Особенности организации дуплицированных копий ортологов генов AtTT2 и AtTT8 арабидопсиса в геноме аллотетраплоидного хлопчатника
https://doi.org/10.30901/2658-6266-2026-3-o1
Аннотация
Arabidopsis thaliana L. является классическим модельным объектом, у которого подробно описаны механизмы регуляции биосинтеза флавоноидных пигментов с участием генов AtTT2, относящихся к семейству R2R3-MYB, и AtTT8 из семейства bHLH-MYC. Актуальным остается вопрос о судьбе дуплицированных копий у аллополиплоидных видов, возникших в результате межвидовой гибридизации, удобной моделью для изучения которого является хлопчатник вида Gossypium hirsutum L. В субгеномах At и Dt G. hirsutum идентифицированы копии генов GhTT2, GhMYB10 и GhTT8, являющиеся ортологами соответствующих генов A. thaliana. В настоящей работе на основе секвенирования аллелей указанных регуляторных генов у образцов хлопчатника c контрастной окраской волокна и гипокотиля оценивается роль аллополиплоидизации в эволюции дуплицированных регуляторных генов, кодирующих компоненты MBW-комплекса: транскрипционные факторы семейств R2R3-MYB, bHLH-MYC, WD40. Для генов семейства R2R3-MYB хлопчатника выявлен асимметричный характер эволюции, при котором гены субгенома Аt эволюционируют быстрее и находятся под менее строгим очищающим отбором по сравнению с гомеологами субгенома Dt. Секвенированные последовательности впервые депонированы в международную базу данных GenBank (NCBI).
Об авторах
А. С. МихайловаРоссия
Александра Сергеевна Михайлова, научный сотрудник, лаборатория постгеномных исследований, ВИР
190000 Россия, Санкт-Петербург, ул. Большая Морская, 42, 44
Е. К. Хлесткина
Россия
Елена Константиновна Хлесткина, доктор биологических наук, член-корреспондент РАН, директор, ВИР
190000 Россия, Санкт-Петербург, ул. Большая Морская, 42, 44
Список литературы
1. Adams K.L., Cronn R., Percifield R., Wendel J.F. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proceedings of the National Academy of Sciences of the United States of America. 2003;100(8):4649-4654. DOI: 10.1073/pnas.0630618100
2. Baudry A., Caboche M., Lepiniec L. TT8 controls its own expression in a feedback regulation involving TTG1 and homologous MYB and bHLH factors, allowing a strong and cell-specific accumulation of flavonoids in Arabidopsis thaliana. The Plant Journal. 2006;46(5):768-779. DOI: 10.1111/j.1365-313X.2006.02733.x
3. Baudry A., Heim M.A., Dubreucq B., Caboche M., Weisshaar B., Lepiniec L. TT2, TT8, and TTG1 synergistically specify the expression of BANYULS and proanthocyanidin biosynthesis in Arabidopsis thaliana. The Plant Journal. 2004;39(3):366-380. DOI: 10.1111/j.1365-313X.2004.02138.x
4. Comai L., Tyagi A.P., Winter K., Holmes-Davis R., Reynolds S.H., Stevens Y., Byers B. Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. The Plant Cell. 2000;12(9):1551-1567. DOI: 10.1105/tpc.12.9.1551
5. Doebley J., Lukens L. Transcriptional regulators and the evolution of plant form. The Plant Cell. 1998;10(7):1075-1082. DOI: 10.1105/tpc.10.7.1075
6. Flagel L., Udall J., Nettleton D., Wendel J. Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution. BMC Biology. 2008;6:16. DOI: 10.1186/1741-7007-6-16
7. Force A., Lynch M., Pickett F.B., Amores A., Yan Y.L., Postlethwait J. Preservation of duplicate genes by complementary, degenerative mutations. Genetics. 1999;151(4):1531-1545. DOI: 10.1093/genetics/151.4.1531
8. Gonzalez A., Zhao M., Leavitt J.M., Lloyd A.M. Regulation of the anthocyanin biosynthetic pathway by the TTG1/bHLH/MYB transcriptional complex in Arabidopsis seedlings. The Plant Journal. 2008;53(5):814-827. DOI: 10.1111/j.1365-313X.2007.03373.x
