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4. Genomic insights into CKX genes: key players in cotton fibre development and abiotic stress responses.

Author

Hamid, Rasmieh, Jacob, Feba, Ghorbanzadeh, Zahra, Khayam Nekouei, Mojtaba, Zeinalabedini, Mehrshad, Mardi, Mohsen, Sadeghi, Akram, Kumar, Sushil, and Ghaffari, Mohammad Reza

Subjects
ABIOTIC stress, GENE families, GENES, PROMOTERS (Genetics), GENE silencing, PHYSIOLOGICAL effects of cold temperatures, HOMEOBOX genes
Abstract

Cytokinin oxidase/dehydrogenase (CKX), responsible for irreversible cytokinin degradation, also controls plant growth and development and response to abiotic stress. While the CKX gene has been studied in other plants extensively, its function in cotton is still unknown. Therefore, a genome-wide study to identify the CKX gene family in the four cotton species was conducted using transcriptomics, quantitative real-time PCR (qRT-PCR) and bioinformatics. As a result, in G. hirsutum and G. barbadense (the tetraploid cotton species), 87 and 96 CKX genes respectively and 62 genes each in G. arboreum and G. raimondii, were identified. Based on the evolutionary studies, the cotton CKX gene family has been divided into five distinct subfamilies. It was observed that CKX genes in cotton have conserved sequence logos and gene family expansion was due to segmental duplication or whole genome duplication (WGD). Collinearity and multiple synteny studies showed an expansion of gene families during evolution and purifying selection pressure has been exerted. G. hirsutum CKX genes displayed multiple exons/introns, uneven chromosomal distribution, conserved protein motifs, and cis-elements related to growth and stress in their promoter regions. Cis-elements related to resistance, physiological metabolism and hormonal regulation were identified within the promoter regions of the CKX genes. Expression analysis under different stress conditions (cold, heat, drought and salt) revealed different expression patterns in the different tissues. Through virus-induced gene silencing (VIGS), the GhCKX34A gene was found to improve cold resistance by modulating antioxidant-related activity. Since GhCKX29A is highly expressed during fibre development, we hypothesize that the increased expression of GhCKX29A in fibres has significant effects on fibre elongation. Consequently, these results contribute to our understanding of the involvement of GhCKXs in both fibre development and response to abiotic stress. [ABSTRACT FROM AUTHOR]

Published
2024
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6. Assessing the performance of Moghani crossbred lambs derived from different mating systems with Texel and Booroola sheep.

Author

Talebi, Reza, Mardi, Mohsen, Zeinalabedini, Mehrshad, Kazemi Alamouti, Mehrbano, Fabre, Stéphane, and Ghaffari, Mohammad Reza

Subjects
*SHEEP, *LAMBS, *SHEEP breeds, *CROSSBREEDING, *SHEEP breeding, *MULTIPLE birth, *INTROGRESSION (Genetics)
Abstract

In our ongoing project, which focuses on the introgression of Booroola/FecB gene and the myostatin (MSTN) gene into purebred Moghani sheep, we assessed the performance of second-generation Moghani crossbreds such as second crossbreds (F2) and initial backcross generation (BC1). These crossbreds were generated through different mating systems, including in-breeding, outcrossing, first paternal backcrossing (PBC1), and first maternal backcrossing (MBC1). Notably, F2 strains exhibited lean tail, woolly fleece and a higher percentage of white coat color compared to BC1. The impact of mating systems and birth types on pre-weaning survival rates was found to be statistically significant (P < 0.0001), with singleton offspring resulting from paternal backcross showing a particularly substantial effect. The F2 crossbred lambs carrying the Booroola gene did not show a statistically significant difference in survivability compared to those carrying the MSTN gene, implying the Booroola prolificacy gene had no significant impact on survival outcomes. However, the occurrence of multiple births had a significant negative impact on lamb survival (P < 0.0001). The PBC1 sheep strains, specifically Texel Tamlet ram strains carrying the MSTN mutation, exhibited superior growth rates compared to others (P < 0.05). Interestingly, the MSTN mutation in the homozygous variant genotype significantly impacts growth rate before weaning compared to other genotypes and pure Moghani sheep (P < 0.05). In conclusion, this study objectively underscores the pivotal role of genetic factors, specifically through strategic mating systems like paternal backcrossing, in enhancing desired traits and growth rates in Moghani sheep, thereby contributing valuable insights to the field of sheep breeding programs. [ABSTRACT FROM AUTHOR]

Published
2024
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8. 4th Conference of Cereal Biotechnology and Breeding jointly organized by EUCARPIA Cereal Section November 6–9, 2017 • Budapest, Hungary : BOOK OF ABSTRACTS

