دورية أكاديمية
Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations.
العنوان: | Genome analysis of Candida subhashii reveals its hybrid nature and dual mitochondrial genome conformations. |
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المؤلفون: | Mixão V; Life Sciences Department, Barcelona Supercomputing Center (BSC), Jordi Girona, 29, 08034 Barcelona, Spain.; Mechanisms of Disease Department, Institute for Research in Biomedicine (IRB), Barcelona, Spain., Hegedűsová E; Faculty of Natural Sciences, Department of Biochemistry, Comenius University in Bratislava, Ilkovičova 6, 842 15 Bratislava, Slovak Republic., Saus E; Life Sciences Department, Barcelona Supercomputing Center (BSC), Jordi Girona, 29, 08034 Barcelona, Spain.; Mechanisms of Disease Department, Institute for Research in Biomedicine (IRB), Barcelona, Spain., Pryszcz LP; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Spain., Cillingová A; Faculty of Natural Sciences, Department of Biochemistry, Comenius University in Bratislava, Ilkovičova 6, 842 15 Bratislava, Slovak Republic., Nosek J; Faculty of Natural Sciences, Department of Biochemistry, Comenius University in Bratislava, Ilkovičova 6, 842 15 Bratislava, Slovak Republic., Gabaldón T; Life Sciences Department, Barcelona Supercomputing Center (BSC), Jordi Girona, 29, 08034 Barcelona, Spain.; Mechanisms of Disease Department, Institute for Research in Biomedicine (IRB), Barcelona, Spain.; ICREA, Pg. Lluis Companys 23, Barcelona 08010, Spain. |
المصدر: | DNA research : an international journal for rapid publication of reports on genes and genomes [DNA Res] 2021 Jun 25; Vol. 28 (3). |
نوع المنشور: | Journal Article |
اللغة: | English |
بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 9423827 Publication Model: Print Cited Medium: Internet ISSN: 1756-1663 (Electronic) Linking ISSN: 13402838 NLM ISO Abbreviation: DNA Res Subsets: MEDLINE |
أسماء مطبوعة: | Publication: 2006- : Oxford : Oxford University Press Original Publication: Tokyo, Japan : Kazusa DNA Research Institute ; Universal Academy Press [1994- |
مواضيع طبية MeSH: | Genome, Fungal* , Genome, Mitochondrial* , Metabolic Networks and Pathways*, Candida/*genetics , Cell Nucleus/*genetics , Phenols/*metabolism, Candida/metabolism ; Whole Genome Sequencing |
مستخلص: | Candida subhashii belongs to the CUG-Ser clade, a group of phylogenetically closely related yeast species that includes some human opportunistic pathogens, such as Candida albicans. Despite being present in the environment, C. subhashii was initially described as the causative agent of a case of peritonitis. Considering the relevance of whole-genome sequencing and analysis for our understanding of genome evolution and pathogenicity, we sequenced, assembled and annotated the genome of C. subhashii type strain. Our results show that C. subhashii presents a highly heterozygous genome and other signatures that point to a hybrid ancestry. The presence of functional pathways for assimilation of hydroxyaromatic compounds goes in line with the affiliation of this yeast with soil microbial communities involved in lignin decomposition. Furthermore, we observed that different clones of this strain may present circular or linear mitochondrial DNA. Re-sequencing and comparison of strains with differential mitochondrial genome topology revealed five candidate genes potentially associated with this conformational change: MSK1, SSZ1, ALG5, MRPL9 and OYE32. (© The Author(s) 2021. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.) |