9. Gould K., Lister C. Flavonoid functions in plants. In: Flavonoids: Chemistry, Biochemistry and Applications. CRC Press; 2005. p.397-441. DOI: 10.1201/9781420039443.ch8
10. Hinchliffe D.J., Condon B.D., Thyssen G., Naoumkina M., Madison C.A., Reynolds M., Delhom C.D., Fang D.D., Li P., McCarty J. The GhTT2_A07 gene is linked to the brown colour and natural flame retardancy phenotypes of Lc1 cotton (Gossypium hirsutum L.) fibres. Journal of Experimental Botany. 2016;67(18):5461-5471. DOI: 10.1093/jxb/erw312
11. Humphries J.A., Walker A.R., Timmis J.N., Orford S.J. Two WD-repeat genes from cotton are functional homologues of the Arabidopsis thaliana TRANSPARENT TESTA GLABRA1 (TTG1) gene. Plant Molecular Biology. 2005;57(1):67-81. DOI: 10.1007/s11103-004-6768-1
12. Kanei-Ishii C., Sarai A., Sawazaki T., Nakagoshi H., He D.N., Ogata K., Nishimura Y., Ishii S. The tryptophan cluster: a hypothetical structure of the DNA-binding domain of the MYB protooncogene product. Journal of Biological Chemistry. 1990;265(32):19990-19995. DOI: 10.1016/S0021-9258(17)45472-X
13. Katiyar A., Smita S., Lenka S., Rajwanshi R., Chinnusamy V., Bansal K. Genome-wide classification and expression analysis of MYB transcription factor families in rice and Arabidopsis. BMC Genomics. 2012;13(1):544. DOI: 10.1186/1471-2164-13-544
14. Koes R., Verweij W., Quattrocchio F. Flavonoids: a colorful model for the regulation and evolution of biochemical pathways. Trends in Plant Science. 2005;10(5):236-242. DOI: 10.1016/j.tplants.2005.03.002
15. Kumar S., Stecher G., Li M., Knyaz C., Tamura K. MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution. 2018;35(6):1547-1549. DOI: 10.1093/molbev/msy096
16. Leitch A.R., Leitch I.J. Genomic plasticity and the diversity of polyploid plants. Science. 2008;320(5875):481-483. DOI: 10.1126/science.1153585
17. Léon-Kloosterziel K.M., van de Bunt G.A., Zeevaart J.A., Koornneef M. Arabidopsis mutants with a reduced seed dormancy. Plant Physiology. 1996;110(1):233-240. DOI: 10.1104/pp.110.1.233
18. Liu B., Wendel J.F. Non-Mendelian phenomena in allopolyploid genome evolution. Current Genomics. 2002;3:489-505. DOI: 10.2174/1389202023350255
19. Liu H., Xiong J.-S., Jiang Y.-T., Wang L., Cheng Z.-M. Evolution of the R2R3-MYB gene family in six Rosaceae species and expression in woodland strawberry. Journal of Integrative Agriculture. 2019;18(12):2753-2770. DOI: 10.1016/S2095-3119(19)62818-2
20. Lu Q., Shi Y., Xiao X., Li P., Gong J., Gong W., Liu A., Shang H., Li J., Ge Q., Song W., Li S., Zhang Z., Rashid M.H.O., Peng R., Yuan Y., Huang J. Transcriptome analysis suggests that chromosome introgression fragments from sea island cotton (Gossypium barbadense) increase fiber strength in upland cotton (Gossypium hirsutum). G3: Genes, Genomes, Genetics. 2017;7(10):3469-3479. DOI: 10.1534/g3.117.300108
21. Lynch M., Conery J.S. The evolutionary fate and consequences of duplicate genes. Science. 2000;290(5494):1151-1155. DOI: 10.1126/science.290.5494.1151
22. Magadum S., Banerjee U., Murugan P., Gangapur D., Ravikesavan R. Gene duplication as a major force in evolution. Journal of Genetics. 2013;92(1):155-161. DOI: 10.1007/s12041-013-0212-8
23. Mikhailova A., Strygina K., Khlestkina E. In silico analysis of the regulatory gene families for proanthocyanidins biosynthesis in the genus Gossypium L. Turkish Journal of Agriculture and Forestry. 2022;46(5):11. DOI: 10.55730/1300-011X.3039
24. Mikhailova A.S., Shvachko N.A., Podolnaya L.P., Brutch N.B., Khlestkina E.K. Candidate Genes for Brown Fiber in Cotton Revealed Among the R2R3-Myb and bHLH-Myc Gene Families. Journal of Natural Fibers. 2024;21(1):2399930. DOI: 10.1080/15440478.2024.2399930