Author

Consortium INEW, PPP Barley Consortium, Börner, Andreas, Nagel, Manuela, Tarawneh, Rasha, Arif, Mian Abdur Rehman, Agacka-Mołdoch, Monika, Börner, Mariann, Lohwasser, Ulrike, Rieweach, David, Wieb, Janine, Altmann, Thomas, Góralska, Magdalena, Lenarczyk-Puri, Natalia, Podgórska, Katarzyna, Berdzik, Marcin, Stojałowski, Stefan, Myśków, Beata, Kiss, Tibor, Veisz, Ottó, Karsai, Ildikó, Martín, Antonio, Rasmussen, Søren K., Legzdina, Linda, Fan, Weiyao, Tikhenko, Natalia, Rutten, Twan, Senula, Angelika, Rubtsova, Myroslava, Keller, E. R. Joachim, Vitányi, Beáta, Nagy, Katalin, Fekete, Anna Katalin, Dudás, Brigitta, Lantos, Csaba, Pauk, János, Jenes, Barnabás, Yu, Bianyun, Zhang, Wentao, Gao, Peng, Sidebottom, Christine, Lokuruge, Prabhath, Polley, Brittany, Clarke, Carling, Sharpe, Andrew, Knox, Ron, Cuthbert, Richard, Ruan, Yuefeng, Pozniak, Curtis J., Fobert, Pierre, Dziurka, Kinga, Noga, Angelika, Marcińska, Izabela, Czyczyło-Mysza, Ilona, Warchoł, Marzena, Kapłoniak, Kamila, Warzecha, Tomasz, Sutkowska, Agnieszka, Werwińska, Krystyna, Nita, Zygmunt, Skrzypek, Edyta, Fradgley, Nick, Bentley, Alison, Gardner, Keith, Howell, Phil, Mackay, Ian, Scott, Mike, Mott, Richard, Cockram, James, Galani, Saddia, Sahar, Shagufta, Musharraf, Syed Ghulam, Azhar, Abid, Ferjaoui, Sahbi, Bouslimi, Chadha, Udupa, Sripada M., Hamza, Sonia, Mariana, Ittu, Ciuca, Matilda, Marinciu, Cristina, Cristina, Daniel, Turcu, Alina, Mandea, Vasile, Ittu, Gheorghe, Jabłoński, Bartosz, Onyśk, Agnieszka, Wyszyńska, Renata, Boczkowska, Maja, Przyborowski, Mateusz, Gasparis, Sebastian, Orczyk, Wacław, Nadolska-Orczyk, Anna, Bińkowski, Jan, Kubiś, Jakub, Pogorzelska, Katarzyna, Pellny, Till K, Bolibok-Brągoszewska, Hanna, Idziak-Helmcke, Dominika, Rojek, Magdalena, Hosiawa-Barańska, Marta, Tsai, Hsin-Yuan, Cericola, Fabio, Edriss, Vahid, Andersen, Jeppe, Orabi, Jihad, Jensen, Jens, Jahoor, Ahmed, Janss, Luc, Jensen, Just, Lawrenson, Tom, Hayta, Sadiye, Smedley, Mark, Hinchliffe, Alison, Harwood, Wendy, Gimenez, Guillermo G., Barakate, Abdellah, Russell, Joanne, Stephens, Jennifer, Lampugnani, Edwin R., Doblin, Monika S., Fincher, Geoffrey B., Burton, Rachel A., Waugh, Robbie, Tucker, Matthew, Houston, Kelly, Jouanin, Aurelie, Leigh, Fiona, Wallington, Emma, Schaart, Jan, Smulders, Marinus J.M., Kała, Maciej, Kim, Sung-Yong, Brueggeman, Robert, Åhman, Inger, Zhu, Li-Hua, Bouchet, Sophie, Lemarié, Stéphane, Fugeray-Scarbel, Aline, Auzanneau, Jérôme, Charmet, Gilles, Ali, Ahmad, Mastrangelo, Anna Maria, De Vita, Pasquale, Laido, Giovanni, Marone, Daniale, Arshad, Muhammad, Naqvi, S.M. Sawlan, Sher, Hassan, Rasheed, Awais, Kazi, Abdul Mujeeb, Oakey, Helena, Bayer, Micha, Macaulay, Malcolm, Byrt, Caitlin, Gilliham, Matthew, Salt, David E, István, Monostori, Fruzsina, Szira, Alessandro, Tondelli, Tamás, Árendás, Krisztián, Gierczik, Luigi, Cattivelli, Gábor, Galiba, Attila, Vágújfalvi, Bakuma, Alla, Chebotar, Galyna, Filimonov, Vadim, Kyrylyuk, Tetyana, Chebotar, Sabina, Kristensen, Peter Skov, Andersen, Jeppe Reitan, Guzmán, Carlos, Schurr, Ulrich, Pieruschka, Roland, Neumann, Kerstin, Zhao, Yusheng, Dhanagond, Sidram, Reif, Jochen C., Graner, Andreas, Raymaekers, Dries, Taylor, Mike, Åhman, Inger M., Crespo-Herrera, Leonardo A., Kobiljski, Borislav, Mladenović, Gojko, Jestrović, Zorica, Jancsó, Mihály, Ács, Katalin, Bóna, Lajos, Purgel, Szandra, Békés, Ferenc, Schwember, A.R., Matus, I., Sharma, Dew Kumari, Rosenqvist, Eva, Carl-Otto-Ottosen, Torp, Anna Maria, Andersen, Sven Bode, El-Haddoury, Jamal, Henkrar, Fatima, Grana, Zahra, Nyiraguhirwa, Solange, Gyawali, Sanjaya, Verma, Ramesh, Ouabbou, Hassan, Ibriz, Mohammed, Iraqi, Driss, Forgeois, Paul, Grausgruber, Heinrich, Cuendet, Catherine, Dell’Avo, Franca, Koppel, Reine, Weyermann, Verena, Mikó, Péter, Vida, Gyula, Rakszegi, Marianna, Lafferty, Julia, Lorentz, Bruno, Longin, Carl Friedrich