Item request has been placed!
×
Item request cannot be made.
×
Processing Request
The macronuclear genome of the Antarctic psychrophilic marine ciliate Euplotes focardii reveals new insights on molecular cold adaptation.
Item request has been placed!
×
Item request cannot be made.
×
Processing Request
- معلومة اضافية
- المصدر:
Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN: 2045-2322 (Electronic) Linking ISSN: 20452322 NLM ISO Abbreviation: Sci Rep Subsets: MEDLINE
- بيانات النشر:
Original Publication: London : Nature Publishing Group, copyright 2011-
- الموضوع:
- نبذة مختصرة :
The macronuclear (MAC) genomes of ciliates belonging to the genus Euplotes species are comprised of numerous small DNA molecules, nanochromosomes, each typically encoding a single gene. These genomes are responsible for all gene expression during vegetative cell growth. Here, we report the analysis of the MAC genome from the Antarctic psychrophile Euplotes focardii. Nanochromosomes containing bacterial sequences were not found, suggesting that phenomena of horizontal gene transfer did not occur recently, even though this ciliate species has a substantial associated bacterial consortium. As in other euplotid species, E. focardii MAC genes are characterized by a high frequency of translational frameshifting. Furthermore, in order to characterize differences that may be consequent to cold adaptation and defense to oxidative stress, the main constraints of the Antarctic marine microorganisms, we compared E. focardii MAC genome with those available from mesophilic Euplotes species. We focussed mainly on the comparison of tubulin, antioxidant enzymes and heat shock protein (HSP) 70 families, molecules which possess peculiar characteristic correlated with cold adaptation in E. focardii. We found that α-tubulin genes and those encoding SODs and CATs antioxidant enzymes are more numerous than in the mesophilic Euplotes species. Furthermore, the phylogenetic trees showed that these molecules are divergent in the Antarctic species. In contrast, there are fewer hsp70 genes in E. focardii compared to mesophilic Euplotes and these genes do not respond to thermal stress but only to oxidative stress. Our results suggest that molecular adaptation to cold and oxidative stress in the Antarctic environment may not only be due to particular amino acid substitutions but also due to duplication and divergence of paralogous genes.
(© 2021. The Author(s).)
- References:
Biochim Biophys Acta. 2011 Dec;1810(12):1262-71. (PMID: 21782895)
Environ Pollut. 2017 Jun;225:481-489. (PMID: 28318795)
Biochimie. 2013 Sep;95(9):1795-806. (PMID: 23796575)
Bioinformatics. 2012 Dec 1;28(23):3150-2. (PMID: 23060610)
BMC Genomics. 2013;14 Suppl 1:S7. (PMID: 23368723)
Bioinformatics. 2006 Jul 1;22(13):1658-9. (PMID: 16731699)
Mol Biol Evol. 2018 Jun 1;35(6):1547-1549. (PMID: 29722887)
J Biol Chem. 1969 Nov 25;244(22):6049-55. (PMID: 5389100)
Cell. 2002 Dec 13;111(6):763-6. (PMID: 12526802)
