Publications

2022

Amanda D., Frey F.P., Neumann U., Przybyl M., Šimura J., Zhang Y., Chen Z., Gallavotti A., Fernie A.R., Ljung K., Acosta I.F. (2022) Auxin boosts energy generation pathways to fuel pollen maturation in barley. Current Biology. DOI: doi: 10.1016/j.cub.2022.02.073. (IF 10.834)

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. (2022) Dual control of MAPK activities by AP2C1 and MKP1 MAPK phosphatases regulates defence responses in arabidopsis. Journal of Experimental Botany. DOI: doi: 10.1093/jxb/erac018. (IF 6.992)

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. (2022) Corrigendum to: posttranslational modification of the NADP-malic enzyme Involved in C4 photosynthesis modulates the enzymatic activity during the day. The Plant cell. 34:(1) 698-699. (11.277)

Chen C., Liu F., Zhang K., Niu X., Zhao H., Liu Q., Georgiev M.I., Xu X., Zhang X., Zhou M. (2022) MeJA-responsive bHLH transcription factor LjbHLH7 regulates cyanogenic glucoside biosynthesis in lotus japonicus. Journal of Experimental Botany. 73(8): 2650-2665. (IF 6.992)

Ding M., He Y., Zhang K., Li J., Shi Y., Zhao M., Meng Y., Georgiev M.I., Zhou M. (2022) JA-induced FtBPM3 accumulation promotes FtERF-EAR3 degradation and rutin biosynthesis in Tartary buckwheat. Plant Journal. DOI: https://doi.org/10.1111/tpj.15800. (IF 6.417)

Fernie A.R., Alseekh S. (2022) Metabolomic selection-based machine learning improves fruit taste prediction. Proceedings of the National Academy of Sciences of the United States of America. DOI: doi: 10.1073/pnas.2201078119. (IF 11.205)

Fernie A.R., Zhang Y. (2022) The Bacillus subtilis glutamate anti-metabolon. Nature Metabolism. DOI: 10.1038/s42255-022-00534-8. (IF 13.151)

Gechev T.Petrov V. (2022) Plant systems biology in 2022 and beyond. International Journal of Molecular Sciences. 23: 415. (IF 5.923)

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. (2022) Comparison of buckwheat genomes reveals the genetic basis of metabolomic divergence and ecotype differentiation. New Phytologist. DOI: 10.1111/nph.18306. (IF 10.151)

Huda, M. N., Li, X., Jahan, T., He, Y., Guan, C., Zhang K., Gao A., Georgiev M.I., Zhou M. (2022)Acceleration of the genetic gain for nutraceutical improvement of adlay (Coix L.) through genomic approaches: current status and future prospects. Food Reviews International. DOI: 10.1080/87559129.2022.2067175. (IF 6.478)

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. (2022) Rising rates of starch degradation during daytime and trehalose 6-phosphate optimize carbon availability. Plant Physiology. DOI: doi: 10.1093/plphys/kiac162. (IF 8.340)

Ivanova Z., Minkov G., Gisel A., Yahubyan G., Minkov I., Toneva V., Baev V. (2022) The multiverse of plant small RNAs: How can we explore It? International Journal of Molecular Sciences. 23(7): 3979 (IF 5.923)

Jung J-W., Zahmanova G., Minkov I., Lomonossoff G.P. (2022) Plant-based expression and characterization of SARS-CoV-2 virus-like particles presenting a native spike protein. Plant Biotechnolgy Journal. DOI: doi: 10.1111/pbi.13813. (IF 9.803)

Koschmieder J., Alseekh S, Shabani M., Baltenweck R., Maurino V.G., Palme K., Fernie A.R., Hugueney P., Welsch R. (2022) Color recycling: metabolization of apocarotenoid degradation products suggests carbon regeneration via primary metabolic pathways. Plant Cell Reports. DOI:  doi: 10.1007/s00299-022-02831-8. (IF 4.570)

Liu J., Wang Y., Wu J., Georgiev M.I., Xu B., Wong K.H., Bai W., Tian L. (2022) Isolation, structural properties, and bioactivities of polysaccharides from mushrooms termitomyces: a review. Journal of Agricultural and Food Chemistry. 70(1): 21-33. (IF 5.274) 

Martínez-Rivas F.J., Blanco-Portales R., Molina-Hidalgo F.J., Caballero J.L., Perez de Souza L., Alseekh S., Fernie A.R., Muñoz-Blanco J., Rodríguez-Franco A. (2022) Azacytidine arrests ripening in cultivated strawberry (fragaria × ananassa) by repressing key genes and altering hormone contents. BMC Plant Biology. 22(1): 278. (IF 4.215)

Mladenova S.G., Savova M.S.Marchev A.S., Ferrante C., Orlando G., Wabitsch M., Georgiev M.I. (2022) Anti-adipogenic activity of maackiain and ononin is mediated via inhibition of PPARγ in human adipocytes. Biomedicine and Pharmacotherapy. 149: 112908. (IF 6.529)

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. (2022) Formulation and testing of antioxidant and protective effect of hyalurosomes loading extract rich in rosmarinic acid biotechnologically produced from Lavandula angustifolia Miller. Molecules.  27(8): 2423. (IF 4.412)

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. (2022) Towards the development, maintenance and standardized phenotypic characterization of single-seed-descent genetic resources for chickpea. Current protocols. DOI: https://doi.org/10.1002/cpz1.371

Sageman-Furnas K., Nurmi M., Contag M., Plötner B., Alseekh S., Wiszniewski A., Fernie A.R, Smith L.M., Laitinen RAE. (2022) A. thaliana hybrids develop growth abnormalities through integration of stress, hormone and growth signalling. Plant Cell Physiology. DOI: doi: 10.1093/pcp/pcac056. (IF 4.927)

Salem M.A., Aborehab N.M., Al-Karmalawy A.A., Fernie A.R., Alseekh S., Ezzat S.M. (2022) 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. Antioxidants. 11(3): 462. (IF 6.312)

Salem M.A., El-Shiekh R.A., Fernie A.R., Alseekh S., Zayed A. (2022) Metabolomics-based profiling for quality assessment and revealing the impact of drying of turmeric (Curcuma longa L.). Scientific Report. 12(1): 10288. (IF 4.379)

Salem M.A, Ezzat S.M, Ahmed K.A, Alseekh S., Fernie A.R, Essam R.M. (2022) 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. Frontiers in Pharmacology. DOI: doi: 10.3389/fphar.2022.840478. (IF 5.811)

Radeva-Ivanova V., Pasev G., Lyall R., Angelov M., Nankar A.N., Kostova D. (2022) First report of cucurbit aphid-borne yellows virus causing yellowing disease on pumpkin (cucurbita pepo) and cucumber (cucumis sativus) in Bulgaria. APS Journal. DOI: doi: 10.1094/PDIS-09-21-2030-PDN. (IF 4.025)

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. (2022) Molecular insights into plant–microbe interactions for sustainable remediation of contaminated environment. Bioresource Technology. 344(B): 126246. (IF 9.642)
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. (2022) The AtMYB60 transcription factor regulates stomatal opening by modulating oxylipin synthesis in guard cells. Scientific Report. DOI: doi: 10.1038/s41598-021-04433-y. (IF 4.379)

Stefan T., Wu X.N., Zhang Y., Fernie A.R., Schulze W.X. (2022) Regulatory Modules of Metabolites and Protein Phosphorylation in Arabidopsis Genotypes With Altered Sucrose Allocation. Frontiers in Plant Science. DOI: doi: 10.3389/fpls.2022.891405. (IF 5.753)

Tong H., Nankar A.N., Liu J., Todorova V., Ganeva D., Grozeva S., Tringovska I., Pasev Gancho., Radeva-Ivanova V., Gechev T., Kostova D., Nikoloski Z. (2022) Genomic prediction of morphometric and colorimetric traits in Solanaceous fruits. Horticulture Research. DOI: https://doi.org/10.1093/hr/uhac072 (IF 6.793)

Zahmanova G., Takova K., Valkova R., Toneva V., Minkov I., Andonov A., Lukov G.L. (2022) Plant-derived recombinant vaccines against zoonotic viruses. Life. 12(2): 156. (IF 3.817)

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. (2022) Integration of rhythmic metabolome and transcriptome provides insights into the transmission of rhythmic fluctuations and temporal diversity of metabolism in rice. Science China Life Sciences. DOI: doi: 10.1007/s11427-021-2064-7. (IF 6.038)