Horst, Megyeri, Mária, Kaskarbayev, Zheksenbay, Zhloba, Ludmila, Kiyas, Aldabergen, Kunanbayev, Kairat, Churkina, Galina, Zueva, Nataliya, Cattivelli, Luigi, Guerra, Davide, Tondelli, Alessandro, Bustos-Korts, D., Rizza, Fulvia, Bretani, Gianluca, Ferrandi, Chiara, Lazzari, Barbara, Rossini, Laura, Ozkan, Hakan, Molnar-Lang, Marta, van Eeuwijk, Fred, Dawson, Ian K, Fricano, Agostino, Azad, Md. Abul Kalam, Kamruzzaman, Md., Yasmine, Fahmina, Islam, Mirza Mofazzal, Jankuloski, Ljupcho, Christopher, John (Jack), Anzooman, Monia, Menzies, Neal, Dalal, Ram, Dang, Yash, Novák, Aliz, Boldizsár, Ákos, Gierczik, Krisztián, Mohamed, Ahres, Ádám, Éva, Bognár, László Kozma, Vágújfalvi, Attila, Båga, Monica, Chibbar, Ravindra, Galiba, Gábor, Gottwald, Sven, Bhandari, Dhaka Ram, Wang, Qing, Li, Bin, Römpp, Andreas, Friedt, Wolfgang, Spengler, Bernhard, Jäger, Katalin, Sáfrán, Eszter, Fábián, Attila, Deák, Csilla, Papp, István, Barnabás, Beáta, Mesterhazy, Akos, Varga, Mónika, Bartók, Tibor, Lehoczki-Krjak, Szabolcs, Toth, Beata, Miloud, Hafsi, Pál, Magda, Szalai, Gabriella, Janda, Tibor, Molnár, István, Lovegrove, Alison, Darkó, Éva, Farkas, András, Láng, László, Bedő, Zoltán, Doležel, Jaroslav, Molnár-Láng, Márta, Shewry, Peter, Tiryakioğlu, Murat, Sakallı, Abdulla, Alloudane, Rajae, El Mourabit, Nourdin, Barrijal, Said, Bengtsson, Therése, Manninen, Outi, Bulatova, Kulpash, Mazkirat, Shynar, Babissekova, Dilyara, Aytimbetova, Klara, Goncharova, Anastasiya, Lavrinenko, Yuriy, Bazaliy, Galyna, Cope, Jonathan, Norton, Gareth, George, Timothy, Newton, Adrian, Császár, Orsolya, Lajos, Károly, Szalai, Márk, Dziurka, Michał, Dashkevich, Svetlana, Utebayev, Maral, Chilimova, Irina, Babkenov, Adilchan, Akhmetova, Galiya, Chaimae, Senhaji, Khadija, Ahansal, Rabha, Abdelwahd, Allal, Douira, Driss, Iraqi, Gracz, Joanna, Karłowski, Wojciech, Kuczyński, Jakub, Tyczewska, Agata, Haberle, Jan, Svoboda, Pavel, Neumannová, Adéla, Kurešová, Gabriela, Raimanová, Ivana, Holková, Ludmila, Solařová, Eva, Bradáčová, Marta, Smutná, Pavlína, Horčička, P., Pospíšilová, V., Veškrna, O., Bížova, I., Chrpova, J., Sumíková, T., Ittu, Mariana, Marinciu, Cristina Mihaela, Voica, Maria, Banateanu, Cecilia, Mayer, Marianna, Karsai, Idikó, Mirosavljević, Milan, Momčilović, Vojislava, Mikić, Sanja, Trkulja, Dragana, Denčić, Srbislav, Jocković, Bojan, Aćin, Vladimir, Pržulj, Novo, Nakhoda, Babak, Mohammadi-Nejad, Ghasem, Mardi, Mohsen, Amini, Ashkboos, Tabatabaei, Mohammad-Taghi, Parsayev, Evgeniy, Filippova, Nadezhda, Permana, Hadian, Ishii, Kazuo, Murata, Kazumasa, Yamada, Tetsuya, Kanekatsu, Motoki, Prokesova, Lenka, Smutna, Pavlina, Holkova, Ludmila, Rukavitsina, Irina, Suleimenov, Mechlis, Yerpasheva, Dana, Shtefan, Galina, Ivanova, Galina, Ferderer, Ella, Kalapos, Balázs, Ahres, Mohamed, Székely, András, Gulyás, Zsolt, Kovács, Kristóf, Jones, Huw D, Dalmay, Tamás, Soltész, Alexandra, Trávníčková, Martina, Chrpová, Jana, Martinek, Petr, Hnilička, František, Żywicki, Marek, Twardowski, Tomasz, Végh, Balázs, Marček, Tihana, Wiśniewska, Halina, Kwiatek, Michał, Majka, Maciej, Gawłowska, Magdalena, Korbas, Marek, Danielewicz, Jakub, Belter, Jolanta, Bilgrami, Sayedeh Saba, Sichani, Jalal Sabouri, Zandi, Peiman, Zhunusbayeva, Zhazira, Omirbekova, Nargul, Zhussupova, Aizhan, Mursalieva, Valentina, Nam, Svetlana, Żur, Iwona, Surówka, Ewa, Dubas, Ewa, Nowicka, Anna, Krzewska, Monika, Hura, Tomasz, Rapacz, Marcin, Wójcik-Jagła, Magdalena, Ostrowska, Agnieszka, Malaga, Sabina, Janowiak, Franciszek, Pellny, Till, Patil, Archana, Freeman, Jackie, Plummer, Amy, Hess, Linde, Phillips, Andy, Berry, Simon, Mitchell, Rowan, Larkin, Philip, Tanner, Gregory, Colgrave, Michelle, Blundell, Malcolm, Howitt, Crispin, Morita, Naofumi, Van Hung, Pham, Cegiełko, Małgorzata, Kiecana, Irena, Mielniczuk, Elżbieta, Pastucha, Alina, Perkowski, Juliusz, Áy, Zoltán, Czirle, Csaba, Palágyi, András, Mihály, Róbert, Vermeulen, Philippe, Suman, Michele, Pierna, Juan Antonio Fernández, and Baeten, Vincent

