Written by Ivan Dulgerov

Crop Quantitative Genetics

To exploit the vast natural genetic variation in vegetable crops, using quantitative genetics and systems biology approaches, in order to understand plant responses to abiotic stresses and achieve crops with enhanced resilience to stresses as well as improved nutritional properties. The department leader will be the ERA Chair holder – the outstanding scientist Dr. Saleh Alseekh, who has notable publication track record and scientific achievements (more than 120 publications in international peer reviewed journals, including Nature Biotechnology, Nature Communications, Nature Genetics, Molecular Plant, Plant Cell, Trends in Plant Science etc.; and more than 3500 citations). Under his guidance, the research department will scale up the applied research on vegetable breeding in CPSBB and the region. Furthermore, the new CPSBB department will link with Bulgarian and international research organizations, companies, and farmer associations in the field of crop science, creating an ecosystem network that is highly attractive to talented researchers and brings the innovations to end users for the benefit of the society.

Head of Department:	Email
Dr. Saleh Alseekh	alseekh@cpsbb.eu
Postdoctoral Researchers:	Email
Dr. Alicja Wieteska Georgieva	a.wieteska@cpsbb.eu
Dr. Altafur Rahman	rahman@cpsbb.eu
Dr. Avanish Rai	rai@cpsbb.eu
Dr. Emil Vatov	vatov@cpsbb.eu
Dr. Nikolay Anachkov	anachkov@cpsbb.eu
Dr. Rafe Lyall	lyall@cpsbb.eu
Technicians:	Email
Stefka Bogdanova	bogdanova@cpsbb.eu
PhD Students:	Email
Gabriele Adornato	adornato@cpsbb.eu
Michael Wittenberg	wittenberg@cpsbb.eu
Ioannis Perachoritis	perachoritis@cpsbb.eu

Visiting Scientists / Interns

Name	Position	Institution	Period
Agata Vannini	ERASMUS+ Trainee	ISIS Galileo Galilei – Poppi, Italy	20.02.2026 – 20.05.2026
Internship description Agata is a trainee at CPSBB in the Crop Quantitative Genetics department. During the internship, she takes part in day-to-day research activities, supporting experimental work, plant maintenance, and data recording. The traineeship offers insight into modern approaches in plant science, including quantitative and systems-level studies. It also contributes to the development of practical laboratory skills, as well as the ability to work in a collaborative and international research setting.

2026

Angelov M., Ivanova V., Wittenberg M., Stoyanov P., Mladenov R., Mladenova T., Gyuzeleva D., Radoukova T., Todorov K., Gechev T. (2026)

Comparative metabolome and metallomic analyses of three organs from Cistus creticus.

Planta. 263: 115. • IF 4.4

Asad F., Zeb A., Shahid S., Ahmad S., Wittenberg M., Angelov M., Yaseen T., Ali A., Gechev T., Ali S. (2026)

Biostimulants from Rosa alba L. optimize growth and physiological processes of Zea mays L.

Frontiers in Plant Science. 17: 1731231. • IF 5.9

Baccolini C., Ishihara H., Feil R., Perez de Souza L., Alseekh S., Walther D., Fernie A.R., Stitt M., Lunn J.E., Arrivault S. (2026)

Exploring the diversity of the CO2-concentrating mechanism (CCM) in different C4 subtypes.

Journal of Experimental Botany. erag116. • IF 6.5

Beedubail SPS., Farrona S., Wittenberg M., Gechev T., Sujeeth N. (2026)

Biostimulant seed priming enhances germination, early field emergence and osmotic stress responses, accompanied by a distinct metabolic signature in Brassica napus L.

Plant Stress. 22: 101448 • IF 8.1

Cocozza A., Venezia A., di Cesare C., Fernie A.R., Alseekh S., Tripodi P. (2026)

Dissecting the genetic architecture and plasticity of the fruit primary metabolome in a Solanum habrochaites introgression library under contrasting nutrient regimes.

Journal of Plant Physiology. 325: 154848. • IF 4.8

Ibrahim R.M., Alseekh S., Haffelder J., Ramadan N.S., Abbas G.M., Fernie A.R., Ulber R., Zayed A. (2026)

Untargeted metabolomics, lipidomics, and GC–MS profiling reveal species-specific and culture-induced metabolic signatures in brown macroalgae.

Metabolomics. 96: 104748. • IF 3.4

Ibrahim R.M., Sedeek M.S., Li Z., Alseekh S., Fernie A.R., Farag M.A. (2026)

Impacts of cultivar, tissue type, and processing methods on sweet potato metabolome and antioxidant activity: integrating UHPLC-MS/MS, molecular networking, UV-Vis spectroscopy, and in vitro assays.