Zareen S., Ali A., Lim C.J., Khan H.A., Park J., Xu Z.Y., Yun D.J. (2022) The transcriptional corepressor HOS15 mediates dark-Induced leaf senescence in arabidopsis. Frontiers in Plant Science. DOI: doi: 10.3389/fpls.2022.828264. (IF 5.753)

Zhang Y., Fernie A.R. (2022) Dynamically regulating metabolic fluxes with synthetic metabolons. Trends Biotechnology. DOI: doi: 10.1016/j.tibtech.2022.06.005. (IF 19.536)

Zhu F., Alseekh S., Wen W., Cheng Y., Fernie A.R. (2022) Genome-wide association studies of arabidopsis dark-induced senescence reveals signatures of autophagy in metabolic reprogramming. Autophagy. 18: 457-458. (IF 16.016)

Zhu F., Alseekh S., Koper K., Tong H., Nikoloski Z., Naake T., Liu H., Yan J., Brotman Y., Wen W., Maeda H., Cheng Y., Fernie A.R. (2022) Genome-wide association of the metabolic shifts underpinning dark-induced senescence in Arabidopsis. The Plant Cell. 34(1): 557-578. (IF 11.277)

Zhu F., Ahchige M.W., Brotman Y., Alseekh S., Zsogon A., Fernie A.R. (2022) Bringing more players into play: leveraging stress in genome wide association studies. Journal of Plant Physiology. 271: 153657. (IF 3.549)

Zhu F., Jadhav S.S., Tohge T., Salem M.A., Li J.M., Giovannoni J.J., Cheng Y., Alseekh S., Fernie A.R. (2022) A comparative transcriptomics and eQTL approach identifies SlWD40 as a tomato fruit ripening regulator. Plant Physiology. DOI: doi: 10.1093/plphys/kiac200. (IF 8.340)
2021

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. (2021) Sulfur deficiency-induced genes affect seed protein accumulation and composition under sulfate deprivation. Plant Physiology. DOI: https://doi.org/10.1093/plphys/kiab386. (IF 8.340)

Alseekh S., Aharoni A., Brotman Y., Contrepois K., D’Auria J., Ewald C.J., Ewald J., 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. (2021) Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices. Nature Methods. 18: 747–756. (IF 28.547)

Alseekh S., Fernie A.R. (2021) Using metabolomics to assist plant breeding. Methods in Molecular Biology. 2264: 33-46.

Alseekh S., Kostova D., Mustafa B., Fernie A.R. (2021) Genome-wide association studies: assessing trait characteristics in model and crop plants. Cellular and Molecular Life Sciences. 78: 5743–5754. (IF 9.261)

Alseekh S., Scossa F., Wen W., Luo J., Yan J., Beleggia R., Klee H.J., Huang S., Papa R., Fernie A.R. (2021) Domestication of crop metabolomes: desired and unintended consequences. Trends in Plant Science. 26(6): 650-661. (IF 18.313)

Amirova K.M., Dimitrova P.A., Marchev A.S., Krustanova S., Simova S., Alipieva K., Georgiev M.I. (2021) Biotechnologically-produced myconoside and calceolarioside E induce Nrf2-expression in neutrophils. International Journal of Molecular Sciences. 22(4): 1759. (IF 5.924)

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. (2021) Natural products in drug discovery: advances and opportunities. Nature Reviews in Drug Discovery. 20: 200-216. (IF 84.694)

Baev V., Ivanova Z., Yahubyan G., Toneva V., Apostolova E., Minkov G., Minkov I. (2021) Analysis of the complete mitochondrial genome sequence of the resurrection plant Haberlea rhodopensis. Acta Biochim Pol. 68(2): 277-286. (IF 2.149)

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., Meglič 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., Fernie A.R., Gioia T., Graner A., Guasch L., Prochnow L., Opperman M., Susek K., Tenaillon M., Papa R.(2021) The INCREASE project: Intelligent collections of food-legume genetic resources for european agrofood systems. The Plant Journal. 108(3): 646-660. (IF 6.417)

Breitel D., Brett P., Alseekh S.Fernie A.R., Butelli, E., Martin C. (2021) Diverting tyrosine: Data from untargeted metabolic analysis of tomato fruit accumulating L-DOPA. Metabolic Engineering. 34: 106678. (IF 9.783)

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. (2021) The genetics underlying metabolic signatures in a brown rice diversity panel and their vital role in human nutrition. The Plant Journal. 106(2): 507-525. (IF 6.417)

Bulut M., Fernie A.R., Alseekh S. (2021) Large-scale multi-omics genome-wide association studies (Mo-GWAS): guidelines for sample preparation and normalization. Jove-Journal of Visualized Experiments. DOI: 10.3791/62732. (IF 1.355)

Cervela-Cardona L., Yoshida T., Zhang Y., Okada M., Fernie A.R., Mas P., (2021) Circadian control of metabolism by the clock component TOC1. 12: 1126. (IF 5.753)

Cortinovis G., Oppermann M., Neumann K., Graner A., Gioia T., Marsella M., Alseekh S., Fernie A.R., Papa R., Bellucci E., Bitocchi E. (2021) Towards the development, maintenance, and standardized phenotypic characterization of single-seed-descent genetic resources for common bean. Current protocols. 1(5): e133.

Ding M., Zhang K., He Y., Zuo Q., Zhao H., He M., Georgiev M.I., Park S.U., Zhou M. (2021) FtBPM3 modulates the orchestration of FtMYB11-mediated flavonoids biosynthesis in Tartary buckwheat. Plant Biotechnology Journal. 19(7): 1285-1287. (IF 9.803)

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. (2021) Pod indehiscence in common bean is associated with the fine regulation of PvMYB26. Journal of Experimental Botany. 72: 1617-1633. (IF 6.992)

Dominguez P.G., Conti G., Duffy T., Insani M., Alseekh S., Asurmendi S., Fernie A.R., Carrari F. (2021) Multiomics analyses reveal the roles of the ASR1 transcription factor in tomato fruits. Journal of Experimental Botany. 72(18): 6490–6509. (IF 6.992)
Duarte G. T., Pandey P. K., Vaid N., Alseekh S., Fernie A.R., Nikoloski Z., Laitinen. R. (2021) Plasticity of rosette size in response to nitrogen availability is controlled by an RCC1-family protein. Plant cell and environment. 44(10) :3398-3411. (IF 7.228)

Fadoul H.E, Martínez Rivas F.J, Neumann K., Balazadeh S., Fernie A.R., Alseekh S. (2021) Comparative molecular and metabolic profiling of two contrasting wheat cultivars under drought stress. International Journal of Molecular Sciences. 22(24) :13287. (IF 5.924)

Fernie A.R., Alseekh S. (2021) Unravelling the molecular networks that regulate kiwifruit flavor. New Phytologist. 233(1): 373–389. (IF 10.151)

Fernie A.R.Alseekh S., Liu J., Yan J. (2021) Using precision phenotyping to inform de novo domestication. Plant Physiology. 186(3): 1397–1411. (IF 8.340)

Gechev T., Lyall R., Petrov V., Bartels D. (2021) Systems biology of resurrection plants. Cellular and Molecular Life Sciences. 78: 6365–6394. (IF 9.261)

Georgiev M.I.Vasileva L.V.Savova M.S. (2021) Antiobesity molecules of natural origin: Call for lead finding acceleration. Food Frontiers. 2(1): 23-24.