Published
2017

11. Comparison of the growth performance between pure Moghani sheep and crosses with Texel or Booroola sheep carrying major genes contributing to muscularity and prolificacy.

Author

Talebi, Reza, Ghaffari, Mohammad Reza, Fabre, Stéphane, Mardi, Mohsen, and Kazemi Alamouti, Mehrbano

Subjects
LAMBS, EWES, SHEEP, SHEEP breeds, MUSCLE strength, BIRTH weight, SHEEP breeding
Abstract

This study aimed to compare growth performance between Moghani sheep and crossbred lambs resulting from crossbreeding between Moghani pure breed ewes and the lines of rams e.g., Texel Tamlet, Texel Dalzell, Booroola Merino, and Booroola Romney. The first visible phenotypic characteristic was the presence of lean tail in all F1 crossbred lambs, whereas Moghani pure sheep is a well-known large fat-tailed breed. Moreover, the first generation of backcross (BC1) lambs from mating four types of F1 crossbred rams with Moghani pure ewes revealed lean-tailed to short fat-tailed. Comparative results showed that the F1 crossbred lambs had significantly (p < 0.0001) greater birth weight (BW) than the Moghani pure breed lambs. Despite no significant differences observed between Moghani pure breed sheep and its F1 crossbred lambs for body weight at pre-weaning, but F1 crossbred lambs achieved significantly (p < 0.0001) greater body weight after weaning compared to Moghani sheep. The growth performance of BC1 lambs was outperformed than F1 crossbred and Moghani sheep. These results encourage the continuation of the Moghani sheep crossbreeding programs to improve overall lamb growth, particularly post-weaning and to benefit from a better reproductive efficiency by elimination or reduction of the fat tail. [ABSTRACT FROM AUTHOR]

Published
2023
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31. Identification of genes differentially expressed during interaction of Mexican lime tree infected with 'Candidatus Phytoplasma aurantifolia'

Author

Nekouei Mojtaba, Hasanzadeh Nader, Alavi Seyed, Mardi Mohsen, Zamharir Maryam, Zamanizadeh Hamid, Alizadeh Ali, and Salekdeh Ghasem

Subjects
Microbiology, QR1-502
Abstract

Abstract Background "Candidatus Phytoplasma aurantifolia", is the causative agent of witches' broom disease in Mexican lime trees (Citrus aurantifolia L.), and is responsible for major losses of Mexican lime trees in Southern Iran and Oman. The pathogen is strictly biotrophic, and thus is completely dependent on living host cells for its survival. The molecular basis of compatibility and disease development in this system is poorly understood. Therefore, we have applied a cDNA- amplified fragment length polymorphism (AFLP) approach to analyze gene expression in Mexican lime trees infected by "Ca. Phytoplasma aurantifolia". Results We carried out cDNA-AFLP analysis on grafted infected Mexican lime trees of the susceptible cultivar at the representative symptoms stage. Selective amplifications with 43 primer combinations allowed the visualisation of 55 transcript-derived fragments that were expressed differentially between infected and non-infected leaves. We sequenced 51 fragments, 36 of which were identified as lime tree transcripts after homology searching. Of the 36 genes, 70.5% were down-regulated during infection and could be classified into various functional groups. We showed that Mexican lime tree genes that were homologous to known resistance genes tended to be repressed in response to infection. These included the genes for modifier of snc1 and autophagy protein 5. Furthermore, down-regulation of genes involved in metabolism, transcription, transport and cytoskeleton was observed, which included the genes for formin, importin β 3, transducin, L-asparaginase, glycerophosphoryl diester phosphodiesterase, and RNA polymerase β. In contrast, genes that encoded a proline-rich protein, ubiquitin-protein ligase, phosphatidyl glycerol specific phospholipase C-like, and serine/threonine-protein kinase were up-regulated during the infection. Conclusion The present study identifies a number of candidate genes that might be involved in the interaction of Mexican lime trees with "Candidatus Phytoplasma aurantifolia". These results should help to elucidate the molecular basis of the infection process and to identify genes that could be targeted to increase plant resistance and inhibit the growth and reproduction of the pathogen.

Published
2011
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32. Study of QTLs linked to awn length and their relationships with chloroplasts under control and saline environments in bread wheat

Author

Masoudi, Bahram, primary, Mardi, Mohsen, additional, Hervan, Eslam Majidi, additional, Bihamta, Mohammad Reza, additional, Naghavi, Mohammad Reza, additional, Nakhoda, Babak, additional, Bakhshi, Behnam, additional, Ahmadi, Mehrzad, additional, Tabatabaei, Mohammad Taghi, additional, and Firouzabadi, Mohamad Hossein Dehghani, additional

Published
2018
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37. Imposed starvation for in vitro maintenance and high regeneration of elite key lime (Citrus aurantifolia).

