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Establishment of a Center of Plant Systems Biology and Biotechnology for the translation of fundamental research into sustainable bio-based technologies in Bulgaria

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Publications

Reactive Oxygen Species and Abiotic Stress in Plants

Author(s): Tsanko Gechev, Veselin Petrov
Published in: International Journal of Molecular Sciences, 21/20, 2020, Page(s) 7433, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms21207433

Adenine Nucleotide and Nicotinamide Adenine Dinucleotide Measurements in Plants

Author(s): Youjun Zhang, Ina Krahnert, Antje Bolze, Yves Gibon, Alisdair R. Fernie
Published in: Current Protocols in Plant Biology, 5/3, 2020, ISSN 2379-8068
Publisher: Wiley
DOI: 10.1002/cppb.20115

Bringing more players into play: Leveraging stress in genome wide association studies

Author(s): Zhu F., Ahchige M.W., Brotman Y., Alseekh S., Zsogon A., Fernie A.R.
Published in: Journal of Plant Physiology, 2022, ISSN 0176-1617
Publisher: Elsevier BV
DOI: 10.1016/j.jplph.2022.153657

Multi-omics approaches explain the growth-promoting effect of the apocarotenoid growth regulator zaxinone in rice

Author(s): Wang, J.Y., Alseekh, S., Xiao, T. et al.
Published in: Communications Biology, 2021, ISSN 2399-3642
Publisher: Communications Biology
DOI: 10.1038/s42003-021-02740-8

The phosphorylated pathway of serine biosynthesis links plant growth with nitrogen metabolism

Author(s): Sandra E Zimmermann, Ruben M Benstein, María Flores-Tornero, Samira Blau, Armand D Anoman, Sara Rosa-Téllez, Silke C Gerlich, Mohamed A Salem, Saleh Alseekh, Stanislav Kopriva
Published in: Plant Physiology, 2021, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiab167

Metabolons, enzyme–enzyme assemblies that mediate substrate channeling, and their roles in plant metabolism

Author(s): Youjun Zhang, Alisdair R. Fernie
Published in: Plant Communications, 2/1, 2021, Page(s) 100081, ISSN 2590-3462
Publisher: Elsevier B.V.
DOI: 10.1016/j.xplc.2020.100081

Ancestral sequence reconstruction - An underused approach to understand the evolution of gene function in plants?

Author(s): Federico Scossa, Alisdair R.Fernie
Published in: Computational and Structural Biotechnology Journal, 2021, ISSN 2001-0370
Publisher: Elsevier
DOI: 10.1016/j.csbj.2021.03.008

Anthocyanins, multi-functional natural products of industrial relevance: Recent biotechnological advances

Author(s): Tarun Belwal, Gopal Singh, Philippe Jeandet, Aseesh Pandey, Lalit Giri, Sudipta Ramola, Indra D. Bhatt, Petras Rimantas Venskutonis, Milen I. Georgiev, Christophe Clément, Zisheng Luo
Published in: Biotechnology Advances, 43, 2020, Page(s) 107600, ISSN 0734-9750
Publisher: Elsevier BV
DOI: 10.1016/j.biotechadv.2020.107600

Simultaneous adjustments of major mitochondrial pathways through redox regulation of dihydrolipoamide dehydrogenase (mtLPD1)

Author(s): Timm, S., Klaas, N., Niemann, J., Jahnke, K., Alseekh, S., Zhang, Y., Souza, P. V., Hou, L.-Y., Geigenberger, P., Daloso, D. M
Published in: bioRxiv, 2022, ISSN 2692-8205
Publisher: bioRxiv
DOI: 10.1101/2022.04.02.486831

Antiobesity molecules of natural origin: Call for lead finding acceleration

Author(s): Georgiev M.I., Vasileva L.V., Savova M.S.
Published in: Food Frontiers, 2021, ISSN 2643-8429
Publisher: Wiley
DOI: 10.1002/fft2.59

Screening of pepper (Capsicum spp.) accessions for infestation by pests in open field conditions.

Author(s): 47. Yankova V., Todorova V., Markova D.
Published in: Bulgarian Journal of Agricultural Science. 26 (4), 2020, Page(s) 841-846, ISSN 1310-0351
Publisher: Agricultural Academy
DOI: 10.5281/zenodo.4706815

An Abundance and Interaction Encyclopedia of Plant Protein Function

Author(s): Youjun Zhang, Aleksandra Skirycz, Alisdair R. Fernie
Published in: Trends in Plant Science, 25/7, 2020, Page(s) 627-630, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2020.04.006

Genome-wide association studies of Arabidopsis dark-induced senescence reveals signatures of autophagy in metabolic reprogramming

Author(s): Zhu F., Alseekh S., Wen W., Cheng Y., Fernie A.R.
Published in: Autophagy, 2022, ISSN 1554-8627
Publisher: Landes Bioscience
DOI: 10.1080/15548627.2021.2003041

Priming with a Seaweed Extract Strongly Improves Drought Tolerance in Arabidopsis

Author(s): Fiaz Rasul, Saurabh Gupta, Justyna Jadwiga Olas, Tsanko Gechev, Neerakkal Sujeeth and Bernd Mueller-Roeber
Published in: International Journal of Molecular Sciences, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22031469

A comparative transcriptomics and eQTL approach identifies SlWD40 as a tomato fruit ripening regulator

Author(s): Zhu F., Jadhav S.S., Tohge T., Salem M.A., Li J.M., Giovannoni J.J., Cheng Y., Alseekh S., Fernie A.R.
Published in: Plant Physiology, 2022, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiac200

On the Detection and Functional Significance of the Protein–Protein Interactions of Mitochondrial Transport Proteins

Author(s): Youjun Zhang, Alisdair R. Fernie
Published in: Biomolecules, 10/8, 2020, Page(s) 1107, ISSN 2218-273X
Publisher: MDPI
DOI: 10.3390/biom10081107

Natural products in drug discovery: advances and opportunities

Author(s): Atanasov A.G., Zotchev S.B., Dirsch V.M., Orhan I.E., Banach M., Rollinger J.M., Barreca D., Weckwerth W., Bauer R., Bayer E.A., Majeed M., Bishayee A., Bochkov V., Bonn G.K., Braidy N., Bucar F., Cifuentes A., D’Onofrio G., Bodkin M., Diederich M., Dinkova-Kostova A.T., Efferth T., El Bairi K., Arkells N., Fan T-P., Fiebich B.L., Freissmuth M., Georgiev M.I. et al.
Published in: Nature Reviews in Drug Discovery, 2021, ISSN 1474-1776
Publisher: Nature Publishing Group
DOI: 10.1038/s41573-020-00114-z

The Transcriptional Corepressor HOS15 Mediates Dark-Induced Leaf Senescence in Arabidopsis

Author(s): Zareen S., Ali A., Lim C.J., Khan H.A., Park J., Xu Z.Y., Yun D.J.
Published in: Frontiers in Plant Science, 2022, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2022.828264

Analysis of the complete mitochondrial genome sequence of the resurrection plant Haberlea rhodopensis

Author(s): Baev V., Ivanova Z., Yahubyan G., Toneva V., Apostolova E., Minkov G., Minkov I.
Published in: Acta Biochimica Polonica, 2021, ISSN 0001-527X
Publisher: Polskie Towarzystwo Biochemiczne
DOI: 10.18388/abp.2020_5555

Rapid Identification of Protein‐Protein Interactions in Plants

Author(s): Youjun Zhang, Roberto Natale, Adilson Pereira Domingues, Mitchell Rey Toleco, Beata Siemiatkowska, Norma Fàbregas, Alisdair R. Fernie
Published in: Current Protocols in Plant Biology, 4/4, 2019, ISSN 2379-8068
Publisher: Wiley
DOI: 10.1002/cppb.20099

Plasticity in metabolism underpins local responses to nitrogen in Arabidopsis thaliana populations

Author(s): Prashant K. Pandey, Jing Yu, Nooshin Omranian, Saleh Alseekh, Neha Vaid, Alisdair R. Fernie, Zoran Nikoloski, Roosa A. E. Laitinen
Published in: Plant Direct, 3/11, 2019, ISSN 2475-4455
Publisher: Wiley
DOI: 10.1002/pld3.186

Obesity and NRF2-mediated cytoprotection: Where is the missing link?

Author(s): Liliya V. Vasileva, Martina S. Savova, Kristiana M. Amirova, Albena T. Dinkova-Kostova, Milen I. Georgiev
Published in: Pharmacological Research, 156, 2020, Page(s) 104760, ISSN 1043-6618
Publisher: Academic Press
DOI: 10.1016/j.phrs.2020.104760

Jasmonic acid-responsive RRTF1 transcription factor controls DTX18 gene expression in hydroxycinnamic acid amide secretion

Author(s): Jinbo Li, Yu Meng, Kaixuan Zhang, Qiong Li, Shijuan Li, Bingliang Xu, Milen I Georgiev, Meiliang Zhou
Published in: Plant Physiology, 185/2, 2020, Page(s) 369-384, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiaa043

Network-based strategies in metabolomics data analysis and interpretation: from molecular networking to biological interpretation

Author(s): Leonardo Perez De Souza, Saleh Alseekh, Yariv Brotman, Alisdair R Fernie
Published in: Expert Review of Proteomics, 17/4, 2020, Page(s) 243-255, ISSN 1478-9450
Publisher: Future Drugs Ltd.
DOI: 10.1080/14789450.2020.1766975

Genome-wide association studies: assessing trait characteristics in model and crop plants.

Author(s): Alseekh S., Kostova D., Mustafa B., Fernie A.R.
Published in: Cellular and Molecular Life Sciences, 1420682X, 2021, ISSN 1420-682X
Publisher: Birkhauser Verlag
DOI: 10.1007/s00018-021-03868-w

The AtMYB60 transcription factor regulates stomatal opening by modulating oxylipin synthesis in guard cells.

Author(s): Simeoni F., Skirycz A., Simoni L., Castorina G., De Souza L.P., Fernie A.R., Alseekh S., Giavalisco P., Conti L., Tonelli C., Galbiati M.
Published in: Scientific Report, 2022, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-021-04433-y

Stable and Temporary Enzyme Complexes and Metabolons Involved in Energy and Redox Metabolism

Author(s): Youjun Zhang, Alisdair R. Fernie
Published in: Antioxidants & Redox Signaling, 2020, ISSN 1523-0864
Publisher: Mary Ann Liebert Inc.
DOI: 10.1089/ars.2019.7981

Will Casuarina glauca Stress Resilience Be Maintained in the Face of Climate Change?

