Blueprint for a minimal photoautotrophic cell: conserved and variable genes in Synechococcus elongatus PCC 7942
Por:
Delaye L., González-Domenech C.M., Garcillán-Barcia M.P., Peretó J., de la Cruz F., Moya A.
Publicada:
12 ene 2011
Resumen:
Background: Simpler biological systems should be easier to understand and to engineer towards pre-defined goals. One way to achieve biological simplicity is through genome minimization. Here we looked for genomic islands in the fresh water cyanobacteria Synechococcus elongatus PCC 7942 (genome size 2.7 Mb) that could be used as targets for deletion. We also looked for conserved genes that might be essential for cell survival. Results: By using a combination of methods we identified 170 xenologs, 136 ORFans and 1401 core genes in the genome of S. elongatus PCC 7942. These represent 6.5%, 5.2% and 53.6% of the annotated genes respectively. We considered that genes in genomic islands could be found if they showed a combination of: a) unusual G+C content; b) unusual phylogenetic similarity; and/or c) a small number of the highly iterated palindrome 1 (HIP1) motif plus an unusual codon usage. The origin of the largest genomic island by horizontal gene transfer (HGT) could be corroborated by
Filiaciones:
Delaye L.:
Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia, Valencia, Spain
Departamento de Ingeniería Genética CINVESTAV-Irapuato, Carretera Irapuato-León, Km. 9.6 Libramiento Norte, 36821 Irapuato, Guanajuato, Mexico
González-Domenech C.M.:
Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia, Valencia, Spain
Facultad de Farmacia, Universidad de Granada, Granada, Spain
Garcillán-Barcia M.P.:
Departamento de Biología Molecular, Instituto de Biomedicina y Biotecnología de Cantabria (IBBTEC), Universidad de Cantabria-CSIC-IDICAN, Santander, Spain
Peretó J.:
Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia, Valencia, Spain
Departament de Bioquimica i Biologia Molecular, Universitat de València, València, Spain
de la Cruz F.:
Departamento de Biología Molecular, Instituto de Biomedicina y Biotecnología de Cantabria (IBBTEC), Universidad de Cantabria-CSIC-IDICAN, Santander, Spain
Moya A.:
Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia, Valencia, Spain
Departament de Genètica, Universitat de València, València, Spain
Gold
|