Author

Soheilivand, Saeed, Mousavi, Amir, Safarnejad, Mohammad Reza, Farrokhi, Naser, Mardi, Mohsen, Tohidfar, Masoud, and Alavi, Seyed Mehdi

Subjects
MEXICAN lime, PLANT genomes, GENOTYPES, PLANT breeding, PLANT micropropagation
Abstract

Preservation of elite key lime (Citrus aurantifolia) genotypes using efficient micropropagation and regeneration protocols is very important for new breeding programmes. The objective of the present study was to develop an efficient protocol for micropropagation and maintenance of elite genotypes of key lime based on slow growth and starvation strategy. To do this, regenerated shoots were starved, and the growth was compromised via avoiding subcultures for 4, 8, 12 and 24 months. The numbers of responsive explants and adventitious shoots per each explant were evaluated in the presence of benzylaminopurine (BAP). The results showed that the 12- and 24-month starved explants treated with 1 mg/l BAP were able to produce four times more shoots than the control. In addition, the influences of horizontal or vertical layering explants over medium were evaluated. The results indicated that all horizontally layered explants significantly produced 25% adventitious shoots more than vertical explants, most likely owing to more contact with the surface medium. Finally, it could be concluded that application of slow growth, starvation strategy and also horizontally layering of the explants could efficiently enhance micropropagation and maintenance of threatened elite key lime genotypes with a low cost. [ABSTRACT FROM AUTHOR]

Published
2018
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40. QTL Mapping of Yield and Yield Components under Normal and Salt-stress Conditions in Bread Wheat (Triticum aestivum L.)

Author

Azadi, Amin, primary, Mardi, Mohsen, additional, Hervan, Eslam Majidi, additional, Mohammadi, Seyed Abolghasem, additional, Moradi, Foad, additional, Tabatabaee, Mohammad Taghi, additional, Pirseyedi, Seyed Mostafa, additional, Ebrahimi, Mohsen, additional, Fayaz, Farzad, additional, Kazemi, Mehrbano, additional, Ashkani, Sadegh, additional, Nakhoda, Babak, additional, and Mohammadi-Nejad, Ghasem, additional

Published
2014
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42. Imposed starvation for in vitromaintenance and high regeneration of elite key lime (Citrus aurantifolia)

Author

Soheilivand, Saeed, Mousavi, Amir, Safarnejad, Mohammad Reza, Farrokhi, Naser, Mardi, Mohsen, Tohidfar, Masoud, and Alavi, Seyed Mehdi

Abstract

ABSTRACTPreservation of elite key lime (Citrus aurantifolia) genotypes using efficient micropropagation and regeneration protocols is very important for new breeding programmes. The objective of the present study was to develop an efficient protocol for micropropagation and maintenance of elite genotypes of key lime based on slow growth and starvation strategy. To do this, regenerated shoots were starved, and the growth was compromised via avoiding subcultures for 4, 8, 12 and 24 months. The numbers of responsive explants and adventitious shoots per each explant were evaluated in the presence of benzylaminopurine (BAP). The results showed that the 12- and 24-month starved explants treated with 1 mg/l BAP were able to produce four times more shoots than the control. In addition, the influences of horizontal or vertical layering explants over medium were evaluated. The results indicated that all horizontally layered explants significantly produced 25% adventitious shoots more than vertical explants, most likely owing to more contact with the surface medium. Finally, it could be concluded that application of slow growth, starvation strategy and also horizontally layering of the explants could efficiently enhance micropropagation and maintenance of threatened elite key lime genotypes with a low cost.

Published
2018
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43. Guidelines for the use and interpretation of assays for monitoring autophagy.

