136 results on '"Kangasjärvi, J"'
Search Results
2. Populus genomics as a tool to unravel ethylene-dependent wood formation
- Author
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Vahala, J., primary, Love, J., additional, Bjürklund, S., additional, Tuominen, H., additional, Sundberg, B., additional, and Kangasjärvi, J., additional
- Published
- 2007
- Full Text
- View/download PDF
3. The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)
- Author
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Tuskan, G. A., 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, R. R., Bhalerao, R. P., Blaudez, D., Boerjan, W., Brun, A., Brunner, A., Busov, V., Campbell, M., Carlson, J., Chalot, M., Chapman, J., Chen, G.-L., Cooper, D., Coutinho, P. M., Couturier, J., Covert, S., Cronk, Q., Cunningham, R., Davis, J., Degroeve, S., Déjardin, A., dePamphilis, 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., Montanini, B., Napoli, C., Nelson, D. R., 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., Van de Peer, Y., and Rokhsar, D.
- Published
- 2006
4. Session 21 Tree physiology
- Author
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Blažková, A., Sotta, B., Tranvan, H., Maldiney, R., Bonnet, M., Einhorn, J., Kerhoas, L., Miginiac, E., Buddendorf, Ch. J. J., De Boer, A. D., Jongen, W. M. F., Correia, P., Loução, M. A. Martins, Gonzalez-Rodriguez, A. M., Morales, D., Jimenez, M. S., Hřivna, L., Richter, R., Poulík, Z., Kučera, J., čermák, J., Marek, M. V., Kalina, J., Markova, I., Schulzová, T., Marková, I., Morales, D., Gonzalez-Rodriguez, A. M., Jimenez, M. S., Čermák, J., Pfanz, Hardy, Lomský, Bohumir, Pukacka, S., Sauter, J. J., Piskornik, Z., Mareczek, A., Brzezina, M., Qamaruddin, M., Ekberg, I., Dormling, I., Norell, L., Clapham, D. H., Von Arnold, S., Eriksson, G., Talvinen, J., Pellinen, R., Roy, S., Eloranta, T., Julkunen-Tiitto, R., Kangasjärvi, J., Schlesinger, U., Jahnke, S., Vedina, O. T., Toma, S. I., Veretennikov, A. V., and Zajaczkowski, S.
- Published
- 1994
- Full Text
- View/download PDF
5. Apoplastic ACC in Ozone- and Elicitor- Treated Plants
- Author
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Möder, W., primary, Kangasjärvi, J., additional, Elstner, E. F., additional, Langebartels, C., additional, and Sandermann, H., additional
- Published
- 1999
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6. The Role of Ethylene in the Formation of Cell Damage During Ozone Stress
- Author
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Kettunen, R., primary, Overmyer, K., additional, and Kangasjärvi, J., additional
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- 1999
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7. Ethylene Synthesis in Tomato Plants Exposed to Ozone
- Author
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Kangasjärvi, J., primary, Tuomainen, J., additional, Betz, C., additional, Ernst, D., additional, Langebartels, C., additional, and Sandermann, H., additional
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- 1997
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8. Ozone-Induced Defense Reactions in Birch (Betula pendula Roth)
- Author
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Kangasjärvi, J., primary, Pellinen, R., additional, Tuomainen, J., additional, Julkunen-Tiitto, R., additional, and Kiiskinen, M., additional
- Published
- 1996
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9. Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch
- Author
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Salojärvi, J. (Jarkko), Smolander, O.-P. (Olli-Pekka), Nieminen, K. (Kaisa), Rajaraman, S. (Sitaram), Safronov, O. (Omid), Safdari, P. (Pezhman), Lamminmäki, A. (Airi), Immanen, J. (Juha), Lan, T. (Tianying), Tanskanen, J. (Jaakko), Rastas, P. (Pasi), Amiryousefi, A. (Ali), Jayaprakash, B. (Balamuralikrishna), Kammonen, J. I. (Juhana I.), Hagqvist, R. (Risto), Eswaran, G. (Gugan), Ahonen, V. H. (Viivi Helena), Serra, J. A. (Juan Alonso), Asiegbu, F. O. (Fred O.), Barajas-Lopez, J. d. (Juan de Dios), Blande, D. (Daniel), Blokhina, O. (Olga), Blomster, T. (Tiina), Broholm, S. (Suvi), Brosche, M. (Mikael), Cui, F. (Fuqiang), Dardick, C. (Chris), Ehonen, S. E. (Sanna E.), Elomaa, P. (Paula), Escamez, S. (Sacha), Fagerstedt, K. V. (Kurt V.), Fujii, H. (Hiroaki), Gauthier, A. (Adrien), Gollan, P. J. (Peter J.), Halimaa, P. (Pauliina), Heino, P. I. (Pekka I.), Himanen, K. (Kristiina), Hollender, C. (Courtney), Kangasjärvi, S. (Saijaliisa), Kauppinen, L. (Leila), Kelleher, C. T. (Colin T.), Kontunen-Soppela, S. (Sari), Koskinen, J. P. (J. Patrik), Kovalchuk, A. (Andriy), Kärenlampi, S. O. (Sirpa O.), Kärkönen, A. K. (Anna K.), Lim, K.-J. (Kean-Jin), Leppälä, J. (Johanna), Macpherson, L. (Lee), Mikola, J. (Juha), Mouhu, K. (Katriina), Mähönen, A. P. (Ari Pekka), Niinemets, Ü. (Ülo), Oksanen, E. (Elina), Overmyer, K. (Kirk), Palva, E. T. (E. Tapio), Pazouki, L. (Leila), Pennanen, V. (Ville), Puhakainen, T. (Tuula), Poczai, P. (Peter), Possen, B. J. (Boy J. H. M.), Punkkinen, M. (Matleena), Rahikainen, M. M. (Moona M.), Rousi, M. (Matti), Ruonala, R. (Raili), van der Schoot, C. (Christiaan), Shapiguzov, A. (Alexey), Sierla, M. (Maija), Sipilä, T. P. (Timo P.), Sutela, S. (Suvi), Teeri, T. H. (Teemu H.), Tervahauta, A. I. (Arja I.), Vaattovaara, A. (Aleksia), Vahala, J. (Jorma), Vetchinnikova, L. (Lidia), Welling, A. (Annikki), Wrzaczek, M. (Michael), Xu, E. (Enjun), Paulin, L. G. (Lars G.), Schulman, A. H. (Alan H.), Lascoux, M. (Martin), Albert, V. A. (Victor A.), Auvinen, P. (Petri), Helariutta, Y. (Ykä), Kangasjärvi, J. (Jaakko), Salojärvi, J. (Jarkko), Smolander, O.-P. (Olli-Pekka), Nieminen, K. (Kaisa), Rajaraman, S. (Sitaram), Safronov, O. (Omid), Safdari, P. (Pezhman), Lamminmäki, A. (Airi), Immanen, J. (Juha), Lan, T. (Tianying), Tanskanen, J. (Jaakko), Rastas, P. (Pasi), Amiryousefi, A. (Ali), Jayaprakash, B. (Balamuralikrishna), Kammonen, J. I. (Juhana I.), Hagqvist, R. (Risto), Eswaran, G. (Gugan), Ahonen, V. H. (Viivi Helena), Serra, J. A. (Juan Alonso), Asiegbu, F. O. (Fred O.), Barajas-Lopez, J. d. (Juan de Dios), Blande, D. (Daniel), Blokhina, O. (Olga), Blomster, T. (Tiina), Broholm, S. (Suvi), Brosche, M. (Mikael), Cui, F. (Fuqiang), Dardick, C. (Chris), Ehonen, S. E. (Sanna E.), Elomaa, P. (Paula), Escamez, S. (Sacha), Fagerstedt, K. V. (Kurt V.), Fujii, H. (Hiroaki), Gauthier, A. (Adrien), Gollan, P. J. (Peter J.), Halimaa, P. (Pauliina), Heino, P. I. (Pekka I.), Himanen, K. (Kristiina), Hollender, C. (Courtney), Kangasjärvi, S. (Saijaliisa), Kauppinen, L. (Leila), Kelleher, C. T. (Colin T.), Kontunen-Soppela, S. (Sari), Koskinen, J. P. (J. Patrik), Kovalchuk, A. (Andriy), Kärenlampi, S. O. (Sirpa O.), Kärkönen, A. K. (Anna K.), Lim, K.-J. (Kean-Jin), Leppälä, J. (Johanna), Macpherson, L. (Lee), Mikola, J. (Juha), Mouhu, K. (Katriina), Mähönen, A. P. (Ari Pekka), Niinemets, Ü. (Ülo), Oksanen, E. (Elina), Overmyer, K. (Kirk), Palva, E. T. (E. Tapio), Pazouki, L. (Leila), Pennanen, V. (Ville), Puhakainen, T. (Tuula), Poczai, P. (Peter), Possen, B. J. (Boy J. H. M.), Punkkinen, M. (Matleena), Rahikainen, M. M. (Moona M.), Rousi, M. (Matti), Ruonala, R. (Raili), van der Schoot, C. (Christiaan), Shapiguzov, A. (Alexey), Sierla, M. (Maija), Sipilä, T. P. (Timo P.), Sutela, S. (Suvi), Teeri, T. H. (Teemu H.), Tervahauta, A. I. (Arja I.), Vaattovaara, A. (Aleksia), Vahala, J. (Jorma), Vetchinnikova, L. (Lidia), Welling, A. (Annikki), Wrzaczek, M. (Michael), Xu, E. (Enjun), Paulin, L. G. (Lars G.), Schulman, A. H. (Alan H.), Lascoux, M. (Martin), Albert, V. A. (Victor A.), Auvinen, P. (Petri), Helariutta, Y. (Ykä), and Kangasjärvi, J. (Jaakko)
- Abstract
Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make birch an attractive model for forest biotechnology. We assembled and chromosomally anchored the nuclear genome of an inbred B. pendula individual. Gene duplicates from the paleohexaploid event were enriched for transcriptional regulation, whereas tandem duplicates were overrepresented by environmental responses. Population resequencing of 80 individuals showed effective population size crashes at major points of climatic upheaval. Selective sweeps were enriched among polyploid duplicates encoding key developmental and physiological triggering functions, suggesting that local adaptation has tuned the timing of and cross-talk between fundamental plant processes. Variation around the tightly-linked light response genes PHYC and FRS10 correlated with latitude and longitude and temperature, and with precipitation for PHYC. Similar associations characterized the growth-promoting cytokinin response regulator ARR1, and the wood development genes KAK and MED5A.
