Trends in biological data integration for the selection of enzymes and transcription factors related to cellulose and hemicellulose degradation in fungi

Author(s)

Ferreira Filho, Jaire A. ^[1] ; Rosolen, Rafaela R. ^[1] ; Almeida, Deborah A. ^[1] ; de Azevedo, Paulo Henrique C. ^[1] ; Motta, Maria Lorenza L. ^[1] ; Aono, Alexandre H. ^[1] ; dos Santos, Clelton A. ^{[1, 2]} ; Horta, Maria Augusta C. ^{[1, 3]} ; de Souza, Anete P. ^{[1, 4]}

Affiliation

^[1] Univ Campinas UNICAMP, Ctr Mol Biol & Genet Engn CBMEG, Campinas, SP - Brazil

^[2] Brazilian Ctr Res Energy & Mat CNPEM, Brazilian Biorenewables Natl Lab LNBR, Campinas, SP - Brazil

^[3] Univ Sao Paulo, Fac Pharmaceut Sci Ribeirao Preto, Ribeirao Preto, SP - Brazil

^[4] Univ Estadual Campinas, UNICAMP, Inst Biol, Dept Plant Biol, BR-13083875 Campinas, SP - Brazil

• Document type: Review article
• Source: 3 BIOTECH; v. 11, n. 11 NOV 2021.
• Web of Science Citations: 0

Abstract

Fungi are key players in biotechnological applications. Although several studies focusing on fungal diversity and genetics have been performed, many details of fungal biology remain unknown, including how cellulolytic enzymes are modulated within these organisms to allow changes in main plant cell wall compounds, cellulose and hemicellulose, and subsequent biomass conversion. With the advent and consolidation of DNA/RNA sequencing technology, different types of information can be generated at the genomic, structural and functional levels, including the gene expression profiles and regulatory mechanisms of these organisms, during degradation-induced conditions. This increase in data generation made rapid computational development necessary to deal with the large amounts of data generated. In this context, the origination of bioinformatics, a hybrid science integrating biological data with various techniques for information storage, distribution and analysis, was a fundamental step toward the current state-of-the-art in the postgenomic era. The possibility of integrating biological big data has facilitated exciting discoveries, including identifying novel mechanisms and more efficient enzymes, increasing yields, reducing costs and expanding opportunities in the bioprocess field. In this review, we summarize the current status and trends of the integration of different types of biological data through bioinformatics approaches for biological data analysis and enzyme selection. (AU)

• FAPESP's process: 15/09202-0 - Study of Trichoderma harzianum genomic regions associated to the control of the expression of the enzymes involved in the degradation of biomass
• Grantee: Anete Pereira de Souza
• Support Opportunities: Regular Research Grants
• FAPESP's process: 19/03232-6 - Genome wide selection in sugarcane using machine learning and complex networks for economically important traits
• Grantee: Alexandre Hild Aono
• Support Opportunities: Scholarships in Brazil - Doctorate (Direct)
• FAPESP's process: 20/13420-1 - Evaluation of the influence of the light on the expression of hydrolytic enzymes for the bioprospecting of fungi of the genus Trichoderma with hydrolytic potential
• Grantee: Rafaela Rossi Rosolen
• Support Opportunities: Scholarships in Brazil - Doctorate
• FAPESP's process: 18/19660-4 - Elucidation of genetic mechanisms involved in the hydrolysis of plant biomass through functional genomics
• Grantee: Anete Pereira de Souza
• Support Opportunities: Regular Research Grants
• FAPESP's process: 20/10536-9 - Organization and integration of large scale data to study the dynamics of expression of MAP kinases of the fungus Aspergillus fumigatus in diverse genetic and environmental conditions
• Grantee: Maria Augusta Crivelente Horta
• Support Opportunities: Scholarships in Brazil - Technical Training Program - Technical Training