25. Mikhailova A.S., Podolnaya L.P., Khlestkina E.K. Expression of phenylpropanoid and flavonoid pathway genes in naturally colored cotton during late fiber development. Plant Research. 2026;1:100005. DOI: 10.1016/j.plares.2026.100005
26. Mitsis T., Efthimiadou A., Bacopoulou F., Vlachakis D., Chrousos G., Eliopoulos E. Transcription factors and evolution: An integral part of gene expression (Review). World Academy of Sciences Journal. 2020;2(1):3-8. DOI: 10.3892/wasj.2020.32
27. Nesi N., Debeaujon I., Jond C., Pelletier G., Caboche M., Lepiniec L. The TT8 gene encodes a basic Helix-Loop-Helix domain protein required for expression of DFR and BAN genes in Arabidopsis siliques. The Plant Cell. 2000;12(10):1863-1878. DOI: 10.1105/tpc.12.10.1863
28. Otto S.P., Whitton J. Polyploid incidence and evolution. Annual Review of Genetics. 2000;34(1):401-437. DOI: 10.1146/annurev.genet.34.1.401
29. Peng Q.-Z., Zhu Y., Liu Z., Du C., Li K.G., Xie D.Y. An integrated approach to demonstrating the ANR pathway of proanthocyanidin biosynthesis in plants. Planta. 2012;236(3):901-918. DOI: 10.1007/s00425-012-1670-6
30. Ponomarenko J.V. ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another. Nucleic Acids Research. 2001;29(1):284-287. DOI: 10.1093/nar/29.1.284
31. Rausher M.D., Miller R.E., Tiffin P. Patterns of evolutionary rate variation among genes of the anthocyanin biosynthetic pathway. Molecular Biology and Evolution. 1999;16(2):266-274. DOI: 10.1093/oxfordjournals.molbev.a026108
32. Renny-Byfield S., Wendel J.F. Doubling down on genomes: polyploidy and crop plants. American Journal of Botany. 2014;101(10):1711-1725. DOI: 10.3732/ajb.1400119
33. Rutland C.A., Hall N.D., McElroy J.S. The impact of polyploidization on the evolution of weed species: historical understanding and current limitations. Frontiers in Agronomy. 2021;3:1-12. DOI: 10.3389/fagro.2021.626454
34. Saikumar P., Murali R., Reddy E.P. Role of tryptophan repeats and flanking amino acids in MYB-DNA interactions. Proceedings of the National Academy of Sciences of the United States of America. 1990;87(21):8452-8456. DOI: 10.1073/pnas.87.21.8452
35. Saito K., Yonekura-Sakakibara K., Nakabayashi R., Higashi Y., Yamazaki M., Tohge T., Fernie A.R. The flavonoid biosynthetic pathway in Arabidopsis: structural and genetic diversity. Plant Physiology and Biochemistry. 2013;72:21-34. DOI: 10.1016/j.plaphy.2013.02.001
36. Shim J., Mangat P.K., Angeles-Shim R.B. Natural variation in wild Gossypium species as a tool to broaden the genetic base of cultivated cotton. Journal of Plant Sciences and Current Research. 2018;2:005. DOI: 10.24966/PSCR-3743/100005
37. Shoeva O.Y., Glagoleva A.Y., Khlestkina E.K. The factors affecting the evolution of the anthocyanin biosynthesis pathway genes in monocot and dicot plant species. BMC Plant Biology. 2017;17(Suppl 2):256. DOI: 10.1186/s12870-017-1190-4
38. Stephens S.G. Seed fibre colour in Gossypium and its possible significance in the evolution of domesticated cottons. Journal of Genetics. 1977;63:63-78. DOI: 10.1007/BF02984277
39. Туз К.З., Асфандиярова М.Ш., Подольная Л.П. ‘Браун’ – первый российский сорт хлопчатника с природно-окрашенным волокном. Труды по прикладной ботанике, генетике и селекции. 2023;184(1):154-162. DOI: 10.30901/2227-8834-2023-1-154-162
40. Walker A.R., Davison P.A., Bolognesi-Winfield A.C., James C.M., Srinivasan N., Blundell T.L., Esch J.J., Marks M.D., Gray J.C. The TRANSPARENT TESTA GLABRA1 Locus, which regulates trichome differentiation and anthocyanin biosynthesis in Arabidopsis, encodes a WD40 repeat protein. The Plant Cell. 1999;11(7):1337. DOI: 10.2307/3870753
41. Wang L., Liu H., Li X., Xiao X., Ai X., Luo C., Zhu L., Li X. Genetic mapping of fiber color genes on two brown cotton cultivars in Xinjiang. Springer Plus. 2014;3(1):480. DOI: 10.1186/2193-1801-3-480