References: | Sci Rep. 2017 Aug 21;7(1):8998. (PMID: 28827635) G3 (Bethesda). 2019 Dec 3;9(12):3921-3927. (PMID: 31575637) Water Air Soil Pollut. 2017;228(6):210. (PMID: 28603316) Gigascience. 2012 Dec 27;1(1):18. (PMID: 23587118) Nucleic Acids Res. 2014 Jan;42(Database issue):D897-902. (PMID: 24275491) Bioinformatics. 2014 Aug 1;30(15):2114-20. (PMID: 24695404) J Comput Biol. 2015 Jun;22(6):528-45. (PMID: 25734602) J Biol Chem. 2007 Dec 7;282(49):36010-23. (PMID: 17897954) EMBO J. 1985 Aug;4(8):2087-92. (PMID: 3905388) PLoS Genet. 2016 Nov 2;12(11):e1006404. (PMID: 27806045) Med Mycol. 2009 May;47(3):305-11. (PMID: 18798116) FEMS Yeast Res. 2016 Sep;16(6):. (PMID: 27493146) Microbiology (Reading). 2004 May;150(Pt 5):1571-1580. (PMID: 15133118) Bioinformatics. 2013 Apr 15;29(8):1072-5. (PMID: 23422339) Nucleic Acids Res. 2016 Jul 8;44(12):e113. (PMID: 27131372) Cold Spring Harb Perspect Med. 2014 Sep 02;4(9):a019778. (PMID: 25183855) J Clin Microbiol. 2010 Apr;48(4):1366-77. (PMID: 20164282) Yeast. 2018 Jan;35(1):5-20. (PMID: 28681409) Curr Genet. 2008 Aug;54(2):105-9. (PMID: 18568348) J Mol Biol. 2000 Jul 21;300(4):1005-16. (PMID: 10891285) Nucleic Acids Res. 2011 May;39(10):4202-19. (PMID: 21266473) Nucleic Acids Res. 2007 Jul;35(Web Server issue):W91-6. (PMID: 17478504) Sci Rep. 2015 Apr 22;5:9593. (PMID: 25901788) Bioinformatics. 2020 Apr 15;36(8):2569-2571. (PMID: 31834373) Genome Res. 2010 Sep;20(9):1297-303. (PMID: 20644199) Microbiology (Reading). 2010 Jul;156(Pt 7):2153-2163. (PMID: 20395267) FEMS Yeast Res. 2015 May;15(3):. (PMID: 25743787) Genome Biol Evol. 2014 May;6(5):1069-78. (PMID: 24747362) Bioinformatics. 2015 Oct 1;31(19):3210-2. (PMID: 26059717) BMC Bioinformatics. 2018 Apr 4;19(1):122. (PMID: 29618319) Bioinformatics. 2017 Feb 15;33(4):574-576. (PMID: 27797770) J Comput Biol. 2012 May;19(5):455-77. (PMID: 22506599) Genetics. 2021 Feb 9;217(2):. (PMID: 33724404) Microbiology (Reading). 2011 Jul;157(Pt 7):2152-2163. (PMID: 21474535) Bioinformatics. 2015 Jun 15;31(12):2035-7. (PMID: 25661542) Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W465-7. (PMID: 15980513) Bioinformatics. 2010 Mar 15;26(6):841-2. (PMID: 20110278) BMC Biol. 2020 May 6;18(1):48. (PMID: 32375762) Front Genet. 2019 Apr 25;10:383. (PMID: 31105748) PLoS Genet. 2015 Oct 30;11(10):e1005626. (PMID: 26517373) Genome Biol. 2008 Oct 30;9(10):235. (PMID: 18983710) BMC Microbiol. 2017 Jan 5;17(1):4. (PMID: 28056814) FEMS Yeast Res. 2020 Aug 1;20(5):. (PMID: 32658267) |
معلومات مُعتمدة: | European Union's Horizon 2020 Research and Innovation |
فهرسة مساهمة: | Keywords: Candida subhashii; genome assembly; hybrid; metabolism of hydroxyaromatic compounds; mitochondria |
المشرفين على المادة: | 0 (Phenols) |
SCR Organism: | Candida subhashii |
تواريخ الأحداث: | Date Created: 20210615 Date Completed: 20210817 Latest Revision: 20210817 |
رمز التحديث: | 20231215 |
مُعرف محوري في PubMed: | PMC8311171 |
DOI: | 10.1093/dnares/dsab006 |
PMID: | 34129020 |
قاعدة البيانات: | MEDLINE |
تدمد: | 1756-1663 |
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DOI: | 10.1093/dnares/dsab006 |