Author(s): Jorge T. F., Ramalho J. C., Alseekh S., Pais I. P., Leitão A. E., Rodrigues A. P., Scotti-Campos P., Ribeiro-Barros A. I., Fernie A. R., António C.
Published in: Metabolites, 2021, ISSN 2218-1989
Publisher: MDPI
DOI: 10.3390/metabo11090593

A Solanum lycopersicoides reference genome facilitates insights into tomato specialized metabolism and immunity

Author(s): Powell AF, Feder A, Li J, Schmidt MH, Courtney L, Alseekh S, Jobson EM, Vogel A, Xu Y, Lyon D, Dumschott K, McHale M, Sulpice R, Bao K, Lal R, Duhan A, Hallab A, Denton AK, Bolger ME, Fernie AR, Hind SR, Mueller LA, Martin GB, Fei Z, Martin C, Giovannoni JJ, Strickler SR, Usadel B
Published in: The Plant Journal, 2022, ISSN 1365-313X
Publisher: Wiley
DOI: 10.1111/tpj.15770

A. thaliana Hybrids Develop Growth Abnormalities through Integration of Stress, Hormone and Growth Signaling

Author(s): Sageman-Furnas K., Nurmi M., Contag M., Plötner B., Alseekh S., Wiszniewski A., Fernie A.R, Smith L.M., Laitinen RAE.
Published in: Plant Cell Physiology, 2022, ISSN 1471-9053
Publisher: Japanese Society of Plant Physiologists
DOI: 10.1093/pcp/pcac056

Systems biology of resurrection plants

Author(s): Gechev T., Lyall R., Petrov V., Bartels D.
Published in: Cellular and Molecular Life Sciences, 2021, ISSN 1420-9071
Publisher: Springer
DOI: 10.1007/s00018-021-03913-8

Rice metabolic regulatory network spanning the entire life cycle

Author(s): Chenkun Yang, Shuangqian Shen, Alisdair R.Fernie, JieLuo
Published in: Molecular Plant, 2021, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2021.10.005

An improved extraction method enables the comprehensive analysis of lipids, proteins, metabolites and phytohormones from a single sample of leaf tissue under water‐deficit stress

Author(s): Mohamed A. Salem, Takuya Yoshida, Leonardo Perez de Souza, Saleh Alseekh, Krzysztof Bajdzienko, Alisdair R. Fernie, Patrick Giavalisco
Published in: The Plant Journal, 103/4, 2020, Page(s) 1614-1632, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14800

Tyr-Asp inhibition of glyceraldehyde 3-phosphate dehydrogenase affects plant redox metabolism

Author(s): Moreno JC, Rojas BE, Vicente R, Gorka M, Matz T, Chodasiewicz M, Peralta-Ariza JS, Zhang Y, Alseekh S, Childs D, Luzarowski M, Nikoloski Z, Zarivach R, Walther D, Hartman MD, Figueroa CM, Iglesias AA, Fernie AR, Skirycz A.
Published in: The EMBO Jurnal, 2021, ISSN 1460-2075
Publisher: EMBO Press
DOI: 10.15252/embj.2020106800

Metabolomics: towards acceleration of antibacterial plant-based leads discovery

Author(s): Sieniawska, E., Georgiev, M.I.
Published in: Phytochemistry Reviews, 2021, ISSN 1568-7767
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s11101-021-09762-4

Comparison of buckwheat genomes reveals the genetic basis of metabolomic divergence and ecotype differentiation

Author(s): He M., He Y., Zhang K., Lu X., Zhang X., Gao B., Fan Y., Zhao H., Jha R., Huda M.N., Tang Y., Wang J., Yang W., Yan M., Cheng J., Ruan J., Dulloo E., Zhang Z., Georgiev M.I., Chapman M., Zhou M.
Published in: New Phytologist, 2022, ISSN 1469-8137
Publisher: Wiley
DOI: 10.1111/nph.18306

Integrating molecular markers into metabolic models improves genomic selection for Arabidopsis growth

Author(s): Hao Tong, Anika Küken, Zoran Nikoloski
Published in: Nature Communications, 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-16279-5

Network Analysis Provides Insight into Tomato Lipid Metabolism

Author(s): Anastasiya Kuhalskaya, Micha Wijesingha Ahchige, Leonardo Perez de Souza, José Vallarino, Yariv Brotman, Saleh Alseekh
Published in: Metabolites, 10/4, 2020, Page(s) 152, ISSN 2218-1989
Publisher: MDPI
DOI: 10.3390/metabo10040152

Strawberry fruit FanCXE1 carboxylesterase is involved in the catabolism of volatile esters during the ripening process

Author(s): Martínez-Rivas FJ, Blanco-Portales R, Moyano E, Alseekh S, Caballero JL, Schwab W, Fernie AR, Muñoz-Blanco J, Molina-Hidalgo FJ
Published in: Horticulture Research, 2022, ISSN 2052-7276
Publisher: Oxford Academic
DOI: 10.1093/hr/uhac095

Potential Valorization of Edible Nuts By-Products: Exploring the Immune-Modulatory and Antioxidants Effects of Selected Nut Shells Extracts in Relation to Their Metabolic Profiles

Author(s): Salem M.A., Aborehab N.M., Al-Karmalawy A.A., Fernie A.R., Alseekh S., Ezzat S.M.
Published in: Antioxidants, 2022, ISSN 2076-3921
Publisher: MDPI
DOI: 10.3390/antiox11030462

Plant cell cultures as heterologous bio-factories for secondary metabolite production

Author(s): Tong Wu, Sandra M.Kerbler, Alisdair R.Fernie, YoujunZhang
Published in: Plant Communications, 2021, ISSN 2590-3462
Publisher: Elsevier Inc.
DOI: 10.1016/j.xplc.2021.100235

Metabolomic selection–based machine learning improves fruit taste prediction

Author(s): Fernie A.R., Alseekh S.
Published in: Proceedings of the National Academy of Sciences of the United States of America, 2022, ISSN 1091-6490
Publisher: National Academy of Science
DOI: 10.1073/pnas.2201078119

Development and Optimization of an Enzyme Immunoassay to Detect Serum Antibodies against the Hepatitis E Virus in Pigs, Using Plant-Derived ORF2 Recombinant Protein

Author(s): Katerina Takova, Tsvetoslav Koynarski, George Minkov, Valentina Toneva, Eugenia Mardanova, Nikolai Ravin, Georgi L. Lukov and Gergana Zahmanova
Published in: Plant Based Vaccines—A Powerhouse for Global Health 2.0, 2021, ISSN 2076-393X
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/vaccines9090991

Genotyping by Sequencing Reveals Genetic Relatedness of Southwestern U.S. Blue Maize Landraces

Author(s): Nankar A.N., Pratt R.C.
Published in: International Journal of Molecular Sciences, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22073436

Creation of pepper doubled haploids and morphological characterization of androgenic plants

Author(s): Grozeva S., Todorova V., Nankar A.N.
Published in: Euphytica, 2021, ISSN 0014-2336
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10681-021-02840-w

A plant-based transient expression system for the rapid production of highly immunogenic Hepatitis E virus-like particles

Author(s): Eugenia S. Mardanova, Katerina H. Takova, Valentina T. Toneva, Gergana G. Zahmanova, Liudmila M. Tsybalova, Nikolai V. Ravin
Published in: Biotechnology Letters, 42/11, 2020, Page(s) 2441-2446, ISSN 0141-5492
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10529-020-02995-x

Biotechnologically Produced Lavandula angustifolia Mill. Extract Rich in Rosmarinic Acid Resolves Psoriasis-Related Inflammation Through Janus Kinase/Signal Transducer and Activator of Transcription Signaling

Author(s): Koycheva I.K., Vasileva L.V., Amirova K.M., Marchev A.S., Balcheva-Sivenova Z.P., Georgiev M.I.
Published in: Frontiers in Pharmacology, 2021, ISSN 1663-9812
Publisher: Frontiers Media S.A.
DOI: 10.3389/fphar.2021.680168

The genomes of Taxus species unveil novel candidates in the biosynthesis of taxoids

Author(s): Youjun Zhang, Federico Scossa, Alisdair R. Fernie
Published in: Molecular Plant, 2021, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2021.08.017

Integrating multi-omics data for crop improvement

Author(s): Federico Scossa, Saleh Alseekha, Alisdair R.Fernie
Published in: Journal of Plant Physiology, 2021, ISSN 0176-1617
Publisher: Elsevier BV
DOI: 10.1016/j.jplph.2020.153352

Unravelling the molecular networks that regulate kiwifruit flavor

Author(s): Fernie A.R., Alseekh S.
Published in: New Phytologist, 2021, ISSN 1469-8137
Publisher: Wiley
DOI: 10.1111/nph.17740

Acceleration of the genetic gain for nutraceutical improvement of adlay (Coix L.) through genomic approaches: current status and future prospects

Author(s): Huda, M. N., Li, X., Jahan, T., He, Y., Guan, C., Zhang K., Gao A., Georgiev M.I., Zhou M.
Published in: Food Reviews International, 2022, ISSN 8755-9129
Publisher: Marcel Dekker Inc.
DOI: 10.1080/87559129.2022.2067175

Comparative Analysis of ROS Network Genes in Extremophile Eukaryotes

Author(s): Rafe Lyall, Zoran Nikoloski, Tsanko Gechev
Published in: International Journal of Molecular Sciences, 21/23, 2020, Page(s) 9131, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms21239131

Pod indehiscence in common bean is associated with the fine regulation of PvMYB26

Author(s): Di Vittori V., Bitocchi E., Rodriguez M., Alseekh S., Bellucci E., Nanni L., Gioia T., Marzario S., Logozzo G., Rossato M., De Quattro C., Murgia M.L., Ferreira J.J., Campa A., Xu C., Fiorani F., Sampathkumar A., Fröhlich A., Attene G., Delledonne M., Usadel B., Fernie A.R., Rau D., Papa R.
Published in: Journal of Experimental Botany, 2021, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/eraa553

Regulation of alternative splicing in response to temperature variation in plants

Author(s): Sheeba John, Justyna Jadwiga Olas, Bernd Mueller Roeber
Published in: Journal of Experimental Botany, 72(18), 2021, Page(s) 6150-6163, ISSN 1460-2431
Publisher: Society for Experimental Biology
DOI: 10.1093/jxb/erab232

A Comparative Study of the Antihypertensive and Cardioprotective Potentials of Hot and Cold Aqueous Extracts of Hibiscus sabdariffa L. in Relation to Their Metabolic Profiles

Author(s): Salem M.A, Ezzat S.M, Ahmed K.A, Alseekh S., Fernie A.R, Essam R.M.
Published in: Frontiers in Pharmacology, 2022, ISSN 1663-9812
Publisher: Frontiers Media S.A.
DOI: 10.3389/fphar.2022.840478

The integration of MS-based metabolomics and multivariate data analysis allows for improved quality assessment of Zingiber officinale Roscoe

Author(s): Mohamed A.Salem, Ahmed Zayed, Saleh Alseekh, Alisdair R.Fernie, Patrick Giavalisco
Published in: Phytochemistry, 2021, ISSN 0031-9422
Publisher: Elsevier BV
DOI: 10.1016/j.phytochem.2021.112843

A Highly Efficient Agrobacterium-Mediated Method for Transient Gene Expression and Functional Studies in Multiple Plant Species

Author(s): Youjun Zhang, Moxian Chen, Beata Siemiatkowska, Mitchell Rey Toleco, Yue Jing, Vivien Strotmann, Jianghua Zhang, Yvonne Stahl, Alisdair R. Fernie
Published in: Plant Communications, 1/5, 2020, Page(s) 100028, ISSN 2590-3462
Publisher: Elsevier B.V.
DOI: 10.1016/j.xplc.2020.100028

Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research

Author(s): Perez de Souza L., Alseekh S., Scossa F., Fernie A.R.
Published in: Nature Methods, 2021, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-021-01116-4

Metabolomics and health: from nutritional crops and plant-based pharmaceuticals to profiling of human biofluids

Author(s): Marchev A.S., Vasileva L.V., Amirova K.M., Savova M.S., Balcheva-Sivenova Z.P., Georgiev M.I.
Published in: Cellular and Molecular Life Sciences, 2021, ISSN 1420-682X
Publisher: Birkhauser Verlag
DOI: 10.1007/s00018-021-03918-3

An Ascophyllum nodosum-Derived Biostimulant Protects Model and Crop Plants from Oxidative Stress

Author(s): Nikola S. Staykov, Mihail Angelov, Veselin Petrov, Pavel Minkov, Aakansha Kanojia, Kieran J. Guinan, Saleh Alseekh, Alisdair R. Fernie, Neerakkal Sujeeth and Tsanko S. Gechev
Published in: Metabolomics in Agriculture Volume 2, 2021, ISSN 2218-1989
Publisher: MDPI
DOI: 10.3390/metabo11010024

Evolutionary gain of oligosaccharide hydrolysis and sugar transport enhanced carbohydrate partitioning in sweet watermelon fruits

Author(s): Yi Ren, Maoying Li, Shaogui Guo, Honghe Sun, Jianyu Zhao, Jie Zhang, Guangmin Liu, Hongju He, Shouwei Tian, Yongtao Yu, Guoyi Gong, Haiying Zhang, Xiaolan Zhang, Saleh Alseekh, Alisdair R Fernie, Henrik V Scheller, Yong Xu
Published in: The Plant Cell, 2021, ISSN 1040-4651
Publisher: American Society of Plant Biologists
DOI: 10.1093/plcell/koab055

Biotechnological Exploration of Transformed Root Culture for Value-Added Products

Author(s): Min Shi, Pan Liao, Shivraj Hariram Nile, Milen I. Georgiev, Guoyin Kai
Published in: Trends in Biotechnology, 39/2, 2021, Page(s) 137-149, ISSN 0167-7799
Publisher: Elsevier BV
DOI: 10.1016/j.tibtech.2020.06.012

Multiomics analyses reveal the roles of the ASR1 transcription factor in tomato fruits

Author(s): Dominguez P.G., Conti G., Duffy T., Insani M., Alseekh S., Asurmendi S., Fernie A.R., Carrari F.
Published in: Journal of Experimental Botany, 2021, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/erab269

FtBPM3 modulates the orchestration of FtMYB11-mediated flavonoids biosynthesis in Tartary buckwheat

Author(s): Ding M., Zhang K., He Y., Zuo Q., Zhao H., He M., Georgiev M.I., Park S.U., Zhou M.
Published in: Plant Biotechnology Journal, 2021, ISSN 1467-7652
Publisher: Wiley
DOI: 10.1111/pbi.13587

Tanshinones from Salvia miltiorrhiza inhibit Mycobacterium tuberculosis via disruption of the cell envelope surface and oxidative stress

Author(s): Elwira Sieniawska, Rafal Sawicki, Andrey S.Marchev, Wieslaw Truszkiewicz, Milen I.Georgiev
Published in: Food and Chemical Toxicology, 2021, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2021.112405

Plant Mitochondrial Carriers: Molecular Gatekeepers That Help to Regulate Plant Central Carbon Metabolism

Author(s): M. Toleco, Thomas Naake, Youjun Zhang, Joshua Heazlewood, Alisdair R. Fernie
Published in: Plants, 9/1, 2020, Page(s) 117, ISSN 2223-7747
Publisher: MDPI
DOI: 10.3390/plants9010117

Using Metabolomics to Assist Plant Breeding.

Author(s): Alseekh S., Fernie A.R.
Published in: Methods in Molecular Biology, 2021, ISSN 1064-3745
Publisher: Humana Press, Inc.
DOI: 10.1007/978-1-0716-1201-9_3

Large-scale multi-omics genome-wide association studies (Mo-GWAS): guidelines for sample preparation and normalization

Author(s): Bulut M., Fernie A.R., Alseekh S.
Published in: Jove-Journal of Visualized Experiments, 2021, ISSN 1940-087X
Publisher: MYJoVE Corporation
DOI: 10.3791/62732

Biotechnologically-Produced Myconoside and Calceolarioside E Induce Nrf2 Expression in Neutrophils

Author(s): Amirova K.M., Dimitrova P.A., Marchev A.S., Krustanova S., Simova S., Alipieva K., Georgiev M.I.
Published in: International Journal of Molecular Sciences, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22041759

Leucosceptoside A from Devil’s Claw Modulates Psoriasis-like Inflammation via Suppression of the PI3K/AKT Signaling Pathway in Keratinocytes

Author(s): Koycheva I.K., Mihaylova L.V., Todorova M.N., Balcheva-Sivenova Z.P., Alipieva K., Ferrante C., Orlando G., Georgiev M.I.
Published in: Molecules, 2021, ISSN 1420-3049
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/molecules26227014

Plant-Derived Recombinant Vaccines against Zoonotic Viruses

Author(s): Zahmanova G., Takova K., Valkova R., Toneva V., Minkov I., Andonov A., Lukov G.L.
Published in: Life, 2022, ISSN 2075-1729
Publisher: MDPI
DOI: 10.3390/life12020156

Using precision phenotyping to inform de novo domestication

Author(s): Fernie A.R., Alseekh S., Liu J., Yan J.
Published in: Plant Phisiology, 2021, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiab160

MicroRNA-Mediated Metabolic Reprograming in Renal Cancer

Author(s): Bogusławska, Popławski, Alseekh, Koblowska, Iwanicka-Nowicka, Rybicka, Kędzierska, Głuchowska, Hanusek, Tański, Fernie, Piekiełko-Witkowska
Published in: Cancers, 11/12, 2019, Page(s) 1825, ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers11121825

First report of tomato spotted wilt virus on lisianthus (Eustoma grandiflorum) in Bulgaria

Author(s): Gancho Pasev, Vesela Radeva-Ivanova, Rafe Lyall, Amol Nankar, Dimitrina Kostova, Massimo Turina, Marta Vallino
Published in: Journal of Plant Pathology, 103/1, 2021, Page(s) 375-375, ISSN 1125-4653
Publisher: Societa Italiana di Patologia Vegetale
DOI: 10.1007/s42161-020-00702-3

A moonlighting role for enzymes of glycolysis in the co-localization of mitochondria and chloroplasts

Author(s): Youjun Zhang, Arun Sampathkumar, Sandra Mae-Lin Kerber, Corné Swart, Carsten Hille, Kumar Seerangan, Alexander Graf, Lee Sweetlove, Alisdair R. Fernie
Published in: Nature Communications, 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-18234-w

Exploiting Natural Variation in Tomato to Define Pathway Structure and Metabolic Regulation of Fruit Polyphenolics in the Lycopersicum Complex

Author(s): 39. Tohge T., Scossa F., Wendenburg R., Frasse P., Balbo I., Watanabe M., Alseekh S., Jadhav S., Delfin J., Lohse M., Giavalisco P., Usadel B., Zhang Y., Luo J., Bouzayen M., Fernie A.R.
Published in: Molecular Plant Volume 13, Issue 7, 2020, Page(s) 1027-1046, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2020.04.004

Towards the Development, Maintenance and Standardized Phenotypic Characterization of Single-Seed-Descent Genetic Resources for Chickpea

Author(s): Rocchetti. L., Gioia. T., Logozzo. G., Brezeanu. C., Pereira L.G., la Rosa L., Marzario S., Pieri A., Fernie A.R., Alseekh S., Susek K., Cook D.R., Varshney R.K., Agrawal S.K., Hamwieh A., Bitocchi, E., Papa R.
Published in: Current protocols, 2022, ISSN 2691-1299
Publisher: Wiley
DOI: 10.1002/cpz1.371

Resequencing of global Tartary buckwheat accessions reveals multiple domestication events and key loci associated with agronomic traits

Author(s): Kaixuan Zhang, Milen I. Georgiev and Meiliang Zhou1
Published in: Genom Biology, 2021, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1186/s13059-020-02217-7

Treasure from garden: Bioactive compounds of buckwheat

Author(s): Md. Nurul Huda, Shuai Lu, Tanzim Jahan, Mengqi Ding, Rintu Jha, Kaixuan Zhang, Wei Zhang, Milen I. Georgiev, Sang Un Park, Meiliang Zhou
Published in: Food Chemistry, 335, 2021, Page(s) 127653, ISSN 0308-8146
Publisher: Elsevier BV
DOI: 10.1016/j.foodchem.2020.127653

Multi-omics approach reveals the contribution of KLU to leaf longevity and drought tolerance

Author(s): Jiang L., Yoshida T., Stiegert S., Jing, Y., Alseekh S., Lenhard M., Pérez-Alfocea F., Fernie A.R.
Published in: Plant Phisiology, 2021, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiaa034

Developmentally controlled changes during Arabidopsis leaf development indicate causes for loss of stress tolerance with age

Author(s): Aakansha Kanojia, Saurabh Gupta, Maria Benina, Alisdair R Fernie, Bernd Mueller-Roeber, Tsanko Gechev, Paul P Dijkwel
Published in: Journal of Experimental Botany, 71/20, 2020, Page(s) 6340-6354, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/eraa347

Therapeutic potential of phenylethanoid glycosides: A systematic review

Author(s): Lipeng Wu, Milen I. Georgiev, Hui Cao, Lutfun Nahar, Hesham R. El‐Seedi, Satyajit D. Sarker, Jianbo Xiao, Baiyi Lu
Published in: Medicinal Research Reviews, 40/6, 2020, Page(s) 2605-2649, ISSN 0198-6325
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/med.21717

Metabolomics in the Context of Plant Natural Products Research: From Sample Preparation to Metabolite Analysis

Author(s): Mohamed A. Salem, Leonardo Perez de Souza, Ahmed Serag, Alisdair R. Fernie, Mohamed A. Farag, Shahira M. Ezzat, Saleh Alseekh
Published in: Metabolites, 10/1, 2020, Page(s) 37, ISSN 2218-1989
Publisher: MDPI
DOI: 10.3390/metabo10010037

Dissection of the domestication‐shaped genetic architecture of lettuce primary metabolism

Author(s): Weiyi Zhang, Saleh Alseekh, Xiang Zhu, Qinghua Zhang, Alisdair R. Fernie, Hanhui Kuang, Weiwei Wen
Published in: The Plant Journal, 104/3, 2020, Page(s) 613-630, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14950

Two mitochondrial phosphatases, PP2c63 and Sal2, are required for posttranslational regulation of the TCA cycle in Arabidopsis

Author(s): YoujunZhang,Jonas Giese,Sandra M.Kerbler,Beata Siemiatkowska, Leonardo Perez de Souza, Jessica Alper, David Barbosa Medeiro, Dirk K.Hinch, Danilo M.Daloso, Mark Stitt, Iris Finkemeier, Alisdair R.Fernie
Published in: Molecular Plant, 2021, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2021.03.023

Green (cell) factories for advanced production of plant secondary metabolites

Author(s): Andrey S. Marchev, Zhenya P. Yordanova, Milen I. Georgiev
Published in: Critical Reviews in Biotechnology, 40/4, 2020, Page(s) 443-458, ISSN 0738-8551
Publisher: Taylor & Francis
DOI: 10.1080/07388551.2020.1731414

MicroTom Metabolic Network: Rewiring Tomato Metabolic Regulatory Network throughout the Growth Cycle

Author(s): Yan Li, Yang Chen, Lu Zhou, Shengjie You, Heng Deng, Ya Chen, Saleh Alseekh, Yong Yuan, Rao Fu, Zixin Zhang, Dan Su, Alisdair R. Fernie, Mondher Bouzayen, Tao Ma, Mingchun Liu, Yang Zhang
Published in: Molecular Plant, 13/8, 2020, Page(s) 1203-1218, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2020.06.005

First report of Cucurbit aphid-borne yellows virus causing yellowing disease on pumpkin (Cucurbita pepo) and cucumber (Cucumis sativus) in Bulgaria

Author(s): Radeva-Ivanova V., Pasev G., Lyall R., Angelov M., Nankar A.N., Kostova D.
Published in: APS Journal, 2022, ISSN 0191-2917
Publisher: American Phytopathological Society
DOI: 10.1094/pdis-09-21-2030-pdn

Characterization of effects of genetic variants via genome-scale metabolic modelling.