42. Wang N., Ma Q., Ma J., Pei W., Liu G., Cui Y., Wu M., Zang X., Zhang J., Yu S., Ma L., Yu J. A comparative Genome-Wide Analysis of the R2R3-MYB Gene family among four Gossypium species and their sequence variation and association with fiber quality traits in an interspecific G. hirsutum × G. barbadense population. Frontiers in Genetics. 2019;10:741. DOI: 10.3389/fgene.2019.00741
43. Wen T., Wu M., Shen C., Gao B., Zhu D., Zhang X., You C., Lin Z. Linkage and association mapping reveals the genetic basis of brown fibre (Gossypium hirsutum). Plant Biotechnology Journal. 2018;16(9):1654-1666. DOI: 10.1111/pbi.12902
44. Wendel J.F. New world tetraploid cottons contain old-world cytoplasm. Proceedings of the National Academy of Sciences of the United States of America. 1989;86(11):4132-4136. DOI: 10.1073/pnas.86.11.4132
45. Wendel J.F. Genome evolution in polyploids. Plant Molecular Biology. 2000;42(1):225-249. DOI: 10.1023/A:1006392424384
46. Wheeler L.C., Walker J.F., Ng J., Deanna R., Dunbar-Wallis A., Backes A., Pezzi P.H., Palchetti M.V., Robertson H.M., Monaghan A., de Freitas L.B., Barboza G.E., Moyroud E., Smith S.D. Transcription factors evolve faster than their structural gene targets in the flavonoid pigment pathway. Molecular Biology and Evolution. 2022;39(3):1-33. DOI: 10.1093/molbev/msac044
47. Wilson A.C., Maxson L.R., Sarich V.M. Two types of molecular evolution. Evidence from studies of interspecific hybridization. Proceedings of the National Academy of Sciences of the United States of America. 1974;71(7):2843-2847. DOI: 10.1073/pnas.71.7.2843
48. Winkel-Shirley B. Flavonoid biosynthesis. A colorful model for genetics, biochemistry, cell biology, and biotechnology. Plant Physiology. 2001;126(2):485-493. DOI: 10.1104/pp.126.2.485
49. Yan Q., Wang Y., Li Q., Zhang Z., Ding H., Zhang Y., Liu H., Luo M., Liu D., Song W., Liu H., Yao D., Ouyang X., Li Y., Li X., Pei Y., Xiao Y. Up-regulation of GhTT2-3A in cotton fibres during secondary wall thickening results in brown fibres with improved quality. Plant Biotechnology Journal. 2018;16(10):1735-1747. DOI: 10.1111/pbi.12910
50. Zhang T., Hu Y., Jiang W., Fang L., Guan X., Chen J., Zhang J., Saski C.A., Scheffler B.E., Stelly D.M., Hulse-Kemp A.M., Wan Q., Liu B., Liu C., Wang S., Pan M., Wang Y., Wang D., Ye W., Chang L., Zhang W., Song Q., Kirkbride R.C., Chen X., Dennis E., Llewellyn D.J., Peterson D.G., Thaxton P., Jones D.C., Wang Q., Xu X., Zhang H., Wu H., Zhou L., Mei G., Chen S., Tian Y., Xiang D., Li X., Ding J., Zuo Q., Tao L., Liu Y., Li J., Lin Y., Hui Y., Cao Z., Cai C., Zhu X., Jiang Z., Zhou B., Guo W., Li R., Chen Z.J. Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement. Nature Biotechnology. 2015;33(5):531-537. DOI: 10.1038/nbt.3207
51. Zheng H., Jiao J., Niu Q., Zhu N., Huang Y., Ke L., Tang S., Liu H., Sun Y. Cloning and functional analysis of GhGHDFR1, a key gene of flavonoid synthesis pathway in naturally colored cotton. Molecular Biology Reports. 2023;50(6):4865-4873. DOI: 10.1007/s11033-023-08420-6
Рецензия
Для цитирования:
Михайлова А.С., Хлесткина Е.К. Особенности организации дуплицированных копий ортологов генов AtTT2 и AtTT8 арабидопсиса в геноме аллотетраплоидного хлопчатника. Биотехнология и селекция растений. https://doi.org/10.30901/2658-6266-2026-3-o1
For citation:
Mikhailova A.S., Khlestkina E.K. Organization of duplicated copies of the Arabidopsis gene orthologs AtTT2 and AtTT8 in the allotetraploid cotton genome. Plant Biotechnology and Breeding. (In Russ.) https://doi.org/10.30901/2658-6266-2026-3-o1
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