Grozeva S., Pasev G., Radeva-Ivanova V., Todorova V., Ivanova V., Nankar A.N. (2021) Double haploid development and assessment of androgenic competence of Balkan pepper core collection in Bulgaria. Plants. 10(11): 2414. (IF 3.935)

Grozeva S., Todorova V., Nankar A.N. (2021) Creation of pepper doubled haploids and morphological characterization of androgenic plants. Euphytica. 217: 113. (IF 1.895)

Gutsch A., Hendrix S., Guerriero G., Renaut J., Lutts S., Alseekh S.Fernie A.R., Hausman J.F., Vangronsveld J., Cuypers A., Sergeant K. (2020) Long-Term Cd exposure alters the metabolite profile in stem tissue of Medicago sativa. Cells. 9(12): 2707. (IF 6.600)

He Y., Zhang K., Georgiev M.I., Zhou M. (2021) Ubiquitin proteins and the orchestration of transcription factors activity. Critical Reviews in Plant Sciences. 40(4): 366-377. (IF 5.188)

Huda N.Md., Lu S., Jahan T., Ding M., Jha R., Zhang K., Zhang W., Georgiev M.I., Park S-U., Zhou M. (2021) Treasure from garden: bioactive compounds of buckwheat. Food Chemistry. 335: 127653. (IF 7.514)

Jin C., Fang C., Zhang Y., Fernie A.R., Luo J. (2021) Plant metabolism paves the way for breeding crops with high nutritional value and stable yield. Science China-Life Sciences. 64: 2202–2205. (IF 6.038)

Jiang L., Yoshida T., Stiegert S., Jing, Y., Alseekh S., Lenhard M., Pérez-Alfocea F., Fernie A.R. (2021) Multi-omics approach reveals the contribution of KLU to leaf longevity and drought tolerance. Plant Physiology. 185(2): 352–368. (IF 8.340)

John S., Jadwiga Olas J., Mueller-Roeber B. (2021) Regulation of alternative splicing in response to temperature variation in plants. Journal of Experimental Botany. 72(18): 6150–6163. (IF 6.992)

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. (2021) Will Casuarina glauca stress resilience be maintained in the face of climate change?. Metabolites. 11(9): 593. (IF 4.932)

Joshi J., Hasnain G., Logue T., Lynch M., Wu S., Guan J.C., Alseekh S., Fernie A.R., Hanson A.D., McCarty D.R. (2021) A core metabolome response of maize leaves subjected to long-duration abiotic stresses. Metabolites. 11(11): 797. (IF 4.932)

Kanojia A., Shrestha K.D., Dijkwel P. (2021) Primary metabolic processes as drivers of leaf ageing. Cellular and Molecular Life Sciences. 78: 6351–6364 (IF 9.261)

Kerbler M. S., Natale R., Fernie A.R., Zhang Y. (2021) From affinity to proximity techniques to investigate protein complexes in plants. International Journal of Molecular Sciences. 22(13): 7101. (IF 5.923)

Koycheva I.K., Mihaylova L.V., Todorova M.N., Balcheva-Sivenova Z.P., Alipieva K., Ferrante C., Orlando G., Georgiev M.I. (2021) Leucosceptoside a from devil’s claw modulates psoriasis-like inflammation via suppression of the PI3K/AKT signaling pathway in keratinocytes. Molecules. 26: 7014. (IF 4.412)

Koycheva I.K., Vasileva L.V., Amirova K.M., Marchev A.S., Balcheva-Sivenova Z.P., Georgiev M.I. (2021) Biotechnologically-produced Lavandula angustifolia Mill. extract rich in rosmarinic acid resolves psoriasis-related inflammation through JAK/STAT signaling. Frontiers in Pharmacology. 12: 680168. (IF 5.811)

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. (2021) Phytochromes control metabolic flux, and their action at the seedling stage determines adult plant biomass. Journal of Experimental Botany. 72(8): 3263–3278. (IF 6.992)

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. (2021) Towards development, maintenance, and standardized phenotypic characterization of single-seed-descent genetic besources for lupins. Current Protocols. 1(7): e191.

Li J., Meng Y., Zhang K., Li Q., Li S., Xu B., Georgiev M.I., Zhou M. (2021) Jasmonic acid-responsive RRTF1 transcription factor controls DTX18 gene expression in hydroxycinnamic acid amide secretion. Plant Physiology. 185(2): 369–384. (IF 8.340)

Marchev A.S., Vasileva L.V.Amirova K.M.Savova M.S., Balcheva-Sivenova Z.P., Georgiev M.I. (2021) Metabolomics and health: from nutritional crops and plant-based pharmaceuticals to profiling of human biofluids. Cellular and Molecular Life Sciences. 78: 6487–6503 (IF 9.261)

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. (2021) Rosmarinic acid – from bench to valuable applications in food industry. Trends in Food Science and Technology. 117: 182-193. (IF 12.563)

Mladenova S.G., Vasileva L.V.Savova M.S., Marchev A.S., Tews D., Wabitsch M., Ferrante C., Orlando G., Georgiev M.I. (2021) Anti-adipogenic effect of Alchemilla monticola is mediated via PI3K/AKT signaling inhibition in human adipocytesFrontiers in Pharmacology. 12: 707507 (IF 5.811)

Moreno J. C., Vicente R., Bruno E. R., Gorka M., Kosmacz M., Peralta-Ariza J. S., Zhang Y.Saleh A., Dorothee C., Luzarowski M., Nikoloski Z., Hartman M. D., Figueroa C. M., Iglesias A. A., Fernie A.R., A. Skirycz (2021) Tyr-Asp inhibition of glyceraldehyde 3-phosphate dehydrogenase affects plant redox metabolism. EMBO Journal. 40(15): e106800. (IF 11.598)

Nankar A.N., Pratt R.C. (2021) Genotyping by sequencing reveals genetic relatedness of southwestern U.S. blue maize landraces. International Journal of Molecular Sciences. 22(7): 3436. (IF 5.923)

Nankar A.N., Scott MP., Pratt RC. (2021) Compositional analyses reveal relationships among grain components in anthocyanin pigmented blue maize grains. Plants. 9 (12): 1775. (IF 3.935)

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. (2021) Natural genetic diversity in tomato flavor genes. Frontiers in Plant Science. 12: 914. (IF 5.753)

Omidbakhshfard M. A., Sokolowska E. M., Di Vittori V., Perez de Souza L., Kuhalskaya A., Brotman Y., Alseekh S., Fernie A.R., Skirycz, A. (2021) Multi-omics analysis of early leaf development in Arabidopsis thaliana. Patterns. 2(4): 100235.
Omranian S., Angeleska A., Nikoloski Z. (2021) PC2P: Parameter-free network-based prediction of protein complexes. Bioinformatics. 37(1): 73–81. (IF 6.937)

Perez de Souza L., Alseekh S., Scossa F., Fernie A.R. (2021) Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research. Nature Methods. 18: 733–746. (IF 28.547)

Qin K., Fernie A.R., Zhang Y. (2021)  The assembly of super-complexes in the plant chloroplast. Biomolecules. 11(12) :1839. (IF 4.879)

Rasul F., Gupta S., Olas J.J., Gechev T., Sujeeth N., Mueller-Roeber B. (2021) Priming with a seaweed extract strongly improves drought tolerance in Arabidopsis. International Journal of Molecular Sciences. 22: 1469. (IF 5.923)

Ren Y., Li M., Guo S., Sun H., Zhao J., Zhang J., Liu G., He H., Tian S., Yu Y., Gong G., Zhang H., Zhang X., Alseekh S.Fernie A.R., Scheller H.V., Xu Y. (2021) Evolutionary gain of oligosaccharide hydrolysis and sugar transport enhanced carbohydrate partitioning in sweet watermelon fruits. The Plant Cell. 33(5): 1554–1573. (IF 11.277)

Salem M. A., Zayed A., Alseekh S., Fernie A. R., Giavalisco P. (2021) The integration of MS-based metabolomics and multivariate data analysis allows for improved quality assessment of zingiber officinale Roscoe. Phytochemistry. 190: 112843. (IF 4.072)

Savova M.S.Vasileva L.V., Mladenova S.G., Amirova K.M., Ferrante C., Orlando G., Wabitsch M., Georgiev M.I. (2021) Ziziphus jujuba Mill. leaf extract restrains adipogenesis by targeting PI3K/AKT signaling pathway. Biomedicine and Pharmacotherapy. 141: 111934. (IF 6.529)

Scossa F., Alseekh S., Fernie A.R. (2021) Integrating multi-omics data for crop improvement. Journal of Plant Physiology. 257: 153352. (IF 3.549)

Scossa F., Fernie A.R. (2021) Ancestral sequence reconstruction – An underused approach to understand the evolution of gene function in plants?Computational and Structural Biotechnology Journal. 19: 1579–1594. (IF 7.271)

Scossa F., Fernie A.R. (2021) When a Crop Goes Back to the Wild: Feralization. Trends in Plant Science. 26(6): 543–545. (IF 18.313)

Sieniawska E., Georgiev M.I. (2021) Metabolomics: towards acceleration of antibacterial plant-based leads discovery. Phytochemistry Reviews. DOI: https://doi.org/10.1007/s11101-021-09762-4. (IF 5.374)

Sieniawska E., Sawicki R., Marchev A.S., Truszkiewicz W., Georgiev M.I. (2021) Tanshinones from Salvia miltiorrhiza inhibit Mycobacterium tuberculosis via disruption of the cell envelope surface and oxidative stress. Food and Chemical Toxicology. 156: 112405. (IF 6.025)

