Publications

2020

Chloroplot: an online program for the versatile plotting of organelle genomes

Zheng, S., Poczai, P., Hyvönen, J., Tang, J. & Amiryousefi, A., 2020, (In preparation) In : Bioinformatics.

Research output: Contribution to journalArticleScientificpeer-review

Comparative plastomics of ashwagandha (Withania, Solanaceae) and identification of mutational hotspots for barcoding medicinal plants

Mehmood, F., Abdullah, Ubaid, Z., Ahmed, I., Waheed, M. T., Bao, Y., Poczai, P. & Mirza, B., 2020, (Submitted) In : Genes.

Research output: Contribution to journalArticleScientificpeer-review

Comparison among the first representative chloroplast genomes of Orontium, Lasia, Zamioculcas, and Stylochaeton of the plant family Araceae: inverted repeat dynamics are not linked to phylogenetic signaling

Abdullah, Henriquez, C. L., Mehmood, F., Shahzadi, I., Ali, Z., Waheed, M. T., Croat, T. B., Poczai, P. & Ahmed, I., 2020, (Submitted) In : Plants.

Research output: Contribution to journalArticleScientificpeer-review

Complete chloroplast genomes of Anthurium huixtlense and Pothos scandens (Pothoideae, Araceae): unique inverted repeat expansion and contraction affect rate evolution.

Abdullah, Henriquez, C. L., Mehmood, F., Carlsen, M. M., Waheed, M. T., Poczai, P., Croat, T. B. & Ahmed, I., 2020, (Submitted) In : Journal of Molecular Evolution.

Research output: Contribution to journalArticleScientificpeer-review

DEFYING DEATH: INCORPORATING FOSSILS INTO THE PHYLOGENY OF MARCHANTIIDAE (MARCHANTIOPHYTA)

Flores, J., Bippus, A., Suarez, G. M. & Hyvönen, J., Apr 2020, (Submitted) In : Cladistics - the international journal of the Willi Hennig Society.

Research output: Contribution to journalArticleScientificpeer-review

Development of chloroplast microsatellite markers for giant ragweed (Ambrosia trifida)

Sharma, H., Hyvönen, J. & Poczai, P., Jan 2020, In : Applications in Plant Sciences. 8, 1, 4 p., 11313.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Epiphyte colonisation of fog nets in montane forests of the Taita Hills, Kenya

Stam, Å., He, X., Kaasalainen, U., Toivonen, M. E., Enroth, J., Räsänen, M. & Rikkinen, J., 5 Jun 2020, In : Annales Botanici Fennici. 57, 1, p. 227 238 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Exploring phylogeny of the microsoroid ferns (Polypodiaceae) based on six plastid DNA markers

Chen, C-C., Hyvönen, J. & Schneider, H., Feb 2020, In : Molecular Phylogenetics and Evolution. 143, 12 p., 106665.

Research output: Contribution to journalArticleScientificpeer-review

Exploring the impact of unstable terminals on branch support values in paleontological data

Flores, J., Lehtonen, S. & Hyvönen, J., 5 Feb 2020, (Submitted) In : Paleobiology. 38 p.

Research output: Contribution to journalArticleScientificpeer-review

Exploring the phylogeny of marattialean ferns

SAMULI, LEHTONEN., Poczai, P., Sablok, G., Hyvönen, J., Karger, D. N. & Flores, J., 2020, (Accepted/In press) In : Cladistics - the international journal of the Willi Hennig Society.

Research output: Contribution to journalArticleScientificpeer-review

Genetic structure and marker-trait associations in parental lines of sunflower (Helianthus annuus L.)

Zeinakzadeh-Tabrizi, H., Hosseinpour, A., Ghaffari, M., Haliloglu, K., Pour-Aboughadareh, A. & Poczai, P., 2020, (Submitted) In : Euphytica.