Author(s): Tong, H., Küken, A., Razaghi-Moghadam, Z. Nikoloski
Published in: Cellular and Molecular Life Sciences, 2021, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1007/s00018-021-03844-4

The Assembly of Super-Complexes in the Plant Chloroplast

Author(s): Qin K., Fernie A.R., Zhang Y.
Published in: Biomolecules, 2021, ISSN 2218-273X
Publisher: MDPI
DOI: 10.3390/biom11121839

Primary metabolic processes as drivers of leaf ageing.

Author(s): Kanojia A., Shrestha K.D., Dijkwel P.
Published in: Cellular and Molecular Life Sciences, 2021, ISSN 1420-682X
Publisher: Birkhauser Verlag
DOI: 10.1007/s00018-021-03896-6

Evaluation of pepper (Capsicum annuum L.) varieties to several methods of inoculation with Verticillium dahliae Kleb. in different conditions

Author(s): Vasileva K., Todorova V.
Published in: Bulgarian Journal of Agricultural Sciences 26 (2), 2020, Page(s) 423–430, ISSN 1310-0351
Publisher: Agricultural Academy
DOI: 10.5281/zenodo.4707211

Integration of rhythmic metabolome and transcriptome provides insights into the transmission of rhythmic fluctuations and temporal diversity of metabolism in rice.

Author(s): Zhou J., Liu C., Chen Q., Liu L., Niu S., Chen R., Li K., Sun Y., Shi Y., Yang C., Shen S., Li Y., Xing J,. Yuan H., Liu X., Fang C., Fernie A.R., Luo J.
Published in: Science China Life Sciences, 2022, ISSN 1674-7305
Publisher: Zhongguo Kexue Zazhishe/Science in China Press
DOI: 10.1007/s11427-021-2064-7

MeJA-responsive bHLH transcription factor LjbHLH7 regulates cyanogenic glucoside biosynthesis in Lotus japonicus

Author(s): Chen C., Liu F., Zhang K., Niu X., Zhao H., Liu Q., Georgiev M.I., Xu X., Zhang X., Zhou M.
Published in: Journal of Experimental Botany, 2022, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/erac026

L2,1-norm regularized multivariate regression model with applications to genomic prediction

Author(s): Mbebi AJ, Tong H, Nikoloski Z
Published in: Bioinformatics, 2021, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btab212

Anti-Adipogenic Effect of Alchemilla monticola is Mediated Via PI3K/AKT Signaling Inhibition in Human Adipocytes

Author(s): Mladenova S.G., Vasileva L.V., Savova M.S., Marchev A.S., Tews D., Wabitsch M., Ferrante C., Orlando G., Georgiev M.I.
Published in: Frontiers in Pharmacology, 2021, ISSN 1663-9812
Publisher: Frontiers Media S.A.
DOI: 10.3389/fphar.2021.707507

PlantaSyst: Teaming up for Systems Biology and Biotechnology

Author(s): Tsanko Gechev, Milen I. Georgiev, Alisdair R. Fernie
Published in: Trends in Plant Science, 25/7, 2020, Page(s) 621-624, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2020.04.010

Phytochromes control metabolic flux, and their action at the seedling stage determines adult plant biomass

Author(s): Krahmer J., Abbas A., Mengin V., Ishihara H., Romanowski A., Furniss J.J., Moraes T.A., Krohn N., Annunziata M.G., Feil R., Alseekh S., Obata T., Fernie A.R., Stitt M. and Halliday, K.J.
Published in: Journal of Experimental Botany, 2021, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/erab038

Multi-omics analysis of early leaf development in Arabidopsis thaliana

Author(s): Omidbakhshfard M. A., Sokolowska E. M., Di Vittori V., Perez de Souza L., Kuhalskaya A., Brotman Y., Alseekh S., Fernie A.R., Skirycz, A.
Published in: Patterns, 2021, ISSN 2666-3899
Publisher: Elsevier
DOI: 10.1016/j.patter.2021.100235

Usnic Acid Treatment Changes the Composition of Mycobacterium tuberculosis Cell Envelope and Alters Bacterial Redox Status

Author(s): Elwira Sieniawska, Rafal Sawicki, Wieslaw Truszkiewicz, Andrey S. Marchev, Milen I. Georgiev
Published in: ASM Journals mSystems Vol. 6, No. 3, 2021, ISSN 0021-9193
Publisher: American Society for Microbiology
DOI: 10.1128/msystems.00097-21

Circadian Control of Metabolism by the Clock Component TOC1

Author(s): Cervela-Cardona L., Yoshida T., Zhang Y., Okada M., Fernie A.R., Mas P.,
Published in: Frotiers in Plant Sciennce, 2021, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2021.683516

Assessment of Fruit Quality and Fruit Morphology in Androgenic Pepper Lines (Capsicum annuum L.)

Author(s): Grozeva S., Tringovska I., Nankar AN., Todorova V., Kostova D.
Published in: Crop Breeding, Genetics and Genomics, Crop Breed Genet Genom. 2020;2(1):e200005., 2020, ISSN 2632-7309
Publisher: Hapres
DOI: 10.20900/cbgg20200005

Effect of incubation period and culture medium on pepper anther culture.

Author(s): Grozeva S., Nankar AN.
Published in: Effect of incubation period and culture medium on pepper anther culture. Indian Journal of Biotechnology. 19 (1), 2020, Page(s) 53-59, ISSN 0975-0967
Publisher: Indian Journal of Biotechnology
DOI: 10.5281/zenodo.4711172

The genetics underlying metabolic signatures in a brown rice diversity panel and their vital role in human nutrition

Author(s): Brotman Y., Llorente-Wiegand C., Oyong G., Badoni S., Misra G., Anacleto R., Parween S., Pasion E., Jr. Tiozon R.N., Anonuevo J.J., deGuzman M.K., Alseekh S., Mbanjo E.G.N., Boyd L.A., Fernie A.R., Sreenivasulu N.
Published in: The Plant Journal, 2021, ISSN 1365-313X
Publisher: Wiley
DOI: 10.1111/tpj.15182

Isolation, Structural Properties, and Bioactivities of Polysaccharides from Mushrooms Termitomyces: A Review

Author(s): Liu J., Wang Y., Wu J., Georgiev M.I., Xu B., Wong K.H., Bai W., Tian L.
Published in: Journal of Agricultural and Food Chemistry, 2022, ISSN 0021-8561
Publisher: American Chemical Society
DOI: 10.1021/acs.jafc.1c06443

Towards Development, Maintenance, and Standardized Phenotypic Characterization of Single-Seed-Descent Genetic Resources for Lupins

Author(s): Kroc M., Tomaszewska M., Czepiel K., Bitocchi E., Oppermann M., Neumann K., Guasch L., Bellucci E., Alseekh S., Graner A., Fernie A.R., Papa R., Susek K.
Published in: Current Protocols, 2021, ISSN 2691-1299
Publisher: Wiley
DOI: 10.1002/cpz1.191

Corrigendum to: Posttranslational Modification of the NADP-Malic Enzyme Involved in C4 Photosynthesis Modulates the Enzymatic Activity during the Day

Author(s): Bovdilova. A., Alexandre B.M., Höppner. A., Luís I.M., AlvarezC.E., Bickel D., Gohlke H., Decker C., Nagel-Steger L., Alseekh S., Fernie A.R., DrincovichM.F., Abreu I.A., Maurino V.G.
Published in: The Plant cell, 2022, ISSN 1040-4651
Publisher: American Society of Plant Biologists
DOI: 10.1093/plcell/koab262

SWATH-MS-Based Proteomics: Strategies and Applications in Plants

Author(s): Mo-Xian Chen, Youjun Zhang, Alisdair R. Fernie, Ying-Gao Liu, Fu-Yuan Zhu
Published in: Trends in Biotechnology, 39/5, 2021, Page(s) 433-437, ISSN 0167-7799
Publisher: Elsevier BV
DOI: 10.1016/j.tibtech.2020.09.002

Domestication of Crop Metabolomes: Desired and Unintended Consequences

Author(s): Alseekh S., Scossa F., Wen W., Luo J., Yan J., Beleggia R., Klee H.J., Huang S., Papa R., Fernie A.R.
Published in: Trends in Plant Science, 2021, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2021.02.005

Rosmarinic acid attenuates obesity and obesity-related inflammation in human adipocytes

Author(s): Liliya V.Vasileva, Martina S.Savova, Daniel Tews, Martin Wabitsch, Milen I.Georgiev
Published in: Food and Chemical Toxicology, 2021, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2021.112002

Genomic prediction of morphometric and colorimetric traits in Solanaceous fruits

Author(s): Tong H., Nankar A.N., Liu J., Todorova V., Ganeva D., Grozeva S., Tringovska I., Pasev G., Radeva-Ivanova V., Gechev T., Kostova D., Nikoloski Z. (
Published in: Horticulture Research, 2022, ISSN 2052-7276
Publisher: Oxford Academic
DOI: 10.1093/hr/uhac072

Quantitative trait loci analysis of seed‐specialized metabolites reveals seed‐specific flavonols and differential regulation of glycoalkaloid content in tomato

Author(s): Saleh Alseekh, Itai Ofner, Zhongyuan Liu, Sonia Osorio, Jose Vallarino, Robert L. Last, Dani Zamir, Takayuki Tohge, Alisdair R. Fernie
Published in: The Plant Journal, 103/6, 2020, Page(s) 2007-2024, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14879

MicroRNA profiling the resurrection plant Haberlea rhodopensis unveils essential regulators of survival under severe drought

