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The genetic basis of sex determination in Populus provides molecular markers across the genus and indicates convergent evolution


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Akagi T, Pilkington SM, Varkonyi-Gasic E, Henry IM, Sugano SS, Sonoda M, Firl A, McNeilage MA, Douglas MJ, Wang T, Rebstock R, Voogd C, Datson P, Allan AC, Beppu K, Kataoka I, Tao R (2019) Two Y-chromosome-encoded genes determine sex in kiwifruit. Nat. Plants 5, 801–809. https://doi.org/10.1038/s41477-019-0489-610.1038/s41477-019-0489-631383971 Search in Google Scholar

Akagi T, Henry IM, Ohtani H, Morimoto T, Beppu K, Kataoka I, Tao R (2018) A Y-Encoded Suppressor of Feminization Arose via Lineage-Specific Duplication of a Cytokinin Response Regulator in Kiwifruit. Plant Cell 30, 780–795. https://doi.org/10.1105/tpc.17.0078710.1105/tpc.17.00787596927429626069 Search in Google Scholar

Akagi T, Henry IM, Kawai T, Comai L, Tao R (2016) Epigenetic Regulation of the Sex Determination Gene MeGI in Polyploid Persimmon. Plant Cell 28, 2905– 2915. https://doi.org/10.1105/tpc.16.0053210.1105/tpc.16.00532524073827956470 Search in Google Scholar

Akagi T, Henry IM, Ohtani H, Morimoto T, Beppu K, Kataoka I, Tao R (2018) A Y-Encoded Suppressor of Feminization Arose via Lineage-Specific Duplication of a Cytokinin Response Regulator in Kiwifruit. Plant Cell 30, 780–795. https://doi.org/10.1105/tpc.17.0078710.1105/tpc.17.00787 Search in Google Scholar

Akagi T, Henry IM, Tao R, Comai L (2014) A Y-chromosome–encoded small RNA acts as a sex determinant in persimmons. Science 346, 646–650. https://doi.org/10.1126/science.125722510.1126/science.125722525359977 Search in Google Scholar

Akagi T, Pilkington SM, Varkonyi-Gasic E, Henry IM, Sugano SS, Sonoda M, Firl A, McNeilage MA, Douglas MJ, Wang T, Rebstock R, Voogd C, Datson P, Allan AC, Beppu K, Kataoka I, Tao R (2019) Two Y-chromosome-encoded genes determine sex in kiwifruit. Nat. Plants 5, 801–809. https://doi.org/10.1038/s41477-019-0489-610.1038/s41477-019-0489-6 Search in Google Scholar

An X, Gao K, Chen Z, Li J, Yang Xiong, Yang Xiaoyu, Zhou J, Guo T, Zhao T, Huang S, Miao D, Khan WU, Rao P, Ye M, Lei B, Liao W, Wang J, Ji L, Li Y, Guo B, Mustafa NS, Li S, Yun Q, Keller SR, Mao J, Zhang R, Strauss SH (2020) Hybrid origin of Populus tomentosa Carr. identified through genome sequencing and phylogenomic analysis. bioRxiv. https://doi.org/10.1101/2020.04.07.03069210.1101/2020.04.07.030692 Search in Google Scholar

Bhat BK, Bindroo BB (1980) Sex Chromosomes in Dioscorea deltoidea Wall. Cytologia (Tokyo) 45, 739–742. https://doi.org/10.1508/cytologia.45.73910.1508/cytologia.45.739 Search in Google Scholar

Bolger AM, Lohse M, Usadel B (2014) Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114–2120. https://doi.org/10.1093/bioinformatics/btu17010.1093/bioinformatics/btu170410359024695404 Search in Google Scholar

Carey S, Yu Q, Harkess A (2021) The Diversity of Plant Sex Chromosomes Highlighted through Advances in Genome Sequencing. Genes 12, 381. https://doi.org/10.3390/genes1203038110.3390/genes12030381800058733800038 Search in Google Scholar

Cormier F, Lawac F, Maledon E, Gravillon M-C, Nudol E, Mournet P, Vignes H, Chaïr H, Arnau G (2019) A reference high-density genetic map of greater yam (Dioscorea alata L.). Theor. Appl. Genet. 132, 1733–1744. https://doi.org/10.1007/s00122-019-03311-610.1007/s00122-019-03311-6653141630783744 Search in Google Scholar

Feng G, Sanderson BJ, Keefover-Ring K, Liu J, Ma T, Yin T, Smart LB, DiFazio SP, Olson MS (2020) Pathways to sex determination in plants: how many roads lead to Rome? Curr. Opin. Plant Biol., Genome studies and molecular genetics 54, 61–68. https://doi.org/10.1016/j.pbi.2020.01.00410.1016/j.pbi.2020.01.00432106015 Search in Google Scholar

