The Yfr2 ncRNA family, a group of abundant RNA molecules widely conserved in cyanobacteria

RNA Biology

Volumn 6, Issue 3, 2009, Pages 222-227

  Gierga, Gregor ^a   Voss, Björn ^a   Hess, Wolfgang R ^a  

^a UNIVERSITY OF FREIBURG   (Germany)

Author keywords

Anabaena; Cyanobacteria; Non coding RNA; Prochlorococcus; RFAM; Synechococcus

Indexed keywords

BACTERIAL PROTEIN; NUCLEOTIDE; PROTEIN YFR2; SINGLE STRANDED RNA; UNCLASSIFIED DRUG; UNTRANSLATED RNA;

ARTICLE; BACTERIAL GENOME; GENE SEQUENCE; GENETIC CONSERVATION; NONHUMAN; NORTHERN BLOTTING; PHYLOGENY; PROCHLOROCOCCUS; PROTEIN MOTIF; PROTEIN SECONDARY STRUCTURE; SYNECHOCOCCUS;

ANABAENA; CYANOBACTERIA; PROCHLOROCOCCUS; SYNECHOCOCCUS;

EID: 67650434032     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.6.3.8921     Document Type: Article

References (18)

1. Hess WR. In Genomics and Molecular Biology of Cyanobacteria (Herrero A and Flores E, eds.,) (Horizon Scientific Press, Norwich UK) 2008; 89-116.
2. Axmann IM, Kensche P, Vogel J, Kohl S, Herzel H, Hess WR. Identification of cyanobacterial non-coding RNAs by comparative genome analysis. Genome Biol 2005; 6:1-16.
3. Steglich C, Futschik ME, Lindell D, Voss B, Chisholm SW, Hess WR. The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus. PLoS Genet 2008; 4:1000173.
4. Voss B, Georg J, Schön V, Ude S, Hess WR. Biocomputational prediction of non-coding RNAs in model cyanobacteria. BMC Genomics 2009; 10:123.
5. Dufresne A, Ostrowski M, Scanlan DJ, Garczarek L, Mazard S, Palenik BP, et al. Unravelling the genomic mosaic of a ubiquitous genus of marine cyanobacteria. Genome Biol 2008; 9:90.
6. Kettler GC, Martiny AC, Huang K, Zucker J, Coleman ML, Rodrigue S, et al. Patterns and implications of gene gain and loss in the evolution of Prochlorococcus. PLoS Genet 2007; 3:231.
7. Brahamsha B. A genetic manipulation system for oceanic cyanobacteria of the genus Synechococcus. Appl Environ Microbiol 1996; 62:1747-1751
8. Mulkidjanian AY, Koonin EV, Makarova KS, Mekhedov SL, Sorokin A, Wolf YI, et al. The cyanobacterial genome core and the origin of photosynthesis. Proc Natl Acad Sci USA 2006; 103:13126-13131
9. Scanlan DJ, Ostrowski M, Mazard S, Dufresne A, Garczarek L, Hess WR, et al. Ecological Genomics of Marine Picocyanobacteria. Mol Microbiol Rev 2009; 73:in press.
10. Welsh EA, Liberton M, Stockel J, Loh T, Elvitigala T, Wang C, et al. The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle. Proc Natl Acad Sci USA 2008; 105:15094-15099
11. Honda D, Yokota A, Sugiyama J. Detection of seven major evolutionary lineages in cyanobacteria based on the 16S rRNA gene sequence analysis with new sequences of five marine Synechococcus strains. J Mol Evol 1999; 48:723-739
12. Shi T, Falkowski PG. Genome evolution in cyanobacteria: the stable core and the variable shell. Proc Natl Acad Sci USA 2008; 105:2510-2515
13. Vogel J, Hess WR. Complete 5′ and 3′ end maturation of group II intron containing tRNA precursors. RNA 2001; 7:285-292
14. Will S, Reiche K, Hofacker IL, Stadler PF, Backofen R. Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering. PLoS Comput Biol 2007; 3:65.
15. Bernhart SH, Hofacker IL, Will S, Gruber AR, Stadler PF. RNAalifold: improved consensus structure prediction for RNA alignments. BMC Bioinformatics 2008; 9:474.
16. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, et al. Clustal W and Clustal X version 2.0. Bioinformatics 2007; 23:2947-2948
17. Tamura K, Dudley J, Nei M, Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 2007; 24:1596-1599
18. Finsinger K, Scholz I, Serrano A, Morales S, Uribe-Lorio L, Mora M, et al. Characterization of true-branching cyanobacteria from geothermal sites and hot springs of Costa Rica. Environ Microbiol 2008; 10:460-473