DTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLA RECA_BACSU DTGEQALEIAEALVRSGAVDIVVVDSVAALVPKAEIEGDMGDSHVGLQARLMSQALRKLS *********.:**.******::********.*******::****:** **:****:***: RECA_ECOLI GNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG RECA_BACSU GAINKSKTIAIFINQIREKVGVMFGNPETTPGGRALKFYSSVRLEVRRAEQLKQGNDVMG * :::*:*: ******* *:**********.**.*****:****::** :*:*::*:* RECA_ECOLI SETRVKVVKNKIAAPFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKGEKIG RECA_BACSU NKTKIKVVKNKVAPPFRTAEVDIMYGEGISKEGEIIDLGTELDIVQKSGSWYSYEEERLG .:*::******:*.**: **.:*:*****. **::***.: .:::*:*:****: *::* RECA_ECOLI QGKANATAWLKDNPETAKEIEKKVRELLLSNPNSTPDFSVDDSEGVAETNEDF RECA_BACSU QGRENAKQFLKENKDIMLMIQEQIREHYGLDNNGVVQQQAEETQEELEFEE-- **: **. :**:* : *::::** : *.. : ..:::: * :* 203 Identities/348 aligned residues 58% identity One internal gap

  5. Genomic context E.coli Blast each neighbour against thye other genome… B.subtilis

  6. SchematicIs it in a conserved operon? In an operon 58% identical Bsub (1764kb) cinA recA pbpX cinA (2361kb) Ecoli (2821kb) ygaD recA recX Two cinA like genes in E.coli only one in B.sub

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