Sieniawska E., Sawicki R., Truszkiewicz W., Marchev A.S., Georgiev M.I. (2021) Usnic acid treatment changes the composition of Mycobacterium tuberculosis cell envelope and alters bacteria redox status. mSystems. 6(3): e00097-21. (IF 6.496)

Shi M., Liao P., Nile S.H., Georgiev M.I., Kai G. (2021) Biotechnological exploration of transformed root culture for value-added products. Trends in Biotechnology. 39(2): 137-149. (IF 19.536)

Staykov N.S.Angelov M.Petrov V., Minkov P., Kanojia A., Guinan K.J., Alseekh S.Fernie A.R., Neerakkal S., Gechev T. (2021) An Ascophyllum nodosum-derived biostimulant protects model and crop plants from oxidative stress. Metabolites. 11(1): 24. (IF 4.932)

Takova K., Koynarski T., Minkov G., Toneva V., Mardanova E., Ravin N., Lukov G.L., Zahmanova G. (2021) Development and optimization of an enzyme immunoassay to detect serum antibodies against the Hepatitis E virus in pigs, using plant-derived ORF2 recombinant protein. Vaccines. 9(9): 991. (IF 4.422)

Tong H., Nikoloski Z. (2021) Machine learning approaches for crop improvement: leveraging phenotypic and genotypic big data.  Journal of Plant Physiology. 257: 153354. (IF 3.549)

Tong H., Küken A., Razaghi-Moghadam Z., Nikoloski Z. (2021) Characterization of effects of genetic variants via genome-scale metabolic modelling. Cellular and Molecular Life Sciences. 78: 5123–5138. (IF 9.261)

Vasileva L.V.Savova M.S., Tews D., Wabitsch M., Georgiev M.I. (2021) Rosmarinic acid attenuates obesity and obesity-related inflammation in human adipocytes. Food and Chemical Toxicology. 149: 112202. (IF 6.025)

Wu T., Kerbler M.S., Fernie A.R., Zhang Y. (2021) Plant cell cultures as heterologous bio-factories for secondary metabolite production. Plant Communications. 2(5): 100235.

Wang J. Y., Alseekh S., Xiao T., Ablazov A., Perez de Souza L., Fiorilli V., Anggarani M., Lin P. Y., Votta C., Novero M., Jamil M., Lanfranco L., Hsing Y. C., Blilou I., Fernie A. R., Al-Babili S. (2021) Multi-omics approaches explain the growth-promoting effect of the apocarotenoid growth regulator zaxinone in rice. Communications Biology. 4(1): 1222 (IF 6.268)

Yang C., Shen S., Zhou S., Li Y., Mao Y., Zhou J., Shi Y., An L., Zhou Q., Peng W., Lyu Y., Liu X., Chen W., Wang S., Qu L., Liu X., Fernie A.R.,  Luo, J. (2021) Rice metabolic regulatory network spanning its entire life cycle. Molecular Plant. DOI: https://doi.org/10.1016/j.molp.2021.10.005. (IF 13.164)

Zahmanova G., Mazalovska M., Takova K., Toneva V., Minkov I., Peyret H., Lomonossoff G. (2021) Efficient production of chimeric Hepatitis B virus-like particles bearing an epitope of Hepatitis E virus capsid by transient expression in Nicotiana benthamiana. Life. 11(1): 64. (IF 3.817)

Zhang K., He M., Fan Y., Zhao H., Gao B., Yang K., Li F., Tang Y., Gao Q., Lin T., Quinet M., Janovska D., Meglič V., Kwiatkowski J., Romanova O., Chrungoo N., Suzuki T., Luthar Z., Germ M., Woo S-H., Georgiev M.I., Zhou M. (2021) Resequencing of global Tartary buckwheat accessions reveals multiple domestication events and key loci associated with agronomic traits. Genome Biology. 22: 23. (IF 13.583)

Zhang Y.Fernie A.R. (2021) Stable and temporary enzyme complexes and metabolons involved in energy and redox metabolism. Antioxidants and Redox Signaling. 35(10): 788-807. (IF 8.401)

Zhang Y., Giese J., Kerbler M. S., Siemiatkowska B., Souza P. L., Medeiros D., Alpers J., Hinicha K. D., Daloso M. D., Stitt M., Finkemeier I., Fernie A.R. (2021) Two mitochondrial phosphatases, PP2c63 and Sal2, are required for posttranslational regulation of the TCA cycle in Arabidopsis. Molecular Plant. 14(7): 1104-1118. (IF 13.164

Zhang Y., Scossa, F., Fernie A. R. (2021) The genomes of Taxus species unveil novel candidates in the biosynthesis of taxoids. Molecular Plant. 14(11): 1773-1775. (IF 13.164)

Zimmermann S., Benstein M.R., Flores-Tornero, Samira Blau S., Anoman A., Rosa-Téllez A.S., Gerlich C.S., Salem A.M., Alseekh S., Kopriva, S., Vera Wewer, V., Flügge U., Jacoby P.R., Fernie A.R., Giavalisco P., Roc Ros R., Krueger S. (2021) The phosphorylated pathway of serine biosynthesis links plant growth with nitrogen metabolism. Plant Physiology. 186(3): 1487–1506. (IF 8.340)

Zhu F., Alseekh S., Koper K., Tong H., Nikoloski Z., Naake T., Liu H., Yan J., Brotman Y., Wen W., Maeda H., Cheng Y., Fernie A. R. (2021)
Genome-wide association of the metabolic shifts underpinning dark-induced senescence in Arabidopsis. The Plant Cell. DOI: https://doi.org/10.1093/plcell/koab251. (IF 11.277)

2020

Aksenov A.A., Laponogov I., Zhang Z., Doran S.L.F., Belluomo I., Veselkov D., Bittremieux W., Nothias L.F., Nothias-Esposito M., Maloney K.N., Misra B.B., Melnik A.V., Smirnov A., Du X., Jones II K.L., Dorrestein K., Panitchpakdi M., Ernst M., van der Hooft J.J.J., Gonzalez M., Carazzone C., Amézquita A., Callewaert C., Morton J.T., Quinn R.A., Bouslimani A., Orio A.A., Petras D., Smania A.M., Couvillion S.P., Burnet M.C., Nicora C.D., Zink E., Metz T.O., Artaev V., Humston-Fulmer E., Gregor R., Meijler M.M., Mizrahi I., Eyal S., Anderson B., Dutton R., Lugan R., Boulch P.L., Guitton Y., Prevost S., Poirier A., Dervilly G., Le Bizec B., Fait A., Persi N.S., Song C., Gashu K., Coras R., Guma M., Manasson J., Scher J.U., Barupal D.K., Alseekh S.Fernie A.R., Mirnezami R., Vasiliou V., Schmid R., Borisov R.S., Kulikova L.N., Knight R., Wang M., Hanna G.B., Dorrestein P.C., Veselkov K. (2020) Auto-deconvolution and molecular networking of gas chromatography-mass spectrometry data. Nature Biotechnology. 39: 169–173. (IF 54.908)

Alseekh S., Ofner I., Liu Z., Osorio S., Vallarino J., Last R., Zamir D., Tohge T., Fernie A.R. (2020) Quantitative trait loci analysis QTL of seed specialized metabolites reveals seed-specific flavonols and differential regulation of glycoalkaloid content in tomato. The Plant Journal. 103(6): 2007-2024. (IF 6.417)

Alseekh S., Perez de Souza L., Benina M.Fernie A.R. (2020)  The style and substance of plant flavonoid decoration; towards defining both structure and function. Phytochemistry. 174: 112347. (IF 4.072)

Apostolova E., Gozmanova M., Nacheva L., Ivanova Z., Toneva V., Minkov I., Baev, V., Yahubyan, G. (2020) MicroRNA profiling the resurrection plant Haberlea rhodopensis unveils essential regulators of survival under severe drought. Biologia Plantarum. 64: 541-550. (IF 1.747)

Beleggia R., Omranian N., Holtz Y., Gioia T., Fiorani F., Nigro F.M., Pecchioni N., De Vita P., Schurr U., David J., Nikoloski Z., Papa R. (2020) Comparative analysis based on transcriptomics and metabolomics data reveal differences between emmer and durum wheat in response to nitrogen starvation. bioRxiv. DOI: https://doi.org/10.1101/2020.02.03.931717