Author(s): E. APOSTOLOVA, M. GOZMANOVA, L. NACHEVA, Z. IVANOVA, V. TONEVA, I. MINKOV, V. BAEV, G. YAHUBYAN
Published in: Biologia plantarum, 64, 2020, Page(s) 541-550, ISSN 0006-3134
Publisher: Kluwer Academic Publishers
DOI: 10.32615/bp.2020.062

Anti-adipogenic activity of maackiain and ononin is mediated via inhibition of PPARγ in human adipocytes

Author(s): Mladenova S.G., Savova M.S., Marchev A.S., Ferrante C., Orlando G., Wabitsch M., Georgiev M.I.
Published in: Biomedicine and Pharmacotherapy, 2022, ISSN 0753-3322
Publisher: Elsevier Masson
DOI: 10.1016/j.biopha.2022.112908

The INCREASE project: Intelligent Collections of food-legume genetic resources for European agrofood systems

Author(s): Bellucci E., Aguilar O.M., Alseekh S., Bett K., Brezeanu C., Cook D., De la Rosa L., Delledonne M., Dostatny D.F., Ferreira J.J., Geffroy V., Ghitarrini S., Kroc M., Kumar Agrawal S, Logozzo G., Marino M., Mary-Huard T., McClean P., Megli V., Messer T., Muel F., Nanni L., Neumann K., Servalli F., Străjeru S., Varshney R. K., Vasconcelos M. W., Zaccardelli M., Zavarzin A., Bitocchi E., Frontoni E.
Published in: The Plant Journal, 2021, ISSN 1365-313X
Publisher: Wiley
DOI: 10.1111/tpj.15472

Genome-wide association of the metabolic shifts underpinning dark-induced senescence in Arabidopsis

Author(s): Feng Zhu, Saleh Alseekh, Kaan Koper, Hao Tong, Zoran Nikoloski, Thomas Naake, Haijun Liu, Jianbing Yan, Yariv Brotman, Weiwei Wen, Hiroshi Maeda, Yunjiang Cheng, and Alisdair R Fernie
Published in: The Plant Cell, 2022, ISSN 3462-3442
Publisher: Oxford University Press
DOI: 10.1093/plcell/koab251

Formulation and Testing of Antioxidant and Protective Effect of Hyalurosomes Loading Extract Rich in Rosmarinic Acid Biotechnologically Produced from Lavandula angustifolia Miller

Author(s): Perra M., Fancello L., Castangia I., Allaw M., Escribano-Ferrer E., Peris J.E., Usach I., Manca M.L., Koycheva I.K., Georgiev M.I., Manconi M.
Published in: Molecules, 2022, ISSN 1420-3049
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/molecules27082423

Molecular mechanisms preventing senescence in response to prolonged darkness in a desiccation-tolerant plant

Author(s): Meriem Durgud, Saurabh Gupta, Ivan Ivanov, Amin Omidbakhshfard, Maria Benina, Saleh Alseekh, Nikola Staykov, Mareike Hauenstein, Paul Dijkwel, Stefan Hörtensteiner, Valentina Toneva, Yariv Brotman, Alisdair R. Fernie, Bernd Mueller-Roeber, Tsanko Gechev
Published in: Plant Physiology, 2018, Page(s) pp.00055.2018, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.18.00055

Jasmonate-responsive MYB factors spatially repress rutin biosynthesis in Fagopyrum tataricum

Author(s): Kaixuan Zhang, Maria D Logacheva, Yu Meng, Jianping Hu, Dongpu Wan, Long Li, Dagmar Janovská, Zhiyong Wang, Milen I Georgiev, Zhuo Yu, Fuyu Yang, Mingli Yan, Meiliang Zhou
Published in: Journal of Experimental Botany, 69/8, 2018, Page(s) 1955-1966, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/ery032

Targeting ncRNAs by plant secondary metabolites: The ncRNAs game in the balance towards malignancy inhibition

Author(s): Diana Gulei, Nikolay Mehterov, Seyed Mohammad Nabavi, Atanas Georgiev Atanasov, Ioana Berindan-Neagoe
Published in: Biotechnology Advances, 2017, ISSN 0734-9750
Publisher: Elsevier BV
DOI: 10.1016/j.biotechadv.2017.11.003

Metabolomics 20 years on: what have we learned and what hurdles remain?

Author(s): Saleh Alseekh, Alisdair R. Fernie
Published in: The Plant Journal, 94/6, 2018, Page(s) 933-942, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.13950

The Integration of Metabolomics and Next-Generation Sequencing Data to Elucidate the Pathways of Natural Product Metabolism in Medicinal Plants

Author(s): Federico Scossa, Maria Benina, Saleh Alseekh, Youjun Zhang, Alisdair Fernie
Published in: Planta Medica, 2018, ISSN 0032-0943
Publisher: Georg Thieme Verlag
DOI: 10.1055/a-0630-1899

Quantitative trait loci analysis identifies a prominent gene involved in the production of fatty-acid-derived flavor volatiles in tomato

Author(s): Karolina Garbowicz, Zhongyuan Liu, Saleh Alseekh, Denise Tieman, Mark Taylor, Anastasiya Kuhalskaya, Itai Ofner, Dani Zamir, Harry J. Klee, Alisdair R. Fernie, Yariv Brotman
Published in: Molecular Plant, 2018, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2018.06.003

The NAC Transcription Factor SlNAP2 Regulates Leaf Senescence and Fruit Yield in Tomato

Author(s): Xuemin Ma, Youjun Zhang, Veronika Turečková, Gang-Ping Xue, Alisdair R. Fernie, Bernd Mueller-Roeber, Salma Balazadeh
Published in: Plant Physiology, 177/3, 2018, Page(s) 1286-1302, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.18.00292

Defining the convergence of ethylene and auxin signaling in tomato

Author(s): Alisdair R. Fernie, Saleh Alseekh
Published in: New Phytologist, 219/2, 2018, Page(s) 479-481, ISSN 0028-646X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/nph.15251

Modifications of dietary flavonoids towards improved bioactivity: An update on structure–activity relationship

Author(s): Lei Chen, Hui Teng, Zhenglu Xie, Hui Cao, Wai San Cheang, Krystyna Skalicka-Woniak, Milen I. Georgiev, Jianbo Xiao
Published in: Critical Reviews in Food Science and Nutrition, 58/4, 2017, Page(s) 513-527, ISSN 1040-8398
Publisher: Taylor & Francis
DOI: 10.1080/10408398.2016.1196334

Rewiring of the Fruit Metabolome in Tomato Breeding

Author(s): Guangtao Zhu, Shouchuang Wang, Zejun Huang, Shuaibin Zhang, Qinggang Liao, Chunzhi Zhang, Tao Lin, Mao Qin, Meng Peng, Chenkun Yang, Xue Cao, Xu Han, Xiaoxuan Wang, Esther van der Knaap, Zhonghua Zhang, Xia Cui, Harry Klee, Alisdair R. Fernie, Jie Luo, Sanwen Huang
Published in: Cell, 172/1-2, 2018, Page(s) 249-261.e12, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2017.12.019

Occurrence, biochemistry and biological effects of host-selective plant mycotoxins

Author(s): Veselin Petrov, Muhammad Kamran Qureshi, Jacques Hille, Tsanko Gechev
Published in: Food and Chemical Toxicology, 112, 2018, Page(s) 251-264, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2017.12.047

Nutrigenomics in cancer: Revisiting the effects of natural compounds

Author(s): Cornelia Braicu, Nikolay Mehterov, Boyan Vladimirov, Victoria Sarafian, Seyed Mohammad Nabavi, Atanas G. Atanasov, Ioana Berindan-Neagoe
Published in: Seminars in Cancer Biology, 46, 2017, Page(s) 84-106, ISSN 1044-579X
Publisher: Academic Press
DOI: 10.1016/j.semcancer.2017.06.011

Stoichiometric Correlation Analysis: Principles of Metabolic Functionality from Metabolomics Data

Author(s): Kevin Schwahn, Romina Beleggia, Nooshin Omranian, Zoran Nikoloski
Published in: Frontiers in Plant Science, 8, 2017, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2017.02152

Genome-Wide Analysis of ROS Antioxidant Genes in Resurrection Species Suggest an Involvement of Distinct ROS Detoxification Systems during Desiccation

Author(s): Saurabh Gupta, Yanni Dong, Paul P. Dijkwel, Bernd Mueller-Roeber, Tsanko S. Gechev
Published in: International Journal of Molecular Sciences, 20/12, 2019, Page(s) 3101, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms20123101

On the role of the tricarboxylic acid cycle in plant productivity

Author(s): Youjun Zhang, Alisdair R. Fernie
Published in: Journal of Integrative Plant Biology, 60/12, 2018, Page(s) 1199-1216, ISSN 1672-9072
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/jipb.12690

Inhibition of TOR Represses Nutrient Consumption, Which Improves Greening after Extended Periods of Etiolation

Author(s): Yi Zhang, Youjun Zhang, Heather E. McFarlane, Toshihiro Obata, Andreas S. Richter, Mark Lohse, Bernhard Grimm, Staffan Persson, Alisdair R. Fernie, Patrick Giavalisco
Published in: Plant Physiology, 178/1, 2018, Page(s) 101-117, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.18.00684

First report of Peanut stunt virus on beans in Bulgaria

Author(s): G. Pasev, V. Radeva-Ivanova, Y. Manoussopoulos, M. Turina, D. Kostova
Published in: New Disease Reports, 38, 2018, Page(s) 9, ISSN 2044-0588
Publisher: The British Society for Plant Pathology
DOI: 10.5197/j.2044-0588.2018.038.009

Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds

Author(s): Adriano Nunes-Nesi, Saleh Alseekh, Franklin Magnum de Oliveira Silva, Nooshin Omranian, Gabriel Lichtenstein, Mohammad Mirnezhad, Roman R. Romero González, Julia Sabio y Garcia, Mariana Conte, Kirsten A. Leiss, Peter G. L. Klinkhamer, Zoran Nikoloski, Fernando Carrari, Alisdair R. Fernie
Published in: Metabolomics, 15/4, 2019, ISSN 1573-3882
Publisher: Springer Verlag
DOI: 10.1007/s11306-019-1503-8

Antidepressant-like effect of salidroside and curcumin on the immunoreactivity of rats subjected to a chronic mild stress model

Author(s): Liliya V. Vasileva, Kremena E. Saracheva, Mariya V. Ivanovska, Atanaska P. Petrova, Andrey S. Marchev, Milen I. Georgiev, Mariana A. Murdjeva, Damiyanka P. Getova
Published in: Food and Chemical Toxicology, 121, 2018, Page(s) 604-611, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2018.09.065

Causes and solutions to “globesity”: The new fa(s)t alarming global epidemic

Author(s): Liliya V. Vasileva, Andrey S. Marchev, Milen I. Georgiev
Published in: Food and Chemical Toxicology, 121, 2018, Page(s) 173-193, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2018.08.071

Data Reduction Approaches for Dissecting Transcriptional Effects on Metabolism

Author(s): Kevin Schwahn, Zoran Nikoloski
Published in: Frontiers in Plant Science, 9, 2018, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2018.00538

Interorganelle Communication: Peroxisomal MALATE DEHYDROGENASE2 Connects Lipid Catabolism to Photosynthesis through Redox Coupling in Chlamydomonas

