دورية أكاديمية
Genome and Transcriptome Sequencing of Populus × sibirica Identified Sex-Associated Allele-Specific Expression of the CLC Gene.
| العنوان: | Genome and Transcriptome Sequencing of Populus × sibirica Identified Sex-Associated Allele-Specific Expression of the CLC Gene. |
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| المؤلفون: | Pushkova EN; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Krasnov GS; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Lakunina VA; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Novakovskiy RO; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Povkhova LV; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia.; Moscow Institute of Physics and Technology, Moscow, Russia., Dvorianinova EM; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia.; Moscow Institute of Physics and Technology, Moscow, Russia., Beniaminov AD; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Fedorova MS; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Snezhkina AV; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Kudryavtseva AV; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Dmitriev AA; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia., Melnikova NV; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia. |
| المصدر: | Frontiers in genetics [Front Genet] 2021 Aug 11; Vol. 12, pp. 676935. Date of Electronic Publication: 2021 Aug 11 (Print Publication: 2021). |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Frontiers Research Foundation Country of Publication: Switzerland NLM ID: 101560621 Publication Model: eCollection Cited Medium: Print ISSN: 1664-8021 (Print) Linking ISSN: 16648021 NLM ISO Abbreviation: Front Genet Subsets: PubMed not MEDLINE |
| أسماء مطبوعة: | Original Publication: Lausanne : Frontiers Research Foundation. |
| مستخلص: | Transcriptome sequencing of leaves, catkin axes, and flowers from male and female trees of Populus × sibirica and genome sequencing of the same plants were performed for the first time. The availability of both genome and transcriptome sequencing data enabled the identification of allele-specific expression. Such an analysis was performed for genes from the sex-determining region (SDR). P. × sibirica is an intersectional hybrid between species from sections Aigeiros ( Populus nigra ) and Tacamahaca ( Populus laurifolia , Populus suaveolens , or Populus × moskoviensis ); therefore, a significant number of heterozygous polymorphisms were identified in the SDR that allowed us to distinguish between alleles. In the SDR, both allelic variants of the TCP (T-complex protein 1 subunit gamma), CLC (Chloride channel protein CLC-c), and MET1 (DNA-methyltransferase 1) genes were expressed in females, while in males, two allelic variants were expressed for TCP and MET1 but only one allelic variant prevailed for CLC . Targeted sequencing of TCP , CLC , and MET1 regions on a representative set of trees confirmed the sex-associated allele-specific expression of the CLC gene in generative and vegetative tissues of P. × sibirica . Our study brings new knowledge on sex-associated differences in Populus species. Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. (Copyright © 2021 Pushkova, Krasnov, Lakunina, Novakovskiy, Povkhova, Dvorianinova, Beniaminov, Fedorova, Snezhkina, Kudryavtseva, Dmitriev and Melnikova.) |
| References: | Am J Bot. 2014 Oct;101(10):1588-96. (PMID: 25326608) Tree Physiol. 2019 Sep 1;39(9):1614-1629. (PMID: 31115478) Plant Cell. 2004;16 Suppl:S61-71. (PMID: 15084718) Ann Bot. 2012 Feb;109(3):531-43. (PMID: 21807691) PLoS One. 2018 Dec 20;13(12):e0208648. (PMID: 30571734) Genome Biol. 2020 Oct 6;21(1):259. (PMID: 33023654) Ecol Evol. 2014 May;4(10):1876-89. (PMID: 24963382) Nat Plants. 2020 Jun;6(6):630-637. (PMID: 32483326) Data Brief. 2020 May 15;31:105710. (PMID: 32490079) Sci Rep. 2020 May 21;10(1):8413. (PMID: 32439903) Mol Ecol. 2017 Mar;26(5):1225-1241. (PMID: 28101895) PLoS Biol. 2014 Jul 01;12(7):e1001899. (PMID: 24983465) Heredity (Edinb). 2002 Feb;88(2):94-101. (PMID: 11932767) Bioinformatics. 2014 Apr 1;30(7):923-30. (PMID: 24227677) Annu Rev Plant Biol. 2007;58:435-58. (PMID: 17280524) Front Plant Sci. 2017 Oct 26;8:1827. (PMID: 29123538) Bioinformatics. 2014 Aug 1;30(15):2114-20. (PMID: 24695404) BMC Plant Biol. 2020 Oct 14;20(Suppl 1):301. (PMID: 33050879) BMC Plant Biol. 2020 Dec 11;20(1):560. (PMID: 33308157) Mol Ecol. 2015 Jul;24(13):3243-56. (PMID: 25728270) Bioinformatics. 2010 Jan 1;26(1):139-40. (PMID: 19910308) Genome Res. 2008 Mar;18(3):422-30. (PMID: 18256239) Physiol Plant. 2018 Mar;162(3):301-315. (PMID: 28857174) BMC Plant Biol. 2016 Apr 18;16:89. (PMID: 27091174) Physiol Plant. 2021 Apr;171(4):688-702. (PMID: 33034380) Trends Genet. 2011 Sep;27(9):368-76. (PMID: 21962972) Nat Commun. 2020 Nov 18;11(1):5893. (PMID: 33208755) Bioinformatics. 2013 Jan 1;29(1):15-21. (PMID: 23104886) Plant Biol (Stuttg). 2015 Jan;17(1):256-61. (PMID: 24943351) Sci Rep. 2017 May 12;7(1):1831. (PMID: 28500332) Science. 2006 Sep 15;313(5793):1596-604. (PMID: 16973872) New Phytol. 2019 Jan;221(1):527-539. (PMID: 30252135) Plant Biol (Stuttg). 2014 Mar;16(2):411-8. (PMID: 23710995) Genes (Basel). 2020 Jul 24;11(8):. (PMID: 32722098) Mol Biol Evol. 2021 Mar 9;38(3):968-980. (PMID: 33027519) Biochimie. 2019 Jul;162:26-32. (PMID: 30935960) J Exp Bot. 2012 Jun;63(10):3709-26. (PMID: 22442418) Bioinformatics. 2010 Mar 15;26(6):841-2. (PMID: 20110278) BMC Genomics. 2014 May 04;15:337. (PMID: 24886148) |
| فهرسة مساهمة: | Keywords: CLC gene; DNA polymorphism; Populus; gene expression; poplar; sex; transcriptome sequencing |
| تواريخ الأحداث: | Date Created: 20210830 Latest Revision: 20210831 |
| رمز التحديث: | 20231215 |
| مُعرف محوري في PubMed: | PMC8385651 |
| DOI: | 10.3389/fgene.2021.676935 |
| PMID: | 34456967 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 1664-8021 |
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| DOI: | 10.3389/fgene.2021.676935 |