Belwal T., Singh G., Jeandet P., Pandey A., Giri L., Ramola S., Bhatt I.D., Venskutonis P.R., Georgiev M.I., Clement C., Luo Z. (2020)
Anthocyanins, multi-functional natural products of industrial relevance: recent biotechnological advances. Biotechnology Advances. 43: 107600. (IF 14.227)

Breitel D., Brett P., Alseekh S.Fernie A.R., Butelli E., Martin C. (2020) Metabolic engineering of tomato fruit enriched in L-DOPA. Metabolic Engineering. 65: 185-196. (IF 9.783)

Chen M., Zhang Y., Chen X., Fernie A.R., Liu Y., Zhu F. (2020) SWATH-MS based proteomics: strategies and applications in plants. Trends in Biotechnology. 39(5): 433-437. (IF 19.536)

Chen M., Zhu F., Gao B., Ma K., Zhang Y.Fernie A.R., Chen X., Ye N., Hu Q., Tian Y., Zhang D., Liu T., Zhang J., Liu Y. (2020) Full-length transcript-based proteogenomics of rice improves its genome and proteome annotation. Plant Physiology. 182(3): 1510-1526. (IF 8.340)

Clemente-Moreno M.J., Omranian N.b, Sáez P.d, Figueroa C.M., Del-Saz, N., Elso M., Poblete L., Orf I., Cuadros-Inostroza A., Cavieres L., Bravo L., Fernie A.R., Ribas-Carbó, M., Flexas, J., Nikoloski Z., Brotman Y., Gago, J. (2020) Cytochrome respiration pathway and sulphur metabolism sustain stress tolerance to low temperature in the Antarctic species Colobanthus quitensis. New Phytologist. 225(2): 754-768. (IF 10.151)

Clemente-Moreno M. J., Omranian N., Sáez P. L., Figueroa C. M., Del-Saz N., Elso M., Poblete L., Orf I., Cuadros-Inostroza A., Cavieres L. A., Bravo L., Fernie A.R., Ribas-Carbó, M. Flexas J., Nikoloski Z., Brotman, Y., Gago J. (2020) Low-temperature tolerance of the Antarctic species Deschampsia antarctica: A complex metabolic response associated with nutrient remobilization. Plant Cell and Environment. 43(6): 1376–1393. (7.228)

Correa S.M., Alseekh S., Atehortúa L., Brotman Y., Ríos-Estepa R., Fernie A.R.Nikoloski Z. (2020)  Model-assisted identification of metabolic engineering strategies for Jatropha curcas lipid pathways. The Plant Journal. 104(1): 76-95. (IF 6.417)

Correa S. M., Fernie A.R., Nikoloski Z., Brotman Y. (2020) Towards model-driven characterization and manipulation of plant lipid metabolism. Progress in Lipid Research. 80: 101051. (IF 16.195)

Faisal M., Gechev Т.Mueller-Roeber B., Dijkwel P. (2020) Putative alternative translation start site-encoding nucleotides of CPR5 regulate growth and resistance. BMC Plant Biology 20(1):295. (IF 4.215)

Fernie A.R., Alseekh S. (2020) Tomato multiomics at aPEELing resolution. Nature Plants. 6: 1394-1395. (IF 15.793)

Fernie A.R., Zhang Y., Sampathkumar A. (2020) Cytoskeleton architecture regulates glycolysis coupling cellular metabolism to mechanical cues trends in biochemical sciences. Trends in Biochemical Science. 45(8): 637-638. (IF 13.807)

Gechev T.Georgiev M.I.Fernie A.R. (2020) PlantaSYST: Teaming-up for systems biology and biotechnology. Trends in Plant Science. 25(7): 621-624. (IF 18.313)

Gechev T.Petrov V. (2020) Reactive oxygen species and abiotic stress in plants. International Journal of Molecular Sciences. 21: 7433. (IF 5.923)

Grozeva S., Tringovska I., Nankar A., Todorova V., Kostova D. (2020) Assessment of fruit quality and fruit morphology in androgenic pepper lines (Capsicum annuum L.). Crop Breeding Genetics and Genomics. 2(1):e200005

Jiao C., Sørensen I., Sun X., Sun H., Behar H., Alseekh S., Philippe G., Palacio Lopez K., Sun L., Reed R., Jeon S., Kiyonami R., Zhang S., Fernie A.R., Brumer H., Domozych D., Fei Z., Rose J. (2020) The Penium margaritaceum genome: hallmarks of the origins of land plants. Cell. 181: 1097-1111 (IF 41.582)

Joshi D.C., Zhang K., Wang C., Chandora R., Khurshid M., Li J., He M., Georgiev M.I., Zhou M. (2020) Strategic enhancement of genetic gain for nutraceutical development in buckwheat: a genomics-driven perspective. Biotechnology Advances. 39: 107479. (IF 14.227)

Kanojia A., Gupta S., Benina M.Fernie A.R.Mueller-Roeber B.Gechev T., Dijkwel P. (2020) Developmentally controlled changes during Arabidopsis leaf development indicate causes for loss of stress tolerance with age. Journal of Experimental Botany. 71: 6340–6354. (IF 6.992)

Kerchev P., van der Meer T., Sujeeth S., Verlee A., Stevens C.V., Van Breusegem F., Gechev T. (2020) Molecular priming as an approach to induce tolerance against abiotic and oxidative stresses in crop plants. Biotechnology Advances. 40: 107503. (IF 14.227)

Kuhalskaya A., Wijesingha Ahchige M., Perez de Souza L., Vallarino J., Brotman Y., Alseekh S. (2020) Network analysis provides insight into tomato lipid metabolism. Metabolites. 10(4):152 (IF 4.932)

Li Y., Chen Y., Zhou L., You S., Deng H., Chen Y., Alseekh S., Yuan Y., Fu R., Zhang Z., Su D., Fernie A.R., Yuan Y., Fu R., Zhang Z., Su D. (2020) Microtom metabolic network: rewiring tomato metabolic regulatory network throughout the growth cycle. Molecular Plant. 13: 1203-1218 (IF 13.164)

Lyall R.Gechev T. (2020) Multi-omics insights into the evolution of angiosperm resurrection plants. Annual Plant Reviews Online. 3(1): 77-110.

Lyall R.Nikoloski Z.Gechev T. (2020) Comparative analysis of ROS network genes in extremophile eukaryotes. International Journal of Molecular Sciences. 21: 9131. (IF 5.923)

Marchev A., Yordanova Z.P., Georgiev M.I. (2020) Green (cell) factories for advanced production of plant secondary metabolites. Critical Reviews in Biotechnology. 40(4): 443-458. (IF 8.429)

Mardanova E.S., Takova K.H., Toneva V.T., Zahmanova G., Tsybalova L., Ravin N. (2020) A plant-based transient expression system for the rapid production of highly immunogenic Hepatitis E virus-like particles. Biotechnology Letters. 42(11):2441-2446. (IF 2.461)

Nankar A.N., Scott M.P., Pratt R.C. (2020) Compositional analyses reveal relationships among components of blue maize grains. Plants. 9: 1775 (IF: 3.935)

Nankar A.N., Tringovska I., Grozeva S., Ganeva D., Kostova D. (2020) Tomato phenotypic diversity determined by combined approaches of conventional and high-throughput tomato analyzer phenotyping. Plants. 9: 197. (IF 3.935)

Nankar A.N., Todorova V., Tringovska I., Pasev G., Radeva V., Ivanova V.Kostova D. (2020) A step towards Balkan Capsicum annuum L. core collection: Phenotypic and biochemical characterization of 180 accessions for agronomic, fruit quality, and virus resistance traits. PLoS ONE. 15(8): e0237741. (IF 3.240)

Naseri G., Mueller-Roeber B. (2020) A Step-by-Step Protocol for COMPASS a Synthetic Biology Tool for Combinatorial Gene Assembly. Methods in Molecular Biology. 2205: 277-303.