Author(s): Fantao Kong, Adrien Burlacot, Yuanxue Liang, Bertrand Légeret, Saleh Alseekh, Yariv Brotman, Alisdair R. Fernie, Anja Krieger-Liszkay, Fred Beisson, Gilles Peltier, Yonghua Li-Beisson
Published in: The Plant Cell, 30/8, 2018, Page(s) 1824-1847, ISSN 1040-4651
Publisher: American Society of Plant Biologists
DOI: 10.1105/tpc.18.00361

Passing the Baton: Substrate Channelling in Respiratory Metabolism

Author(s): Alisdair R. Fernie, Youjun Zhang, Lee J. Sweetlove
Published in: Research, 2018, 2018, Page(s) 1-16, ISSN 2639-5274
Publisher: American Association for the Advancement of Science
DOI: 10.1155/2018/1539325

In vivo detection of protein cysteine sulfenylation in plastids

Author(s): Barbara De Smet, Patrick Willems, Alvaro D. Fernandez‐Fernandez, Saleh Alseekh, Alisdair R. Fernie, Joris Messens, Frank Van Breusegem
Published in: The Plant Journal, 97/4, 2019, Page(s) 765-778, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14146

A Solanum neorickii introgression population providing a powerful complement to the extensively characterized Solanum pennellii population

Author(s): Yaacov Micha Brog, Sonia Osorio, Yoav Yichie, Saleh Alseekh, Elad Bensal, Andriy Kochevenko, Dani Zamir, Alisdair R. Fernie
Published in: The Plant Journal, 97/2, 2019, Page(s) 391-403, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14095

Clinopodium vulgare L. (wild basil) extract and its active constituents modulate cyclooxygenase-2 expression in neutrophils

Author(s): Kristiana M. Amirova, Petya Dimitrova, Andrey S. Marchev, Ina Y. Aneva, Milen I. Georgiev
Published in: Food and Chemical Toxicology, 124, 2019, Page(s) 1-9, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2018.11.054

Crop metabolomics: from diagnostics to assisted breeding

Author(s): Saleh Alseekh, Luisa Bermudez, Luis Alejandro de Haro, Alisdair R. Fernie, Fernando Carrari
Published in: Metabolomics, 14/11, 2018, ISSN 1573-3882
Publisher: Springer Verlag
DOI: 10.1007/s11306-018-1446-5

Phytochemical composition and antioxidant activity of 63 Balkan pepper (Capsicum annuum L.) accessions

Author(s): Petko Denev, Velichka Todorova, Manol Ognyanov, Yordan Georgiev, Irina Yanakieva, Ivanka Tringovska, Stanislava Grozeva, Dimitrina Kostova
Published in: Journal of Food Measurement and Characterization, 2019, ISSN 2193-4126
Publisher: Springer Science + Business Media
DOI: 10.1007/s11694-019-00171-y

Immunoregulatory natural compounds in stress-induced depression: An alternative or an adjunct to conventional antidepressant therapy?

Author(s): Liliya V. Vasileva, Mariya V. Ivanovska, Marianna A. Murdjeva, Kremena E. Saracheva, Milen I. Georgiev
Published in: Food and Chemical Toxicology, 127, 2019, Page(s) 81-88, ISSN 0278-6915
Publisher: Elsevier BV
DOI: 10.1016/j.fct.2019.03.004

Arabidopsis RCD1 coordinates chloroplast and mitochondrial functions through interaction with ANAC transcription factors

Author(s): Alexey Shapiguzov, Julia P Vainonen, Kerri Hunter, Helena Tossavainen, Arjun Tiwari, Sari Järvi, Maarit Hellman, Fayezeh Aarabi, Saleh Alseekh, Brecht Wybouw, Katrien Van Der Kelen, Lauri Nikkanen, Julia Krasensky-Wrzaczek, Nina Sipari, Markku Keinänen, Esa Tyystjärvi, Eevi Rintamäki, Bert De Rybel, Jarkko Salojärvi, Frank Van Breusegem, Alisdair R Fernie, Mikael Brosché, Perttu Permi, Eva-M
Published in: eLife, 8, 2019, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.43284

A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana

Author(s): Neerakkal Sujeeth, Nikolay Mehterov, Saurabh Gupta, Muhammad K. Qureshi, Axel Fischer, Sebastian Proost, M. Amin Omidbakhshfard, Toshihiro Obata, Maria Benina, Nikola Staykov, Salma Balazadeh, Dirk Walther, Alisdair R. Fernie, Bernd Mueller-Roeber, Jacques Hille, Tsanko S. Gechev
Published in: Cellular and Molecular Life Sciences, 2019, ISSN 1420-682X
Publisher: Birkhauser Verlag
DOI: 10.1007/s00018-019-03202-5

COMPASS for rapid combinatorial optimization of biochemical pathways based on artificial transcription factors

Author(s): Gita Naseri, Jessica Behrend, Lisa Rieper, Bernd Mueller-Roeber
Published in: Nature Communications, 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-019-10224-x

Application of high-throughput phenotyping tool Tomato Analyzer to characterize Balkan Capsicum fruit diversity

Author(s): Amol N. Nankar, Ivanka Tringovska, Stanislava Grozeva, Velichka Todorova, Dimitrina Kostova
Published in: Scientia Horticulturae, 260, 2020, Page(s) 108862, ISSN 0304-4238
Publisher: Elsevier BV
DOI: 10.1016/j.scienta.2019.108862

Large‐scale metabolite quantitative trait locus analysis provides new insights for high‐quality maize improvement

Author(s): Kun Li, Weiwei Wen, Saleh Alseekh, Xiaohong Yang, Huan Guo, Wenqiang Li, Luxi Wang, Qingchun Pan, Wei Zhan, Jie Liu, Yanhua Li, Xiao Wu, Yariv Brotman, Lothar Willmitzer, Jiansheng Li, Alisdair R. Fernie, Jianbing Yan
Published in: The Plant Journal, 2019, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14317

Extensive Variations in Diurnal Growth Patterns and Metabolism Among Ulva spp. Strains

Author(s): Antoine Fort, Morgane Lebrault, Margot Allaire, Alberto A. Esteves-Ferreira, Marcus McHale, Francesca Lopez, Jose M. Fariñas-Franco, Saleh Alseekh, Alisdair R. Fernie, Ronan Sulpice
Published in: Plant Physiology, 180/1, 2019, Page(s) 109-123, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.18.01513

Exploring the Diversity of Plant Metabolism

Author(s): Chuanying Fang, Alisdair R. Fernie, Jie Luo
Published in: Trends in Plant Science, 24/1, 2019, Page(s) 83-98, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2018.09.006

MYB Transcription Repressors Regulate Plant Secondary Metabolism

Author(s): Cheng Chen, Kaixuan Zhang, Muhammad Khurshid, Jinbo Li, Ming He, Milen I. Georgiev, Xinquan Zhang, Meiliang Zhou
Published in: Critical Reviews in Plant Sciences, 38/3, 2019, Page(s) 159-170, ISSN 0735-2689
Publisher: Taylor & Francis
DOI: 10.1080/07352689.2019.1632542

Construction and applications of a B vitamin genetic resource for investigation of vitamin dependent metabolism in maize

Author(s): Masaharu Suzuki, Shan Wu, Manaki Mimura, Saleh Alseekh, Alisdair R. Fernie, Andrew D. Hanson, Donald R. McCarty
Published in: The Plant Journal, 2019, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.14535

The Structure and Function of Major Plant Metabolite Modifications

Author(s): Shouchuang Wang, Saleh Alseekh, Alisdair R. Fernie, Jie Luo
Published in: Molecular Plant, 12/7, 2019, Page(s) 899-919, ISSN 1674-2052
Publisher: Oxford University Press
DOI: 10.1016/j.molp.2019.06.001

Comparative metabolite profiling of two switchgrass ecotypes reveals differences in drought stress responses and rhizosheath weight

Author(s): Tie-Yuan Liu, Mo-Xian Chen, Youjun Zhang, Fu-Yuan Zhu, Ying-Gao Liu, Yuan Tian, Alisdair R. Fernie, Nenghui Ye, Jianhua Zhang
Published in: Planta, 250/4, 2019, Page(s) 1355-1369, ISSN 0032-0935
Publisher: Springer Verlag
DOI: 10.1007/s00425-019-03228-w

Redox-Regulation of Photorespiration through Mitochondrial Thioredoxin o1

Author(s): Ole Reinholdt, Saskia Schwab, Youjun Zhang, Jean-Philippe Reichheld, Alisdair R. Fernie, Martin Hagemann, Stefan Timm
Published in: Plant Physiology, 181/2, 2019, Page(s) 442-457, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.19.00559

Transposon-associated polymorphisms of stress-responsive gene promoters in natural variants of Arabidopsis thaliana

Author(s): Mladen Naydenov, Nadezhda Gospodinova, Elena Apostolova, Nikolaj Anachkov, Vesselin Baev, Mariyana Gozmanova, Ivan Minkov, Galina Yahubyan
Published in: Acta Biochimica Polonica, 65/3, 2018, ISSN 0001-527X
Publisher: Polskie Towarzystwo Biochemiczne
DOI: 10.18388/abp.2017_1590

LoopRNA – Java Module for RNA Structure Annotation

Author(s): Georgi Minkov, Valentina Toneva, Zdravka Ivanova, Vesselin Baev
Published in: Comptes rendus de l’Acade'mie bulgare des Sciences, Vol 71, No9, 2018, Page(s) 1215-1221, ISSN 1310-1331
Publisher: "BAS publishing ""Prof.Malin Darinov"""
DOI: 10.7546/crabs.2018.09.08

A new liquid chromatography-high resolution Orbitrap mass spectrometry-based strategy to characterize Glucuronide Oleanane-type Triterpenoid Carboxylic Acid 3, 28-O-Bidesmosides (GOTCAB) saponins.A case study of Gypsophila glomerata Pall ex M. B. (Caryophyllaceae)

Author(s): Reneta Gevrenova, Krum Bardarov, Sabine Bouguet-Bonnet, Yulian Voynikov, Vessela Balabanova, Dimitrina Zheleva-Dimitrova, Max Henry
Published in: Journal of Pharmaceutical and Biomedical Analysis, 159, 2018, Page(s) 567-581, ISSN 0731-7085
Publisher: Elsevier BV
DOI: 10.1016/j.jpba.2018.07.041

Evaluation of collection of pepper (Capsicum spp.) resources for resistance to Verticillium dahliae Kleb.