Food Chemistry. 524: 150170. • IF 10.4

Ilieva Y., Gupta S.,Wittenberg M., Ivanova V., Kazakov P., Alseekh S., Sujeeth N., Gechev T. (2026)

A plant biostimulant from Ascophyllum nodosum protects raspberry from heat-induced sunburn.

Plant Stress. 20: 101315. • IF 8.1

Kuhalskaya A., Li X., Lee J., Gonda I., von Steimker J., Bulut M., Karakas E., Fisher J., Krämer K., Rosental L., Wijesingha Ahchige M., Garbowicz K., Klemmer A., Ruß A.K., Donath A., Cuadros-Inostroza A., Boerjan W., Tieman D.M., Zamir D., Klee H.J., Alseekh S. (2026)

Genetic architecture of the tomato fruit lipidome.

PNAS Nexus. 5(1): pgaf401. • IF 3.8

Perez-Mesa P.A., Pardo R.A., Alseekh S., Rojas-Contreras S., Sierra G.P., García D.E., Orejuela A., Lopez-Kleine L., Fernie A.R., Roda F. (2026)

Genetic basis of alkaloid divergence in the Solanaceae.

Plant Molecular Biology. 116(4):67. • IF 3.8

Perez S., Alseekh S., Rojas Contreras S., Deanna R., Smith S.D., Knoch E., Fernie A.R., Roda F. (2026)

Evolution of withanolide biosynthesis in nightshades.

Taxon. 75(4): e70191. • IF 1.9

Martínez Rivas F.J., Smith M.A., Zangishei Z., Alseekh S., Usadel B., Plaxton W.C., Fernie A.R. (2026)

Malate matters: disrupting bacterial-type phosphoenolpyruvate carboxylase (BTPC) rewires tomato fruit development.

Plant Physiology. DOI: 10.1093/plphys/kiag026. • IF 6.9

Sierra G.P., Orejuela A., Orozco C.I., Pérez-Mesa P.A., Alseekh S., Fernandez-Hilario R., Fernández-Alonso J.L., Smith S.D., Fernie A.R., Roda F. (2026)

A new arborescent genus of Datureae (Solanaceae) from Colombia and Peru, with implications for alkaloid evolution.

Taxon. 75(2): e70130. • IF 3.4

van Rengs W.M.J., Fuentes R.R., Zangishei Z., Primetis E., Wang Y., Fernandes J.B., Susanto T., Lian Q., Effgen S., Huettel B., Alseekh S., Usadel B., Underwood C.J. (2026)

Wild tomato genome assemblies reveal structural variants and repeat content act as recombination barriers.

Nature Communications. 17: 5590. • IF 18.1

von Steimker J., Bulut M., Pozhvanov G., Bergmann S., Wendenburg R., Sun Y., Zhu F., Pieri A., Frascarelli G., Nanni L., Bellucci E., Bitocchi E., Papa R., Fernie A.R., Alseekh S. (2026)

GWAS identifies regulators of seed and leaf morphology in common bean, revealing OFP5 as a major seed size determinant.

The Plant Journal. 126(3): e70909. • IF 5.7

von Steimker J., Macho M., Wendenburg R., Lee J., Zemach I., Xu Y., Frohlich A., Sampathkumar A., Zamir D., Fei Z., Giovannoni J.J., Fernie A.R., Alseekh S. (2026)

Natural variation in SlGRF10 reveals a role in regulating tomato fruit weight.

Plant Physiology. 201(3): kiag465. • IF 8.2

von Steimker J., Rey E.L., Stanschewski C., Wendenburg R., Klemmer A., Macho M., Thirumalaikumar V.P., Saber N.O., Skirycz A., Fernie A.R., Tester M., Alseekh S. (2026)

Multi-tissue metabolic GWAS and drought-responsive multi-omics reveal the genetic basis of the quinoa metabolome.

Advanced Science. e76426. • IF 14.1

Wittenberg M., Ilieva Y., Gechev T. (2026)

Metabolome reprogramming during fruit ripening and post-harvest storage in ten crop species.

Metabolites. 16(2): 133. • IF 3.7

Xue H., Saltini M., Illing N., Shepherd K., Page-Macdonald O., Marketos O., Robertson C., Shankar A., Süß S., Kappel C., Alseekh S., Deinum E.E., Ingle R.A., Lenhard M. (2026)

Supergene control of chiral development in mirror-image flowers.