Author

Luxembourg Centre for Systems Biomedicine (LCSB): Clinical & Experimental Neuroscience (Krüger Group) [research center], Klionsky, Daniel J., Abdalla, Fabio C., Abeliovich, Hagai, Abraham, Robert T., Acevedo-Arozena, Abraham, Adeli, Khosrow, Agholme, Lotta, Agnello, Maria, Agostinis, Patrizia, Aguirre-Ghiso, Julio A., Ahn, Hyung Jun, Ait-Mohamed, Ouardia, Ait-Si-Ali, Slimane, Akematsu, Takahiko, Akira, Shizuo, Al-Younes, Hesham M., Al-Zeer, Munir A., Albert, Matthew L., Albin, Roger L., Alegre-Abarrategui, Javier, Aleo, Maria Francesca, Alirezaei, Mehrdad, Almasan, Alexandru, Almonte-Becerril, Maylin, Amano, Atsuo, Amaravadi, Ravi, Amarnath, Shoba, Amer, Amal O., Andrieu-Abadie, Nathalie, Anantharam, Vellareddy, Ann, David K., Anoopkumar-Dukie, Shailendra, Aoki, Hiroshi, Apostolova, Nadezda, Arancia, Giuseppe, Aris, John P., Asanuma, Katsuhiko, Asare, Nana Y. O., Ashida, Hisashi, Askanas, Valerie, Askew, David S., Auberger, Patrick, Baba, Misuzu, Backues, Steven K., Baehrecke, Eric H., Bahr, Ben A., Bai, Xue-Yuan, Bailly, Yannick, Baiocchi, Robert, Baldini, Giulia, Balduini, Walter, Ballabio, Andrea, Bamber, Bruce A., Bampton, Edward T. W., Banhegyi, Gabor, Bartholomew, Clinton R., Bassham, Diane C., Bast, Robert C. Jr, Batoko, Henri, Bay, Boon-Huat, Beau, Isabelle, Bechet, Daniel M., Begley, Thomas J., Behl, Christian, Behrends, Christian, Bekri, Soumeya, Bellaire, Bryan, Bendall, Linda J., Benetti, Luca, Berliocchi, Laura, Bernardi, Henri, Bernassola, Francesca, Besteiro, Sebastien, Bhatia-Kissova, Ingrid, Bi, Xiaoning, Biard-Piechaczyk, Martine, Blum, Janice S., Boise, Lawrence H., Bonaldo, Paolo, Boone, David L., Bornhauser, Beat C., Bortoluci, Karina R., Bossis, Ioannis, Bost, Frederic, Bourquin, Jean-Pierre, Boya, Patricia, Boyer-Guittaut, Michael, Bozhkov, Peter V., Brady, Nathan R., Brancolini, Claudio, Brech, Andreas, Brenman, Jay E., Brennand, Ana, Bresnick, Emery H., Brest, Patrick, Bridges, Dave, Bristol, Molly L., Brookes, Paul S., Brown, Eric J., Brumell, John H., Brunetti-Pierri, Nicola, Brunk, Ulf T., Bulman, Dennis E., Bultman, Scott J., Bultynck, Geert, Burbulla, Lena F., Bursch, Wilfried, Butchar, Jonathan P., Buzgariu, Wanda, Bydlowski, Sergio P., Cadwell, Ken, Cahova, Monika, Cai, Dongsheng, Cai, Jiyang, Cai, Qian, Calabretta, Bruno, Calvo-Garrido, Javier, Camougrand, Nadine, Campanella, Michelangelo, Campos-Salinas, Jenny, Candi, Eleonora, Cao, Lizhi, Caplan, Allan B., Carding, Simon R., Cardoso, Sandra M., Carew, Jennifer S., Carlin, Cathleen R., Carmignac, Virginie, Carneiro, Leticia A. M., Carra, Serena, Caruso, Rosario A., Casari, Giorgio, Casas, Caty, Castino, Roberta, Cebollero, Eduardo, Cecconi, Francesco, Celli, Jean, Chaachouay, Hassan, Chae, Han-Jung, Chai, Chee-Yin, Chan, David C., Chan, Edmond Y., Chang, Raymond Chuen-Chung, Che, Chi-Ming, Chen, Ching-Chow, Chen, Guang-Chao, Chen, Guo-Qiang, Chen, Min, Chen, Quan, Chen, Steve S.-L., Chen, Wenli, Chen, Xihui, Chen, Xiangmei, Chen, Xiequn, Chen, Ye-Guang, Chen, Yingyu, Chen, Yongqiang, Chen, Yu-Jen, Chen, Zhixiang, Cheng, Alan, Cheng, Christopher H. K., Cheng, Yan, Cheong, Heesun, Cheong, Jae-Ho, Cherry, Sara, Chess-Williams, Russ, Cheung, Zelda H., Chevet, Eric, Chiang, Hui-Ling, Chiarelli, Roberto, Chiba, Tomoki, Chin, Lih-Shen, Chiou, Shih-Hwa, Chisari, Francis V., Cho, Chi Hin, Cho, Dong-Hyung, Choi, Augustine M. 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M., Michiels, Carine, Mijaljica, Dalibor, Milojkovic, Ana, Minucci, Saverio, Miracco, Clelia, Miranti, Cindy K., Mitroulis, Ioannis, Miyazawa, Keisuke, Mizushima, Noboru, Mograbi, Baharia, Mohseni, Simin, Molero, Xavier, Mollereau, Bertrand, Mollinedo, Faustino, Momoi, Takashi, Monastyrska, Iryna, Monick, Martha M., Monteiro, Mervyn J., Moore, Michael N., Mora, Rodrigo, Moreau, Kevin, Moreira, Paula I., Moriyasu, Yuji, Moscat, Jorge, Mostowy, Serge, Mottram, Jeremy C., Motyl, Tomasz, Moussa, Charbel E.-H., Muller, Sylke, Muller, Sylviane, Munger, Karl, Munz, Christian, Murphy, Leon O., Murphy, Maureen E., Musaro, Antonio, Mysorekar, Indira, Nagata, Eiichiro, Nagata, Kazuhiro, Nahimana, Aimable, Nair, Usha, Nakagawa, Toshiyuki, Nakahira, Kiichi, Nakano, Hiroyasu, Nakatogawa, Hitoshi, Nanjundan, Meera, Naqvi, Naweed I., Narendra, Derek P., Narita, Masashi, Navarro, Miguel, Nawrocki, Steffan T., Nazarko, Taras Y., Nemchenko, Andriy, Netea, Mihai G., Neufeld, Thomas P., Ney, Paul A., Nezis, Ioannis P., Nguyen, Huu Phuc, Nie, Daotai, Nishino, Ichizo, Nislow, Corey, Nixon, Ralph A., Noda, Takeshi, Noegel, Angelika A., Nogalska, Anna, Noguchi, Satoru, Notterpek, Lucia, Novak, Ivana, Nozaki, Tomoyoshi, Nukina, Nobuyuki, Nurnberger, Thorsten, Nyfeler, Beat, Obara, Keisuke, Oberley, Terry D., Oddo, Salvatore, Ogawa, Michinaga, Ohashi, Toya, Okamoto, Koji, Oleinick, Nancy L., Oliver, F. Javier, Olsen, Laura J., Olsson, Stefan, Opota, Onya, Osborne, Timothy F., Ostrander, Gary K., Otsu, Kinya, Ou, Jing-Hsiung James, Ouimet, Mireille, Overholtzer, Michael, Ozpolat, Bulent, Paganetti, Paolo, Pagnini, Ugo, Pallet, Nicolas, Palmer, Glen E., Palumbo, Camilla, Pan, Tianhong, Panaretakis, Theocharis, Pandey, Udai Bhan, Papackova, Zuzana, Papassideri, Issidora, Paris, Irmgard, Park, Junsoo, Park, Ohkmae