Microarray analysis of Neosartorya fischeri using different carbon sources, petroleum asphaltenes and glucose-peptone

Abstract

Asphaltenes are considered as the most recalcitrant petroleum fraction and represent a big problem for the recovery, separation and processing of heavy oils and bitumens. Neosartorya fischeri is a saprophytic fungus that is able to grow using asphaltenes as the sole carbon source [1].We performed transcription profiling using a custom designed microarray with the complete genome from N. fischeri NRRL 181 in order to identify genes related to the transformation of asphaltenes [1]. Data analysis was performed using the genArise software. Results showed that 287 genes were up-regulated and 118 were down-regulated.Here we describe experimental procedures and methods about our dataset (NCBI GEO accession number GSE68146) and describe the data analysis to identify different expression levels in N. fischeri using this recalcitrant carbon source.

Simultaneous valorization and biocatalytic upgrading of heavy vacuum gas oil by the biosurfactant‐producing Pseudomonas aeruginosa AK6U

“…Recently, Hernández‐López et al . () investigated the differential gene expression in Neosartorya fischeri grown on either petroleum asphaltenes or glucose–peptone. Genes encoding aromatic hydrocarbon monooxygenases were among those upregulated in asphaltenes‐grown cells.…”

Evaluación in vitro de la capacidad biorremediadora de hongos filamentosos sobre petróleo crudo

“…Así mismo se encontró en esta investigación el hongo filamentoso perteneciente al género Neosartorya, el cual se aisló inicialmente de suelos contaminados con petróleo crudo por lo que se considera una especie con capacidad biorremediadora (69,73,78,79,80,82). Y precisamente es en el estudio de Uribe y colaboradores (83) donde se comenta que hay evidencia de la capacidad que posee N. fischeri para mineralizar asfáltenos, catabolizando más del 15% del carbono presente en esta sustancia en un tiempo aproximado de 11 semanas; estudio que pudo ser la base de los proyectos de Hernández y colaboradores (84), quienes realizaron la transcripción de los perfiles utilizando un diseño propio de microarray, con el cual identificaron los genes que le permiten a esta especie utilizar los asfáltenos como única fuente de carbono. Ke y colaboradores (85) clonaron una endo y exo poligalacturonasa a partir de esta especie, para obtener dicha enzima in vitro ya que ésta se caracteriza por ser estable a una temperatura de 55°C y tolerar un amplio rango de pH; lo cual permite su uso en procesos de biorrefinería.…”

“…Es importante destacar que varios estudios en este campo aseguran que es difícil biorremediar suelo o agua contaminados con petróleo crudo por su alto peso molecular y por los anillos bencílicos (89). Se necesita de una fuerte reacción por parte del hongo filamentoso con enzimas extracelulares para romper dichos anillos y mineralizar esta sustancia hasta hacerla inocua para cualquier ser vivo (84).…”

Transcriptomic analysis of polyaromatic hydrocarbon degradation by the halophilic fungus Aspergillus sydowii at hypersaline conditions

“…Although the removal of PAHs by filamentous fungi has been extensively investigated, the underlying molecular mechanisms remain poorly understood. High throughput RNA sequencing has not been widely used to examine the physiological changes during polyaromatic stress in filamentous fungi (Hernández‐López et al ., 2015; Gao et al ., 2019; Loss et al ., 2019). These studied demonstrated that genes involved in metabolism of xenobiotics and general stress responses were found upregulated during fungal growth on high‐weight polyaromatic hydrocarbons.…”

“…These studied demonstrated that genes involved in metabolism of xenobiotics and general stress responses were found upregulated during fungal growth on high‐weight polyaromatic hydrocarbons. These also suggested that intracellular pathways play a greater role in PAH biodegradation by ascomycetes than was previously assumed (Hernández‐López et al ., 2015; Gao et al ., 2019; Loss et al ., 2019). Transcriptomics has also allowed the identification of new genes involved in the cellular response to PAHs (e.g.…”