Science. 393(6810): eaeb1157. • IF 47.3

2025

Alseekh S., Klemmer A., Yan J., Guo T., Fernie A.R. (2025)

Embracing plant plasticity or robustness as a means of ensuring food security.

Nature Communications. 6(1): 461. • IF 14.7

Bouzid M., Balparda M., Kerim A., Fu Y., Alvarez C.E., Alseekh S., Fernie A.R., Maurino V.G. (2025)

Natural variation in Arabidopsis thaliana highlights a key role of glyoxalase I;2 in detoxifying glucose-derived reactive carbonyl species.

BMC Plant Biology. 25(1): 1288. • IF 4.8

Dao O., Bertrand M., Alseekh S., Veillet F., Auroy P., Nguyen P.C., Légeret B., Epting V., Morin A., Cuiné S., Monteil C.L., Mackinder L.C.M., Burlacot A., Krieger-Liszkay A., Weber A.P.M., Fernie A.R., Peltier G., Li-Beisson Y. (2025)

The green algae CO₂ concentrating mechanism and photorespiration jointly operate during acclimation to low CO₂.

Nature Communications. 16(1) :5296. • IF 14.7

Ivanova A., Bogdanova S., Petrov V., Gechev T. (2025)

Plants from Bulgarian botanical gardens: some selected species with potential for health food and medical applications.

Plants. 14(14): 2176. • IF 4.1

López C.M., Alseekh S., Martínez Rivas F.J., Fernie A.R., Prieto P., Alamillo J.M. (2025)

CRISPR/Cas9 editing of two adenine phosphoribosyl transferase coding genes reveals the functional specialization of adenine salvage proteins in common bean.

Journal of Experimental Botany. 76(2): 346–362. • IF 6.5

López-Tubau J.M., Laibach N., Burciaga-Monge A., Alseekh S., Deng C., Fernie A.R., Altabella T., Ferrer A. (2025)

Differential impact of impaired steryl ester biosynthesis on the metabolome of tomato fruits and seeds.

Physiologia Plantarum. 177(1): e70022. • IF 3.6

Marks R.A., Ekwealor J.T.B., Artur M.A.S., Bondi L., Boothby T.C., Carmo O.M.S., Centeno D.C., Coe K.K., Dace H.J.W., Field S., Hutt A., Porembski S., Thalhammer A., Pas L., Wood A.J., Alpert P., Bartels D., Boeynaems S., Datar M.N., Giese T., Seidou W..I, Kirchner S.M., Köhler J., Kumara S., Kyung J. Lyall R., Mishler B.D., Ndongmo T., Otegui S., Reddy V., Rexroth J., Tebele SM, VanBuren R., Verdier J., Vothknecht U.C., Wittenberg M.F., Zokov E., Oliver M.J., Rhee S.Y. (2025)

Life on the dry side: a roadmap to understanding desiccation tolerance and accelerating translational applications.

Nature Communications. 16(1): 3284. • IF 14.7

Munir S., Shahzad A.N., Rai A., Petrov V., Gechev T., Shokat S., Qureshi M.K. (2025)

Reactive oxygen species production and signal transduction in response to stress triggered by Alternaria elicitors in Brassicaceae.

Plant Molecular Biology. 115(6): 113. • IF 3.8

Qureshi M.K., Rai A., Rasul F., Staykov N., Sujeeth N., Gechev T. (2025)

Molecular priming by a biostimulant derived from Ascophyllum nodosum mitigates drought stress in vegetable crops.

In: Plant Stress Physiology Days Scientific Booklet, Eds.: Seckin Dinler B., Gul V., Sefaoglu F. Iksad Publications, ISBN: 978-625-378-277-1.

Priego-Cubero S., Knoch E., Wang Z., Alseekh S., Braun K.H., Chapman P., Fernie A.R., Liu C., Becker C. (2025)

Subfunctionalization and epigenetic regulation of a biosynthetic gene cluster in Solanaceae.

Proceedings of the National Academy of Sciences. 122(8): e2420164122. • IF 9.4

Sacharowski S.P., Kubala S., Cwiek P., Steciuk J., Gratkowska-Zmuda D., Oksinska P., Bucior E., Rolicka A.T., Ciesla M., Nowicka K., Alseekh S., Tohge T., Giavalisco P, Zugaj D.L., Stolze S.C., Harzen A., Franzen R., Huettel B., Grzesiuk E., Hajirezaei M.R., Nakagami H., Koncz C., Fernie A.R., Sarnowski T.J. (2025)

BAF60/SWP73 subunits define subclasses of SWI/SNF chromatin remodelling complexes in Arabidopsis.

