Hou_2004_Proc.Natl.Acad.Sci.U.S.A_101_18036

Reference

Title : Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis reveals amino acid fermentation as a source of carbon and energy - Hou_2004_Proc.Natl.Acad.Sci.U.S.A_101_18036
Author(s) : Hou S , Saw JH , Lee KS , Freitas TA , Belisle C , Kawarabayasi Y , Donachie SP , Pikina A , Galperin MY , Koonin EV , Makarova KS , Omelchenko MV , Sorokin A , Wolf YI , Li QX , Keum YS , Campbell S , Denery J , Aizawa S , Shibata S , Malahoff A , Alam M
Ref : Proc Natl Acad Sci U S A , 101 :18036 , 2004
Abstract : We report the complete genome sequence of the deep-sea gamma-proteobacterium, Idiomarina loihiensis, isolated recently from a hydrothermal vent at 1,300-m depth on the Loihi submarine volcano, Hawaii. The I. loihiensis genome comprises a single chromosome of 2,839,318 base pairs, encoding 2,640 proteins, four rRNA operons, and 56 tRNA genes. A comparison of I. loihiensis to the genomes of other gamma-proteobacteria reveals abundance of amino acid transport and degradation enzymes, but a loss of sugar transport systems and certain enzymes of sugar metabolism. This finding suggests that I. loihiensis relies primarily on amino acid catabolism, rather than on sugar fermentation, for carbon and energy. Enzymes for biosynthesis of purines, pyrimidines, the majority of amino acids, and coenzymes are encoded in the genome, but biosynthetic pathways for Leu, Ile, Val, Thr, and Met are incomplete. Auxotrophy for Val and Thr was confirmed by in vivo experiments. The I. loihiensis genome contains a cluster of 32 genes encoding enzymes for exopolysaccharide and capsular polysaccharide synthesis. It also encodes diverse peptidases, a variety of peptide and amino acid uptake systems, and versatile signal transduction machinery. We propose that the source of amino acids for I. loihiensis growth are the proteinaceous particles present in the deep sea hydrothermal vent waters. I. loihiensis would colonize these particles by using the secreted exopolysaccharide, digest these proteins, and metabolize the resulting peptides and amino acids. In summary, the I. loihiensis genome reveals an integrated mechanism of metabolic adaptation to the constantly changing deep-sea hydrothermal ecosystem.
ESTHER : Hou_2004_Proc.Natl.Acad.Sci.U.S.A_101_18036
PubMedSearch : Hou_2004_Proc.Natl.Acad.Sci.U.S.A_101_18036
PubMedID: 15596722
Gene_locus related to this paper: idilo-q5qtt2 , idilo-q5qun1 , idilo-q5qv96 , idilo-q5qvg7 , idilo-q5qvi6 , idilo-q5qvn0 , idilo-q5qvy7 , idilo-q5qw13 , idilo-q5qwm4 , idilo-q5qwp3 , idilo-q5qwr5 , idilo-q5qx36 , idilo-q5qx78 , idilo-q5qx89 , idilo-q5qxa5 , idilo-q5qxf1 , idilo-q5qxp3 , idilo-q5qy75 , idilo-q5qy90 , idilo-q5qyl8 , idilo-q5qym1 , idilo-q5qzc0 , idilo-q5qzv2 , idilo-q5qzv4 , idilo-q5qzz6 , idilo-q5r0d5 , idilo-q5r0h2 , idilo-q5r0u5 , idilo-q5r036 , idilo-q5r068 , idilo-q5r196

Citations formats

Hou S, Saw JH, Lee KS, Freitas TA, Belisle C, Kawarabayasi Y, Donachie SP, Pikina A, Galperin MY, Koonin EV, Makarova KS, Omelchenko MV, Sorokin A, Wolf YI, Li QX, Keum YS, Campbell S, Denery J, Aizawa S, Shibata S, Malahoff A, Alam M (2004)
Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis reveals amino acid fermentation as a source of carbon and energy
Proc Natl Acad Sci U S A 101 :18036

Hou S, Saw JH, Lee KS, Freitas TA, Belisle C, Kawarabayasi Y, Donachie SP, Pikina A, Galperin MY, Koonin EV, Makarova KS, Omelchenko MV, Sorokin A, Wolf YI, Li QX, Keum YS, Campbell S, Denery J, Aizawa S, Shibata S, Malahoff A, Alam M (2004)
Proc Natl Acad Sci U S A 101 :18036