K., Parys, Jan B., Parzych, Katherine R., Patschan, Susann, Patterson, Cam, Pattingre, Sophie, Pawelek, John M., Peng, Jianxin, Perlmutter, David H., Perrotta, Ida, Perry, George, Pervaiz, Shazib, Peter, Matthias, Peters, Godefridus J., Petersen, Morten, Petrovski, Goran, Phang, James M., Piacentini, Mauro, Pierre, Philippe, Pierrefite-Carle, Valerie, Pierron, Gerard, Pinkas-Kramarski, Ronit, Piras, Antonio, Piri, Natik, Platanias, Leonidas C., Poggeler, Stefanie, Poirot, Marc, Poletti, Angelo, Pous, Christian, Pozuelo-Rubio, Mercedes, Praetorius-Ibba, Mette, Prasad, Anil, Prescott, Mark, Priault, Muriel, Produit-Zengaffinen, Nathalie, Progulske-Fox, Ann, Proikas-Cezanne, Tassula, Przedborski, Serge, Przyklenk, Karin, Puertollano, Rosa, Puyal, Julien, Qian, Shu-Bing, Qin, Liang, Qin, Zheng-Hong, Quaggin, Susan E., Raben, Nina, Rabinowich, Hannah, Rabkin, Simon W., Rahman, Irfan, Rami, Abdelhaq, Ramm, Georg, Randall, Glenn, Randow, Felix, Rao, V. 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V., Scharl, Michael, Schatzl, Hermann M., Scheper, Wiep, Schiaffino, Stefano, Schneider, Claudio, Schneider, Marion E., Schneider-Stock, Regine, Schoenlein, Patricia V., Schorderet, Daniel F., Schuller, Christoph, Schwartz, Gary K., Scorrano, Luca, Sealy, Linda, Seglen, Per O., Segura-Aguilar, Juan, Seiliez, Iban, Seleverstov, Oleksandr, Sell, Christian, Seo, Jong Bok, Separovic, Duska, Setaluri, Vijayasaradhi, Setoguchi, Takao, Settembre, Carmine, Shacka, John J., Shanmugam, Mala, Shapiro, Irving M., Shaulian, Eitan, Shaw, Reuben J., Shelhamer, James H., Shen, Han-Ming, Shen, Wei-Chiang, Sheng, Zu-Hang, Shi, Yang, Shibuya, Kenichi, Shidoji, Yoshihiro, Shieh, Jeng-Jer, Shih, Chwen-Ming, Shimada, Yohta, Shimizu, Shigeomi, Shintani, Takahiro, Shirihai, Orian S., Shore, Gordon C., Sibirny, Andriy A., Sidhu, Stan B., Sikorska, Beata, Silva-Zacarin, Elaine C. 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Lindsay, Whitworth, Alexander J., Wileman, Tom, Wiley, John W., Wilkinson, Simon, Willbold, Dieter, Williams, Roger L., Williamson, Peter R., Wouters, Bradly G., Wu, Chenghan, Wu, Dao-Cheng, Wu, William K. K., Wyttenbach, Andreas, Xavier, Ramnik J., Xi, Zhijun, Xia, Pu, Xiao, Gengfu, Xie, Zhiping, Xie, Zhonglin, Xu, Da-Zhi, Xu, Jianzhen, Xu, Liang, Xu, Xiaolei, Yamamoto, Ai, Yamamoto, Akitsugu, Yamashina, Shunhei, Yamashita, Michiaki, Yan, Xianghua, Yanagida, Mitsuhiro, Yang, Dun-Sheng, Yang, Elizabeth, Yang, Jin-Ming, Yang, Shi Yu, Yang, Wannian, Yang, Wei Yuan, Yang, Zhifen, Yao, Meng-Chao, Yao, Tso-Pang, Yeganeh, Behzad, Yen, Wei-Lien, Yin, Jia-Jing, Yin, Xiao-Ming, Yoo, Ook-Joon, Yoon, Gyesoon, Yoon, Seung-Yong, Yorimitsu, Tomohiro, Yoshikawa, Yuko, Yoshimori, Tamotsu, Yoshimoto, Kohki, You, Ho Jin, Youle, Richard J., Younes, Anas, Yu, Li, Yu, Long, Yu, Seong-Woon, Yu, Wai Haung, Yuan, Zhi-Min, Yue, Zhenyu, Yun, Cheol-Heui, Yuzaki, Michisuke, Zabirnyk, Olga, Silva-Zacarin, Elaine, Zacks, David, Zacksenhaus, Eldad, Zaffaroni, Nadia, Zakeri, Zahra, Zeh, Herbert J. Rd, Zeitlin, Scott O., Zhang, Hong, Zhang, Hui-Ling, Zhang, Jianhua, Zhang, Jing-Pu, Zhang, Lin, Zhang, Long, Zhang, Ming-Yong, Zhang, Xu Dong, Zhao, Mantong, Zhao, Yi-Fang, Zhao, Ying, Zhao, Zhizhuang J., Zheng, Xiaoxiang, Zhivotovsky, Boris, Zhong, Qing, Zhou, Cong-Zhao, Zhu, Changlian, Zhu, Wei-Guo, Zhu, Xiao-Feng, Zhu, Xiongwei, Zhu, Yuangang, Zoladek, Teresa, Zong, Wei-Xing, Zorzano, Antonio, Zschocke, Jurgen, Zuckerbraun, Brian, Luxembourg Centre for Systems Biomedicine (LCSB): Clinical & Experimental Neuroscience (Krüger Group) [research center], Klionsky, Daniel J., Abdalla, Fabio C., Abeliovich, Hagai, Abraham, Robert T., Acevedo-Arozena, Abraham, Adeli, Khosrow, Agholme, Lotta, Agnello, Maria, Agostinis, Patrizia, Aguirre-Ghiso, Julio A., Ahn, Hyung Jun, Ait-Mohamed, Ouardia, Ait-Si-Ali, Slimane, Akematsu, Takahiko, Akira, Shizuo, Al-Younes, Hesham M., Al-Zeer, Munir A., Albert, Matthew L., Albin, Roger L., Alegre-Abarrategui, Javier, Aleo, Maria Francesca, Alirezaei, Mehrdad, Almasan, Alexandru, Almonte-Becerril, Maylin, Amano, Atsuo, Amaravadi, Ravi, Amarnath, Shoba, Amer, Amal O., Andrieu-Abadie, Nathalie, Anantharam, Vellareddy, Ann, David K., Anoopkumar-Dukie, Shailendra, Aoki, Hiroshi, Apostolova, Nadezda, Arancia, Giuseppe, Aris, John P., Asanuma, Katsuhiko, Asare, Nana Y. 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D., Demarchi, Francesca, Deng, Yi Zhen, Dengjel, Jorn, Dent, Paul, Denton, Donna, Deretic, Vojo, Desai, Shyamal D., Devenish, Rodney J., Di Gioacchino, Mario, Di Paolo, Gilbert, Di Pietro, Chiara, Diaz-Araya, Guillermo, Diaz-Laviada, Ines, Diaz-Meco, Maria T., Diaz-Nido, Javier, Dikic, Ivan, Dinesh-Kumar, Savithramma P., Ding, Wen-Xing, Distelhorst, Clark W., Diwan, Abhinav, Djavaheri-Mergny, Mojgan, Dokudovskaya, Svetlana, Dong, Zheng, Dorsey, Frank C., Dosenko, Victor, Dowling, James J., Doxsey, Stephen, Dreux, Marlene, Drew, Mark E., Duan, Qiuhong, Duchosal, Michel A., Duff, Karen, Dugail, Isabelle, Durbeej, Madeleine, Duszenko, Michael, Edelstein, Charles L., Edinger, Aimee L., Egea, Gustavo, Eichinger, Ludwig, Eissa, N. 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Abstract