New Phytologist. DOI: 10.1111/nph.70182. • IF 8.3

Staykov N., Kanojia A., Lyall R., Ivanova V., Alseekh S., Petrov V., Gechev T. (2025)

Sustainable agriculture through seaweed biostimulants: A two-year study demonstrates yield enhancement in pepper and eggplant. Frontiers in Plant Science. DOI: https://doi.org/10.3389/fpls.2025.1655340. (IF 5.9)

Steimker J., Wendenburg R., Klemmer A., Rosaria M., Fernie A.R., Alseekh S., Tripodi P. (2025)

Genome-wide association analysis and linkage mapping decipher the genetic control of primary metabolites and quality traits in Capsicum

The Plant Journal. 122(6): e70300. • IF 5.7

Tiozon R.N., Pasion-Uy E., Alseekh S., Sartagoda K.J.D., Gempesaw S., Tolentino J.H.G., Fernie A.R., Sreenivasulu N. (2025)

Lipidomics-based association study reveals genomic signatures of anti-cancer qualities of pigmented rice sprouts.

Frontiers in Plant Science. 16: 1533442. • IF 5.9

Torralbo F., López C.M., Alseekh S., Martínez-Rivas F.J., Reyes M.R., Fernie A.R., Alamillo J.M. (2025)

The source of nitrogen conditions transcriptomic responses to water deficit in common bean roots.

Plant Physiology and Biochemistry. 228: 110264. • IF 6.2

Vatov E., Gechev T. (2025)

Delay in flowering time in Arabidopsis thaliana Col-0 under water deficit and in the ddc triple methylation knockout mutant Is correlated with shared overexpression of BBX16 and BBX17.

International Journal of Molecular Sciences. 26(17): 8360. • IF 5.6

Vatov E., Gechev T. (2025)

Recent evidence for transgenerational adaptation resulting from stress induced changes in the cytosine methylation landscape of plants.

Plant Stress. DOI: 10.1016/j.stress.2025.100812. • IF 8.1

Zhang J., Alseekh S., Fernie A.R., Qian D., Huang L. (2025)

Chemical characterization of lipids provides new insights into goji berry metabolism.

ACS Food Science and Technology. 5(2): 761–769. • IF 2.6

2024

Badoni S., Pasion‑Uy A., Kor S., Kim S.R., Tiozon R.N., Misra G., Buenafe R.Q., Labarga L.M., Ramos‑Castrosanto A.R., Pratap V., Slamet‑Loedin I., Steimker J.V., Alseekh S., Fernie A.R., Kohli A., Khush G.S., Sreenivasulu N. (2024)

Multiomics of a rice population identifies genes and genomic regions that bestow low glycemic index and high protein content.

Proceedings of the National Academy of Sciences USA 121(36): e2410598121. • IF 9.4

Bortlik J., Lühle J., Alseekh S., Weiste C., Fernie A.R., Dröge‑Laser W., Börnke F. (2024)

DOMAIN OF UNKNOWN FUNCTION581‑9 negatively regulates SnRK1 kinase activity.

Plant Physiology 194(3): 1853‑1869. • IF 8.0

Domer A., Jasinska W., Rosental L., Shochat E., Alseekh S., Fernie A.R., Brotman Y., Ovadia O. (2024)

Comparative analysis of the plasma metabolome of migrating passerines: novel insights into stopover metabolism.

Journal of Avian Biology 2024: e03331. • IF 1.5

Dziubek D., Poeker L., Siemiątkowska B., Graf A., Marino G., Alseekh S., Arrivault S., Fernie A.R., Armbruster U., Geigenberger P. (2024)

NTRC and thioredoxins m1/m2 underpin the light acclimation of plants on proteome and metabolome levels.

Plant Physiology 194(2): 982‑1005. • IF 6.6

Ebert A., Alseekh S., D’Andrea L., Roessner U., Bock R., Kopka J. (2024)

Detailed profiling of 17‑Hydroxygeranyllinalool diterpene glycosides from Nicotiana species reveals complex reaction networks of conjugation isomers.

Metabolites 14(10): 562. • IF 3.4

Farag M.A., Baky M.H., Kühnhold H., Kriege E.A., Kunzmann A., Alseekh S., Al‑Hammady M.A., Ezz S., Fernie A.R., Westphal H., Stuhr M. (2024)

Effects of thermal and UV stress on the polar and non‑polar metabolome of photosymbiotic jellyfish and sea anemones.