Omidbakhshfard M.A., Sujeeth N., Gupta S., Omranian N., Guinan K.J., Brotman Y., Nikoloski Z., Fernie A.R., Mueller-Roeber B., Gechev T. (2020) A biostimulant obtained from the seaweed Ascophyllum nodosum protects Arabidopsis thaliana from severe oxidative stress. International Journal of Molecular Sciences. 21(2): 1–26. (IF 5.923)

Pasev G., Radeva-Ivanova V., Lyall R., Nankar A.N., Kostova D., Turina M., Vallino M. (2020) First report of tomato spotted wilt virus on lisianthus (Eustoma grandiflorum) in Bulgaria. Journal of Plant Pathology. 103:375. (IF 1.729)

Perez De Souza L., Alseekh S., Brotman Y., Fernie A.R. (2020) Network-based strategies in metabolomics data analysis and interpretation: from molecular networking to biological interpretation. Expert Review of Proteomics. 17(4): 243-255. (IF 3.940)

Salem M.A., Perez de Souza L., Serag A., Fernie A.R., Farag M.A., Ezzat S.M., Alseekh S. (2020) Metabolomics in the context of plant natural products research: from sample preparation to metabolite analysis. Metabolites. 10: E37. (IF 4.932)

Salem, M.A., Radwan, R.A., Mostafa, E.S., Alseekh, S.Fernie, A.R., Ezzat S.M. (2020) Using an UPLC/MS-based untargeted metabolomics approach for assessing the antioxidant capacity and anti-aging potential of selected herbs. RSC Advances. 10: 31511-31524. (IF 3.361)

Salem M., Yoshida T., Perez de Souza L., Alseekh S., Bajdzienko K., Fernie A.R., Giavalisco P. (2020) 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. The Plant Journal. 103: 1614-1632. (IF 6.417)

Sewelam N., Brilhaus D., Bräutigam A., Alseekh S.Fernie A.R., Maurino V.G. (2020) Molecular plant responses to combined abiotic stresses put a spotlight on unknown and abundant genes. Journal of Experimental Botany. 71(16): 5098-5112. (IF 6.992)

Scossa F., Fernie A.R. (2020) The evolution of metabolism: how to test evolutionary hypotheses at the genomic level. Computational and Structural Biotechnology Journal. 18: 482–500.  (IF 7.271)

Shapiguzov A., Nikkanen L., Fitzpatrick D., Vainonen J., Gossens R., Alseekh S., Aarabi F., Tiwari A., Blokhina O., Panzarov K., Benedikty Z., Tyystjärvi E., Fernie A.R., Trtílek M., Aro E., Rintamäki E., Kangasjärvi J. (2020) Dissecting the interaction of photosynthetic electron transfer with mitochondrial signalling and hypoxic response in the arabidopsis rcd1 mutant. Philosophical Transactions of the Royal Society of London B, Biological Sciences. 375(1801):20190413. (IF 6.237)

Sieniawska E., Golus J., Sawicki R., Georgiev M.I. (2020) Untargeted metabolomic exploration of Mycobacterium tuberculosis stress response to cinnamon essential oil. Biomolecules. 10(3): 357. (IF 4.879)

Sujeeth N., Mehterov N., Gupta S., Qureshi M.K., Fischer A., Proost S., Omidbakhshfard M.A., Obata T., Benina M.Staykov N., Balazadeh S., Walther D., Fernie A.R.Mueller-Roeber B., Hille J., Gechev T. (2020) A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana. Cellular and Molecular Life Sciences. 77: 705–718. (IF 9.261)

Suzuki M., Wu S., Mimura M., Alseekh S., Fernie A.R., Hanson A., McCarty D. (2020) Construction and applications of a B vitamin genetic resource for investigation of vitamin dependent metabolism in maize. The Plant Journal. 101(2), 442–454. (IF 6.417)

Takova K., Koynarski T., Minkov I., Ivanova Z, Toneva V., Zahmanova G. (2020) Hepatitis E Virus seroprevalence in domestic pigs and wild boar in Bulgaria. Animals (Basel) 10(9) :1521. (IF 2.752)

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. (2020) Exploiting the natural variation in tomato to define pathway structure and metabolic regulation of fruit polyphenolics in the lycopersicum complex. Molecular Plant. 13(7):1027-1046. (IF 13.164)

Toleco M.R., Naake T., Zhang Y., Heazlewood J.L., Fernie A.R. (2020) Plant mitochondrial carriers: molecular gatekeepers that help to regulate plant central carbon metabolism. Plants (Basel). 9(1). pii: E117. (IF 3.935)

Tong H., Küken A., Nikoloski Z. (2020) Integrating molecular markers into metabolic models improves genomic selection for Arabidopsis growth. Nature Communications 11: 2410. (IF 14.919)

Vasileva L.Savova M.Amirova K., Balcheva-Sivenova Zh., Ferrante C., Orlando G., Wabitsch M., Georgiev M.I. (2020) Caffeic and chlorogenic acids synergistically activate browning program in human adipocytes: implications of AMPK and PPAR-mediated pathways. International Journal of Molecular Sciences. 21(24): 9740. (IF 5.924

Vasileva L.Savova M.Amirova K., Dinkova-Kostova A., Georgiev M.I. (2020) Obesity and NRF2-mediated cytoprotection: where is the missing link? Pharmacological Research. 156: 104760. (IF 7.658)

Wen W., Alseekh S.Fernie A.R. (2020) Conservation and diversification of flavonoid metabolism in the plant kingdom. Current Opinion in Plant Biology. 55: 100-108. (IF 7.834)

Wu L., Georgiev M.I., Cao H., Nahar L., El-Seedi H.R., Sarker S.D., Xiao J., Lu B. (2020) Therapeutic potential of phenylethanoid glycosides: a systematic review. Medicinal Research Reviews. 40(6): 2605-2649. (IF 12.994)

Wu S., Alseekh S., Brotman Y., Fernie A.R. (2020) Metabolomic analysis of natural variation in Arabidopsis. Methods in Molecular Biology. 2200: 393-411.

Zahmanova G., Mazalovska M., Takova K.H.,Toneva V., Minkov I.N., Mardanova E.S., Ravin N.V., Lomonossoff G.P. (2020) 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. Plants. 9(1): 29. (IF 3.935)

Zhang W., Alseekh S., Zhu X., Zhang Q., Fernie A.R., Kuang H., Wen W. (2020) Dissection of the domestication-shaped genetic architecture of lettuce primary metabolism. The Plant Journal. 104(3): 613-630. (IF 6.417)

Zhang W., Zhang Y., Qiu H., Guo Y., Wan H., Zhang X., Scossa F., Alseekh S., Zhang Q., Wang P., Xu L., Schmidt M., Jia X., Li D., Zhu A., Guo F., Chen W., Ni D., Usadel B., Fernie A.R., Wen W. (2020) Genome assembly of wild tea tree DASZ reveals pedigree and selection history of tea varieties. Nature Communications. 11 (1):3719. (IF 14.919)

Zhang Y., Chen M., Toleco M.R., Jing Y., Strotmann V., Zhang J., Stahl Y., Fernie A.R. (2020) A high efficiency method for Agrobacterium tumefaciens mediated transient transformation of plants with utility for high throughput screening of protein-protein interactions. Plant Communication. 1(5): 100028.

Zhang Y.Fernie A.R. (2020) Resolving the metabolon: is the proof in the metabolite? EMBO Reports. 21: e50774. (IF 8.807)

Zhang Y., Krahner I., Bolze A., Gibon Y., Fernie A.R. (2020) Adenine nucleotide and nicotinamide adenine dinucleotide measurements in plants. Current Protocols in Plant Biology. 5(3):e20115.

Zhang Y., Sampathkumar A., Kerbler S., Swart C., Seerangan K., Graf A., Fernie A.R. (2020) A novel glycolytic metabolon mediate the interaction between the mitochondria and chloroplast. Nature Communications. 11: 4509. (IF 14.919)

Zhang Y., Sampathkumar A., Swart C., Graf A., Fernie A.R. (2020) A moonlighting role for enzymes of glycolysis in the co-localization of mitochondria and chloroplasts. Nature Communications. 11(1): 1-15. (IF 14.919)

Zhang Y., Skirycz A., Fernie A.R. (2020) An abundance and interaction encyclopedia of plant protein function. Trends in Plant Science. 25(7):627-630. (IF 18.313)

Zhang Y., Natale R., Domingues A.P. Júnior, Toleco M.R., Siemiatkowska B., Fàbregas N., Fernie A.R. (2020) Rapid identification of protein-protein interactions in plants. Current Protocols in Plant Biology. 4(4): e20099.

