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Newfound Coding Potential of Transcripts Unveils Missing Members of Human protein Communities

Genomics, Proteomics & Bioinformatics 2023年第3期21卷 515-534页

作者： Se´bastien Leblanc Marie *** Jean-Franc¸ois Jacques Amina M.Lekehal Andre´a Duclos Alexia Tremblay Alexis Bruggeman-Gascon Sondos Samandi Myle`ne Brunelle Alan A.Cohen Michelle S.Scott Xavier Roucou Department of Biochemistry and Functional Genomics Universite´de SherbrookeSherbrookeQC J1E 4K8Canada PROTEO Quebec Network for Research on Protein FunctionStructureand EngineeringQuebec CityQC G1V 0A6Canada Department of Family Medicine Universite´de SherbrookeSherbrookeQC J1H 5N4Canada

Recent proteogenomic approaches have led to the discovery that regions of the transcriptome previously annotated as non-coding regions[i.e.,untranslated regions(UTRs),open reading frames overlapping annotated coding sequences in a different reading frame,and non-coding RNAs]frequently encode proteins,termed alternative proteins(altProts).This suggests that previously identified protein–protein interaction(PPI)networks are partially incomplete because altProts are not present in conventional protein ***,we used the proteogenomic resource OpenProt and a combined spectrum-and peptide-centric analysis for the re-analysis of a highthroughput human network proteomics dataset,thereby revealing the presence of 261 altProts in the *** found 19 genes encoding both an annotated(reference)and an alternative protein interacting with each *** the 117 altProts encoded by pseudogenes,38 are direct interactors of reference proteins encoded by their respective parental ***,we experimentally validate several interactions involving *** data improve the blueprints of the human PPI network and suggest functional roles for hundreds of altProts.

关键词： alternative protein protein network protein–protein interaction Pseudogene Affinity purification mass spectrometry

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Recent advances in the production of single cell protein from renewable resources and applications

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Carbon Resources Conversion 2024年第2期7卷 38-49页

作者： Danai Ioanna Koukoumaki Erminta Tsouko Seraphim Papanikolaou Zacharias Ioannou Panagiota Diamantopoulou Dimitris Sarris Laboratory of Physico-Chemical and Biotechnological Valorization of Food By-Products Department of Food Science&NutritionSchool of EnvironmentUniversity of the AegeanLeoforos Dimokratias 66Myrina 81400LemnosGreece Department of Food Science and Human Nutrition Agricultural University of Athens75Iera Odos11855 AthensGreece Laboratory of Edible Fungi Institute of Technology of Agricultural ProductsHellenic Agricultural Organization-Dimitra1Sof.Venizelou14123 LykovrysiGreece

Single Cell protein(SCP)refers to dry cells of microorganisms,and it constitutes a highly promising and alternative protein source for multiple *** presents a rich nutritional profile containing valuable amino acids and fatty acids,nucleic acids,minerals,and several *** businesses worldwide have introduced SCP into their production cycles,hence expanding the scope of its application in value added market chains such as the edible food *** is produced by a plethora of microorganisms,including fungi,yeasts,bacteria,and algae while many of them are Generally Recognized as Safe(GRAS).Selected microbial strains present satisfying growth capability with high yields when cultivated in renewable ***,production rates and process sustainability could be enhanced via the valorization of industrial and agricultural wastes as the nutrient sources,combined with optimization of process parameters,i.e fermentation mode and feeding strategy,pH,temperature,C/N ratio,agitation rate and oxygen *** review addresses the latest developments made towards the SCP production,highlighting efficient microbial SCP producers,and production systems that valorize solid and liquid streams from several agricultural *** applications,challenges in sensorial-,and safety-aspects as well as consumers perception issues of SCP incorporation into food-related matrices are also discussed.

关键词： alternative protein Sustainability Sensorial aspects Safety Food and feed Packaging applications

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