Marine Pollution Bulletin 208: 116983. • IF 5.3

Fontanet‑Manzaneque J.B., Laibach N., Herrero‑García I., Coleto‑Alcudia V., Blasco‑Escámez D., Zhang C., Orduña L., Alseekh S., Miller S., Bjarnholt N., Fernie A.R., Matus J.T., Caño‑Delgado A.I. (2024)

Untargeted mutagenesis of brassinosteroid receptor SbBRI1 confers drought tolerance by altering phenylpropanoid metabolism in Sorghum bicolor.

Plant Biotechnology Journal 22(12): 3227‑3535. • IF 11.2

Kanojia A., Lyall R., Sujeeth N., Alseekh S., Martínez-Rivas F., Fernie A.R., Gechev T., Petrov V. (2024)

Physiological and molecular insights into the effect of a seaweed biostimulant on enhancing fruit yield and drought tolerance in tomato.

Plant Stress. 14: 100692. • IF 6.8

Kazakov P., Alseekh S., Ivanova V., Gechev T. (2024)

Biostimulant‑based molecular priming improves crop quality and enhances yield of raspberry and strawberry fruits.

Metabolites 14(11): 594. • IF 3.4

López-Tubau J.M., Laibach N., Burciaga-Monge A., Alseekh S., Deng C., Fernie A.R., Altabella T., Ferrer A. (2024)

Differential impact of impaired steryl ester biosynthesis on the metabolome of tomato fruits and seeds.

177(1): e70022. Physiologia Plantarum. • IF 5.4

Naake T., Zhu F., Alseekh S., Scossa F., Perez de Souza L., Borghi M., Brotman Y., Mori T., Nakabayashi R., Tohge T., Fernie A.R. (2024)

Genome‑wide association studies identify loci controlling specialized seed metabolites in Arabidopsis.

Plant Physiology 194(3): 1705‑1721. • IF 6.5

Stavrakeva K., Metodieva K., Benina M., Bivolarska A., Dimov I., Choneva M., Kokova V., Alseekh S., Ivanova V., Vatov E., Gechev T., Mladenova T., Mladenov R., Todorov K., Stoyanov P., Gyuzeleva D., Popova M., Apostolova E. (2024)

Metabolic composition of methanolic extract of the Balkan endemic species Micromeria frivaldszkyana (Degen) Velen and Its Anti-Inflammatory Effect on Male Wistar Rats.

International Journal of Molecular Sciences. 25(10): 5396. • IF 5.6

Steimker J., Tripodi P., Wendenburg R., Tringovska I., Nankar A., Stoeva V., Pasev G., Klemmer A., Todorova V., Bulut M., Tikunov Y., Bovy A., Gechev T., Kostova D., Fernie A.R., Alseekh S. (2024)

The genetic architecture of the pepper metabolome and the biosynthesis of its signature capsianoside metabolites.

Current Biology 34(18): 4209‑4223.e3. • IF 8.1

Timm S., Klaas N., Niemann J., Jahnke K., Alseekh S., Zhang Y., Souza P.L., Hou L.Y., Cosse M., Selinski J., Geigenberger P., Daloso D.M., Fernie A.R., Hagemann M. (2024)

Thioredoxins o1 and h2 jointly adjust mitochondrial dihydrolipoamide dehydrogenase-dependent pathways towards changing environments.

Plant, Cell & Environment. 47(7): 2542-2560. • IF 7.947

Tiozon R.J.N., Alseekh S., Fernie A.R., Bonto A.P., Yu J., Buenafe R.J.Q., Sreenivasulu N. (2024)

Comprehensive lipidomic insights of differentially accumulating lipids in large pigmented rice sprout collection and the changes in starch composition upon germination.

Food Chemistry 460(Pt 2): 140677. • IF 8.5

Wijesingha Ahchige M., Fisher J., Sokolowska E., Lyall R., Illing N., Skirycz A., Zamir D., Alseekh S., Fernie A.R. (2024)

The variegated canalized-1 tomato mutant is linked to photosystem assembly.

Computational and Structural Biotechnology Journal. 23: 3967-3988. • IF 4.5

Yu Y., Alseekh S., Zhu Z., Zhou K., Fernie A.R. (2024)

Multiomics and biotechnologies for understanding and influencing cadmium accumulation and stress response in plants.