Author(s): Katya Vasileva, Velichka Todorova, Stojka Masheva
Published in: Bulgarian Journal of Agricultural Science, 25 (No 5) 2019, 2019, Page(s) 1030-1038, ISSN 2534-983X
Publisher: Agricultural Academy of Bulgaria

Genome draft of the Arabidopsis relative Pachycladon cheesemanii reveals novel strategies to tolerate New Zealand’s high ultraviolet B radiation environment

Author(s): Yanni Dong, Saurabh Gupta, Rixta Sievers, Jason J. Wargent, David Wheeler, Joanna Putterill, Richard Macknight, Tsanko Gechev, Bernd Mueller-Roeber, Paul P. Dijkwel
Published in: BMC Genomics, 20/1, 2019, ISSN 1471-2164
Publisher: BioMed Central
DOI: 10.1186/s12864-019-6084-4

Full-length transcript-based proteogenomics of rice improves its genome and proteome annotation

Author(s): Mo-Xian Chen, Fu-Yuan Zhu, Bei Gao, Kai-Long Ma, Youjun Zhang, Alisdair R. Fernie, Xi Chen, Lei Dai, Neng-Hui Ye, Xue Zhang, Yuan Tian, Di Zhang, Shi Xiao, Jianhua Zhang, Ying-Gao Liu
Published in: Plant Physiology, 2019, Page(s) pp.00430.2019, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1104/pp.19.00430

Rapid High-Yield Transient Expression of Swine Hepatitis E ORF2 Capsid Proteins in Nicotiana benthamiana Plants and Production of Chimeric Hepatitis E Virus-Like Particles Bearing the M2e Influenza Epitope

Author(s): Gergana G. Zahmanova, Milena Mazalovska, Katerina H. Takova, Valentina T. Toneva, Ivan N. Minkov, Eugenia S. Mardanova, Nikolai V. Ravin, George P. Lomonossoff
Published in: Plants, 9/1, 2020, Page(s) 29, ISSN 2223-7747
Publisher: MDPI
DOI: 10.3390/plants9010029

Untargetted Metabolomic Exploration of the Mycobacterium tuberculosis Stress Response to Cinnamon Essential Oil

Author(s): Elwira Sieniawska, Rafał Sawicki, Joanna Golus, Milen I. Georgiev
Published in: Biomolecules, 10/3, 2020, Page(s) 357, ISSN 2218-273X
Publisher: MDPI
DOI: 10.3390/biom10030357

A Biostimulant Obtained from the Seaweed Ascophyllum nodosum Protects Arabidopsis thaliana from Severe Oxidative Stress

Author(s): Mohammad Amin Omidbakhshfard, Neerakkal Sujeeth, Saurabh Gupta, Nooshin Omranian, Kieran J. Guinan, Yariv Brotman, Zoran Nikoloski, Alisdair R. Fernie, Bernd Mueller-Roeber, Tsanko S. Gechev
Published in: International Journal of Molecular Sciences, 21/2, 2020, Page(s) 474, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms21020474

Tomato Phenotypic Diversity Determined by Combined Approaches of Conventional and High-Throughput Tomato Analyzer Phenotyping

Author(s): Amol N. Nankar, Ivanka Tringovska, Stanislava Grozeva, Daniela Ganeva, Dimitrina Kostova
Published in: Plants, 9/2, 2020, Page(s) 197, ISSN 2223-7747
Publisher: MDPI
DOI: 10.3390/plants9020197

Molecular priming as an approach to induce tolerance against abiotic and oxidative stresses in crop plants

Author(s): Pavel Kerchev, Tom van der Meer, Neerakkal Sujeeth, Arno Verlee, Christian V. Stevens, Frank Van Breusegem, Tsanko Gechev
Published in: Biotechnology Advances, 2019, Page(s) 107503, ISSN 0734-9750
Publisher: Elsevier BV
DOI: 10.1016/j.biotechadv.2019.107503

PC2P: parameter-free network-based prediction of protein complexes

Author(s): Sara Omranian, Angela Angeleska, Zoran Nikoloski
Published in: Bioinformatics, 2021, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btaa1089

Machine learning approaches for crop improvement: Leveraging phenotypic and genotypic big data

Author(s): Hao Tonga, Zoran Nikoloski
Published in: Journal of Plant Physiology, 2021, ISSN 0176-1617
Publisher: Elsevier BV
DOI: 10.1016/j.jplph.2020.153354

The style and substance of plant flavonoid decoration; towards defining both structure and function

Author(s): Saleh Alseekh, Leonardo Perez de Souza, Maria Benina, Alisdair R. Fernie
Published in: Phytochemistry, 174, 2020, Page(s) 112347, ISSN 0031-9422
Publisher: Elsevier BV
DOI: 10.1016/j.phytochem.2020.112347

Resolving the metabolon: is the proof in the metabolite?

Author(s): Youjun Zhang, Alisdair R Fernie
Published in: EMBO reports, 21/8, 2020, ISSN 1469-221X
Publisher: Nature Publishing Group
DOI: 10.15252/embr.202050774

Double Haploid Development and Assessment of Androgenic Competence of Balkan Pepper Core Collection in Bulgaria

Author(s): Grozeva S., Pasev G., Radeva-Ivanova V., Todorova V., Ivanova V., Nankar A.N.
Published in: Plants, 2021, ISSN 2223-7747
Publisher: MDPI
DOI: 10.3390/plants10112414

Rosmarinic acid - From bench to valuable applications in food industry

Author(s): Marchev A.S., Vasileva L.V., Amirova K.M., Savova M.S., Koycheva I.K., Balcheva-Sivenova Z.P., Vasileva S.M., Georgiev M.I.
Published in: Trends in Food Science & Technology, 2021, ISSN 0924-2244
Publisher: Elsevier BV
DOI: 10.1016/j.tifs.2021.03.015

Plant Systems Biology in 2022 and Beyond

Author(s): Gechev T., Petrov V.
Published in: International Journal of Molecular Sciences, 2022, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms23084159

Genome assembly of wild tea tree DASZ reveals pedigree and selection history of tea varieties

Author(s): Weiyi Zhang, Youjun Zhang, Haiji Qiu, Yafei Guo, Haoliang Wan, Xiaoliang Zhang, Federico Scossa, Saleh Alseekh, Qinghua Zhang, Pu Wang, Li Xu, Maximilian H-W Schmidt, Xinxin Jia, Daili Li, Anting Zhu, Fei Guo, Wei Chen, Dejiang Ni, Björn Usadel, Alisdair R. Fernie, Weiwei Wen
Published in: Nature Communications, 11/1, 2020, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-020-17498-6

The Bacillus subtilis glutamate anti-metabolon

Author(s): Fernie A.R., Zhang Y.
Published in: Nature Metabolism, 2022, ISSN 2522-5812
Publisher: Springer Nature
DOI: 10.1038/s42255-022-00534-8

Auxin boosts energy generation pathways to fuel pollen maturation in barley

Author(s): Amanda D., Frey F.P., Neumann U., Przybyl M., Šimura ., Zhang Y., Chen Z., Gallavotti A., Fernie A.R., Ljung K., Acosta I.F.
Published in: Current Biology, 2022, ISSN 0960-9822
Publisher: Cell Press
DOI: 10.1016/j.cub.2022.02.073

Compositional Analyses Reveal Relationships among Components of Blue Maize Grains

Author(s): Amol N. Nankar, M Paul Scott, Richard C. Pratt
Published in: Plants, 9/12, 2020, Page(s) 1775, ISSN 2223-7747
Publisher: MDPI
DOI: 10.3390/plants9121775

Color recycling: metabolization of apocarotenoid degradation products suggests carbon regeneration via primary metabolic pathways.

Author(s): Koschmieder J., Alseekh S, Shabani M., Baltenweck R., Maurino V.G., Palme K., Fernie A.R., Hugueney P., Welsch R.
Published in: Plant Cell Reports, 2022, ISSN 0721-7714
Publisher: Springer Verlag
DOI: 10.1007/s00299-022-02831-8

Molecular plant responses to combined abiotic stresses put a spotlight on unknown and abundant genes

Author(s): Nasser Sewelam, Dominik Brilhaus, Andrea Bräutigam, Saleh Alseekh, Alisdair R Fernie, Veronica G Maurino
Published in: Journal of Experimental Botany, 71/16, 2020, Page(s) 5098-5112, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/eraa250

The Penium margaritaceum Genome: Hallmarks of the Origins of Land Plants

Author(s): Chen Jiao, Iben Sørensen, Xuepeng Sun, Honghe Sun, Hila Behar, Saleh Alseekh, Glenn Philippe, Kattia Palacio Lopez, Li Sun, Reagan Reed, Susan Jeon, Reiko Kiyonami, Sheng Zhang, Alisdair R. Fernie, Harry Brumer, David S. Domozych, Zhangjun Fei, Jocelyn K.C. Rose
Published in: Cell, 181/5, 2020, Page(s) 1097-1111.e12, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2020.04.019

Ziziphus jujuba Mill. leaf extract restrains adipogenesis by targeting PI3K/AKT signaling pathway

Author(s): Martina S.Savova, Liliya V.Vasileva, Saveta G.Mladenova, Kristiana M.Amirova, Claudio Ferrante, Giustino Orlando, Martin Wabitsche, Milen I.Georgiev
Published in: Biomedicine & Pharmacotherapy, 2021, ISSN 0753-3322
Publisher: Elsevier Masson
DOI: 10.1016/j.biopha.2021.111934

Dual control of MAPK activities by AP2C1 and MKP1 MAPK phosphatases regulates defence responses in Arabidopsis

Author(s): Ayatollahi Z., Kazanaviciute V., Shubchynskyy V., Kvederaviciute K., Schwanninger M., Rozhon W., Stumpe M., Mauch F., Bartels S., Ulm R., Balazadeh S., Mueller-Roeber, B, Meskiene I., Schweighofer A.
Published in: Journal of Experimental Botany, 2022, ISSN 0022-0957
Publisher: Oxford University Press
DOI: 10.1093/jxb/erac018

Plasticity of rosette size in response to nitrogen availability is controlled by an RCC1-family protein

Author(s): Duarte G. T., Pandey P. K., Vaid N., Alseekh S., Fernie A.R., Nikoloski Z., Laitinen. R.
Published in: Plant cell and environment, 2021, ISSN 1365-3040
Publisher: Wiley
DOI: 10.1111/pce.14146

Dissecting the interaction of photosynthetic electron transfer with mitochondrial signalling and hypoxic response in the Arabidopsis rcd1 mutant

Author(s): Alexey Shapiguzov, Lauri Nikkanen, Duncan Fitzpatrick, Julia P. Vainonen, Richard Gossens, Saleh Alseekh, Fayezeh Aarabi, Arjun Tiwari, Olga Blokhina, Klára Panzarová, Zuzana Benedikty, Esa Tyystjärvi, Alisdair R. Fernie, Martin Trtílek, Eva-Mari Aro, Eevi Rintamäki, Jaakko Kangasjärvi
Published in: Philosophical Transactions of the Royal Society B: Biological Sciences, 375/1801, 2020, Page(s) 20190413, ISSN 0962-8436
Publisher: Royal Society of London
DOI: 10.1098/rstb.2019.0413

Auto-deconvolution and molecular networking of gas chromatography–mass spectrometry data

Author(s): Alexander A. Aksenov, Ivan Laponogov, Zheng Zhang, Sophie L. F. Doran, Ilaria Belluomo, Dennis Veselkov, Wout Bittremieux, Louis Felix Nothias, Mélissa Nothias-Esposito, Katherine N. Maloney, Biswapriya B. Misra, Alexey V. Melnik, Aleksandr Smirnov, Xiuxia Du, Kenneth L. Jones, Kathleen Dorrestein, Morgan Panitchpakdi, Madeleine Ernst, Justin J. J. van der Hooft, Mabel Gonzalez, Chiara Carazzone,
Published in: Nature Biotechnology, 39/2, 2021, Page(s) 169-173, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41587-020-0700-3