Zhu J., Lau K., Puschmann R., Harmel R.K., Zhang Y., Pries V., Gaugler Ph., Broger L., Dutta A.K., Jessen H., Schaaf G., Fernie A.R., Hothorn L.A., Fiedler D., Hothorn M. (2020) Two bifunctional inositol pyrophosphate kinases/phosphatases control plant phosphate homeostasis. eLife. 2019;8:e43582. (IF 8.140)

Zhu J., Loubéry S., Broger L., Zhang Y., Lorenzo-Orts L., Utz-Pugin A., Fernie A.R., YoungTae C., Hothorn M. (2020) A genetically validated approach to detect inorganic polyphosphates in plants. The Plant Journal. 102(3): 507-516. (IF 6.417)

2019

Amirova K., Dimitrova P., Marchev A.S., Aneva I.Y., Georgiev M.I. (2019) Clinopodium vulgare L. (wild basil) extract and its active constituents modulate cyclooxygenase-2 expression in neutrophils. Food and Chemical Toxicology. 124: 1–9. (IF 3.775)

Boguslawska J., Poplawski P., Alseekh S., Koblowska M., Iwanicka-Nowicka R., Rybicka B., Kedzierska H., Gluchowska K., Hanusek K., Tanski Z., Fernie A.R., Piekielko-Witkowska A., (2019) MicroRNA-mediated metabolic reprograming in renal cancer. Cancers. 11: 1825. (IF 6.162)

Brog Y., Osorio S., Yichie Y., Alseekh S., Bensal E., Kochevenko A., Zamir D., Fernie A.R. (2019) Solanum neorickii introgression population providing a powerful complement to the extensively characterized Solanum pennellii population. Plant Journal. 97(2): 391–403. (IF 5.726)

Chen C., Zhang K., Khurshid M., Li J., He M., Georgiev M.I. , Zhang X. & Zhou M. (2019) MYB transcription repressors regulate plant secondary metabolism. Critical Reviews in Plant Sciences. 38: 159-170. (IF 4.189)

Denev P., Todorova V., Ognyanov M., Georgiev Y., Yanakieva I., Tringovska I.Grozeva S., Kostova D. (2019) Phytochemical composition and antioxidant activity of 63 Balkan pepper (Capsicum annuum L.) accessions. Journal of Food Measurement and Characterization. 13: 2510– 2520. (IF 1.415)

De Smet B., Willems P., Fernandez-Fernandez A., Alseekh S.Fernie A.R., Messens J., Van Breusegem F. (2019) In vivo detection of protein cysteine sulfenylation in plastids. Plant Journal. 97(4): 765–778. (IF 5.726)

Dong Y., Gupta S., Sievers R., Wargent J., Wheeler D., Putterill J., Macknight R., Gechev T.Mueller-Roeber B., Dijkwel P. (2019) Genome draft of the Arabidopsis relative Pachycladon cheesemanii reveals novel strategies to tolerate New Zealand’s high ultraviolet B radiation environment. BMC Genomics. 20(1): 838. (IF 3.594)

Fang C., Fernie A.R., Luo J. (2019) Exploring the diversity of plant metabolism. Trends in Plant Science. 24(1): 83–98. (IF 14.006)

Fort A., Lebrault M., Allaire M., Esteves-Ferreira A., McHale M., Lopez F., Farinas Franco J., Alseekh S.Fernie A.R., Sulpice R. (2019) Extensive variations in diurnal growth patterns and metabolism amongst Ulva spp strains. Plant Physiology. 180(1): 109–123. (IF 6.305)

Gupta S., Dong Y., Dijkwel P., Mueller-Roeber B.Gechev T. (2019) Genome-wide analysis of ROS antioxidant genes in resurrection species suggest an involvement of distinct ROS detoxification systems during desiccation. International Journal of Molecular Sciences. 20(12): 3101. (IF 4.556)

Li K., Wen W., Alseekh S., Yang X., Guo H., Li W., Wang L., Pan Q., Zhan W., Liu J., Li Y., Wu X., Brotman Y., Willmitzer L., Li J., Fernie A.R., Yan J. (2019) Large-scale metabolite quantitative trait locus analysis provides new insights for high-quality maize improvement. Plant Journal. 99: 216-230. (IF 5.726)

Liu T., Chen M., Zhang Y., Liu Y., Zhu F., Tian Y., Fernie A.R., Ye N., Zhang J. (2019) Comparative metabolite profiling of two switchgrass ecotype varieties reveals differences in drought stress responses and rhizosheath size. Planta. 250: 1355–1369. (IF 3.060)

Llorente C., Jimenez R., Jackie, Brotman Y., Fernie A.R., Sreenivasulu N. (2019) Rice grain quality benchmarking through profiling of volatiles and metabolites in grains using gas chromatography mass spectrometry. Methods in Molecular Biology. 1892: 187–199. (IF 10.71)

Nankar A., Tringovska I., Grozeva S., Todorova V., Kostova D. (2019) Application of high-throughput phenotyping tool tomato analyzer to characterize Balkan Capsicum fruit diversity. Scientia Horticulturae. 260. (IF 1.961)

Naseri G., Behrend J., Rieper L., Mueller-Roeber B. (2019) COMPASS for rapid combinatorial optimization of biochemical pathways based on artificial transcription factors. Nature Communications. 10(1): 2615. (IF 11.878)

Pandey P.K., Yu J., Omranian N., Alseekh S., Vaid N, Fernie A.R.Nikoloski Z., Laitinen R.A.E. (2019) Plasticity in metabolism underpins local responses to nitrogen in Arabidopsis thaliana populations. Plant Direct. 3(11): e00186. (IF 1.725)

Perez de Souza L., Alseekh S., Naake T., Fernie A.R. (2019) Mass spectrometry-based untargeted plant metabolomics. Current Protocols in Plant Biology. 4: e20100.

Nunes-Nesi A., Alseekh S., de Oliveira Silva F., Omranian N., Lichtenstein G., Mirnezhad M., Gonzalez R., Sabio Y Garcia J., Conte M., Leiss K., Klinkhamer P., Nikoloski Z., Carrari F., Fernie A.R. (2019) Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds. Metabolomics. 15(4): 46. (IF 3.167)

Reinholdt 0., Schwab S., Zhang Y., Reichheld J., Fernie A.R., Hagemann M., Timm S. (2019) Redox-regulation of photorespiration through mitochondrial thioredoxin o1. Plant Physiology. 181(2): 442-457. (IF 8.340)

Scossa F., Roda F., Tohge T., Georgiev M. I. and Fernie A.R. (2019) The hot and the colorful: understanding the metabolism, genetics and evolution of consumer preferred metabolic traits in pepper and related species. Critical Reviews in Plant Sciences. 38(5-6): 339-381. (IF 4.189)

Shapiguzov A., Vainonen J., Hunter K., Tossavainen H., Tiwari A., Jarvi S., Hellman M., Aarabi F., Alseekh S., Wybouw B., Van Der Kelen K., Nikkanen L., Krasensky-Wrzaczek J., Sipari N., Keinanen M., Tyystjarvi E., Rintamaki E., De Rybel B., Salojarvi J., Van Breusegem F., Fernie A.R., Brosche M., Permi P., Aro E., Wrzaczek M., Kangasjarvi J. (2019) Arabidopsis RCD1 coordinates chloroplast and mitochondrial functions through interaction with ANAC transcription factors. eLife. 8: e43284. (IF 7.551)

Vasileva L., Ivanovska M., Murdjeva M., Saracheva K., Georgiev M. (2019) Immunoregulatory natural compounds in stress-induced depression: An alternative or an adjunct to conventional antidepressant therapy? Food and Chemical Toxicology. 127: 81–88. (IF 3.775)

Wang S., Alseekh S., Fernie A.R., Jie Luo J. (2019) The structure and function of major plant metabolite modifications. Molecular Plant. 12(7): 899-919. (IF 10.812)

2018

Alseekh S., Bermudez L., de Haro L., Fernie A.R., Carrari F. (2018) Crop metabolomics: from diagnostics to assisted breeding.  Metabolomics. 14(11): 148. (IF 3.167)

Alseekh S., Fernie A.R. (2018) Metabolomics 20 years on: what have we learned and what hurdles remain? Plant Journal. 94(6): 933–942. (IF 5.726)

Alseekh S., Wu S., Brotman Y., Fernie A.R. (2018) Guidelines for sample normalization to minimize batch variation for large-scale metabolic profiling of plant natural genetic variance. Methods in Molecular Biology. 1778: 33–46. (IF 10.71)

Chen J., Wang J., Chen W., Sun W., Peng M., Yuan Z., Shen S., Xie K., Jin C., Sun Y., Liu X., Fernie A.R., Yu S., Luo J. (2018) Metabolome analysis of multi-connected biparental chromosome segment substitution line populations. Plant Physiology. 178(2): 612–625. (IF 6.305)