Gao K, Li J, Khan WU, Zhao T, Yang Xiong, Yang Xiaoyu, Guo B, An X (2019) Comparative genomic and phylogenetic analyses of Populus section Leuce using complete chloroplast genome sequences. Tree Genet. Genomes 15, 32. https://doi.org/10.1007/s11295-019-1342-910.1007/s11295-019-1342-9 Search in Google Scholar

Geraldes A, Hefer CA, Capron A, Kolosova N, Martinez-Nuñez F, Soolanayakanahally RY, Stanton B, Guy RD, Mansfield SD, Douglas CJ, Cronk QCB (2015) Recent Y chromosome divergence despite ancient origin of dioecy in poplars (Populus). Mol. Ecol. 24, 3243–3256. https://doi.org/10.1111/mec.1312610.1111/mec.1312625728270 Search in Google Scholar

Harkess A, Huang K, van der Hulst R, Tissen B, Caplan JL, Koppula A, Batish M, Meyers BC, Leebens-Mack J (2020) Sex Determination by Two Y-Linked Genes in Garden Asparagus. Plant Cell 32, 1790–1796. https://doi.org/10.1105/tpc.19.0085910.1105/tpc.19.00859726880232220850 Search in Google Scholar

Harkess A, Zhou J, Xu C, Bowers JE, Van der Hulst R, Ayyampalayam S, Mercati F, Riccardi P, McKain MR, Kakrana A, Tang H, Ray J, Groenendijk J, Arikit S, Mathioni SM, Nakano M, Shan H, Telgmann-Rauber A, Kanno A, Yue Z, Chen Haixin, Li W, Chen Y, Xu X, Zhang Y, Luo S, Chen Helong, Gao J, Mao Z, Pires JC, Luo M, Kudrna D, Wing RA, Meyers BC, Yi K, Kong H, Lavrijsen P, Sunseri F, Falavigna A, Ye Y, Leebens-Mack JH, Chen G (2017) The asparagus genome sheds light on the origin and evolution of a young Y chromosome. Nat. Commun. 8, 1279. https://doi.org/10.1038/s41467-017-01064-810.1038/s41467-017-01064-8566598429093472 Search in Google Scholar

He L, Jia K-H, Zhang R-G, Wang Y, Shi T-L, Li Z-C, Zeng S-W, Cai X-J, Wagner ND, Hörandl E, Muyle A, Yang K, Charlesworth D, Mao J-F (2021) Chromo-some-scale assembly of the genome of Salix dunnii reveals a male-heterogametic sex determination system on chromosome 7. Mol. Ecol. Resour. https://doi.org/10.1111/1755-0998.1336210.1111/1755-0998.13362835999433609314 Search in Google Scholar

Kersten B, Pakull B, Groppe K, Lueneburg J, Fladung M (2014) The sex-linked region in Populus tremuloides Turesson 141 corresponds to a pericentromeric region of about two million base pairs on P. trichocarpa chromosome 19. Plant Biol. 16, 411–418. https://doi.org/10.1111/plb.1204810.1111/plb.1204823710995 Search in Google Scholar

Langmead B, Salzberg SL (2012) Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359. https://doi.org/10.1038/nmeth.192310.1038/nmeth.1923332238122388286 Search in Google Scholar

Lawrence M, Huber W, Pagès H, Aboyoun P, Carlson M, Gentleman R, Morgan MT, Carey VJ (2013) Software for Computing and Annotating Genomic Ranges. PLoS Comput. Biol. 9, e1003118. https://doi.org/10.1371/journal.pcbi.100311810.1371/journal.pcbi.1003118373845823950696 Search in Google Scholar

Leite Montalvão AP, Kersten B, Fladung M, Müller NA (2021) The Diversity and Dynamics of Sex Determination in Dioecious Plants. Front. Plant Sci. https://doi.org/10.3389/fpls.2020.58048810.3389/fpls.2020.580488784342733519840 Search in Google Scholar

Martin H, Carpentier F, Gallina S, Godé C, Schmitt E, Muyle A, Marais GAB, Touzet P (2019) Evolution of Young Sex Chromosomes in Two Dioecious Sister Plant Species with Distinct Sex Determination Systems. Genome Biol. Evol. 11, 350–361. https://doi.org/10.1093/gbe/evz00110.1093/gbe/evz001636479730649306 Search in Google Scholar