- Published
- 2017
10. Large-Scale Phenomics Identifies Primary and Fine-Tuning Roles for CRKs in Responses Related to Oxidative Stress.
- Author
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Bourdais, G., Burdiak, P., Gauthier, A., Nitsch, L.M.C., Salojärvi, J., Rayapuram, C., Idänheimo, N., Hunter, K., Kimura, S., Merilo, E., Vaattovaara, A., Oracz, K., Kaufholdt, D., Pallon, A., Anggoro, D.T., Glów, D., Lowe, J., Zhou, J., Mohammadi, O., Puukko, T., Albert, A., Lang, H., Ernst, D., Kollist, H., Brosché, M., Durner, J., Borst, J.W., Collinge, D.B., Karpinski, S., Lyngkjær, M.F., Robatzek, S., Wrzaczek, M., Kangasjärvi, J., Bourdais, G., Burdiak, P., Gauthier, A., Nitsch, L.M.C., Salojärvi, J., Rayapuram, C., Idänheimo, N., Hunter, K., Kimura, S., Merilo, E., Vaattovaara, A., Oracz, K., Kaufholdt, D., Pallon, A., Anggoro, D.T., Glów, D., Lowe, J., Zhou, J., Mohammadi, O., Puukko, T., Albert, A., Lang, H., Ernst, D., Kollist, H., Brosché, M., Durner, J., Borst, J.W., Collinge, D.B., Karpinski, S., Lyngkjær, M.F., Robatzek, S., Wrzaczek, M., and Kangasjärvi, J.
- Abstract
Cysteine-rich receptor-like kinases (CRKs) are transmembrane proteins characterized by the presence of two domains of unknown function 26 (DUF26) in their ectodomain. The CRKs form one of the largest groups of receptor-like protein kinases in plants, but their biological functions have so far remained largely uncharacterized. We conducted a large-scale phenotyping approach of a nearly complete crk T-DNA insertion line collection showing that CRKs control important aspects of plant development and stress adaptation in response to biotic and abiotic stimuli in a non-redundant fashion. In particular, the analysis of reactive oxygen species (ROS)-related stress responses, such as regulation of the stomatal aperture, suggests that CRKs participate in ROS/redox signalling and sensing. CRKs play general and fine-tuning roles in the regulation of stomatal closure induced by microbial and abiotic cues. Despite their great number and high similarity, large-scale phenotyping identified specific functions in diverse processes for many CRKs and indicated that CRK2 and CRK5 play predominant roles in growth regulation and stress adaptation, respectively. As a whole, the CRKs contribute to specificity in ROS signalling. Individual CRKs control distinct responses in an antagonistic fashion suggesting future potential for using CRKs in genetic approaches to improve plant performance and stress tolerance.
- Published
- 2015
11. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray).
- Author
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Tuskan, G A, Difazio, S, Jansson, Stefan, Bohlmann, J, Grigoriev, I, Hellsten, U, Putnam, N, Ralph, S, Rombauts, S, Salamov, A, Schein, J, Sterck, L, Aerts, A, Bhalerao, Rupali R, Bhalerao, Rishikesh P, Blaudez, D, Boerjan, W, Brun, A, Brunner, A, Busov, V, Campbell, M, Carlson, J, Chalot, M, Chapman, J, Chen, G-L, Cooper, D, Coutinho, P M, Couturier, J, Covert, S, Cronk, Q, Cunningham, R, Davis, J, Degroeve, S, Déjardin, A, Depamphilis, 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, Jan, 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, Montanini, B, Napoli, C, Nelson, D R, Nelson, C, Nieminen, K, Nilsson, Ove, 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, Bo, Shin, H, Siddiqui, A, Sterky, Fredrik, Terry, A, Tsai, C-J, Uberbacher, E, Unneberg, P, Vahala, J, Wall, K, Wessler, S, Yang, G, Yin, T, Douglas, C, Marra, M, Sandberg, Göran, Van de Peer, Y, Rokhsar, D, Tuskan, G A, Difazio, S, Jansson, Stefan, Bohlmann, J, Grigoriev, I, Hellsten, U, Putnam, N, Ralph, S, Rombauts, S, Salamov, A, Schein, J, Sterck, L, Aerts, A, Bhalerao, Rupali R, Bhalerao, Rishikesh P, Blaudez, D, Boerjan, W, Brun, A, Brunner, A, Busov, V, Campbell, M, Carlson, J, Chalot, M, Chapman, J, Chen, G-L, Cooper, D, Coutinho, P M, Couturier, J, Covert, S, Cronk, Q, Cunningham, R, Davis, J, Degroeve, S, Déjardin, A, Depamphilis, 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, Jan, 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, Montanini, B, Napoli, C, Nelson, D R, Nelson, C, Nieminen, K, Nilsson, Ove, 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, Bo, Shin, H, Siddiqui, A, Sterky, Fredrik, Terry, A, Tsai, C-J, Uberbacher, E, Unneberg, P, Vahala, J, Wall, K, Wessler, S, Yang, G, Yin, T, Douglas, C, Marra, M, Sandberg, Göran, Van de Peer, Y, and Rokhsar, D
- Abstract
We report the draft genome of the black cottonwood tree, Populus trichocarpa. Integration of shotgun sequence assembly with genetic mapping enabled chromosome-scale reconstruction of the genome. More than 45,000 putative protein-coding genes were identified. Analysis of the assembled genome revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome. A second, older duplication event is indistinguishably coincident with the divergence of the Populus and Arabidopsis lineages. Nucleotide substitution, tandem gene duplication, and gross chromosomal rearrangement appear to proceed substantially more slowly in Populus than in Arabidopsis. Populus has more protein-coding genes than Arabidopsis, ranging on average from 1.4 to 1.6 putative Populus homologs for each Arabidopsis gene. However, the relative frequency of protein domains in the two genomes is similar. Overrepresented exceptions in Populus include genes associated with lignocellulosic wall biosynthesis, meristem development, disease resistance, and metabolite transport.
- Published
- 2006
- Full Text
- View/download PDF
12. Activation of an oxidative burst is a general feature of sensitive plants exposed to the air pollutant ozone
- Author
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Wohlgemuth, H., primary, Mittelstrass, K., additional, Kschieschan, S., additional, Bender, J., additional, Weigel, H.‐J., additional, Overmyer, K., additional, Kangasjärvi, J., additional, Sandermann, H., additional, and Langebartels, C., additional
- Published
- 2002
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13. Ozone Affects Birch (Betula pendula Roth) Phenylpropanoid, Polyamine and Active Oxygen Detoxifying Pathways at Biochemical and Gene Expression Level
- Author
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Tuomainen, J., primary, Pellinen, R., additional, Roy, S., additional, Kiiskinen, M., additional, Eloranta, T., additional, Karjalainen, R., additional, and Kangasjärvi, J., additional
- Published
- 1996
- Full Text
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14. Plant defence systems induced by ozone
- Author
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KANGASJÄRVI, J., primary, TALVINEN, J., additional, UTRIAINEN, M., additional, and KARJALAINEN, R., additional
- Published
- 1994
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15. Induction of genes for the stress proteins PR-10 and PAL in relation to growth, visible injuries and stomatal conductance in birch (<em>Betula pendula</em>) clones exposed to ozone and/or drought.
- Author
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Pääkkönen, E., Seppänen, S., Holopainen, T., Kokko, H., Kärenlampi, S., Kärenlampi, L., and Kangasjärvi, J.
- Subjects
GENES ,HEAT shock proteins ,OZONE ,PLANT clones ,LEAVES ,PLANT roots - Abstract
Well watered (WW) or drought-stressed (DS) saplings of ozone-sensitive and ozone-tolerant (less sensitive) birch (Betula pendula Roth) clones were exposed for 43 d to 0 nl l
-1 or 100 nl l-1 ozone. Relative growth rates of leaves, stem, and roots, leaf discolouration, stomatal conductance and induction of genes encoding stress-related proteins PR-10, PAL and a LEA-group protein BP8 were determined. In general, both ozone and drought stress, singly and in combination, increased transcript levels of PR-10 in both clones. This was related to lower induction of PAL (except in older leaves of the tolerant clone), and increased proportions of visibly injured and yellowed leaves in ozone-exposed plants. The clones differed in their stomatal conductance and growth responses. In the less sensitive clone 2, ozone did not affect growth rates, but high stomatal conductance was observed in WW ozone-exposed plants. The more sensitive clone 5 showed, on the contrary, reduced growth rates and low stomatal conductance in WW ozone plants. Interestingly, clone 2 was sensitive to drought stress alone, whereas clone 5 was highly sensitive to ozone and drought stress experienced together. The results show that appearance of visible injuries (necrotic flecks) and enhanced yellowing of leaves coincided with the induction of genes for stress proteins PR-10 and PAL. The short-term growth responses, however, seemed to be separate processes. Additionally, Stomatal conductance was related to leaf injuries and growth rates in a complicated manner, emphasizing the complex nature of ozone sensitivity/tolerance mechanisms in birch. [ABSTRACT FROM AUTHOR]- Published
- 1998
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16. Ozone Affects Birch (Betula pendulaRoth) Phenylpropanoid, Polyamine and Active Oxygen Detoxifying Pathways at Biochemical and Gene Expression Level
- Author
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Tuomainen, J., Pellinen, R., Roy, S., Kiiskinen, M., Eloranta, T., Karjalainen, R., and Kangasjärvi, J.
- Abstract
We have studied ozone-induced reactions at biochemical and mRNA level in two birch clones that differ in their ozone-sensitivity. When exposed to a single 8 hour ozone pulse (150 ppb), first visible injuries appeared in 24 hours in the sensitive clone and lead eventually to partial tissue chlorosis and necrosis, while the insensitive clone was unaffected. Cell plasma membrane damage was measured by vital stain Evan's Blue permeability. After ozone-exposure, the relative number of vital stain permeable cells increased equally in both clones reaching maximum at 24 hours and decreasing thereafter. The damaged cells were randomly distributed, but in some leaves of the sensitive clone cell death spread forming necrotic lesions. The total cellular activities of superoxide dismutase, peroxidase and glutathione reductase increased following the change in the relative Evan's Blue permeability. The enzyme activity increase was considerably higher in the sensitive clone suggesting that it is somehow related to the cell damage. PAL, that controls the phenylpropanoid biosynthesis, is a good indicator of the coordinated plant defense responses. Gene encoding PAL was induced rapidly but transiently in both clones during the ozone exposure. This indicates that defense responses were induced in both clones, when only the sensitive clone showed widespread cell death. This suggests that the ozone-induced defense reactions and cell death in these birch clones are two separately controlled processes. Increased putrescine levels have often been suggested to be involved in plant ozone tolerance. On the contrary to the induction of putrescine accumulation usually detected in ozone tolerant plants, the accumulation of free putrescine occurred in the ozone sensitive birch clone.