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused o

Published
2012
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44. Guidelines for the use and interpretation of assays for monitoring autophagy

Author

Klionsky, Daniel J, Abdalla, Fabio C, Abeliovich, Hagai, Abraham, Robert T, Acevedo-Arozena, Abraham, Adeli, Khosrow, Agholme, Lotta, Agnello, Maria, Agostinis, Patrizia, Aguirre-Ghiso, Julio A, Ahn, Hyung Jun, Ait-Mohamed, Ouardia, Ait-Si-Ali, Slimane, Akematsu, Takahiko, Akira, Shizuo, Al-Younes, Hesham M, Al-Zeer, Munir A, Albert, Matthew L, Albin, Roger L, Alegre-Abarrategui, Javier, Aleo, Maria Francesca, Alirezaei, Mehrdad, Almasan, Alexandru, Almonte-Becerril, Maylin, Amano, Atsuo, Amaravadi, Ravi, Amarnath, Shoba, Amer, Amal O, Andrieu-Abadie, Nathalie, Anantharam, Vellareddy, Ann, David K, Anoopkumar-Dukie, Shailendra, Aoki, Hiroshi, Apostolova, Nadezda, Auberger, Patrick, Baba, Misuzu, Backues, Steven K, Baehrecke, Eric H, Bahr, Ben A, Bai, Xue-Yuan, Bailly, Yannick, Baiocchi, Robert, Baldini, Giulia, Balduini, Walter, Ballabio, Andrea, Bamber, Bruce A, Bampton, Edward T W, Bánhegyi, Gábor, Bartholomew, Clinton R, Bassham, Diane C, Bast, Robert C, Batoko, Henri, Bay, 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Abstract

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused o

Published
2012
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50. Extensive genetic diversity in Iranian pomegranate (Punica granatum L.) germplasm revealed by microsatellite markers

Author

alamuti, Mehrbanoo Kazemi, primary, Zeinalabedini, Mehrshad, additional, Derazmahalleh, Mahsa Mousavi, additional, RoodbarShojaie, Taha, additional, Irandoost, Hashem Poor, additional, Zahravi, Mehdi, additional, Vazifehshenas, Mohammad, additional, Ebrahimi, Mohammad Ali, additional, Nekouei, Sayed Mojtaba Khayam, additional, Salekdeh, Ghasem Hossini, additional, and Mardi, Mohsen, additional

Published
2012
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