McKown AD, Klápště J, Guy RD, Soolanayakanahally RY, La Mantia J, Porth I, Skyba O, Unda F, Douglas CJ, El-Kassaby YA, Hamelin RC, Mansfield SD, Cronk QCB (2017) Sexual homomorphism in dioecious trees: extensive tests fail to detect sexual dimorphism in Populus. Sci. Rep. 7, 1831. https://doi.org/10.1038/s41598-017-01893-z10.1038/s41598-017-01893-z543182428500332 Search in Google Scholar

Morgan M, Pagès H, Carlson M, Arora S (2021) An Introduction to GenomeInfoDb. Search in Google Scholar

Müller NA, Kersten B, Leite Montalvão AP, Mähler N, Bernhardsson C, Bräutigam K, Carracedo Lorenzo Z, Hoenicka H, Kumar V, Mader M, Pakull B, Robinson KM, Sabatti M, Vettori C, Ingvarsson PK, Cronk Q, Street NR, Fladung M (2020) A single gene underlies the dynamic evolution of poplar sex determination. Nat. Plants 6, 630–637. https://doi.org/10.1038/s41477-020-0672-910.1038/s41477-020-0672-932483326 Search in Google Scholar

Pakull B, Kersten B, Lüneburg J, Fladung M (2015) A simple PCR-based marker to determine sex in aspen. Plant Biol. 17, 256–261. https://doi.org/10.1111/plb.1221710.1111/plb.1221724943351 Search in Google Scholar

Paolucci I, Gaudet M, Jorge V, Beritognolo I, Terzoli S, Kuzminsky E, Muleo R, Scarascia Mugnozza G, Sabatti M (2010) Genetic linkage maps of Populus alba L. and comparative mapping analysis of sex determination across Populus species. Tree Genet. Genomes 6, 863–875. https://doi.org/10.1007/s11295-010-0297-710.1007/s11295-010-0297-7 Search in Google Scholar

R Core Team [WWW Document] (2018) https://www.R-project.org/. (accessed 4.26.21). Search in Google Scholar

Renner SS, Müller NA (2021) Plant sex chromosomes defy evolutionary models of expanding recombination suppression and genetic degeneration. Nat. Plants 7, 392–402. https://doi.org/10.1038/s41477-021-00884-310.1038/s41477-021-00884-333782581 Search in Google Scholar

Robinson KM, Delhomme N, Mähler N, Schiffthaler B, Önskog J, Albrectsen BR, Ingvarsson PK, Hvidsten TR, Jansson S, Street NR (2014) Populus tremula (European aspen) shows no evidence of sexual dimorphism. BMC Plant Biol. 14, 276. https://doi.org/10.1186/s12870-014-0276-510.1186/s12870-014-0276-5420387525318822 Search in Google Scholar

Sanderson BJ, Feng G, Hu N, Carlson CH, Smart LB, Keefover-Ring K, Yin T, Ma T, Liu J, DiFazio SP, Olson MS (2021) Sex determination through X–Y heterogamety in Salix nigra. Heredity 126, 630–639. https://doi.org/10.1038/s41437-020-00397-310.1038/s41437-020-00397-3811567333510464 Search in Google Scholar

Schiffthaler B, Bernhardsson C, Jenkins J, Jansson S, Ingvarsson P, Schmutz J, Street N (2019) An Improved Genome Assembly of the European Aspen Populus tremula. https://doi.org/10.1101/80561410.1101/805614 Search in Google Scholar

Shang H, Hess J, Pickup M, Field DL, Ingvarsson PK, Liu J, Lexer C (2020) Evolution of strong reproductive isolation in plants: broad-scale patterns and lessons from a perennial model group. Philos. Trans. R. Soc. B. https://doi.org/10.1098/rstb.2019.054410.1098/rstb.2019.0544742328332654641 Search in Google Scholar

Slavov GT, Zhelev P (2010) Salient Biological Features, Systematics, and Genetic Variation of Populus, in: Jansson, S., Bhalerao, R., Groover, A. (Eds.), Genetics and Genomics of Populus, Plant Genetics and Genomics: Crops and Models. Springer, New York, NY, pp. 15–38. https://doi.org/10.1007/978-1-4419-1541-2_210.1007/978-1-4419-1541-2_2 Search in Google Scholar