- Published
- 1996
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17. Gene expression and metabolite profiling of Populus euphratica growing in the Negev desert
- Author
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Brosché, M., Vinocur, B., Alatalo, E. R., Lamminmäki, A., Teichmann, T., Ottow, E. A., Dimitar Djilianov, Afif, D., Bogeat-Triboulot, M. B., Altman, A., Polle, A., Dreyer, E., Rudd, S., Paulin, L., Auvinen, P., Kangasjärvi, J., University of Helsinki, The Hebrew University of Jerusalem (HUJ), Institute of Biotechnology, Albanova University Center-Royal Institute of Technology [Stockholm] (KTH ), Institut für Forstbotanik, Georg-August-University [Göttingen], AgroBioInstitute, Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Turku Centre for Biotechnology, and University of Turku-Åbo Academy University
- Subjects
arbre ,[SDV]Life Sciences [q-bio] ,ABIOTIC STRESS ,résistance au stress ,zone aride ,POPULUS EUPHRATICA ,marqueur est ,salinité ,tolérance au sel ,expression des gènes - Abstract
Background: Plants growing in their natural habitat represent a valuable resource for elucidating mechanisms of acclimation to environmental constraints. Populus euphratica is a salt-tolerant tree species growing in saline semi-arid areas. To identify genes involved in abiotic stress responses under natural conditions we constructed several normalized and subtracted cDNA libraries from control, stress-exposed and desert-grown P. euphratica trees. In addition, we identified several metabolites in desert-grown P. euphratica trees. Results: About 14,000 expressed sequence tag (EST) sequences were obtained with a good representation of genes putatively involved in resistance and tolerance to salt and other abiotic stresses. A P. euphratica DNA microarray with a uni-gene set of ESTs representing approximately 6,340 different genes was constructed. The microarray was used to study gene expression in adult P. euphratica trees growing in the desert canyon of Ein Avdat in Israel. In parallel, 22 selected metabolites were profiled in the same trees. Conclusion: Of the obtained ESTs, 98% were found in the sequenced P. trichocarpa genome and 74% in other Populus EST collections. This implies that the P. euphratica genome does not contain different genes per se, but that regulation of gene expression might be different and that P. euphratica expresses a different set of genes that contribute to adaptation to saline growth conditions. Also, all of the five measured amino acids show increased levels in trees growing in the more saline soil.
18. An AP/ERF transcription factor ERF139 affects growth and lignin deposition in hybrid aspen
- Author
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Wessels, Bernard, Seyfferth, Carolin, Escamez, Sacha, Vain, T., Antos, K., Vahala, J., Delhomme, Nicolas, Kangasjärvi, J., Eder, M., Felten, J., Tuominen, Hannele, Wessels, Bernard, Seyfferth, Carolin, Escamez, Sacha, Vain, T., Antos, K., Vahala, J., Delhomme, Nicolas, Kangasjärvi, J., Eder, M., Felten, J., and Tuominen, Hannele
19. Populus ERF85 mediates the transition between xylem cell expansion and secondary cell wall formation in hybrid aspen
- Author
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Seyfferth, Carolin, Wessels, Bernard, Vahala, J., Kangasjärvi, J., Bauer, G., Tuominen, Hannele, Eder, M., Delhomme, Nicolas, Felten, J., Seyfferth, Carolin, Wessels, Bernard, Vahala, J., Kangasjärvi, J., Bauer, G., Tuominen, Hannele, Eder, M., Delhomme, Nicolas, and Felten, J.
20. Populus genomics as a tool to unravel ethylene-dependent wood formation.
- Author
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Ramina, Angelo, Chang, Caren, Giovannoni, Jim, Klee, Harry, Perata, Pierdomenico, Woltering, Ernst, Vahala, J., Love, J., Bjürklund, S., Tuominen, H., Sundberg, B., and Kangasjärvi, J.
- Abstract
Plant hormones, including the gaseous plant hormone ethylene, are important regulators of wood formation both due to environmental cues and in determining growth patterns. However, little is known about the role of ethylene in these processes at molecular level. Thus, sequencing of the black cottonwood (Populus trichocarpa) genome facilities a great tool for such research. [ABSTRACT FROM AUTHOR]
- Published
- 2007
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21. Integrative multi-omics analyses of date palm (Phoenix dactylifera) roots and leaves reveal how the halophyte land plant copes with sea water.
- Author
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Mueller HM, Franzisky BL, Messerer M, Du B, Lux T, White PJ, Carpentier SC, Winkler JB, Schnitzler JP, El-Serehy HA, Al-Rasheid KAS, Al-Harbi N, Alfarraj S, Kudla J, Kangasjärvi J, Reichelt M, Mithöfer A, Mayer KFX, Rennenberg H, Ache P, Hedrich R, and Geilfus CM
- Subjects
- Salt-Tolerant Plants genetics, Multiomics, Proteomics, Seawater, Phoeniceae genetics
- Abstract
Date palm (Phoenix dactylifera L.) is able to grow and complete its life cycle while being rooted in highly saline soils. Which of the many well-known salt-tolerance strategies are combined to fine-tune this remarkable resilience is unknown. The precise location, whether in the shoot or the root, where these strategies are employed remains uncertain, leaving us unaware of how the various known salt-tolerance mechanisms are integrated to fine-tune this remarkable resilience. To address this shortcoming, we exposed date palm to a salt stress dose equivalent to seawater for up to 4 weeks and applied integrative multi-omics analyses followed by targeted metabolomics, hormone, and ion analyses. Integration of proteomic into transcriptomic data allowed a view beyond simple correlation, revealing a remarkably high degree of convergence between gene expression and protein abundance. This sheds a clear light on the acclimatization mechanisms employed, which depend on reprogramming of protein biosynthesis. For growth in highly saline habitats, date palm effectively combines various salt-tolerance mechanisms found in both halophytes and glycophytes: "avoidance" by efficient sodium and chloride exclusion at the roots, and "acclimation" by osmotic adjustment, reactive oxygen species scavenging in leaves, and remodeling of the ribosome-associated proteome in salt-exposed root cells. Combined efficiently as in P. dactylifera L., these sets of mechanisms seem to explain the palm's excellent salt stress tolerance., (© 2023 The Authors. The Plant Genome published by Wiley Periodicals LLC on behalf of Crop Science Society of America.)
- Published
- 2024
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22. Synthesis and import of GDP-l-fucose into the Golgi affect plant-water relations.
- Author
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Waszczak C, Yarmolinsky D, Leal Gavarrón M, Vahisalu T, Sierla M, Zamora O, Carter R, Puukko T, Sipari N, Lamminmäki A, Durner J, Ernst D, Winkler JB, Paulin L, Auvinen P, Fleming AJ, Andersson MX, Kollist H, and Kangasjärvi J
- Subjects
- Guanosine Diphosphate Fucose metabolism, Boron metabolism, Polysaccharides metabolism, Fucose metabolism, Arabidopsis metabolism
- Abstract
Land plants evolved multiple adaptations to restrict transpiration. However, the underlying molecular mechanisms are not sufficiently understood. We used an ozone-sensitivity forward genetics approach to identify Arabidopsis thaliana mutants impaired in gas exchange regulation. High water loss from detached leaves and impaired decrease of leaf conductance in response to multiple stomata-closing stimuli were identified in a mutant of MURUS1 (MUR1), an enzyme required for GDP-l-fucose biosynthesis. High water loss observed in mur1 was independent from stomatal movements and instead could be linked to metabolic defects. Plants defective in import of GDP-l-Fuc into the Golgi apparatus phenocopied the high water loss of mur1 mutants, linking this phenotype to Golgi-localized fucosylation events. However, impaired fucosylation of xyloglucan, N-linked glycans, and arabinogalactan proteins did not explain the aberrant water loss of mur1 mutants. Partial reversion of mur1 water loss phenotype by borate supplementation and high water loss observed in boron uptake mutants link mur1 gas exchange phenotypes to pleiotropic consequences of l-fucose and boron deficiency, which in turn affect mechanical and morphological properties of stomatal complexes and whole-plant physiology. Our work emphasizes the impact of fucose metabolism and boron uptake on plant-water relations., (© 2023 The Authors New Phytologist © 2023 New Phytologist Foundation.)
- Published
- 2024
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23. Automatization of metabolite extraction for high-throughput metabolomics: case study on transgenic isoprene-emitting birch.
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Bertić M, Zimmer I, Andrés-Montaner D, Rosenkranz M, Kangasjärvi J, Schnitzler JP, and Ghirardo A
- Subjects
- Humans, Reproducibility of Results, Metabolomics, Hemiterpenes metabolism, Butadienes metabolism, Plant Leaves physiology, Trees metabolism, Pentanes metabolism, Betula genetics, Betula metabolism, Populus metabolism
- Abstract
Metabolomics studies are becoming increasingly common for understanding how plant metabolism responds to changes in environmental conditions, genetic manipulations and treatments. Despite the recent advances in metabolomics workflow, the sample preparation process still limits the high-throughput analysis in large-scale studies. Here, we present a highly flexible robotic system that integrates liquid handling, sonication, centrifugation, solvent evaporation and sample transfer processed in 96-well plates to automatize the metabolite extraction from leaf samples. We transferred an established manual extraction protocol performed to a robotic system, and with this, we show the optimization steps required to improve reproducibility and obtain comparable results in terms of extraction efficiency and accuracy. We then tested the robotic system to analyze the metabolomes of wild-type and four transgenic silver birch (Betula pendula Roth) lines under unstressed conditions. Birch trees were engineered to overexpress the poplar (Populus × canescens) isoprene synthase and to emit various amounts of isoprene. By fitting the different isoprene emission capacities of the transgenic trees with their leaf metabolomes, we observed an isoprene-dependent upregulation of some flavonoids and other secondary metabolites as well as carbohydrates, amino acid and lipid metabolites. By contrast, the disaccharide sucrose was found to be strongly negatively correlated to isoprene emission. The presented study illustrates the power of integrating robotics to increase the sample throughput, reduce human errors and labor time, and to ensure a fully controlled, monitored and standardized sample preparation procedure. Due to its modular and flexible structure, the robotic system can be easily adapted to other extraction protocols for the analysis of various tissues or plant species to achieve high-throughput metabolomics in plant research., (© The Author(s) 2023. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permission@oup.com.)