Microb Ecol. 2015 Aug;70(2):484-97. (PMID: 25704316)
Ecotoxicol Environ Saf. 2014 Feb;100:294-302. (PMID: 24075098)
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W435-9. (PMID: 16845043)
Biochem Biophys Res Commun. 2013 Sep 6;438(4):715-20. (PMID: 23916704)
Curr Protoc Bioinformatics. 2016 Jun 20;54:5.6.1-5.6.37. (PMID: 27322406)
Nucleic Acids Res. 2002 May 1;30(9):e36. (PMID: 11972351)
J Mol Biol. 2009 May 1;388(2):310-26. (PMID: 19289127)
Annu Rev Physiol. 2006;68:253-78. (PMID: 16460273)
Nucleic Acids Res. 2012 Aug;40(14):e112. (PMID: 22539264)
PLoS One. 2017 Oct 26;12(10):e0185056. (PMID: 29073143)
Chromosoma. 2004 Sep;113(2):69-76. (PMID: 15258807)
Curr Genomics. 2008;9(5):338-248. (PMID: 19471609)
Nucleic Acids Res. 2017 Jan 4;45(D1):D12-D17. (PMID: 27899561)
Curr Opin Struct Biol. 2017 Feb;42:117-128. (PMID: 28040640)
Nucleic Acids Res. 1998 Sep 15;26(18):4230-40. (PMID: 9722644)
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W70-4. (PMID: 18424795)
Sci Rep. 2016 Feb 19;6:21139. (PMID: 26891713)
Eukaryot Cell. 2005 Dec;4(12):2098-105. (PMID: 16339727)
J Bacteriol. 1990 Jun;172(6):2901-10. (PMID: 2345128)
Cell. 2016 Jul 28;166(3):691-702. (PMID: 27426948)
Bioinformatics. 2014 Aug 1;30(15):2114-20. (PMID: 24695404)
Biotechniques. 1998 Jun;24(6):954-8, 960, 962. (PMID: 9631186)
Essays Biochem. 1997;32:17-29. (PMID: 9493008)
Nucleic Acids Res. 2008 Jun;36(10):3420-35. (PMID: 18445632)
CRC Crit Rev Biochem. 1987;22(2):111-80. (PMID: 3315461)
BMC Genomics. 2019 Jul 31;20(1):624. (PMID: 31366321)
Gene. 2005 Nov 7;360(2):103-10. (PMID: 16143466)
Arch Biochem Biophys. 2002 Mar 1;399(1):19-36. (PMID: 11883900)
Integr Comp Biol. 2002 Aug;42(4):797-807. (PMID: 21708778)
Proc Biol Sci. 2019 Jul 24;286(1907):20190693. (PMID: 31311477)
Cell. 2019 Oct 31;179(4):909-922.e12. (PMID: 31668805)
Parasitol Today. 1994 Dec;10(12):481-4. (PMID: 15275517)
Microbiol Rev. 1994 Jun;58(2):233-67. (PMID: 8078435)
Nature. 2006 Nov 9;444(7116):171-8. (PMID: 17086204)
Eukaryot Cell. 2008 Aug;7(8):1362-72. (PMID: 18586949)
Med Res Rev. 2004 Jan;24(1):40-89. (PMID: 14595672)
Essays Biochem. 2018 Dec 7;62(6):737-751. (PMID: 30315096)
Nat Struct Mol Biol. 2017 Jan;24(1):61-68. (PMID: 27870834)
Biochemistry. 1989 Dec 26;28(26):10085-93. (PMID: 2620064)
Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12740-5. (PMID: 25128388)
Cell Stress Chaperones. 2008 Spring;13(1):39-49. (PMID: 18347940)
RNA Biol. 2009 Jan-Mar;6(1):31-4. (PMID: 19106621)
PLoS One. 2012;7(6):e39694. (PMID: 22745812)
FEBS Lett. 1985 Jan 7;179(2):267-70. (PMID: 3838159)
FEBS Lett. 2012 Mar 9;586(5):585-95. (PMID: 22079668)
Mar Genomics. 2009 Mar;2(1):57-66. (PMID: 21798173)
Proc Natl Acad Sci U S A. 2015 Mar 10;112(10):3038-43. (PMID: 25733896)
Nucleic Acids Res. 2002 Jan 15;30(2):523-31. (PMID: 11788715)
Curr Biol. 2001 Jan 23;11(2):65-74. (PMID: 11231122)
Nucleic Acids Res. 2017 May 19;45(9):e70. (PMID: 28108659)
Bioinformatics. 2007 May 1;23(9):1061-7. (PMID: 17332020)
J Biol Chem. 2000 Nov 24;275(47):37038-47. (PMID: 10956651)