Research output: Contribution to journalArticleScientificpeer-review

Investigation of the protective roles of zinc oxide nanoparticles and plant growth promoting bacteria on DNA damage and methylation in tomato (Solanum lycopersicum L.) under salinity stress

Haliloglu, K., Hosseinpour, A., Cinisli, K. T., Ozturk, H. I., Ozkan, G., Pour-Aboughadareh, A. & Poczai, P., 2020, (Submitted) In : Horticulture environment and biotechnology.

Research output: Contribution to journalArticleScientificpeer-review

Notoligotrichum synonymised with Atrichopsis (Polytrichaceae, Bryophyta), with two new species from South Africa

van Rooy, J., Bell, N., Hedderson, T., Flores, J. & Hyvönen, J., 19 Apr 2020, (In preparation) In : Taxon.

Research output: Contribution to journalArticleScientificpeer-review

Plastid genomics of Nicotiana (Solanaceae): insights into molecular evolution, positive selection and the origin of the maternal genome of Aztec tobacco (Nicotiana rustica)

Mehmood, F., Abdullah, Ubaid, Z., Shahzadi, I., Ahmed, I., Waheed, M. T., Poczai, P. & Mirza, B., 2020, (Submitted) In : PeerJ.

Research output: Contribution to journalArticleScientificpeer-review

Rooting morphologically divergent taxa - slow-evolving sequence data might help

Flores, J., Bippus, A., Tomescu, A., Bell, N. & Hyvönen, J., 17 Mar 2020, In : bioRxiv : the preprint server for biology . 11 p.

Research output: Contribution to journalArticleScientific

The Good, the Coachman and the Enigma of Inbreeding: Historical Background for the Moravian Agricultural Society and Festetics’ Genetic Laws of Nature

Poczai, P., Santiago-Blay, J., Sekerák, J., Bariska, I. & T. Szabó, A., 2020, (Submitted) In : Journal of the History of Biology.

Research output: Contribution to journalArticleScientificpeer-review

Unraveling salinity stress responses in ancestral and neglected wheat species at early growth stage: A baseline for utilization in future wheat improvement programs

Ahmadi, J., Pour-Aboughadareh, A., Fabriki Ourang, S., Khalili, P. & Poczai, P., 8 Feb 2020, In : Physiology and Molecular Biology of Plants. 26, p. 537-549

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2019

A Festetics rejtély: A Genetika Története és Festetics Imre Elfeledett Hagyatéka

Translated title of the contribution: The Festetics Mystery : The History of Genetics and the Forgotten Legacy of Emmerich FesteticsPoczai, P., 2019, Kőszeg: Felsőbbfokú Tanulmányok Intézete . 159 p.

Research output: Book/ReportBook

An annotated checklist of the bryophytes of Taita Hills region, Kenya

Enroth, J., Pocs, T., He, X., Nyqvist, P., Stam, Å. C. S., Malombe, I. & Rikkinen, J. K., 1 Jul 2019, In : Acta Musei Silesiae. Scientiae Naturales. 68, 1-2, p. 53–66 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Assessing the impact of morphology on phylogenetic analyses of combined data in bryophytes

Flores, J., Suarez, G. M. & Hyvönen, J., 2019.

Research output: Conference materialsAbstract

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Effect of water deficit stress on seedling biomass and physio-chemical characteristics in different species of wheat possessing the D genome.

Pour-Aboughadareh, A., Omidi, M., Naghavi, M. R., Etminan, A., Mehrabi, A. A., Poczai, P. & Bayat, H., Sep 2019, In : Agronomy. 9, 9, 20 p., 522.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Exploring plant meiosis: a bioinformatics perspective

Sablok, G., He, X. & Hyvönen, J. T., 2019, (Submitted) In : Frontiers in plant science.

Research output: Contribution to journalArticleScientificpeer-review

First draft genome assembly of Coleochaete orbicularis

Sablok, G., He, X., Miranto, M., Peltomaa, E., Sleith, R., Karol, K., Delwiche, C., Bell, N., Paulin, L., Poczai, P. & Hyvönen, J., 29 Sep 2019.