Plant Biotechnolgy Journal. 22: 2641-2659. • IF 13.8

Zhu F., Ahchige M.W., Wen W., Cheng Y., Alseekh S., Fernie A.R. (2024)

The natural variance of Arabidopsis secondary metabolism on extended darkness.

Scientific Data 11(1): 841. • IF 9.8

2023

Aarabi F., Ghigi A., Ahchige M.W., Bulut M., Geigenberger P., Neuhaus H.E., Sampathkumar A., Alseekh S., Fernie A.R. (2023)

Genome-wide association study unveils ascorbate regulation by PAS/LOV PROTEIN during high light acclimation.

Plant Physiology. 193(3): 2037-2054. • IF 8.005

Alamillo J.M, López C.M, Martínez Rivas F.J, Torralbo F., Bulut M., Alseekh S. (2023)

Clustered regularly interspaced short palindromic repeats/CRISPR-associated protein and hairy roots: a perfect match for gene functional analysis and crop improvement.

Current Opinion in Plant Biology. 79: 102876. • IF 9.396

Alseekh S., Karakas E., Zhu F., Wijesingha Ahchige M., Fernie A.R. (2023)

Plant biochemical genetics in the multiomics era.

Journal of Experimental Botany. 74(15): 4293–4307. • IF 7.298

Alseekh S., Fernie A.R. (2023)

Expanding our coverage: Strategies to detect a greater range of metabolites.

Current Opinion in Plant Biology. 73: 102335. • IF 9.396

Balparda M., Schmitz J., Duemmel M., Wuthenow I.C., Schmidt M., Alseekh S., Fernie A.R., Lercher M.J., Maurino V.G. (2023)

Viridiplantae-specific GLXI and GLXII isoforms co-evolved and detoxify glucosone in planta.

Plant Physiology. 191(2): 1214-1233. • IF 8.005

Bellucci E., Benazzo A., Xu C., Bitocchi E., Rodriguez M., Alseekh S., Di Vittori V., Gioia T., Neumann K., Cortinovis G., Frascarelli G., Murube E., Trucchi E., Nanni L., Ariani A., Logozzo G., Shin JH., Liu C., Jiang .L, Ferreira J.J., Campa A., Attene G., Morrell P.L., Bertorelle G., Graner A., Gepts P., Fernie A.R., Jackson S.A., Papa R. (2023)

Selection and adaptive introgression guided the complex evolutionary history of the European common bean.

Nature Communications. 14(1): 1908. • IF 17.694

Bulut M., Alseekh S., Fernie A.R. (2023)

Natural variation of respiration-related traits in plants.

Plant Physiology. 191(4): 2120-2132. • IF 8.005

Bulut M., Nunes-Nesi A., Fernie A.R., Alseekh S. (2023)

Characterization of PetM cytochrome b6f subunit 7 domain-containing protein in tomato.

Horticulture Research. 10(12): uhad224. • IF 7.291

Bulut M., Wendenburg R., Bitocchi E., Bellucci E., Kroc M., Gioia T., Susek K., Papa R., Fernie A.R., Alseekh S. (2023)

A comprehensive metabolomics and lipidomics atlas for the legumes common bean, chickpea, lentil and lupin.

The Plant Journal. 116(4): 1152-1171. • IF 7.091

Córdoba S.C., Tong H., Burgos A., Zhu F., Alseekh S., Fernie A.R., Nikoloski Z. (2023)

Identification of gene function based on models capturing natural variability of Arabidopsis thaliana lipid metabolism.

Nature Communications. 4(1): 4897. • IF 17.694

Dziubek D., Poeker L., Siemiątkowska B., Graf A., Marino G., Alseekh S., Arrivault S., Fernie A.R., Armbruster U., Geigenberger P. (2023)

NTRC and thioredoxins m1/m2 underpin the light acclimation of plants on proteome and metabolome levels.

Plant Physiology. 194(2): 982-1005. • IF 8.005

Fernie A.R., Alseekh S. (2023)

Phylogenomic discovery of deleterious mutants completes the potato breeding revolution.

Molecular Plant. 16(7): 1103-1105. • IF 27.5

Gyuzeleva D., Benina M., Ivanova V., Vatov E., Alseekh S., Mladenova T., Mladenov R., Todorov K., Bivolarska A., Stoyanov P. (2023)

Metabolome profiling of Marrubium peregrinum L. and Marrubium friwaldskyanum boiss reveals their potential as sources of plant-based pharmaceuticals.

International Journal of Molecular Sciences. (24)23: 17035. • IF 6.208

Hayashi K., Alseekh S., Fernie A.R. (2023)

Genetic and epigenetic control of the plant metabolome.