- Published
- 2023
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24. Poly(ADP-ribose)-binding protein RCD1 is a plant PARylation reader regulated by Photoregulatory Protein Kinases.
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Vainonen JP, Gossens R, Krasensky-Wrzaczek J, De Masi R, Danciu I, Puukko T, Battchikova N, Jonak C, Wirthmueller L, Wrzaczek M, Shapiguzov A, and Kangasjärvi J
- Subjects
- Protein Kinases genetics, Protein Kinases metabolism, Transcription Factors genetics, Transcription Factors metabolism, Gene Expression Regulation, Poly Adenosine Diphosphate Ribose metabolism, Poly ADP Ribosylation
- Abstract
Poly(ADP-ribosyl)ation (PARylation) is a reversible post-translational protein modification that has profound regulatory functions in metabolism, development and immunity, and is conserved throughout the eukaryotic lineage. Contrary to metazoa, many components and mechanistic details of PARylation have remained unidentified in plants. Here we present the transcriptional co-regulator RADICAL-INDUCED CELL DEATH1 (RCD1) as a plant PAR-reader. RCD1 is a multidomain protein with intrinsically disordered regions (IDRs) separating its domains. We have reported earlier that RCD1 regulates plant development and stress-tolerance by interacting with numerous transcription factors (TFs) through its C-terminal RST domain. This study suggests that the N-terminal WWE and PARP-like domains, as well as the connecting IDR play an important regulatory role for RCD1 function. We show that RCD1 binds PAR in vitro via its WWE domain and that PAR-binding determines RCD1 localization to nuclear bodies (NBs) in vivo. Additionally, we found that RCD1 function and stability is controlled by Photoregulatory Protein Kinases (PPKs). PPKs localize with RCD1 in NBs and phosphorylate RCD1 at multiple sites affecting its stability. This work proposes a mechanism for negative transcriptional regulation in plants, in which RCD1 localizes to NBs, binds TFs with its RST domain and is degraded after phosphorylation by PPKs., (© 2023. The Author(s).)
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- 2023
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25. Stomatal CO 2 /bicarbonate sensor consists of two interacting protein kinases, Raf-like HT1 and non-kinase-activity requiring MPK12/MPK4.
- Author
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Takahashi Y, Bosmans KC, Hsu PK, Paul K, Seitz C, Yeh CY, Wang YS, Yarmolinsky D, Sierla M, Vahisalu T, McCammon JA, Kangasjärvi J, Zhang L, Kollist H, Trac T, and Schroeder JI
- Abstract
The continuing rise in the atmospheric carbon dioxide (CO
2 ) concentration causes stomatal closing, thus critically affecting transpirational water loss, photosynthesis, and plant growth. However, the primary CO2 sensor remains unknown. Here, we show that elevated CO2 triggers interaction of the MAP kinases MPK4/MPK12 with the HT1 protein kinase, thus inhibiting HT1 kinase activity. At low CO2 , HT1 phosphorylates and activates the downstream negatively regulating CBC1 kinase. Physiologically relevant HT1-mediated phosphorylation sites in CBC1 are identified. In a genetic screen, we identify dominant active HT1 mutants that cause insensitivity to elevated CO2 . Dominant HT1 mutants abrogate the CO2 /bicarbonate-induced MPK4/12-HT1 interaction and HT1 inhibition, which may be explained by a structural AlphaFold2- and Gaussian-accelerated dynamics-generated model. Unexpectedly, MAP kinase activity is not required for CO2 sensor function and CO2 -triggered HT1 inhibition and stomatal closing. The presented findings reveal that MPK4/12 and HT1 together constitute the long-sought primary stomatal CO2 /bicarbonate sensor upstream of the CBC1 kinase in plants.- Published
- 2022
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26. Arabidopsis Iron Superoxide Dismutase FSD1 Protects Against Methyl Viologen-Induced Oxidative Stress in a Copper-Dependent Manner.
- Author
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Melicher P, Dvořák P, Krasylenko Y, Shapiguzov A, Kangasjärvi J, Šamaj J, and Takáč T
- Abstract
Iron superoxide dismutase 1 (FSD1) was recently characterized as a plastidial, cytoplasmic, and nuclear enzyme with osmoprotective and antioxidant functions. However, the current knowledge on its role in oxidative stress tolerance is ambiguous. Here, we characterized the role of FSD1 in response to methyl viologen (MV)-induced oxidative stress in Arabidopsis thaliana . In accordance with the known regulation of FSD1 expression, abundance, and activity, the findings demonstrated that the antioxidant function of FSD1 depends on the availability of Cu
2+ in growth media. Arabidopsis fsd1 mutants showed lower capacity to decompose superoxide at low Cu2+ concentrations in the medium. Prolonged exposure to MV led to reduced ascorbate levels and higher protein carbonylation in fsd1 mutants and transgenic plants lacking a plastid FSD1 pool as compared to the wild type. MV induced a rapid increase in FSD1 activity, followed by a decrease after 4 h long exposure. Genetic disruption of FSD1 negatively affected the hydrogen peroxide-decomposing ascorbate peroxidase in fsd1 mutants. Chloroplastic localization of FSD1 is crucial to maintain redox homeostasis. Proteomic analysis showed that the sensitivity of fsd1 mutants to MV coincided with decreased abundances of ferredoxin and photosystem II light-harvesting complex proteins. These mutants have higher levels of chloroplastic proteases indicating an altered protein turnover in chloroplasts. Moreover, FSD1 disruption affects the abundance of proteins involved in the defense response. Collectively, the study provides evidence for the conditional antioxidative function of FSD1 and its possible role in signaling., 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 © 2022 Melicher, Dvořák, Krasylenko, Shapiguzov, Kangasjärvi, Šamaj and Takáč.)- Published
- 2022
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27. Studying Plant Stress Reactions In Vivo by PAM Chlorophyll Fluorescence Imaging.
- Author
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Shapiguzov A and Kangasjärvi J
- Subjects
- Chlorophyll A, Fluorescence, Optical Imaging, Plant Leaves metabolism, Plants metabolism, Reactive Oxygen Species metabolism, Chlorophyll metabolism, Photosynthesis
- Abstract
Plant photosynthetic and mitochondrial electron transfer chains (ETCs) are delicate environmental sensors and active players in stress acclimation. The performance of photosynthetic ETC can be deduced from chlorophyll a fluorescence. This makes chlorophyll fluorescence imaging a powerful tool to study plant stress in vivo. Many stress treatments enhance production of reactive oxygen species (ROS) by photosynthetic or mitochondrial ETCs. These ROS affect cellular metabolism and signalling. Generation of ROS can be manipulated in planta by specific pharmacological treatments with methyl viologen (MV), antimycin A (AA), myxothiazol (myx), and salicylhydroxamic acid (SHAM). This chapter describes how chlorophyll fluorescence imaging together with pharmacological treatments can be employed to probe ROS-dependent plant stress reactions in vivo., (© 2022. Springer Science+Business Media, LLC, part of Springer Nature.)
- Published
- 2022
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28. ACONITASE 3 is part of theANAC017 transcription factor-dependent mitochondrial dysfunction response.
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Pascual J, Rahikainen M, Angeleri M, Alegre S, Gossens R, Shapiguzov A, Heinonen A, Trotta A, Durian G, Winter Z, Sinkkonen J, Kangasjärvi J, Whelan J, and Kangasjärvi S
- Subjects
- Aconitate Hydratase metabolism, Arabidopsis enzymology, Arabidopsis Proteins metabolism, Aconitate Hydratase genetics, Arabidopsis genetics, Arabidopsis Proteins genetics, Mitochondria metabolism, Transcription Factors metabolism
- Abstract
Mitochondria are tightly embedded within metabolic and regulatory networks that optimize plant performance in response to environmental challenges. The best-known mitochondrial retrograde signaling pathway involves stress-induced activation of the transcription factor NAC DOMAIN CONTAINING PROTEIN 17 (ANAC017), which initiates protective responses to stress-induced mitochondrial dysfunction in Arabidopsis (Arabidopsis thaliana). Posttranslational control of the elicited responses, however, remains poorly understood. Previous studies linked protein phosphatase 2A subunit PP2A-B'γ, a key negative regulator of stress responses, with reversible phosphorylation of ACONITASE 3 (ACO3). Here we report on ACO3 and its phosphorylation at Ser91 as key components of stress regulation that are induced by mitochondrial dysfunction. Targeted mass spectrometry-based proteomics revealed that the abundance and phosphorylation of ACO3 increased under stress, which required signaling through ANAC017. Phosphomimetic mutation at ACO3-Ser91 and accumulation of ACO3S91D-YFP promoted the expression of genes related to mitochondrial dysfunction. Furthermore, ACO3 contributed to plant tolerance against ultraviolet B (UV-B) or antimycin A-induced mitochondrial dysfunction. These findings demonstrate that ACO3 is both a target and mediator of mitochondrial dysfunction signaling, and critical for achieving stress tolerance in Arabidopsis leaves., (© The Author(s) 2021. Published by Oxford University Press on behalf of American Society of Plant Biologists.)
- Published
- 2021
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29. Populus PtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen.
