Draft Genome Sequence of the Yeast Rhodotorula sp. Strain CCFEE 5036, Isolated from McMurdo Dry Valleys, Antarctica

A draft genome sequence was assembled and annotated of the basidiomycetous yeast Rhodotorula sp. strain CCFEE 5036, isolated from Antarctic soil communities. The genome assembly is 19.07 megabases and encodes 6,434 protein-coding genes. The sequence will contribute to understanding the diversity of fungi inhabiting polar regions. ABSTRACT A draft genome sequence was assembled and annotated of the basidiomycetous yeast Rhodotorula sp. strain CCFEE 5036, isolated from Antarctic soil communities. The genome assembly is 19.07 megabases and encodes 6,434 protein-coding genes. The sequence will contribute to understanding the diversity of fungi inhabiting polar regions.

[1]  S. Sim,et al.  Genome Annotation Generator: a simple tool for generating and correcting WGS annotation tables for NCBI submission , 2018, GigaScience.

[2]  J. Wastling,et al.  Giardia secretome highlights secreted tenascins as a key component of pathogenesis , 2018, GigaScience.

[3]  M. C. Aime,et al.  A closer look at Sporidiobolales: Ubiquitous microbial community members of plant and food biospheres , 2018, Mycologia.

[4]  Zhenglu Yang,et al.  dbCAN-seq: a database of carbohydrate-active enzyme (CAZyme) sequence and annotation , 2017, Nucleic Acids Res..

[5]  Mojgan Amirebrahimi,et al.  Improved High-Quality Draft Genome Sequence of the Eurypsychrophile Rhodotorula sp. JG1b, Isolated from Permafrost in the Hyperarid Upper-Elevation McMurdo Dry Valleys, Antarctica , 2016, Genome Announcements.

[6]  Davide Heller,et al.  eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences , 2015, Nucleic Acids Res..

[7]  Neil D. Rawlings,et al.  Twenty years of the MEROPS database of proteolytic enzymes, their substrates and inhibitors , 2015, Nucleic Acids Res..

[8]  Evgeny M. Zdobnov,et al.  BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs , 2015, Bioinform..

[9]  F. Magne,et al.  Debaryomyces hansenii and Rhodotorula mucilaginosa comprised the yeast core gut microbiota of wild and reared carnivorous salmonids, croaker and yellowtail. , 2014, Environmental microbiology.

[10]  G. Procop Medically Important Fungi: A Guide to Identification – 5th Edition , 2014 .

[11]  Matthew Fraser,et al.  InterProScan 5: genome-scale protein function classification , 2014, Bioinform..

[12]  Pedro M. Coutinho,et al.  The carbohydrate-active enzymes database (CAZy) in 2013 , 2013, Nucleic Acids Res..

[13]  Michael Roberts,et al.  The MaSuRCA genome assembler , 2013, Bioinform..

[14]  N. Das,et al.  Role of plasmid in diesel oil degradation by yeast species isolated from petroleum hydrocarbon-contaminated soil , 2012, Environmental technology.

[15]  Sean R. Eddy,et al.  Accelerated Profile HMM Searches , 2011, PLoS Comput. Biol..

[16]  M. Cambon-Bonavita,et al.  Marine culturable yeasts in deep-sea hydrothermal vents: species richness and association with fauna. , 2010, FEMS microbiology ecology.

[17]  Brandi L. Cantarel,et al.  The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics , 2008, Nucleic Acids Res..

[18]  Jonathan E. Allen,et al.  Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments , 2007, Genome Biology.

[19]  E. Birney,et al.  Pfam: the protein families database , 2013, Nucleic Acids Res..

[20]  F. Schinner,et al.  Rhodotorula psychrophila sp. nov., Rhodotorula psychrophenolica sp. nov. and Rhodotorula glacialis sp. nov., novel psychrophilic basidiomycetous yeast species isolated from alpine environments. , 2007, International journal of systematic and evolutionary microbiology.

[21]  Burkhard Morgenstern,et al.  AUGUSTUS: ab initio prediction of alternative transcripts , 2006, Nucleic Acids Res..

[22]  M. Borodovsky,et al.  Gene identification in novel eukaryotic genomes by self-training algorithm , 2005, Nucleic acids research.

[23]  F. Schinner,et al.  Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. , 2005, Chemosphere.

[24]  Ewan Birney,et al.  Automated generation of heuristics for biological sequence comparison , 2005, BMC Bioinformatics.

[25]  J. Aislabie,et al.  Culturable Bacteria in Subglacial Sediments and Ice from Two Southern Hemisphere Glaciers , 2004, Microbial Ecology.

[26]  S. Salzberg,et al.  Versatile and open software for comparing large genomes , 2004, Genome Biology.

[27]  G. Feller,et al.  Psychrophilic enzymes: hot topics in cold adaptation , 2003, Nature Reviews Microbiology.

[28]  Davise H. Larone,et al.  Medically Important Fungi: A Guide to Identification, Fifth Edition , 2002 .

[29]  S. Tanksley,et al.  Microprep protocol for extraction of DNA from tomato and other herbaceous plants , 1995, Plant Molecular Biology Reporter.

[30]  C. Sannino,et al.  Yeasts in Nonpolar Cold Habitats , 2017 .

[31]  Andrey M. Yurkov,et al.  Yeasts in Natural Ecosystems: Diversity , 2017, Springer International Publishing.

[32]  I. Xenarios,et al.  UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View. , 2016, Methods in molecular biology.

[33]  L. Selbmann,et al.  Taxonomic and phenotypic characterization of yeasts isolated from worldwide cold rock-associated habitats. , 2014, Fungal biology.

[34]  J. Zupan,et al.  Yeasts in Extreme Environments , 2006 .

[35]  T. Miller Systematics and evolution , 1987 .

[36]  D. Larone Medically Important Fungi: A Guide to Identification , 1976 .