Research output: Conference materialsPoster

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High levels of auxin signalling define the stem-cell organizer of the vascular cambium

Smetana, O., Mäkilä, R., Lyu, M., Amiryousefi, A., Rodriguez, F. S., Wu, M-F., Sole-Gil, A., Gavarron, M. L., Siligato, R., Miyashima, S., Roszak, P., Blomster, T., Reed, J. W., Broholm, S. & Mähönen, A. P., 24 Jan 2019, In : Nature. 565, 7740, p. 485-+ 20 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

iPASTIC: An online toolkit to estimate plant abiotic stress indices

Pour-Aboughadareh, A., Yousefian, M., Moradkhani, H., Poczai, P. & Siddique, K. HM., Jul 2019, In : Applications in Plant Sciences. 7, 7, 6 p., 11278.

Research output: Contribution to journalEditorialScientific

Open Access
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Mitogenomics of Blasia pusilla as a tool for agricultural productivity

Sablok, G., He, X., Miranto, M. J., Flores, J. R., Peltomaa, E. T., Sleith, R., Karol, K., Delwiche, C., Bell, N., Paulin, L. G., Poczai, P. & Hyvönen, J. T., 24 Mar 2019.

Research output: Conference materialsPoster

Open Access
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Molecular diversity and phytochemical variability in the Iranian poppy (Papaver bracteatum Lindl.): A baseline for conservation and utilization in future breeding programmes

Qaderi, A., Omidi, M., Pour-Aboughadareh, A., Poczai, P., Shaghaghi, J., MehrAfarin, A., Nohooji, M. G. & Etminan, A., Apr 2019, In : Industrial Crops and Products. 130, p. 237-247 11 p.

Research output: Contribution to journalArticleScientificpeer-review

On the identity of Herbertus aduncus (Dicks.) Gray, a taxonomic update

Sun, Y. & He, X., Sep 2019, In : Acta Bryolichenologica Asiatica. 8, p. 145–161 16 p.

Research output: Contribution to journalArticleScientificpeer-review

Phylogeny of the family Cladoniaceae (Lecanoromycetes, Ascomycota) based on sequences of multiple loci

Stenroos, S., Pino-Bodas, R., Hyvonen, J., Lumbsch, H. T. & Ahti, T., Aug 2019, In : Cladistics - the international journal of the Willi Hennig Society. 35, 4, p. 351-384 34 p.

Research output: Contribution to journalArticleScientificpeer-review

Protocols for miRNA Target Prediction in Plants

Sablok, G., Yang, K. & Wen, X., 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). New York: Humana press, p. 65-73 9 p. (Methods in Molecular Biology ; vol. 1970).

Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

Reassessing the role of morphology in bryophyte phylogenetics: combined data improves phylogenetic inference despite character conflict

Flores, J. R., Suárez, G. M. & Hyvönen, J., 29 Oct 2019, In : Molecular Phylogenetics and Evolution. 143, 12 p., 106662.

Research output: Contribution to journalArticleScientificpeer-review

Sequencing the plastid genome of giant ragweed (Ambrosia trifida, Asteraceae) from a herbarium specimen

Sablok, G., Amiryousefi, A., He, X., Hyvönen, J. T. & Poczai, P., 28 Feb 2019, In : Frontiers in plant science. 10, 18 p., 218.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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STABILITYSOFT: a new online program to calculate parametric and non-parametric stability statistics for crop traits

Pour-Aboughadareh, A., Yousefian, M., Moradkhani, H., Poczai, P. & Siddique, K. HM., 15 Jan 2019, In : Applications in Plant Sciences. 7, 1, 6 p., 1211.

Research output: Contribution to journalEditorialScientificpeer-review

Open Access
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Testing the feasibility of assisted migration as an ex situ conservation tool on selected threatened bryophytes

Laaka-Lindberg, S. & He, X., 2019, (In preparation) In : Biological Conservation.