Chen, L., Teng, H., Xie, Z., Cao, H., Cheang, W. S., Skalicka-Woniak, K., Georgiev,M., Xiao, J. (2018) Modifications of dietary flavonoids towards improved bioactivity: an update on structure–activity relationship. Critical Reviews in Food Science and Nutrition. 58(4): 513–527. (IF 6.704)

Durgud M., Gupta S., Ivanov I., Omidbakhshfard A., Benina M., Alseekh A., Staykov N., Hauenstein M., Dijkwel P.P., Hörtensteiner S., Toneva V., Brotman Y., Fernie A.R.Mueller-Roeber B., Gechev T. (2018) Molecular mechanisms preventing senescence in response to prolonged darkness in a desiccation–tolerant plant. Plant Physiology. 177(3): 1319–1338. (IF 6.305)

Fernie A.R., Alseekh S. (2018) Defining the convergence of ethylene and auxin signaling in tomato. New Phytologist. 219(2): 479-481. (IF 7.299)

Garbowicz K., Liu Z., Alseekh S., Tieman D., Taylor M., Kuhalskaya A., Ofner I., Zamir D., Klee H., Fernie A.R., Brotman Y. (2018) Quantitative trait loci analysis identifies a prominent gene involved in the production of fatty acid-derived flavor volatiles in tomato. Molecular Plant. 11(9): 1147–1165. (IF 10.812)

Kong F., Burlacot A., Liang Y., Legeret B., Alseekh S., Brotman Y., Fernie A.R., Krieger-Liszkay A., Beisson F., Peltier G., Li-Beisson Y. (2018) Interorganelle communication: Peroxisomal MALATE DEHYDROGENASE2 connects lipid catabolism to photosynthesis through redox coupling in Chlamydomonas. Plant Cell. 30(8): 1824–1847. (IF 8.228)

Gevrenova R., Bardarov K., Bouguet-Bonnet S., Voynikov Y., Balabanova V., Zheleva-Dimitrova D., Max Henry M. (2018)
A new liquid chromatography-high resolution Orbitrap mass spectrometrybased 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). Journal of Pharmaceutical and Biomedical Analysis. (IF 2.831)

Kong F., Burlacot A., Liang Y., Legeret B., Alseekh S., Brotman Y., Fernie A.R., Krieger-Liszkay A., Beisson F., Peltier G., Li-Beisson Y. (2018)
Interorganelle communication: Peroxisomal MALATE DEHYDROGENASE2 connects lipid catabolism to photosynthesis through redox coupling in Chlamydomonas. Plant Cell. 30(8):1824–1847. (IF 8.228)

Kopka J., Fernie A.R. (2018) Editorial overview: plant synthetic and systems biology. Current Opinion in Biotechnology. 49: viii–xi. (IF 8.083)

Ma X., Zhang, Y., Tureckova V., Xue G.-P., Fernie A.R., Mueller-Roeber B., Balazadeh, S. (2018) NAC transcription factor SlNAP2 in tomato regulates leaf senescence and fruit yield. Plant physiology. 177(3): 1286–1302. (IF 6.305)

Minkov G., Toneva V., Ivanova Z., Baevv V. (2018) LoopRNA – java Module for RNA structure annotation. Comptes Rendus de l’Académie Bulgare des Sciences. 71(9): 1215-1221. (IF 0.23)

Omidbakhshfard M., Fujikura U., Olas J., Xue G., Balazadeh S., Mueller-Roeber B. (2018) GROWTH-REGULATING FACTOR 9 negatively regulates arabidopsis leaf growth by controlling ORG3 and restricting cell proliferation in leaf primordia. PLOS Genetics. 14(7): e1007484. (IF 5.540)

Petrov V., Qureshi, M. K., Hille, J., Gechev T. (2018) Occurrence, biochemistry and biological effects of host-selective plant mycotoxins. Food and Chemical Toxicology. 112: 251–264. (IF 3.775)

Scossa F., Benina M., Alseekh S., Zhang Y. and Fernie A.R. (2018) The integration of metabolomics and next-generation sequencing data to elucidate the pathways of natural product metabolism in medicinal plants. Planta Medica. 84(12/13): 855–873. (IF 2.746)

Schwahn K., Nikoloski Z. (2018) Data reduction approaches for dissecting transcriptional effects on metabolism. Frontiers in Plant Science. 9: 538. (IF 3.678)

Vasileva L., Marchev A., Georgiev M. (2018) Causes and solutions to “globesity”: the new fa(s)t alarming global epidemic. Food and Chemical Toxicology. 121: 177–193. (IF 3.775)

Vasileva L., Saracheva K., Ivanovska M.,Petrova A., Marchev A., Georgiev M., Murdjeva M., Getova D. (2018)  Antidepressant-like effect of salidroside and curcumin on the immunoreactivity of rats subjected to a chronic mild stress model. Food and Chemical Toxicology. 121: 604–611. (IF 3.775)

Zhang K., Logacheva M. D., Meng Y., Hu J., Wan D., Li L., Janovska D., Zhiyong W., Georgiev M.I., Zhou, M. (2018) Jasmonate-responsive MYB factors spatially repress rutin biosynthesis in Fagopyrum tataricum. Journal of Experimental Botany. 69(8): 1955–1966. (IF 5.360)

Zhang Y., Zhang Y., McFarlane H., Obata T., Richter A., Lohse M., Grimm B., Persson S., Fernie A.R., Giavalisco P. (2018) Inhibition of TOR represses nutrient consumption, which improves greening after extended periods of etiolation. Plant Physiology. 178(1): 101–117. (IF 6.305)

Zhang Y., Fernie A.R. (2018) On the role of the tricarboxylic acid cycle in plant productivity. Journal of Integrative Plant Biology. 60(12): 1199–1216. (IF 3.824)

Zhu G., Wang S., Huang Z., Zhang S., Liao Q., Zhang C., Lin T., Qin M., Peng M., Yang C., Cao X., Han X., Wang X., Van Der Knaap, E. Zhang, Z., Cui X., Klee H., Fernie A.R., Luo, J., Huang, S. (2018) Rewiring of the fruit metabolome in tomato breeding. Cell. 172(1): 249–261. (IF 36.216)

2017

Braicu C., Mehterov N., Vladimirov B., Sarafian V., Nabavi S. M., Atanasov A. G., & Berindan-Neagoe I. (2017) Nutrigenomics in cancer: revisiting the effects of natural compounds. Seminars in Cancer Biology. 46: 84–106. (IF 10.198)

Gulei D., Mehterov N., Nabavi S. M., Atanasov A.G., Berindan-Neagoe I. (2017) Targeting ncRNAs by plant secondary metabolites: the ncRNAs game in the balance towards malignancy inhibition. Biotechnology Advances. 36(6): 1779–1799. (IF 11.452)

Schwahn K., Beleggia R., Omranian N., Nikoloski Z. (2017) Stoichiometric correlation analysis: principles of metabolic functionality from metabolomics data. Frontiers in Plant Science. 8: 2152. (IF 3.678)

Tohge T., Fernie A.R. (2017) An overview of compounds derived from the shikimate and phenylpropanoid pathways and their medicinal importance. Mini-Reviews in Medicinal Chemistry. 17(12): 1013-1027. (IF 2.645)

2016

Georgiev M.I. (2016) From plants to pharmacy shelf: natural products revival. Phytochemistry Reviews. 15(4): 511–513. (IF 3.393)

Marchev A., Dinkova-Kostova A., György Z., Mirmazloum I., Aneva I., Georgiev M.I. (2016) Rhodiola rosea L.: from golden root to green cell factories. Phytochemistry Reviews. 15(4): 515–536. (IF 3.393)

Messerschmidt K., Hochrein L., Dehm D., Schulz, K., Mueller-Roeber, B. (2016) Characterizing seamless ligation cloning extract for synthetic biological applications. Analytical biochemistry. 509: 24–32. (IF 2.334)

Tohge T., Wendenburg R., Ishihara, H., Nakabayashi R., Watanabe M., Sulpice R., Fernie, A.R. (2016) Characterization of a recently evolved flavonol-phenylacyltransferase gene provides signatures of natural light selection in Brassicaceae. Nature Communications. 7: 1–11. (IF 12.124)

Books and book chapters:

Yordanova, Z., Georgiev M.I. (2017) Cell factories. In B. Thomas, B. G. Murray, & D. J. Murphy (Eds.). Encyclopedia of Applied Plant Sciences (Second Edition). (pp. 72–76). Oxford: Academic Press.

Oxford: Academic Press.