- Author
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Seyfferth C, Wessels BA, Vahala J, Kangasjärvi J, Delhomme N, Hvidsten TR, Tuominen H, and Lundberg-Felten J
- Subjects
- Cambium metabolism, Cell Wall drug effects, Down-Regulation drug effects, Ethylenes pharmacology, Gene Regulatory Networks, Lignin metabolism, Phloem metabolism, Phylogeny, Plant Proteins classification, Plant Proteins genetics, Populus growth & development, Up-Regulation drug effects, Wood growth & development, Wood metabolism, Xylem cytology, Xylem drug effects, Cell Wall metabolism, Plant Proteins metabolism, Populus metabolism, Xylem metabolism
- Abstract
Secondary growth relies on precise and specialized transcriptional networks that determine cell division, differentiation, and maturation of xylem cells. We identified a novel role for the ethylene-induced Populus Ethylene Response Factor PtERF85 ( Potri.015G023200 ) in balancing xylem cell expansion and secondary cell wall (SCW) formation in hybrid aspen ( Populus tremula x tremuloides ). Expression of PtERF85 is high in phloem and cambium cells and during the expansion of xylem cells, while it is low in maturing xylem tissue. Extending PtERF85 expression into SCW forming zones of woody tissues through ectopic expression reduced wood density and SCW thickness of xylem fibers but increased fiber diameter. Xylem transcriptomes from the transgenic trees revealed transcriptional induction of genes involved in cell expansion, translation, and growth. The expression of genes associated with plant vascular development and the biosynthesis of SCW chemical components such as xylan and lignin, was down-regulated in the transgenic trees. Our results suggest that PtERF85 activates genes related to xylem cell expansion, while preventing transcriptional activation of genes related to SCW formation. The importance of precise spatial expression of PtERF85 during wood development together with the observed phenotypes in response to ectopic PtERF85 expression suggests that PtERF85 contributes to the transition of fiber cells from elongation to secondary cell wall deposition.
- Published
- 2021
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30. Dissecting the interaction of photosynthetic electron transfer with mitochondrial signalling and hypoxic response in the Arabidopsis rcd1 mutant.
- Author
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Shapiguzov A, Nikkanen L, Fitzpatrick D, Vainonen JP, Gossens R, Alseekh S, Aarabi F, Tiwari A, Blokhina O, Panzarová K, Benedikty Z, Tyystjärvi E, Fernie AR, Trtílek M, Aro EM, Rintamäki E, and Kangasjärvi J
- Subjects
- Anaerobiosis, Arabidopsis Proteins genetics, Electron Transport, Nuclear Proteins genetics, Arabidopsis genetics, Arabidopsis physiology, Mitochondria metabolism, Photosynthesis, Signal Transduction
- Abstract
The Arabidopsis mutant rcd1 is tolerant to methyl viologen (MV). MV enhances the Mehler reaction, i.e. electron transfer from Photosystem I (PSI) to O
2 , generating reactive oxygen species (ROS) in the chloroplast. To study the MV tolerance of rcd1 , we first addressed chloroplast thiol redox enzymes potentially implicated in ROS scavenging. NADPH-thioredoxin oxidoreductase type C (NTRC) was more reduced in rcd1 . NTRC contributed to the photosynthetic and metabolic phenotypes of rcd1 , but did not determine its MV tolerance. We next tested rcd1 for alterations in the Mehler reaction. In rcd1 , but not in the wild type, the PSI-to-MV electron transfer was abolished by hypoxic atmosphere. A characteristic feature of rcd1 is constitutive expression of mitochondrial dysfunction stimulon (MDS) genes that affect mitochondrial respiration. Similarly to rcd1 , in other MDS-overexpressing plants hypoxia also inhibited the PSI-to-MV electron transfer. One possible explanation is that the MDS gene products may affect the Mehler reaction by altering the availability of O2 . In green tissues, this putative effect is masked by photosynthetic O2 evolution. However, O2 evolution was rapidly suppressed in MV-treated plants. Transcriptomic meta-analysis indicated that MDS gene expression is linked to hypoxic response not only under MV, but also in standard growth conditions. This article is part of the theme issue 'Retrograde signalling from endosymbiotic organelles'.- Published
- 2020
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31. Systemic Signaling in the Regulation of Stomatal Conductance.
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Ehonen S, Hölttä T, and Kangasjärvi J
- Subjects
- Biological Transport radiation effects, Carbon Dioxide metabolism, Light, Plant Stomata metabolism, Plant Stomata radiation effects
- Published
- 2020
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32. Primary Metabolite Responses to Oxidative Stress in Early-Senescing and Paraquat Resistant Arabidopsis thaliana rcd1 (Radical-Induced Cell Death1) .
- Author
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Sipari N, Lihavainen J, Shapiguzov A, Kangasjärvi J, and Keinänen M
- Abstract
Rcd1 ( radical-induced cell death1 ) is an Arabidopsis thaliana mutant, which exhibits high tolerance to paraquat [methyl viologen (MV)], herbicide that interrupts photosynthetic electron transport chain causing the formation of superoxide and inhibiting NADPH production in the chloroplast. To understand the biochemical mechanisms of MV-resistance and the role of RCD1 in oxidative stress responses, we performed metabolite profiling of wild type (Col-0) and rcd1 plants in light, after MV exposure and after prolonged darkness. The function of RCD1 has been extensively studied at transcriptomic and biochemical level, but comprehensive metabolite profiling of rcd1 mutant has not been conducted until now. The mutant plants exhibited very different metabolic features from the wild type under light conditions implying enhanced glycolytic activity, altered nitrogen and nucleotide metabolism. In light conditions, superoxide production was elevated in rcd1 , but no metabolic markers of oxidative stress were detected. Elevated senescence-associated metabolite marker levels in rcd1 at early developmental stage were in line with its early-senescing phenotype and possible mitochondrial dysfunction. After MV exposure, a marked decline in the levels of glycolytic and TCA cycle intermediates in Col-0 suggested severe plastidic oxidative stress and inhibition of photosynthesis and respiration, whereas in rcd1 the results indicated sustained photosynthesis and respiration and induction of energy salvaging pathways. The accumulation of oxidative stress markers in both plant lines indicated that MV-resistance in rcd1 derived from the altered regulation of cellular metabolism and not from the restricted delivery of MV into the cells or chloroplasts. Considering the evidence from metabolomic, transcriptomic and biochemical studies, we propose that RCD1 has a negative effect on reductive metabolism and rerouting of the energy production pathways. Thus, the altered, highly active reductive metabolism, energy salvaging pathways and redox transfer between cellular compartments in rcd1 could be sufficient to avoid the negative effects of MV-induced toxicity., (Copyright © 2020 Sipari, Lihavainen, Shapiguzov, Kangasjärvi and Keinänen.)
- Published
- 2020
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33. PROTEIN PHOSPHATASE 2A-B' γ Controls Botrytis cinerea Resistance and Developmental Leaf Senescence.
- Author
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Durian G, Jeschke V, Rahikainen M, Vuorinen K, Gollan PJ, Brosché M, Salojärvi J, Glawischnig E, Winter Z, Li S, Noctor G, Aro EM, Kangasjärvi J, Overmyer K, Burow M, and Kangasjärvi S
- Subjects
- Arabidopsis genetics, Arabidopsis growth & development, Arabidopsis microbiology, Arabidopsis Proteins genetics, Calcium metabolism, Cellular Senescence physiology, Cysteine Endopeptidases genetics, Cysteine Endopeptidases metabolism, Disease Resistance immunology, Gene Expression Regulation, Developmental genetics, Gene Expression Regulation, Plant genetics, Genotype, Intramolecular Transferases genetics, Intramolecular Transferases metabolism, Mutation, Phenotype, Plant Diseases genetics, Plant Diseases microbiology, Plant Immunity genetics, Plant Leaves genetics, Plant Leaves growth & development, Protein Binding, Protein Kinases genetics, Protein Kinases metabolism, Protein Phosphatase 2 genetics, Salicylic Acid metabolism, Signal Transduction genetics, Transcription Factors genetics, Transcription Factors metabolism, Transcriptome genetics, Arabidopsis enzymology, Arabidopsis Proteins metabolism, Botrytis immunology, Cellular Senescence genetics, Disease Resistance genetics, Plant Diseases immunology, Plant Leaves metabolism, Protein Phosphatase 2 metabolism
- Abstract
Plants optimize their growth and survival through highly integrated regulatory networks that coordinate defensive measures and developmental transitions in response to environmental cues. Protein phosphatase 2A (PP2A) is a key signaling component that controls stress reactions and growth at different stages of plant development, and the PP2A regulatory subunit PP2A-B'γ is required for negative regulation of pathogenesis responses and for maintenance of cell homeostasis in short-day conditions. Here, we report molecular mechanisms by which PP2A-B'γ regulates Botrytis cinerea resistance and leaf senescence in Arabidopsis ( Arabidopsis thaliana ). We extend the molecular functionality of PP2A-B'γ to a protein kinase-phosphatase interaction with the defense-associated calcium-dependent protein kinase CPK1 and present indications this interaction may function to control CPK1 activity. In presenescent leaf tissues, PP2A-B'γ is also required to negatively control the expression of salicylic acid-related defense genes, which have recently proven vital in plant resistance to necrotrophic fungal pathogens. In addition, we find the premature leaf yellowing of pp2a - b'γ depends on salicylic acid biosynthesis via SALICYLIC ACID INDUCTION DEFICIENT2 and bears the hallmarks of developmental leaf senescence. We propose PP2A-B'γ age-dependently controls salicylic acid-related signaling in plant immunity and developmental leaf senescence., (© 2020 American Society of Plant Biologists. All Rights Reserved.)
- Published
- 2020
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34. An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition.
- Author
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Wessels B, Seyfferth C, Escamez S, Vain T, Antos K, Vahala J, Delhomme N, Kangasjärvi J, Eder M, Felten J, and Tuominen H
- Subjects
- Cell Wall metabolism, Ethylenes metabolism, Gene Expression Regulation, Plant, Lignin metabolism, Plant Cells metabolism, Plant Proteins genetics, Plant Proteins metabolism, Plants, Genetically Modified, Populus genetics, Populus growth & development, Populus metabolism, Signal Transduction, Transcription Factor AP-2 genetics, Wood chemistry, Wood cytology, X-Ray Diffraction, Populus cytology, Transcription Factor AP-2 metabolism, Xylem cytology
- Abstract
Differentiation of xylem elements involves cell expansion, secondary cell wall (SCW) deposition and programmed cell death. Transitions between these phases require strict spatiotemporal control. The function of Populus ERF139 (Potri.013G101100) in xylem differentiation was characterized in transgenic overexpression and dominant repressor lines of ERF139 in hybrid aspen (Populus tremula × tremuloides). Xylem properties, SCW chemistry and downstream targets were analyzed in both types of transgenic trees using microscopy techniques, Fourier transform-infrared spectroscopy, pyrolysis-GC/MS, wet chemistry methods and RNA sequencing. Opposite phenotypes were observed in the secondary xylem vessel sizes and SCW chemistry in the two different types of transgenic trees, supporting the function of ERF139 in suppressing the radial expansion of vessel elements and stimulating accumulation of guaiacyl-type lignin and possibly also xylan. Comparative transcriptomics identified genes related to SCW biosynthesis (LAC5, LBD15, MYB86) and salt and drought stress-responsive genes (ANAC002, ABA1) as potential direct targets of ERF139. The phenotypes of the transgenic trees and the stem expression profiles of ERF139 potential target genes support the role of ERF139 as a transcriptional regulator of xylem cell expansion and SCW formation, possibly in response to osmotic changes of the cells., (© 2019 The Authors. New Phytologist © 2019 New Phytologist Trust.)