Research output: Contribution to journalArticleScientificpeer-review

The emergence of genetics from Festetics’ sheep through Mendel’s peas to Bateson’s chickens

T. Szabó, A. & Poczai, P., Jun 2019, In : Journal of Genetics. 98, 2, 7 p., 63.

Research output: Contribution to journalArticleScientificpeer-review

2018

A revision of the Old World Black Nightshades (Morelloid clade of Solanum L., Solanaceae)

Särkinen, T., Poczai, P., Barboza, G., van der Weerden, G. M., Baden, M. & Knapp, S., 25 Jul 2018, In : PhytoKeys. 106, p. 1-223 223 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Comparative assessment of chloroplast transcriptional responses highlights conserved and unique patterns across Triticeae members under salt stress

Mirzaei, S., Mansouri, M., Mohammadi‐Nejad, G. & Sablok, G., Jun 2018, In : Photosynthesis Research. 136, 3, p. 357-369 13 p.

Research output: Contribution to journalArticleScientificpeer-review

iMEC: Online Marker Efficiency Calculator

Amiryousefi, A., Hyvönen, J. & Poczai, P., Jun 2018, In : Applications in Plant Sciences. 6, 6, 4 p., 1159.

Research output: Contribution to journalEditorialScientificpeer-review

Open Access
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In silico identification and characterization of a diverse subset of conserved microRNAs in bioenergy crop Arundo donax L.

Jike, W., Sablok, G., Bertorelle, G., Li, M. & Varotto, C., 12 Nov 2018, In : Scientific Reports. 8, 13 p., 16667.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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IRscope: An online program to visualize the junction sites of chloroplast genomes

Amiryousefi, A., Hyvönen, J. T. & Poczai, P., 1 Sep 2018, In : Bioinformatics. 34, 17, p. 3030-3031 2 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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New national and regional biological records for Finland 9. Contributions to Bryophyta and Marchantiophyta 8.

Juutinen, R., Ulvinen, T., Kypärä, T., Huttunen, S., Vuorinen, K., Kuitunen, T., Parnela, A., Korvenpää, T., Syrjänen, K., Pihlaja, K., Köckinger, H., Konstantinova, N. A., Kestilä, A., Ervasti, E., He, X., Häyhä, T., Karttunen, K., Laaka-Lindberg, S., Torniainen, J., Vainio, O. & 2 others, Vasander, H. & Vuorinen, E., 30 Nov 2018, In : Memoranda Societatis pro Fauna et Flora Fennica. 2018, 94, p. 84-99 16 p., 76604.

Research output: Contribution to journalArticleScientificpeer-review

Plastomics of charophycean Coleochaete orbicularis and embryophyte Blasia pusilla

Sablok, G., He, X., Miranto, M. J., Peltomaa, E., Bell, N., Sleith, R., Karol, K., Delwiche, C., Paulin, L. G., Poczai, P. & Hyvönen, J. T., 2018, p. 541. 1 p.

Research output: Conference materialsPoster

Shedding new light on the origin and spread of the brinjal eggplant (Solanum melongena L.; Solanaceae) and its wild relatives

Aubriot, X., Knapp, S., Syfert, M., Poczai, P. & Buerki, S., Jul 2018, In : American Journal of Botany. 105, 7, p. 1175-1187 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Taxonomy based on science is necessary for global conservation