BMC Bioinformatics. 2011 Aug 04;12:323. (PMID: 21816040)
Science. 2009 Jan 9;323(5911):259-61. (PMID: 19131629)
Proc Natl Acad Sci U S A. 1968 Sep;61(1):229-36. (PMID: 4972364)
Elife. 2013 Dec 03;2:e01179. (PMID: 24302569)
Mol Cell Biol. 2006 Jan;26(2):438-47. (PMID: 16382136)
J Eukaryot Microbiol. 2019 May;66(3):376-384. (PMID: 30076754)
Nucleic Acids Res. 2001 May 1;29(9):e45. (PMID: 11328886)
J Eukaryot Microbiol. 2020 Jan;67(1):144-149. (PMID: 31419839)
Mol Biol Evol. 2016 Nov;33(11):2885-2889. (PMID: 27501944)
Proc Natl Acad Sci U S A. 2019 Oct 1;116(40):19930-19938. (PMID: 31527277)
J Cell Biol. 2017 Sep 4;216(9):2669-2677. (PMID: 28652389)
Bioinformatics. 2005 Sep 15;21(18):3674-6. (PMID: 16081474)
Extremophiles. 2002 Oct;6(5):385-9. (PMID: 12382114)
J Comput Biol. 2012 May;19(5):455-77. (PMID: 22506599)
Res Microbiol. 2005 Jan-Feb;156(1):93-103. (PMID: 15636753)
J Biol Chem. 1992 Sep 15;267(26):18766-75. (PMID: 1527007)
FEBS J. 2008 Nov;275(21):5367-82. (PMID: 18959762)
Nucleic Acids Res. 2004 Jan 02;32(1):11-6. (PMID: 14704338)
Dev Cell. 2018 Oct 22;47(2):191-204.e8. (PMID: 30245157)
Nucleic Acids Res. 2018 Jul 2;46(W1):W296-W303. (PMID: 29788355)
Bioinformatics. 2013 Apr 15;29(8):1072-5. (PMID: 23422339)
Curr Protoc Bioinformatics. 2014 Dec 12;48:3.13.1-3.13.16. (PMID: 25501942)
Biochem J. 1984 Sep 15;222(3):649-55. (PMID: 6487268)
Biol Res. 2018 Mar 27;51(1):8. (PMID: 29587857)
J Exp Biol. 2000 Aug;203(Pt 15):2331-9. (PMID: 10887071)
Genome Biol Evol. 2014 Jun 20;6(7):1707-23. (PMID: 24951568)
Free Radic Biol Med. 1988;5(5-6):363-9. (PMID: 2855736)
Proteins. 2012 Apr;80(4):1154-66. (PMID: 22275059)
Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22140-4. (PMID: 21078984)
PLoS Comput Biol. 2014 Aug 28;10(8):e1003813. (PMID: 25165981)
Mol Ecol. 2001 Apr;10(4):1061-7. (PMID: 11348511)
Nucleic Acids Res. 2011 Jan;39(Database issue):D632-6. (PMID: 20952411)
Nature. 2001 May 24;411(6836):439-45. (PMID: 11373668)
J Biol Chem. 1994 Oct 14;269(41):25310-4. (PMID: 7929223)
Proc Natl Acad Sci U S A. 1985 Feb;82(3):824-8. (PMID: 3919383)
Protist. 2015 Feb;166(1):131-45. (PMID: 25681687)
Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):12944-9. (PMID: 18753634)
Eur J Biochem. 2002 Dec;269(24):6271-7. (PMID: 12473123)
PLoS Biol. 2013;11(1):e1001473. (PMID: 23382650)
Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22134-9. (PMID: 20974970)
PLoS Biol. 2006 Sep;4(9):e286. (PMID: 16933976)
J Cell Sci. 2001 Jan;114(Pt 2):413-22. (PMID: 11148142)
J Eukaryot Microbiol. 1994 Jul-Aug;41(4):420-7. (PMID: 8087111)
Mol Ecol Resour. 2019 Sep;19(5):1292-1308. (PMID: 30985983)
Sci Rep. 2020 Nov 20;10(1):20311. (PMID: 33219271)
Sci Rep. 2018 Oct 3;8(1):14721. (PMID: 30283056)
World Allergy Organ J. 2012 Jan;5(1):9-19. (PMID: 23268465)
- الموضوع:
Date Created: 20210922 Date Completed: 20211230 Latest Revision: 20240403
- الموضوع:
20240403
- الرقم المعرف:
PMC8455672
- الرقم المعرف:
10.1038/s41598-021-98168-5
- الرقم المعرف:
34548559
No Comments.