Proteomics. 13: e2200104. • IF 5.911

Julca I., Mutwil-Anderwald D., Manoj V., Khan Z., Lai S.K., Yang L.K., Beh IT., Dziekan J., Lim Y.P., Lim S.K., Low Y.W, Lam Y.I, Tjia S., Mu Y., Tan Q.W., Nuc P., Choo L.M., Khew G., Shining L., Kam A., Tam J.P., Bozdech Z., Schmidt M., Usadel B., Kanagasundaram Y.S, Alseekh S., Fernie A., Li H.Y., Mutwil M. (2023)

Genomic, transcriptomic, and metabolomic analysis of Oldenlandia corymbosa reveals the biosynthesis and mode of action of anti-cancer metabolites.

Journal of Integrative Plant Biology. 65(6): 1442-1466. • IF 9.106

Karakas E., Ferrante P., Schafleitner R., Giuliano G., Fernie A.R., Alseekh S. (2023)

Plant Sample Collection and Shipment for Multi-omic Analyses and Phytosanitary Evaluation. Current Protocols. (12): e952.

Li X., Tieman D., Alseekh S., Fernie A.R., Klee H.J. (2023)

Natural variations in the Sl-AKR9 aldo/keto reductase gene impact fruit flavor volatile and sugar contents.

The Plant Journal. 115(4): 1134-1150. • IF 7.091

López C.M., Alseekh S., Torralbo F., Martínez Rivas F.J., Fernie A.R., Amil-Ruiz F., Alamillo J.M. (2023)

Transcriptomic and metabolomic analysis reveals that symbiotic nitrogen fixation enhances drought resistance in common bean.

Journal of Experimental Botany. 74(10): 3203–3219. • IF 7.298

Machens F., Ran G., Ruehmkorff C., Meyer Auf der Heyde J., Mueller-Roeber B., Hochrein L. (2023)

PhiReX 2.0: A Programmable and Red Light-Regulated CRISPR-dCas9 System for the Activation of Endogenous Genes in Saccharomyces cerevisiae.

ACS Synthetic Biology. 12(4): 1046-1057. • IF 5.249

Martínez-Rivas F.J., Blanco-Portales R., Serratosa M.P., Ric-Varas P., Guerrero-Sánchez V., Medina-Puche L., Moyano L., Mercado J.A., Alseekh S., Caballero J.L., Fernie A.R., Muñoz-Blanco J., Molina-Hidalgo FJ. (2023)

FaMYB123 interacts with FabHLH3 to regulate the late steps of anthocyanin and flavonol biosynthesis during ripening.

The Plant Journal. 114(3): 683-698. • IF 7.091

Naake T., Zhu F., Alseekh S., Scossa .F, Perez de Souza L., Borghi M., Brotman Y., Mori T., Nakabayashi R., Tohge T, Fernie A.R. (2023)

Genome-wide association studies identify loci controlling specialized seed metabolites in Arabidopsis.

Plant Physiology. DOI: doi.org/10.1093/plphys/kiad511. • IF 8.005

Perez de Souza L, Fernie A.R. (2023)

Computational methods for processing and interpreting mass spectrometry-based metabolomics.

Computational and Structural Biotechnology Journal. DOI: 10.1042/EBC20230019. • IF 7.271

Poplawski P., Alseekh S., Jankowska U., Skupien-Rabian B., Iwanicka-Nowicka R., Kossowska H., Fogtman A., Rybicka B., Bogusławska J., Adamiok-Ostrowska A., Hanusek K., Hanusek J., Koblowska M., Fernie A.R., Piekiełko-Witkowska A. (2023)

Coordinated reprogramming of renal cancer transcriptome, metabolome and secretome associates with immune tumor infiltration.

Cancer Cell International. 23(1): 2. • IF 6.07

Salem M.A., Aborehab N.M., Abdelhafez M.M., Ismail S.H., Maurice N.W., Azzam M.A., Alseekh S., Fernie A.R., Salama M.M., Ezzat S.M. (2023)

Anti-obesity effect of a tea mixture nano-formulation on rats occurs via the upregulation of AMP-activated protein kinase/sirtuin-1/glucose transporter type 4 and peroxisome proliferator-activated receptor gamma pathways

Metabolites. 13(7): 871. • IF 5.581

Salem M.A., El-Shiekh R.A, Aborehab N.M., Al-Karmalawy A.A., Ezzat S.M., Alseekh S., Fernie A.R. (2023)

Metabolomics driven analysis of Nigella sativa seeds identifies the impact of roasting on the chemical composition and immunomodulatory activity.

