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PMID: 22858828 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Genome sequence of the oleaginous red yeast Rhodosporidium toruloides MTCC 457.

Eukaryotic cell ·Vol. 11 ·No. 8 ·2012-08-00 ·Pages 1083-4

Kumar S, Kushwaha H, Bachhawat AK, Raghava GP, Ganesan K

Abstract

We report the de novo assembled 20.05-Mb draft genome of the red yeast Rhodosporidium toruloides MTCC 457, predicted to encode 5,993 proteins, 4 rRNAs, and 125 tRNAs. Proteins known to be unique to oleaginous fungi are present among the predicted proteins. The genome sequence will be valuable for molecular genetic analysis and manipulation of lipid accumulation in this yeast and for developing it as a potential host for biofuel production.

MeSH Terms
Base Sequence Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Data Rhodotorula/genetics Sequence Analysis, DNA
Authors & Affiliations
5 authors, click to expand affiliations / ORCID
Kumar Shailesh
CSIR-Institute of Microbial Technology, Chandigarh, India.
Kushwaha Hariom
Bachhawat Anand Kumar
Raghava Gajendra Pal Singh
Ganesan Kaliannan
References (15)
15 references, click to expand
  1. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.
    Nat Biotechnol. 2010 May;28(5):511-5 PMID: 20436464
  2. Oily yeasts as oleaginous cell factories.
    Appl Microbiol Biotechnol. 2011 May;90(4):1219-27 PMID: 21465305
  3. MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes.
    Genome Res. 2008 Jan;18(1):188-96 PMID: 18025269
  4. Alternative routes of acetyl-CoA synthesis identified by comparative genomic analysis: involvement in the lipid production of oleaginous yeast and fungi.
    Microbiology (Reading). 2012 Jan;158(Pt 1):217-228 PMID: 22016567
  5. A greedy algorithm for aligning DNA sequences.
    J Comput Biol. 2000 Feb-Apr;7(1-2):203-14 PMID: 10890397
  6. The biochemistry and molecular biology of lipid accumulation in oleaginous microorganisms.
    Adv Appl Microbiol. 2002;51:1-51 PMID: 12236054
  7. Transformation of Rhodosporidium toruloides.
    Gene. 1985;36(3):235-40 PMID: 3000875
  8. An overview of lipid metabolism in yeasts and its impact on biotechnological processes.
    Appl Microbiol Biotechnol. 2011 May;90(4):1193-206 PMID: 21452033
  9. Morphological change in the early stages of the mating process of Rhodosporidium toruloides.
    J Bacteriol. 1975 May;122(2):710-8 PMID: 1092664
  10. ATP:citrate lyase of Rhodotorula gracilis: purification and properties.
    Biochim Biophys Acta. 1990 Jan 29;1033(1):23-30 PMID: 2302411
  11. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.
    Nucleic Acids Res. 1997 Mar 1;25(5):955-64 PMID: 9023104
  12. De novo assembly of human genomes with massively parallel short read sequencing.
    Genome Res. 2010 Feb;20(2):265-72 PMID: 20019144
  13. TopHat: discovering splice junctions with RNA-Seq.
    Bioinformatics. 2009 May 1;25(9):1105-11 PMID: 19289445
  14. Identification of mating type genes in the bipolar basidiomycetous yeast Rhodosporidium toruloides: first insight into the MAT locus structure of the Sporidiobolales.
    Eukaryot Cell. 2008 Jun;7(6):1053-61 PMID: 18408057
  15. RNAmmer: consistent and rapid annotation of ribosomal RNA genes.
    Nucleic Acids Res. 2007;35(9):3100-8 PMID: 17452365
Article Info
Journal
Eukaryotic cell
Abbr.
Eukaryot Cell
ISSN
1535-9786
Published
2012-08-00
Pages
1083-4
Language
English
Region
United States
NLM ID
101130731
PMCID
PMC3416060
Subset
IM
Databases
GENBANK
AJMJ00000000, AJMJ01000000
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