- Published
- 2019
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35. Author Correction: Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch.
- Author
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Salojärvi J, Smolander OP, Nieminen K, Rajaraman S, Safronov O, Safdari P, Lamminmäki A, Immanen J, Lan T, Tanskanen J, Rastas P, Amiryousefi A, Jayaprakash B, Kammonen JI, Hagqvist R, Eswaran G, Ahonen VH, Serra JA, Asiegbu FO, de Dios Barajas-Lopez J, Blande D, Blokhina O, Blomster T, Broholm S, Brosché M, Cui F, Dardick C, Ehonen SE, Elomaa P, Escamez S, Fagerstedt KV, Fujii H, Gauthier A, Gollan PJ, Halimaa P, Heino PI, Himanen K, Hollender C, Kangasjärvi S, Kauppinen L, Kelleher CT, Kontunen-Soppela S, Koskinen JP, Kovalchuk A, Kärenlampi SO, Kärkönen AK, Lim KJ, Leppälä J, Macpherson L, Mikola J, Mouhu K, Mähönen AP, Niinemets Ü, Oksanen E, Overmyer K, Palva ET, Pazouki L, Pennanen V, Puhakainen T, Poczai P, Possen BJHM, Punkkinen M, Rahikainen MM, Rousi M, Ruonala R, van der Schoot C, Shapiguzov A, Sierla M, Sipilä TP, Sutela S, Teeri TH, Tervahauta AI, Vaattovaara A, Vahala J, Vetchinnikova L, Welling A, Wrzaczek M, Xu E, Paulin LG, Schulman AH, Lascoux M, Albert VA, Auvinen P, Helariutta Y, and Kangasjärvi J
- Published
- 2019
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36. Tissue-specific study across the stem reveals the chemistry and transcriptome dynamics of birch bark.
- Author
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Alonso-Serra J, Safronov O, Lim KJ, Fraser-Miller SJ, Blokhina OB, Campilho A, Chong SL, Fagerstedt K, Haavikko R, Helariutta Y, Immanen J, Kangasjärvi J, Kauppila TJ, Lehtonen M, Ragni L, Rajaraman S, Räsänen RM, Safdari P, Tenkanen M, Yli-Kauhaluoma JT, Teeri TH, Strachan CJ, Nieminen K, and Salojärvi J
- Subjects
- Betula growth & development, Biosynthetic Pathways genetics, Cambium genetics, Evolution, Molecular, Gene Expression Regulation, Plant, Genome, Plant, Lipids chemistry, Meristem genetics, Organ Specificity, Species Specificity, Stem Cell Niche, Triterpenes metabolism, Wood genetics, Betula genetics, Plant Bark chemistry, Plant Bark genetics, Plant Stems genetics, Transcriptome genetics
- Abstract
Tree bark is a highly specialized array of tissues that plays important roles in plant protection and development. Bark tissues develop from two lateral meristems; the phellogen (cork cambium) produces the outermost stem-environment barrier called the periderm, while the vascular cambium contributes with phloem tissues. Although bark is diverse in terms of tissues, functions and species, it remains understudied at higher resolution. We dissected the stem of silver birch (Betula pendula) into eight major tissue types, and characterized these by a combined transcriptomics and metabolomics approach. We further analyzed the varying bark types within the Betulaceae family. The two meristems had a distinct contribution to the stem transcriptomic landscape. Furthermore, inter- and intraspecies analyses illustrated the unique molecular profile of the phellem. We identified multiple tissue-specific metabolic pathways, such as the mevalonate/betulin biosynthesis pathway, that displayed differential evolution within the Betulaceae. A detailed analysis of suberin and betulin biosynthesis pathways identified a set of underlying regulators and highlighted the important role of local, small-scale gene duplication events in the evolution of metabolic pathways. This work reveals the transcriptome and metabolic diversity among bark tissues and provides insights to its development and evolution, as well as its biotechnological applications., (© 2019 The Authors. New Phytologist © 2019 New Phytologist Trust.)
- Published
- 2019
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37. Interaction of methyl viologen-induced chloroplast and mitochondrial signalling in Arabidopsis.
- Author
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Cui F, Brosché M, Shapiguzov A, He XQ, Vainonen JP, Leppälä J, Trotta A, Kangasjärvi S, Salojärvi J, Kangasjärvi J, and Overmyer K
- Subjects
- Arabidopsis drug effects, Chloroplasts drug effects, Electron Transport, Herbicides pharmacology, Mitochondria drug effects, Reactive Oxygen Species metabolism, Signal Transduction, Arabidopsis metabolism, Chloroplasts metabolism, Mitochondria metabolism, Oxidative Stress drug effects, Paraquat pharmacology
- Abstract
Reactive oxygen species (ROS) are key signalling intermediates in plant metabolism, defence, and stress adaptation. In plants, both the chloroplast and mitochondria are centres of metabolic control and ROS production, which coordinate stress responses in other cell compartments. The herbicide and experimental tool, methyl viologen (MV) induces ROS generation in the chloroplast under illumination, but is also toxic in non-photosynthetic organisms. We used MV to probe plant ROS signalling in compartments other than the chloroplast. Taking a genetic approach in the model plant Arabidopsis (Arabidopsis thaliana), we used natural variation, QTL mapping, and mutant studies with MV in the light, but also under dark conditions, when the chloroplast electron transport is inactive. These studies revealed a light-independent MV-induced ROS-signalling pathway, suggesting mitochondrial involvement. Mitochondrial Mn SUPEROXIDE DISMUTASE was required for ROS-tolerance and the effect of MV was enhanced by exogenous sugar, providing further evidence for the role of mitochondria. Mutant and hormone feeding assays revealed roles for stress hormones in organellar ROS-responses. The radical-induced cell death1 mutant, which is tolerant to MV-induced ROS and exhibits altered mitochondrial signalling, was used to probe interactions between organelles. Our studies suggest that mitochondria are involved in the response to ROS induced by MV in plants., (Copyright © 2019 The Authors. Published by Elsevier Inc. All rights reserved.)
- Published
- 2019
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38. Reactive Oxygen Species, Photosynthesis, and Environment in the Regulation of Stomata.
- Author
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Ehonen S, Yarmolinsky D, Kollist H, and Kangasjärvi J
- Subjects
- Adaptation, Physiological, Chloroplasts metabolism, Droughts, Photosynthesis, Signal Transduction, Plant Stomata metabolism, Plants metabolism, Reactive Oxygen Species metabolism
- Abstract
Significance: Stomata sense the intercellular carbon dioxide (CO
2 ) concentration (Ci ) and water availability under changing environmental conditions and adjust their apertures to maintain optimal cellular conditions for photosynthesis. Stomatal movements are regulated by a complex network of signaling cascades where reactive oxygen species (ROS) play a key role as signaling molecules. Recent Advances: Recent research has uncovered several new signaling components involved in CO2 - and abscisic acid-triggered guard cell signaling pathways. In addition, we are beginning to understand the complex interactions between different signaling pathways., Critical Issues: Plants close their stomata in reaction to stress conditions, such as drought, and the subsequent decrease in Ci leads to ROS production through photorespiration and over-reduction of the chloroplast electron transport chain. This reduces plant growth and thus drought may cause severe yield losses for agriculture especially in arid areas., Future Directions: The focus of future research should be drawn toward understanding the interplay between various signaling pathways and how ROS, redox, and hormonal balance changes in space and time. Translating this knowledge from model species to crop plants will help in the development of new drought-resistant crop species with high yields.- Published
- 2019
- Full Text
- View/download PDF
39. Arabidopsis RCD1 coordinates chloroplast and mitochondrial functions through interaction with ANAC transcription factors.
- Author
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Shapiguzov A, Vainonen JP, Hunter K, Tossavainen H, Tiwari A, Järvi S, Hellman M, Aarabi F, Alseekh S, Wybouw B, Van Der Kelen K, Nikkanen L, Krasensky-Wrzaczek J, Sipari N, Keinänen M, Tyystjärvi E, Rintamäki E, De Rybel B, Salojärvi J, Van Breusegem F, Fernie AR, Brosché M, Permi P, Aro EM, Wrzaczek M, and Kangasjärvi J
- Subjects
- Chloroplasts genetics, Electron Transport Complex III genetics, Gene Expression Regulation, Plant genetics, Mitochondria genetics, Plants, Genetically Modified genetics, Reactive Oxygen Species metabolism, Signal Transduction genetics, Stress, Physiological genetics, Arabidopsis genetics, Arabidopsis Proteins genetics, Nuclear Proteins genetics, Transcription Factors genetics
- Abstract
Reactive oxygen species (ROS)-dependent signaling pathways from chloroplasts and mitochondria merge at the nuclear protein RADICAL-INDUCED CELL DEATH1 (RCD1). RCD1 interacts in vivo and suppresses the activity of the transcription factors ANAC013 and ANAC017, which mediate a ROS-related retrograde signal originating from mitochondrial complex III. Inactivation of RCD1 leads to increased expression of mitochondrial dysfunction stimulon (MDS) genes regulated by ANAC013 and ANAC017. Accumulating MDS gene products, including alternative oxidases (AOXs), affect redox status of the chloroplasts, leading to changes in chloroplast ROS processing and increased protection of photosynthetic apparatus. ROS alter the abundance, thiol redox state and oligomerization of the RCD1 protein in vivo, providing feedback control on its function. RCD1-dependent regulation is linked to chloroplast signaling by 3'-phosphoadenosine 5'-phosphate (PAP). Thus, RCD1 integrates organellar signaling from chloroplasts and mitochondria to establish transcriptional control over the metabolic processes in both organelles., Competing Interests: AS, JV, KH, HT, AT, SJ, MH, FA, SA, BW, KV, LN, JK, NS, MK, ET, ER, BD, JS, FV, AF, MB, PP, EA, MW, JK No competing interests declared, (© 2019, Shapiguzov et al.)