When a Crop Goes Back to the Wild: Feralization

Author(s): Federico Scossa, Alisdair R. Fernie
Published in: Trends in Plant Science, 2021, ISSN 1360-1385
Publisher: Elsevier BV
DOI: 10.1016/j.tplants.2021.02.002

Efficient Production of Chimeric Hepatitis B Virus-Like Particles Bearing an Epitope of Hepatitis E Virus Capsid by Transient Expression in Nicotiana benthamiana

Author(s): Gergana Zahmanova, Milena Mazalovska, Katerina Takova, Valentina Toneva, Ivan Minkov, Hadrien Peyret and George Lomonossoff
Published in: Life, 2021, ISSN 2075-1729
Publisher: MDPI
DOI: 10.3390/life11010064

Natural Genetic Diversity in Tomato Flavor Genes

Author(s): Pereira L., Sapkota M., Alonge M., Zheng Y., Zhang Y., Razifard H., Taitano N.K., Schatz M., Lipman Z., Fernie A.R., Wang Y, Fei Z, Caicedo A.L., Tieman D.M., Knaap E.
Published in: Frontiers in Plant Science, 2021, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2021.642828

Evaluation a collection of pepper (Capsicum spp.) resources for resistance to Verticillium dahliae Kleb

Author(s): 77. Vasileva K, Todorova V, Masheva S.
Published in: Bulgarian Journal of Agricultural Science 25(3), 2019, Page(s) 415-420, ISSN 1310-0351
Publisher: Agricultural Academy
DOI: 10.5281/zenodo.3692692

Long-Term Cd exposure alters the metabolite profile in stem tissue of Medicago sativa.

Author(s): Gutsch A., Hendrix S., Guerriero G., Renaut J., Lutts S., Alseekh S., Fernie A.R., Hausman J.F., Vangronsveld J., Cuypers A., Sergeant K.
Published in: Cells, 2021, ISSN 2073-4409
Publisher: MDPI
DOI: 10.3390/cells9122707

Towards the Development, Maintenance, and Standardized Phenotypic Characterization of Single-Seed-Descent Genetic Resources for Common Bean

Author(s): Cortinovis G., Oppermann M., Neumann K., Graner A., Gioia T., Marsella M., Alseekh S., Fernie A.R., Papa R., Bellucci E., Bitocchi E.
Published in: Current protocols., 2021, ISSN 2691-1299
Publisher: Wiley
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Rising rates of starch degradation during daytime and trehalose 6-phosphate optimize carbon availability

Author(s): Ishihara H., Alseekh S., Feil R., Perera P., George G.M., Niedźwiecki P., Arrivault S., Zeeman S.C., Fernie A.R., Lunn J.E., Smith A.M., Stitt M.
Published in: Plant Physiology, 2022, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiac162

Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices.

Author(s): Alseekh S., Aharoni A., Brotman Y., Contrepois K., D’Auria ., Ewald C. ., Ewald ., Fraser P.D., Giavalisco P., Hall R.D., Heinemann M., Link H., Luo J., Neumann S., Nielsen J., Leonardo Souza P., Saito K., Sauer U., Schroeder C.F., Schuster S., Siuzdak, G., Skirycz A., Sumner W.L., Snyder P.M., Tang H., Tohge T., Wang Y., Wen W., Wu S., Xu G., Nicola Zamboni N., R. Fernie A.R.
Published in: Nature Methods, 2021, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-021-01197-1

A step towards Balkan Capsicum annuum L. core collection: Phenotypic and biochemical characterization of 180 accessions for agronomic, fruit quality, and virus resistance traits

Author(s): Amol N. Nankar, Velichka Todorova, Ivanka Tringovska, Gancho Pasev, Vesela Radeva-Ivanova, Valentina Ivanova, Dimitrina Kostova
Published in: PLOS ONE, 15/8, 2020, Page(s) e0237741, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0237741

Sulfur deficiency-induced genes affect seed protein accumulation and composition under sulfate deprivation

Author(s): Aarabi F., Rakpenthai A., Barahimipour R., Gorka M., Alseekh S., Zhang Y., Salem M. A., Brückner F., Omranian N., Watanabe M., Nikoloski Z., Giavalisco P., Tohge T., Graf A., Fernie A.R., Hoefgen R.
Published in: Plant Physiology, 2021, ISSN 0032-0889
Publisher: American Society of Plant Biologists
DOI: 10.1093/plphys/kiab386

Cytoskeleton Architecture Regulates Glycolysis Coupling Cellular Metabolism to Mechanical Cues

Author(s): Alisdair R. Fernie, Youjun Zhang, Arun Sampathkumar
Published in: Trends in Biochemical Sciences, 45/8, 2020, Page(s) 637-638, ISSN 0968-0004
Publisher: Elsevier BV
DOI: 10.1016/j.tibs.2020.04.003

Plant-based expression and characterization of SARS-CoV-2 virus-like particles presenting a native spike protein

Author(s): Jung J-W., Zahmanova G., Minkov I., Lomonossoff G.P.
Published in: Plant Biotechnolgy Journal, 2022, ISSN 1467-7644
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/pbi.13813

Comparative Molecular and Metabolic Profiling of Two Contrasting Wheat Cultivars under Drought Stress

Author(s): Fadoul H.E, Martínez Rivas F. , Neumann K., Balazadeh S., Fernie A.R., Alseekh S.
Published in: International Journal of Molecular Sciences, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms222413287

Ubiquitin proteins and the orchestration of transcription factors activity.

Author(s): He Y., Zhang K., Georgiev M.I.
Published in: Critical Reviews in Plant Sciences, 2021, ISSN 0735-2689
Publisher: Taylor & Francis
DOI: 10.1080/07352689.2021.1951491

A Core Metabolome Response of Maize Leaves Subjected to Long-Duration Abiotic Stresses

Author(s): Joshi J., Hasnain G., Logue T., Lynch M., Wu S., Guan J.C., Alseekh S., Fernie A.R., Hanson A.D., McCarty D.R.
Published in: Metabolites, 2021, ISSN 2218-1989
Publisher: MDPI
DOI: 10.3390/metabo11110797

Plant metabolism paves the way for breeding crops with high nutritional value and stable yield

Author(s): Jin C., Fang C., Zhang Y., Fernie A.R., Luo J.
Published in: Science China Life Sciences, 2021, ISSN 1674-7305
Publisher: Zhongguo Kexue Zazhishe/Science in China Press
DOI: 10.1007/s11427-021-2004-0

JA-induced FtBPM3 accumulation promotes FtERF-EAR3 degradation and rutin biosynthesis in Tartary buckwheat

Author(s): Ding M., He Y., Zhang K., Li J., Shi Y., Zhao M., Meng Y., Georgiev M.I., Zhou M.
Published in: The Plant Journal, 2022, ISSN 0960-7412
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/tpj.15800

From Affinity to Proximity Techniques to Investigate Protein Complexes in Plants

Author(s): Kerbler M. S., Natale R., Fernie A.R., Zhang Y.
Published in: International Journal of Molecular Sciences, 2021, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22137101

Conservation and diversification of flavonoid metabolism in the plant kingdom

Author(s): Weiwei Wen, Saleh Alseekh, Alisdair R Fernie
Published in: Current Opinion in Plant Biology, 55, 2020, Page(s) 100-108, ISSN 1369-5266
Publisher: Elsevier BV
DOI: 10.1016/j.pbi.2020.04.004

Putative alternative translation start site-encoding nucleotides of CPR5 regulate growth and resistance

Author(s): Muhammad B. Faisal, Tsanko S. Gechev, Bernd Mueller-Roeber, Paul P. Dijkwel
Published in: BMC Plant Biology, 20/1, 2020, ISSN 1471-2229
Publisher: BioMed Central
DOI: 10.1186/s12870-020-02485-2

The Multiverse of Plant Small RNAs: How Can We Explore It?

Author(s): Ivanova Z., Minkov G., Gisel A., Yahubyan G., Minkov I., Toneva V., Baev V.
Published in: International Journal of Molecular Sciences, 2022, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms23073979

Molecular insights into plant–microbe interactions for sustainable remediation of contaminated environment

Author(s): Rane R.N., Tapase S., Kanojia A., Watharkar A., Salama E., Jang M., Yadav K., Amin A.M., Pinto M.S., Cabral-Pinto, Jadhav P.J., Byong-Hun J.
Published in: Bioresource Technology, 2022, ISSN 0960-8524
Publisher: Elsevier BV
DOI: 10.1016/j.biortech.2021.126246

Strategic enhancement of genetic gain for nutraceutical development in buckwheat: A genomics-driven perspective

Author(s): Dinesh C. Joshi, Kaixuan Zhang, Chenglong Wang, Rahul Chandora, Muhammad Khurshid, Jinbo Li, Ming He, Milen I. Georgiev, Meiliang Zhou
Published in: Biotechnology Advances, 39, 2020, Page(s) 107479, ISSN 0734-9750
Publisher: Elsevier BV
DOI: 10.1016/j.biotechadv.2019.107479

Diverting tyrosine: Data from untargeted metabolic analysis of tomato fruit accumulating L-DOPA

Author(s): Breitel D., Brett P., Alseekh S., Fernie A.R., Butelli, E., Martin C.
Published in: Metabolic Engineering, 2021, ISSN 2352-3409
Publisher: Elsevier BV
DOI: 10.1016/j.dib.2020.106678

Annual Plant Reviews online

Author(s): 21. Lyall R., Gechev T.
Published in: Annual Plant Reviews online 2020 Volume 3, 2018, ISBN 9781119312994
Publisher: Wiley
DOI: 10.1002/9781119312994.apr0730

Rice Grain Quality Benchmarking Through Profiling of Volatiles and Metabolites in Grains Using Gas Chromatography Mass Spectrometry

Author(s): Cindy Llorente, Rosario Jimenez, Jackie, Yariv Brotman, Alisdair R. Fernie, Nese Sreenivasulu
Published in: Rice Grain Quality - Methods and Protocols, 1892, 2019, Page(s) 187-199, ISBN 978-1-4939-8912-6
Publisher: Springer New York
DOI: 10.1007/978-1-4939-8914-0_11

Guidelines for Sample Normalization to Minimize Batch Variation for Large-Scale Metabolic Profiling of Plant Natural Genetic Variance

Author(s): Saleh Alseekh, Si Wu, Yariv Brotman, Alisdair R. Fernie
Published in: Plant Metabolomics, 1778, 2018, Page(s) 33-46, ISBN 978-1-4939-7818-2
Publisher: Springer New York
DOI: 10.1007/978-1-4939-7819-9_3

Metabolomic Analysis of Natural Variation in Arabidopsis

Author(s): Si Wu, Saleh Alseekh, Yariv Brotman, Alisdair R. Fernie
Published in: Arabidopsis Protocols, 2200, 2021, Page(s) 393-411, ISBN 978-1-0716-0879-1
Publisher: Springer US
DOI: 10.1007/978-1-0716-0880-7_19