Tuskan GA, DiFazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapman J, Chen G-L, Cooper D, Coutinho PM, Couturier J, Covert S, Cronk Q, Cunningham R, Davis J, Degroeve S, Déjardin A, de-Pamphilis C, Detter J, Dirks B, Dubchak I, Duplessis S, Ehlting J, Ellis B, Gendler K, Goodstein D, Gribskov M, Grimwood J, Groover A, Gunter L, Hamberger B, Heinze B, Helariutta Y, Henrissat B, Holligan D, Holt R, Huang W, Islam-Faridi N, Jones S, Jones-Rhoades M, Jorgensen R, Joshi C, Kangasjärvi J, Karlsson J, Kelleher C, Kirkpatrick R, Kirst M, Kohler A, Kalluri U, Larimer F, Leebens-Mack J, Leplé J-C, Locascio P, Lou Y, Lucas S, Martin F, Mont-anin B, Napoli C, Nelson DR, Nelson C, Nieminen K, Nilsson O, Pereda V, Peter G, Philippe R, Pilate G, Poliakov A, Razumovskaya J, Richardson P, Rinaldi C, Ritland K, Rouzé P, Ryaboy D, Schmutz J, Schrader J, Segerman B, Shin H, Siddiqui A, Sterky F, Terry A, Tsai C-J, Uberbacher E, Unneberg P, Vahala J, Wall K, Wessler S, Yang G, Yin T, Douglas C, Marra M, Sandberg G, Peer YV de, Rokhsar D (2006) The Genome of Black Cottonwood, Populus trichocarpa (Torr. & A. Gray). Science 313, 1596–1604. https://doi.org/10.1126/science.112869110.1126/science.112869116973872 Search in Google Scholar

Wang M, Zhang L, Zhang Z, Li M, Wang D, Zhang X, Xi Z, Keefover-Ring K, Smart LB, DiFazio SP, Olson MS, Yin T, Liu J, Ma T (2020) Phylogenomics of the genus Populus reveals extensive interspecific gene flow and balancing selection. New Phytol. 225, 1370–1382. https://doi.org/10.1111/nph.1621510.1111/nph.1621531550399 Search in Google Scholar

Wang D, Wang Z, Kang X, Zhang J (2019) Genetic analysis of admixture and hybrid patterns of Populus hopeiensis and P. tomentosa. Sci. Rep. 9, 4821. https://doi.org/10.1038/s41598-019-41320-z10.1038/s41598-019-41320-z642323030886279 Search in Google Scholar

Wickham H (2016) Elegant Graphics for Data Analysis [WWW Document]. https://ggplot2.tidyverse.org/ (accessed 4.22.21). Search in Google Scholar

Wickham H, Averick M, Bryan J, Chang W, McGowan LD, François R, Grolemund G, Hayes A, Henry L, Hester J, Kuhn M, Pedersen TL, Miller E, Bache SM, Müller K, Ooms J, Robinson D, Seidel DP, Spinu V, Takahashi K, Vaughan D, Wilke C, Woo K, Yutani H (2019) Welcome to the Tidyverse. J. Open Source Softw. 4, 1686. https://doi.org/10.21105/joss.0168610.21105/joss.01686 Search in Google Scholar

Yang W, Wang D, Li Y, Zhang Z., Tong S, Li M, Zhang X, Zhang L, Ren L, Ma X, Zhou R, Sanderson BJ, Keefover-Ring K, Yin T, Smart LB, Liu J, DiFazio SP, Olson M, Ma T (2021) A General Model to Explain Repeated Turnovers of Sex Determination in the Salicaceae. Mol. Biol. Evol. 38, 968–980. https://doi.org/10.1093/molbev/msaa26110.1093/molbev/msaa261794776733027519 Search in Google Scholar

Zeileis A, Grothendieck G (2005) zoo: S3 Infrastructure for Regular and Irregular Time Series. J. Stat. Softw. 14, 1–27. https://doi.org/10.18637/jss.v014.i0610.18637/jss.v014.i06 Search in Google Scholar

Zhou R, Macaya-Sanz D, Rodgers-Melnick E, Carlson CH, Gouker FE, Evans LM, Schmutz J, Jenkins JW, Yan J, Tuskan GA, Smart LB, DiFazio SP (2018) Characterization of a large sex determination region in Salix purpurea L. (Salicaceae). Mol. Genet. Genomics MGG 293, 1437–1452. https://doi.org/10.1007/s00438-018-1473-y10.1007/s00438-018-1473-y30022352 Search in Google Scholar

Zhou R, Macaya-Sanz D, Schmutz J, Jenkins JW, Tuskan GA, DiFazio SP (2020) Sequencing and Analysis of the Sex Determination Region of Populus trichocarpa. Genes 11, E843. https://doi.org/10.3390/genes1108084310.3390/genes11080843746535432722098 Search in Google Scholar

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Life Sciences, Molecular Biology, Genetics, Biotechnology, Plant Science