- Published
- 2019
- Full Text
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40. Mechanistic insights into the evolution of DUF26-containing proteins in land plants.
- Author
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Vaattovaara A, Brandt B, Rajaraman S, Safronov O, Veidenberg A, Luklová M, Kangasjärvi J, Löytynoja A, Hothorn M, Salojärvi J, and Wrzaczek M
- Subjects
- DNA-Binding Proteins classification, DNA-Binding Proteins metabolism, Embryophyta classification, Embryophyta metabolism, Gene Dosage, Gene Duplication, Gene Ontology, Genetic Drift, Intracellular Signaling Peptides and Proteins classification, Intracellular Signaling Peptides and Proteins genetics, Intracellular Signaling Peptides and Proteins metabolism, Molecular Sequence Annotation, Phylogeny, Plant Proteins classification, Plant Proteins metabolism, Protein Kinases classification, Protein Kinases genetics, Protein Kinases metabolism, DNA-Binding Proteins genetics, Embryophyta genetics, Evolution, Molecular, Gene Expression Regulation, Plant, Genome, Plant, Plant Proteins genetics
- Abstract
Large protein families are a prominent feature of plant genomes and their size variation is a key element for adaptation. However, gene and genome duplications pose difficulties for functional characterization and translational research. Here we infer the evolutionary history of the DOMAIN OF UNKNOWN FUNCTION (DUF) 26-containing proteins. The DUF26 emerged in secreted proteins. Domain duplications and rearrangements led to the appearance of CYSTEINE-RICH RECEPTOR-LIKE PROTEIN KINASES (CRKs) and PLASMODESMATA-LOCALIZED PROTEINS (PDLPs). The DUF26 is land plant-specific but structural analyses of PDLP ectodomains revealed strong similarity to fungal lectins and thus may constitute a group of plant carbohydrate-binding proteins. CRKs expanded through tandem duplications and preferential retention of duplicates following whole genome duplications, whereas PDLPs evolved according to the dosage balance hypothesis. We propose that new gene families mainly expand through small-scale duplications, while fractionation and genetic drift after whole genome multiplications drive families towards dosage balance., Competing Interests: The authors declare no competing interests.
- Published
- 2019
- Full Text
- View/download PDF
41. Rapid Responses to Abiotic Stress: Priming the Landscape for the Signal Transduction Network.
- Author
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Kollist H, Zandalinas SI, Sengupta S, Nuhkat M, Kangasjärvi J, and Mittler R
- Subjects
- Environment, Plant Stomata physiology, Plants metabolism, Plant Physiological Phenomena, Signal Transduction physiology, Stress, Physiological physiology
- Abstract
Plants grow and reproduce within a highly dynamic environment that can see abrupt changes in conditions, such as light intensity, temperature, humidity, or interactions with biotic agents. Recent studies revealed that plants can respond within seconds to some of these conditions, engaging many different metabolic and molecular networks, as well as rapidly altering their stomatal aperture. Some of these rapid responses were further shown to propagate throughout the entire plant via waves of reactive oxygen species (ROS) and Ca
2+ that are possibly mediated through the plant vascular system. Here, we propose that the integration of these signals is mediated through pulses of gene expression that are coordinated throughout the plant in a systemic manner by the ROS/Ca+2 waves., (Copyright © 2018 The Authors. Published by Elsevier Ltd.. All rights reserved.)- Published
- 2019
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- View/download PDF
42. The Receptor-like Pseudokinase GHR1 Is Required for Stomatal Closure.
- Author
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Sierla M, Hõrak H, Overmyer K, Waszczak C, Yarmolinsky D, Maierhofer T, Vainonen JP, Salojärvi J, Denessiouk K, Laanemets K, Tõldsepp K, Vahisalu T, Gauthier A, Puukko T, Paulin L, Auvinen P, Geiger D, Hedrich R, Kollist H, and Kangasjärvi J
- Subjects
- Arabidopsis Proteins genetics, Carbon Dioxide metabolism, Membrane Proteins genetics, Membrane Proteins metabolism, Phosphorylation genetics, Phosphorylation physiology, Protein Binding, Signal Transduction genetics, Signal Transduction physiology, Arabidopsis metabolism, Arabidopsis Proteins metabolism, Plant Stomata metabolism, Plant Stomata physiology, Protein Kinases metabolism
- Abstract
Guard cells control the aperture of stomatal pores to balance photosynthetic carbon dioxide uptake with evaporative water loss. Stomatal closure is triggered by several stimuli that initiate complex signaling networks to govern the activity of ion channels. Activation of SLOW ANION CHANNEL1 (SLAC1) is central to the process of stomatal closure and requires the leucine-rich repeat receptor-like kinase (LRR-RLK) GUARD CELL HYDROGEN PEROXIDE-RESISTANT1 (GHR1), among other signaling components. Here, based on functional analysis of nine Arabidopsis thaliana ghr1 mutant alleles identified in two independent forward-genetic ozone-sensitivity screens, we found that GHR1 is required for stomatal responses to apoplastic reactive oxygen species, abscisic acid, high CO
2 concentrations, and diurnal light/dark transitions. Furthermore, we show that the amino acid residues of GHR1 involved in ATP binding are not required for stomatal closure in Arabidopsis or the activation of SLAC1 anion currents in Xenopus laevis oocytes and present supporting in silico and in vitro evidence suggesting that GHR1 is an inactive pseudokinase. Biochemical analyses suggested that GHR1-mediated activation of SLAC1 occurs via interacting proteins and that CALCIUM-DEPENDENT PROTEIN KINASE3 interacts with GHR1. We propose that GHR1 acts in stomatal closure as a scaffolding component., (© 2018 American Society of Plant Biologists. All rights reserved.)- Published
- 2018
- Full Text
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43. Arabidopsis downy mildew effector HaRxL106 suppresses plant immunity by binding to RADICAL-INDUCED CELL DEATH1.
- Author
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Wirthmueller L, Asai S, Rallapalli G, Sklenar J, Fabro G, Kim DS, Lintermann R, Jaspers P, Wrzaczek M, Kangasjärvi J, MacLean D, Menke FLH, Banfield MJ, and Jones JDG
- Subjects
- ADP Ribose Transferases metabolism, Arabidopsis drug effects, Arabidopsis genetics, Arabidopsis Proteins genetics, Gene Expression Regulation, Plant radiation effects, Mutation genetics, Nuclear Proteins genetics, Oomycetes drug effects, Oomycetes isolation & purification, Oomycetes pathogenicity, Plant Diseases microbiology, Plants, Genetically Modified, Protein Domains, Protein Multimerization drug effects, Salicylic Acid pharmacology, Signal Transduction radiation effects, Transcription, Genetic drug effects, Virulence drug effects, Arabidopsis immunology, Arabidopsis microbiology, Arabidopsis Proteins metabolism, Nuclear Proteins metabolism, Oomycetes metabolism, Plant Immunity drug effects, Proteins metabolism
- Abstract
The oomycete pathogen Hyaloperonospora arabidopsidis (Hpa) causes downy mildew disease on Arabidopsis. To colonize its host, Hpa translocates effector proteins that suppress plant immunity into infected host cells. Here, we investigate the relevance of the interaction between one of these effectors, HaRxL106, and Arabidopsis RADICAL-INDUCED CELL DEATH1 (RCD1). We use pathogen infection assays as well as molecular and biochemical analyses to test the hypothesis that HaRxL106 manipulates RCD1 to attenuate transcriptional activation of defense genes. We report that HaRxL106 suppresses transcriptional activation of salicylic acid (SA)-induced defense genes and alters plant growth responses to light. HaRxL106-mediated suppression of immunity is abolished in RCD1 loss-of-function mutants. We report that RCD1-type proteins are phosphorylated, and we identified Mut9-like kinases (MLKs), which function as phosphoregulatory nodes at the level of photoreceptors, as RCD1-interacting proteins. An mlk1,3,4 triple mutant exhibits stronger SA-induced defense marker gene expression compared with wild-type plants, suggesting that MLKs also affect transcriptional regulation of SA signaling. Based on the combined evidence, we hypothesize that nuclear RCD1/MLK complexes act as signaling nodes that integrate information from environmental cues and pathogen sensors, and that the Arabidopsis downy mildew pathogen targets RCD1 to prevent activation of plant immunity., (© 2018 The Authors. New Phytologist © 2018 New Phytologist Trust.)
- Published
- 2018
- Full Text
- View/download PDF
44. Reactive oxygen species signaling and stomatal movement in plant responses to drought stress and pathogen attack.
- Author
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Qi J, Song CP, Wang B, Zhou J, Kangasjärvi J, Zhu JK, and Gong Z
- Subjects
- Droughts, Signal Transduction physiology, Cell Membrane metabolism, Plant Stomata metabolism, Plants metabolism, Reactive Oxygen Species metabolism
- Abstract
Stomata, the pores formed by a pair of guard cells, are the main gateways for water transpiration and photosynthetic CO
2 exchange, as well as pathogen invasion in land plants. Guard cell movement is regulated by a combination of environmental factors, including water status, light, CO2 levels and pathogen attack, as well as endogenous signals, such as abscisic acid and apoplastic reactive oxygen species (ROS). Under abiotic and biotic stress conditions, extracellular ROS are mainly produced by plasma membrane-localized NADPH oxidases, whereas intracellular ROS are produced in multiple organelles. These ROS form a sophisticated cellular signaling network, with the accumulation of apoplastic ROS an early hallmark of stomatal movement. Here, we review recent progress in understanding the molecular mechanisms of the ROS signaling network, primarily during drought stress and pathogen attack. We summarize the roles of apoplastic ROS in regulating stomatal movement, ABA and CO2 signaling, and immunity responses. Finally, we discuss ROS accumulation and communication between organelles and cells. This information provides a conceptual framework for understanding how ROS signaling is integrated with various signaling pathways during plant responses to abiotic and biotic stress stimuli., (© 2018 Institute of Botany, Chinese Academy of Sciences.)- Published
- 2018
- Full Text
- View/download PDF
45. The role of reactive oxygen species in the integration of temperature and light signals.
- Author
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Krasensky-Wrzaczek J and Kangasjärvi J
- Subjects
- Arabidopsis radiation effects, Oxidation-Reduction, Arabidopsis physiology, Light, Reactive Oxygen Species metabolism, Signal Transduction, Temperature
- Abstract
The remarkable plasticity of the biochemical machinery in plants allows the integration of a multitude of stimuli, enabling acclimation to a wide range of growth conditions. The integration of information on light and temperature enables plants to sense seasonal changes and adjust growth, defense, and transition to flowering according to the prevailing conditions. By now, the role of reactive oxygen species (ROS) as important signaling molecules has been established. Here, we review recent data on ROS as important components in the integration of light and temperature signaling by crosstalk with the circadian clock and calcium signaling. Furthermore, we highlight that different environmental conditions critically affect the interpretation of stress stimuli, and consequently defense mechanisms and stress outcome. For example, day length plays an important role in whether enhanced ROS production under stress conditions is directed towards activation of redox poising mechanisms or triggering programmed cell death (PCD). Furthermore, a mild increase in temperature can cause down-regulation of immunity and render plants more sensitive to biotrophic pathogens. Taken together, the evidence presented here demonstrates the complexity of signaling pathways and outline the importance of their correct interpretation in context with the given environmental conditions.