Thomson, S., Pyle, R., T. Ahyong, S., A. Alonso-Zarazaga, M., Ammirati, J., Ascher, J. S., Audisio, T. L., Azvedo-Santos, V. M., Bailly, N., Baker, W. J., Balke, M., Barclay, M. V. L., Barrett, R. L., Benine, R. C., Bickerstaff, J. R. M., Bouchard, P., Bour, R., Bourgoin, T., Boyoko, C. B., Breure, A. S. H. & 168 others, Brothers, D. J., Buffington, M. L., Byng, J. W., Campbell, D., Ceriaco, L. M. P., Cernák, I., Cerretti, P., Chang, C-H., Cho, S., Copus, J. M., Costello, M. J., Cseh, A., Csúzi, C., Culham, A., D'Elia, G., d'Udekem d'Acoz, C., Daneliya, M. E., M. de Vos, J., Dekker, R., Dickinson, E. C., Dickinson, T. A., Dijkstra, K-D. B., Dima, B., Dmitriev, D. A., Duistermaat, L., Dumbacher, J. P., Eiserhardt, W. L., Ekrem, T., Evenhuis, N. L., Faille, A., Fernández-Triana, J. L., Fiesler, E., Fishbein, M., Fordham, B. G., Freitas, A. V. L., Friol, N. R., Fritz, U., Frøslev, T., Funk, V. A., Gaimari, S. D., Garbino, G. S. T., Gardes, M., Garraffoni, A. R. S., Geml, J., C. Gill, A., Gray, A., Grazziotin, F. G., Greenslade, P., Gutiérrez, E. E., Harvey, M. S., Hazevoet, C. J., He, K., He, X., Helfer, S., Helgen, K. M., Heller, K., Garcia, F. H., Holstein, N., Horváth, M. K., Hovenkamp, P. H., Hwang, W. S., Hyvönen, J. T., Islam, M. B., Iverson, J. B., Ivie, M. A., Jaafar, Z., Jackson, M. D., Jayat, J. P., Johnson, N. F., Kaiser, H., Klitgård, B. B., Knapp, D. G., Kojima, J., Kõljalg, U., Kontschán, J., Krell, F-T., Krisai-Greihuber, I., Kullander, S., Latella, L., Lattke, J. E., Lencioni, V., Lewis, G. P., Lhano, M. G., Lujan, N. K., Luksenburg, J. A., Mariaux, J., Marinho-Filho, J., Marshall, C. J., Mate, J. F., McDonough, M. M., Michel, E., Miranda, V. F. O., Mitroiu, M-D., Molinari, J., Monks, S., Moore, A. J., Moratelli, R., Moreau, P-A., Murányi, D., Nakano, T., Nihei, S. S., Noyes, J., Ohl, M., Oleas, N. H., Orrell, T., Páll-Gergely, B., Pape, T., Papp, V., Parenti, L. R., Patterson, D., Pavlinov, I. Y., Pine, R. H., Poczai, P., Prado, J., Prathapan, D., Rabeler, R. K., Randall, J. E., Rheindt, F. E., Rhodin, A. G. J., Rodríguez, S. M., Rogers, D. C., de O. Roque, F., Rowe, K. C., Ruedas, L. A., Salazar-Bravo, J., Salvador, R. B., Sangster, G., Sarmiento, C. E., Schigel, D. S., Schmidt, S., Schueler, F. W., Segers, H., Snow, N., Souza-Dias, P. G. B., Stals, R., Stenroos, S. K., Stone, R. D., Sturm, C. F., Štys, P., Teta, P., Thomas, D. C., Timm, R. M., Tindall, B. J., Todd, J. A., Triebel, D., Valdecasas, A. G., van Dijk, P. P., van Heteren, A. H., Vizzini, A., Vorontsova, M., Wagner, P., Watling, L., Weakley, A., Walter-Schultes, F., Whitmore, D., Wilding, N., Will, K., Williams, J., Wilson, K., Winston, J. E., Wüster, W., Yanega, D., Yeates, D. K., Zaher, H., Zhang, G., Zhang, Z-Q., Zhou, H-Z. & Zhu, C-D., Mar 2018, In : PLoS Biology. 16, 3, 12 p., 2005075.

Research output: Contribution to journalEditorialScientificpeer-review

Open Access
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The chloroplast genome sequence of bittersweet (Solanum dulcamara): plastid genome structure evolution in Solanaceae

Amiryousefi, A., Hyvönen, J. T. & Poczai, P., 25 Apr 2018, In : PLoS One. 13, 4, 23 p., 0196069.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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