Food Chemistry. 398: 133906 • IF 9.231

Sarnowska E., Kubala S., Cwiek P., Sacharowski S., Oksinska P., Steciuk J., Zaborowska M., Szurmak J.M., Dubianski R., Maassen A., Stachowiak M., Huettel B., Ciesla M., Nowicka K., Rolicka A.T., Alseekh S., Bucior E., Franzen R., Skoneczna A., Domagalska M.A., Amar S., Hajirezaei M.R., Siedlecki J.A., Fernie A.R., Davis S.J., Sarnowski T.J. (2023)

A non-canonical function of Arabidopsis ERECTA proteins and a role of the SWI3B subunit of the SWI/SNF chromatin remodeling complex in gibberellin signaling.

The Plant Journal. 115(3): 788-802. • IF 7.091

Segarra-Medina C., Alseekh S., Fernie A.R., Rambla J.L., Pérez-Clemente R.M., Gómez-Cádenas A., Zandalinas S.I. (2023)

Abscisic acid promotes plant acclimation to the combination of salinity and high light stress.

Plant Physiology and Biochemistry. 3: 108008. • IF 5.437

Sreenivasulu N., Alseekh S., Tiozon R.N Jr., Graner A., Martin C., Fernie A.R. (2023)

Metabolic signatures from genebank collections: An underexploited resource for human health?

Annual Review of Food Science and Technology. 14: 183-202. • IF 14.714

Sun Y., Alseekh S., Fernie A.R. (2023)

Plant secondary metabolic responses to global climate change: A meta-analysis in medicinal and aromatic plants.

Global Change Biology. 29(2): 477-504. • IF 13.211

Wijesingha Ahchige M, Fernie A.R, Alseekh S. (2023)

PANTOTHENATE KINASE4, LOSS OF GDU2, and TRANSPOSON PROTEIN1 affect the canalization of tomato fruit metabolism.

Plant Physiology.192(1): 442-468. • IF 8.005

Xie J.Q., Zhou X., Jia Z.C., Su C.F., Zhang Y., Fernie A.R., Zhang J., Du Z.Y., Chen M.X. (2023)

Alternative splicing, an overlooked defense frontier of plants with respect to bacterial infection.

Journal of Agricultural and Food Chemistry. 71(45): 16883–16901. • IF 6.1

Zemach I., Alseekh S., Tadmor-Levi R., Fisher J., Torgeman S., Trigerman S., Nauen J., Hayut S.F., Mann V., Rochsar E., Finkers R., Wendenburg R., Osorio S., Bergmann S., Lunn J.E., Semel Y., Hirschberg J., Fernie A.R., Zamir D. (2023)

Multi-year field trials provide a massive repository of trait data on a highly diverse population of tomato and uncover novel determinants of tomato productivity.

The Plant Journal. 116(4): 1136-1151. • IF 7.091

Zhao H., He Y., Zhang K., Li S., Chen Y., He M., He F., Gao B., Yang D., Fan Y., Zhu X., Yan M., Giglioli-Guivarc’h N., Hano C., Fernie A.R., Georgiev M.I., Janovska D., Meglic V., Zhou M. (2023)

Rewiring of the seed metabolome during Tartary buckwheat domestication.

Plant Biotechnology Journal. 21(1): 150-164. • IF 13.263

Zhang Y., Jaime M.S., Bulut M., Graf A., Fernie A.R. (2023)

The conditional mitochondrial protein complexes of Arabidopsis thaliana: differences between tissue-type and environmental conditions.

Plant Communications. 4(5): 100635. • IF 10.5

Zhang Y., Wiese L., Fang H., Alseekh S., Perez de Souza L., Scossa F., Molloy J., Christmann M., Fernie A.R. (2023)

Synthetic biology identifies the minimal gene set required for Paclitaxel biosynthesis in a plant chassis.

Molecular Plant. 16(12): 1951-1961. • IF 27.5

Zayed A., Farag M.A., Mehring A., Salem M.A., Ibrahim R.M., Alseekh S., Fernie A.R., Ulber R. (2023)

Methyl jasmonate elicitation effect on the metabolic profile of cambial meristematic cells culture derived from sweet basil (Ocimum basilicum L.) in relation to antioxidant activity: Untargeted metabolomics study in a time-based approach.

Phytochemistry. 213: 113777. • IF 4.004

Zhu F., Bulut M., Cheng Y., Alseekh S., Fernie A.R. (2023)