- Published
- 2018
- Full Text
- View/download PDF
46. Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen.
- Author
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Felten J, Vahala J, Love J, Gorzsás A, Rüggeberg M, Delhomme N, Leśniewska J, Kangasjärvi J, Hvidsten TR, Mellerowicz EJ, and Sundberg B
- Subjects
- Amino Acids, Cyclic pharmacology, Cell Wall drug effects, Cell Wall metabolism, Cell Wall ultrastructure, Cellulose metabolism, Computer Simulation, Genes, Plant, Populus genetics, Populus ultrastructure, Principal Component Analysis, Promoter Regions, Genetic genetics, Spectroscopy, Fourier Transform Infrared, Water pharmacology, Wood drug effects, Wood growth & development, Wood ultrastructure, Xylem drug effects, Xylem metabolism, Xylem ultrastructure, Ethylenes metabolism, Hybridization, Genetic, Populus metabolism, Signal Transduction, Wood metabolism
- Abstract
The phytohormone ethylene impacts secondary stem growth in plants by stimulating cambial activity, xylem development and fiber over vessel formation. We report the effect of ethylene on secondary cell wall formation and the molecular connection between ethylene signaling and wood formation. We applied exogenous ethylene or its precursor 1-aminocyclopropane-1-carboxylic acid (ACC) to wild-type and ethylene-insensitive hybrid aspen trees (Populus tremula × tremuloides) and studied secondary cell wall anatomy, chemistry and ultrastructure. We furthermore analyzed the transcriptome (RNA Seq) after ACC application to wild-type and ethylene-insensitive trees. We demonstrate that ACC and ethylene induce gelatinous layers (G-layers) and alter the fiber cell wall cellulose microfibril angle. G-layers are tertiary wall layers rich in cellulose, typically found in tension wood of aspen trees. A vast majority of transcripts affected by ACC are downstream of ethylene perception and include a large number of transcription factors (TFs). Motif-analyses reveal potential connections between ethylene TFs (Ethylene Response Factors (ERFs), ETHYLENE INSENSITIVE 3/ETHYLENE INSENSITIVE3-LIKE1 (EIN3/EIL1)) and wood formation. G-layer formation upon ethylene application suggests that the increase in ethylene biosynthesis observed during tension wood formation is important for its formation. Ethylene-regulated TFs of the ERF and EIN3/EIL1 type could transmit the ethylene signal., (© 2018 The Authors. New Phytologist © 2018 New Phytologist Trust.)
- Published
- 2018
- Full Text
- View/download PDF
47. Reactive Oxygen Species in Plant Signaling.
- Author
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Waszczak C, Carmody M, and Kangasjärvi J
- Subjects
- Organelles metabolism, Oxidation-Reduction, Stress, Physiological, Plants metabolism, Reactive Oxygen Species metabolism, Signal Transduction
- Abstract
As fixed organisms, plants are especially affected by changes in their environment and have consequently evolved extensive mechanisms for acclimation and adaptation. Initially considered by-products from aerobic metabolism, reactive oxygen species (ROS) have emerged as major regulatory molecules in plants and their roles in early signaling events initiated by cellular metabolic perturbation and environmental stimuli are now established. Here, we review recent advances in ROS signaling. Compartment-specific and cross-compartmental signaling pathways initiated by the presence of ROS are discussed. Special attention is dedicated to established and hypothetical ROS-sensing events. The roles of ROS in long-distance signaling, immune responses, and plant development are evaluated. Finally, we outline the most challenging contemporary questions in the field of plant ROS biology and the need to further elucidate mechanisms allowing sensing, signaling specificity, and coordination of multiple signals.
- Published
- 2018
- Full Text
- View/download PDF
48. 1 H, 13 C and 15 N NMR chemical shift assignments of A. thaliana RCD1 RST.
- Author
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Tossavainen H, Hellman M, Vainonen JP, Kangasjärvi J, and Permi P
- Subjects
- Amino Acid Sequence, Protein Domains, Arabidopsis, Arabidopsis Proteins chemistry, Nuclear Magnetic Resonance, Biomolecular, Nuclear Proteins chemistry
- Abstract
The A. thaliana RCD1 (radical-induced cell death1) protein is a cellular signaling hub protein which interacts with numerous plant transcription factors from different families. It consists of three conserved domains and intervening unstructured regions, the C-terminal RST domain being responsible for the interactions with the transcription factors. It has been shown that many partner proteins interact with RCD1 RST via their intrinsically disordered regions, and that the domain is able to house partners with divergent folds. We aim to structurally characterize the RCD1 RST domain and its complexes [complex with DREB2A]. Here we report the
1 H,15 N and13 C chemical shift assignments of the backbone and sidechain atoms for RCD1 (468-589) containing the RST (510-567) domain.- Published
- 2017
- Full Text
- View/download PDF
49. The IDA-LIKE peptides IDL6 and IDL7 are negative modulators of stress responses in Arabidopsis thaliana.
- Author
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Vie AK, Najafi J, Winge P, Cattan E, Wrzaczek M, Kangasjärvi J, Miller G, Brembu T, and Bones AM
- Subjects
- Arabidopsis genetics, Arabidopsis growth & development, Arabidopsis Proteins metabolism, Arabidopsis physiology, Arabidopsis Proteins genetics, Gene Expression Regulation, Plant, Stress, Physiological genetics
- Abstract
Small signalling peptides have emerged as important cell to cell messengers in plant development and stress responses. However, only a few of the predicted peptides have been functionally characterized. Here, we present functional characterization of two members of the IDA-LIKE (IDL) peptide family in Arabidopsis thaliana, IDL6 and IDL7. Localization studies suggest that the peptides require a signal peptide and C-terminal processing to be correctly transported out of the cell. Both IDL6 and IDL7 appear to be unstable transcripts under post-transcriptional regulation. Treatment of plants with synthetic IDL6 and IDL7 peptides resulted in down-regulation of a broad range of stress-responsive genes, including early stress-responsive transcripts, dominated by a large group of ZINC FINGER PROTEIN (ZFP) genes, WRKY genes, and genes encoding calcium-dependent proteins. IDL7 expression was rapidly induced by hydrogen peroxide, and idl7 and idl6 idl7 double mutants displayed reduced cell death upon exposure to extracellular reactive oxygen species (ROS). Co-treatment of the bacterial elicitor flg22 with IDL7 peptide attenuated the rapid ROS burst induced by treatment with flg22 alone. Taken together, our results suggest that IDL7, and possibly IDL6, act as negative modulators of stress-induced ROS signalling in Arabidopsis., (© The Author 2017. Published by Oxford University Press on behalf of the Society for Experimental Biology.)
- Published
- 2017
- Full Text
- View/download PDF
50. Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch.
- Author
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Salojärvi J, Smolander OP, Nieminen K, Rajaraman S, Safronov O, Safdari P, Lamminmäki A, Immanen J, Lan T, Tanskanen J, Rastas P, Amiryousefi A, Jayaprakash B, Kammonen JI, Hagqvist R, Eswaran G, Ahonen VH, Serra JA, Asiegbu FO, de Dios Barajas-Lopez J, Blande D, Blokhina O, Blomster T, Broholm S, Brosché M, Cui F, Dardick C, Ehonen SE, Elomaa P, Escamez S, Fagerstedt KV, Fujii H, Gauthier A, Gollan PJ, Halimaa P, Heino PI, Himanen K, Hollender C, Kangasjärvi S, Kauppinen L, Kelleher CT, Kontunen-Soppela S, Koskinen JP, Kovalchuk A, Kärenlampi SO, Kärkönen AK, Lim KJ, Leppälä J, Macpherson L, Mikola J, Mouhu K, Mähönen AP, Niinemets Ü, Oksanen E, Overmyer K, Palva ET, Pazouki L, Pennanen V, Puhakainen T, Poczai P, Possen BJHM, Punkkinen M, Rahikainen MM, Rousi M, Ruonala R, van der Schoot C, Shapiguzov A, Sierla M, Sipilä TP, Sutela S, Teeri TH, Tervahauta AI, Vaattovaara A, Vahala J, Vetchinnikova L, Welling A, Wrzaczek M, Xu E, Paulin LG, Schulman AH, Lascoux M, Albert VA, Auvinen P, Helariutta Y, and Kangasjärvi J
- Subjects
- Adaptation, Biological genetics, Betula physiology, Finland, Gene Duplication, Genetics, Population, Phylogeny, Population Density, Betula genetics, Genome, Plant, Plant Proteins genetics, Polymorphism, Single Nucleotide
- Abstract
Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make birch an attractive model for forest biotechnology. We assembled and chromosomally anchored the nuclear genome of an inbred B. pendula individual. Gene duplicates from the paleohexaploid event were enriched for transcriptional regulation, whereas tandem duplicates were overrepresented by environmental responses. Population resequencing of 80 individuals showed effective population size crashes at major points of climatic upheaval. Selective sweeps were enriched among polyploid duplicates encoding key developmental and physiological triggering functions, suggesting that local adaptation has tuned the timing of and cross-talk between fundamental plant processes. Variation around the tightly-linked light response genes PHYC and FRS10 correlated with latitude and longitude and temperature, and with precipitation for PHYC. Similar associations characterized the growth-promoting cytokinin response regulator ARR1, and the wood development genes KAK and MED5A.
- Published
- 2017
- Full Text
- View/download PDF
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