Publications

See also GoogleScholar. If you would like to have a copy of a paywalled article please contact me.

Peer-reviewed publications (*corresponding author)

Peng Z, Paschek K, Xavier JC (2022). What Wilhelm Ostwald meant by “Autokatalyse” and its significance to origins-of-life research. Bioe.ssays 44 (9), 2200098.

Xavier JC*, Kauffman S (2022). Small-molecule autocatalytic networks are universal metabolic fossils. Philosophical Transactions of the Royal Society A 380 (2227), 20210244.

Wimmer JLE, Xavier JC, et al. (2021). Energy at Origins: Favorable Thermodynamics of Biosynthetic Reactions in the Last Universal Common Ancestor (LUCA) Frontiers in Microbiology, 12:793664.

Tria FDK, Brückner J, Skejo J, Xavier JC, Zimorski V, Gould SB, Garg SG, Martin WF (2021). Gene duplications trace mitochondria to the onset of eukaryote complexity. Genome Biology and Evolution, 13:evab055.

Xavier JC*, Gerhards RW, Wimmer JLE, Bruckner J¹, Tria FDK, Martin WF. (2021) The metabolic network of the Last Bacterial Common Ancestor. Communications Biology, 4:413.

Wimmer JLE, Vieira AN, Xavier JC, Kleinermanns K, Martin WF, Preiner M. (2021) The Autotrophic Core: An Ancient Network of 404 Reactions Converts H2, CO2, and NH3 into Amino Acids, Bases, and Cofactors. Microorganisms, 9: 458.

Steel M, Xavier JC, Huson DH (2020). The structure of autocatalytic networks, with application to early biochemistry. Journal of the Royal Society Interface 2020, 17:20200488.

Xavier JC*, Hordijk W, Kauffman S, Steel M, Martin WF (2020). Autocatalytic chemical networks at the origin of metabolism. Proceedings of the Royal Society B, 287:20192377.

Lieven C, Beber ME, […], Xavier JC, et al (2020). MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology, 38:272-276.

Preiner M, […], Xavier JC* (2020). The future of origin of life research: bridging decades-old divisions. Life, 10:20.

Xavier JC* (2020). The early origin of cooperation. Nature Ecology and Evolution, 4:18-19.

Preiner M, Xavier JC*, Vieira AN, Kleinermanns K, Allen JF, Martin WF (2019). Catalysts, autocatalysis and the origin of metabolism. Interface Focus, 9:20190072.

Xavier JC*, Martin WF (2019). Sediment, methane and energy. Nature Microbiology, 4:547-549.

Steel M, Hordijk W, Xavier JC (2019). Autocatalytic networks in biology: structural theory and algorithms. Journal of the Royal Society Interface, 16:20180808.

Xavier JC, Patil KR, Rocha I (2018). Metabolic models and gene essentiality data reveal essential and conserved metabolism in prokaryotes. PLoS Computational Biology, 14:e1006556.

Xavier JC*, Preiner M, Martin WF (2018). Something special about CO-dependent CO₂ fixation. The FEBS Journal, 285:4181-4195.

Preiner M, Xavier JC, et al (2018). Serpentinization: connecting geochemistry, ancient metabolism and industrial hydrogenation. Life, 8:41.

Weiss MC, Preiner M, Xavier JC, Zimorski V, Martin WF (2018). The last universal common ancestor between ancient Earth chemistry and the onset of genetics. PLoS Genetics, 14:e1007518.

Kapust N,[…], Xavier JC*, Martin WF (2018). Failure to recover major events of gene flux in real biological data due to method misapplication. Genome biology and evolution, 10:1198-1209.

Gerlitz M, Knopp M, Kapust N, Xavier JC, Martin WF (2018). Elusive data underlying debate at the prokaryote-eukaryote divide. Biology Direct, 13:21.

Xavier JC, Patil KR, Rocha I (2017). Integration of biomass formulations of genome-scale metabolic models with experimental data reveals universally essential cofactors in prokaryotes. Metabolic Engineering, 39:200-208.

Xavier JC, Patil KR, Rocha I (2014). Systems biology perspectives on minimal and simpler cells. Microbiology and Molecular Biology Reviews, 78:487–509.

Preprints